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18
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1 hmmpfam - search one or more sequences against HMM database
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2 HMMER 2.3.2 (Oct 2003)
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3 Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
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4 Freely distributed under the GNU General Public License (GPL)
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5 - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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6 HMM file: /home/choede/hmmer3/Pfam_fs
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7 Sequence file: ConsensusTestFile_aaWithoutStop.fsa
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8 - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
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9
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10 Query sequence: blumeria_Grouper_590_20:NoCat_1
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11 Accession: [none]
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12 Description: [none]
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13
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14 Scores for sequence family classification (score includes all domains):
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15 Model Description Score E-value N
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16 -------- ----------- ----- ------- ---
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17 DUF234 Archaea bacterial proteins of unknown 3.2 1.5 1
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18 DUF1414 Protein of unknown function (DUF1414) 2.9 6.3 1
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19
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20 Parsed for domains:
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21 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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22 -------- ------- ----- ----- ----- ----- ----- -------
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23 DUF234 1/1 91 108 .. 5 22 .. 3.2 1.5
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24 DUF1414 1/1 111 119 .. 1 9 [. 2.9 6.3
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25
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26 Alignments of top-scoring domains:
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27 DUF234: domain 1 of 1, from 91 to 108: score 3.2, E = 1.5
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28 *->VyPNrseIEsGnikevle<-*
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29 VyPN++ IEs ++k++++
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30 blumeria_G 91 VYPNIEIIESSTPKPLIN 108
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31
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32 DUF1414: domain 1 of 1, from 111 to 119: score 2.9, E = 6.3
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33 *->HkAPvDLSL<-*
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34 H ++DLSL
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35 blumeria_G 111 HXSSPDLSL 119
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36
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37 //
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38
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39 Query sequence: blumeria_Grouper_590_20:NoCat_2
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40 Accession: [none]
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41 Description: [none]
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42
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43 Scores for sequence family classification (score includes all domains):
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44 Model Description Score E-value N
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45 -------- ----------- ----- ------- ---
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46 [no hits above thresholds]
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47
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48 Parsed for domains:
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49 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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50 -------- ------- ----- ----- ----- ----- ----- -------
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51 [no hits above thresholds]
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52
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53 Alignments of top-scoring domains:
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54 [no hits above thresholds]
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55 //
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56
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57 Query sequence: blumeria_Grouper_590_20:NoCat_3
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58 Accession: [none]
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59 Description: [none]
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60
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61 Scores for sequence family classification (score includes all domains):
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62 Model Description Score E-value N
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63 -------- ----------- ----- ------- ---
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64 CPW_WPC Plasmodium falciparum domain of unknown func 1.5 7.7 1
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65 HECT HECT-domain (ubiquitin-transferase) 0.0 9.2 1
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66
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67 Parsed for domains:
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68 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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69 -------- ------- ----- ----- ----- ----- ----- -------
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70 CPW_WPC 1/1 30 37 .. 1 9 [. 1.5 7.7
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71 HECT 1/1 55 69 .. 341 355 .] 0.0 9.2
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72
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73 Alignments of top-scoring domains:
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74 CPW_WPC: domain 1 of 1, from 30 to 37: score 1.5, E = 7.7
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75 *->CerdYsisk<-*
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76 C++dYs sk
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77 blumeria_G 30 CQFDYS-SK 37
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78
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79 HECT: domain 1 of 1, from 55 to 69: score 0.0, E = 9.2
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80 *->LllAIneeteGFgle<-*
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81 Ll+A+n+ + G+ ++
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82 blumeria_G 55 LLTAVNNANTGYTQS 69
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83
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84 //
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85
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86 Query sequence: blumeria_Grouper_590_20:NoCat_4
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87 Accession: [none]
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88 Description: [none]
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89
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90 Scores for sequence family classification (score includes all domains):
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91 Model Description Score E-value N
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92 -------- ----------- ----- ------- ---
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93 DUF46 Putative integral membrane protein DUF46 6.4 0.11 1
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94
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95 Parsed for domains:
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96 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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97 -------- ------- ----- ----- ----- ----- ----- -------
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98 DUF46 1/1 82 91 .. 173 182 .] 6.4 0.11
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99
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100 Alignments of top-scoring domains:
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101 DUF46: domain 1 of 1, from 82 to 91: score 6.4, E = 0.11
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102 *->YkLGlKdVpW<-*
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103 Y+LGlK V++
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104 blumeria_G 82 YLLGLKGVWY 91
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105
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106 //
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107
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108 Query sequence: blumeria_Grouper_590_20:NoCat_5
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109 Accession: [none]
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110 Description: [none]
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111
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112 Scores for sequence family classification (score includes all domains):
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113 Model Description Score E-value N
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114 -------- ----------- ----- ------- ---
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115 POC4 POC4 chaperone -1.7 6.3 1
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116
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117 Parsed for domains:
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118 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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119 -------- ------- ----- ----- ----- ----- ----- -------
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120 POC4 1/1 121 125 .. 276 280 .] -1.7 6.3
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121
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122 Alignments of top-scoring domains:
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123 POC4: domain 1 of 1, from 121 to 125: score -1.7, E = 6.3
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124 *->SGLYI<-*
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125 SGLYI
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126 blumeria_G 121 SGLYI 125
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127
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128 //
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129
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130 Query sequence: blumeria_Grouper_590_20:NoCat_6
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131 Accession: [none]
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132 Description: [none]
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133
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134 Scores for sequence family classification (score includes all domains):
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135 Model Description Score E-value N
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136 -------- ----------- ----- ------- ---
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137 [no hits above thresholds]
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138
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139 Parsed for domains:
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140 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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141 -------- ------- ----- ----- ----- ----- ----- -------
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142 [no hits above thresholds]
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143
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144 Alignments of top-scoring domains:
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145 [no hits above thresholds]
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146 //
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147
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148 Query sequence: blumeria_Grouper_4152_12:NoCat_1
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149 Accession: [none]
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150 Description: [none]
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151
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152 Scores for sequence family classification (score includes all domains):
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153 Model Description Score E-value N
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154 -------- ----------- ----- ------- ---
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155 Peptidase_S29 Hepatitis C virus NS3 protease 4.7 1.1 1
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156 DGOK 2-keto-3-deoxy-galactonokinase 0.5 1.3 1
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157 TNV_CP Satellite tobacco necrosis virus coat p 0.1 7.9 1
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158 TrbL TrbL/VirB6 plasmid conjugal transfer pr 0.8 8 1
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159 Amino_oxidase Flavin containing amine oxidoreductase -0.6 9.1 1
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160 DUF1301 Protein of unknown function (DUF1301) 0.4 9.9 1
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161
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162 Parsed for domains:
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163 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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164 -------- ------- ----- ----- ----- ----- ----- -------
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165 Amino_oxidase 1/1 27 38 .. 471 482 .] -0.6 9.1
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166 TrbL 1/1 33 67 .. 231 285 .] 0.8 8
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167 TNV_CP 1/1 58 80 .. 167 189 .. 0.1 7.9
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168 DGOK 1/1 94 109 .. 283 298 .] 0.5 1.3
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169 Peptidase_S29 1/1 113 127 .. 1 15 [. 4.7 1.1
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170 DUF1301 1/1 148 157 .. 1 10 [. 0.4 9.9
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171
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172 Alignments of top-scoring domains:
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173 Amino_oxidase: domain 1 of 1, from 27 to 38: score -0.6, E = 9.1
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174 CS HHHHHHHHHHHH
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175 *->veSGlrAAaril<-*
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176 veSG rAA +l
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177 blumeria_G 27 VESGXRAASTLL 38
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178
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179 TrbL: domain 1 of 1, from 33 to 67: score 0.8, E = 8
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180 *->ksstiesfnlfvllaivllslvlilllkqipgiAqglvgavvtlgga
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181 ++st+ + +++ ++ +++++l+l++ ++iA
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182 blumeria_G 33 AASTLLI-----AVEHIVNCAAFCLALRSSASIA------------- 61
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183
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184 vaaalaGG<-*
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185 a+ +GG
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186 blumeria_G 62 --ASNSGG 67
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187
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188 TNV_CP: domain 1 of 1, from 58 to 80: score 0.1, E = 7.9
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189 CS SSSGGGB-TTEEEEEEEES-SS-
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190 *->AdvAaSNgpgAvFvLeigdkvag<-*
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191 A++AaSN g vF+L +++ g
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192 blumeria_G 58 ASIAASNSGGCVFFLPAASSAGG 80
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193
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194 DGOK: domain 1 of 1, from 94 to 109: score 0.5, E = 1.3
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195 *->VdGDeAvrAGLseiAr<-*
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196 VdG A AGL ++ r
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197 blumeria_G 94 VDGVSALFAGLTSAGR 109
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198
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199 Peptidase_S29: domain 1 of 1, from 113 to 127: score 4.7, E = 1.1
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200 *->GevqvLgTaTqsflG<-*
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201 G+v++ + aT+ flG
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202 blumeria_G 113 GTVMRFSGATTVFLG 127
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203
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204 DUF1301: domain 1 of 1, from 148 to 157: score 0.4, E = 9.9
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205 *->gVKvFSlSTS<-*
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206 ++vFS+STS
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207 blumeria_G 148 SARVFSFSTS 157
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208
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209 //
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210
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211 Query sequence: blumeria_Grouper_4152_12:NoCat_2
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212 Accession: [none]
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213 Description: [none]
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214
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215 Scores for sequence family classification (score includes all domains):
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216 Model Description Score E-value N
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217 -------- ----------- ----- ------- ---
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218 DUF1602 Protein of unknown function (DUF1602) 5.0 0.39 1
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219 Toxin_18 Conotoxin O-superfamily 4.2 4.4 1
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220 ABC_transp_aux ABC-type uncharacterized transport sys 1.1 5.2 1
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221
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222 Parsed for domains:
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223 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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224 -------- ------- ----- ----- ----- ----- ----- -------
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225 Toxin_18 1/1 21 26 .. 50 55 .] 4.2 4.4
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226 ABC_transp_aux 1/1 126 137 .. 276 287 .] 1.1 5.2
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227 DUF1602 1/1 143 159 .. 23 39 .] 5.0 0.39
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228
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229 Alignments of top-scoring domains:
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230 Toxin_18: domain 1 of 1, from 21 to 26: score 4.2, E = 4.4
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231 *->gfCLpr<-*
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232 +fCL+r
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233 blumeria_G 21 NFCLHR 26
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234
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235 ABC_transp_aux: domain 1 of 1, from 126 to 137: score 1.1, E = 5.2
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236 *->wGvrldpdlVlD<-*
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237 wG+r+dp+l+l
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238 blumeria_G 126 WGIRWDPRLALR 137
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239
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240 DUF1602: domain 1 of 1, from 143 to 159: score 5.0, E = 0.39
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241 *->kPPlSSsGalfanplrP<-*
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242 +P l + G+l + +lrP
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243 blumeria_G 143 MPKLNRRGFLASRLLRP 159
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244
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245 //
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246
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247 Query sequence: blumeria_Grouper_4152_12:NoCat_3
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248 Accession: [none]
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249 Description: [none]
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250
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251 Scores for sequence family classification (score includes all domains):
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252 Model Description Score E-value N
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253 -------- ----------- ----- ------- ---
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254 zf-P11 P-11 zinc finger 3.6 1.8 1
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255 V-ATPase_G Vacuolar (H+)-ATPase G subunit 2.4 5.3 1
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256
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257 Parsed for domains:
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258 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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259 -------- ------- ----- ----- ----- ----- ----- -------
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260 zf-P11 1/1 102 122 .. 1 20 [. 3.6 1.8
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261 V-ATPase_G 1/1 126 135 .. 1 10 [. 2.4 5.3
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262
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263 Alignments of top-scoring domains:
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264 zf-P11: domain 1 of 1, from 102 to 122: score 3.6, E = 1.8
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265 *->GplnCKs..CWfkdknLveCsd<-*
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266 Gp +C+s+ CW + + L C d
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267 blumeria_G 102 GPHFCRSrxCW-NRDALLGCDD 122
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268
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269 V-ATPase_G: domain 1 of 1, from 126 to 135: score 2.4, E = 5.3
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270 *->sqsqGIQqLL<-*
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271 ++s+GIQ LL
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272 blumeria_G 126 GGSGGIQDLL 135
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273
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274 //
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275
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276 Query sequence: blumeria_Grouper_4152_12:NoCat_4
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277 Accession: [none]
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278 Description: [none]
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279
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280 Scores for sequence family classification (score includes all domains):
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281 Model Description Score E-value N
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282 -------- ----------- ----- ------- ---
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283 XhoI Restriction endonuclease XhoI 9.9 0.014 1
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284 Endomucin Endomucin 0.1 6 1
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285
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286 Parsed for domains:
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287 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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288 -------- ------- ----- ----- ----- ----- ----- -------
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289 XhoI 1/1 92 122 .. 172 202 .] 9.9 0.014
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290 Endomucin 1/1 113 119 .. 261 267 .] 0.1 6
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291
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292 Alignments of top-scoring domains:
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293 XhoI: domain 1 of 1, from 92 to 122: score 9.9, E = 0.014
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294 *->klvlerfytrpasllrdaqavlqGiikeprk<-*
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295 ++++ ++yt ++ +d++++ qG k+ ++
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296 blumeria_G 92 RSSRQKKYTPSRIACSDRSGGAQGKTKSRAI 122
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297
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298 Endomucin: domain 1 of 1, from 113 to 119: score 0.1, E = 6
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299 *->AQGKtKN<-*
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300 AQGKtK
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301 blumeria_G 113 AQGKTKS 119
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302
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303 //
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304
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305 Query sequence: blumeria_Grouper_4152_12:NoCat_5
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306 Accession: [none]
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307 Description: [none]
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308
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309 Scores for sequence family classification (score includes all domains):
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310 Model Description Score E-value N
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311 -------- ----------- ----- ------- ---
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312 SLT Transglycosylase SLT domain 4.5 1.2 1
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313 DUF881 Bacterial protein of unknown function 4.0 1.6 1
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314 DUF2346 Uncharacterized conserved protein (DUF 3.2 2.8 1
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315 DUF1798 Bacterial domain of unknown function ( 3.0 3.3 1
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316 LBP_BPI_CETP LBP / BPI / CETP family, N-terminal do 1.8 3.8 1
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317 Jun Jun-like transcription factor -0.7 6.5 1
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318
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319 Parsed for domains:
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320 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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321 -------- ------- ----- ----- ----- ----- ----- -------
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322 DUF1798 1/1 2 19 .. 35 52 .. 3.0 3.3
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323 DUF881 1/1 46 69 .. 214 237 .] 4.0 1.6
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324 Jun 1/1 77 93 .. 264 284 .. -0.7 6.5
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325 SLT 1/1 89 108 .. 1 20 [. 4.5 1.2
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326 DUF2346 1/1 93 115 .. 63 85 .] 3.2 2.8
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327 LBP_BPI_CETP 1/1 124 139 .. 191 209 .] 1.8 3.8
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328
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329 Alignments of top-scoring domains:
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330 DUF1798: domain 1 of 1, from 2 to 19: score 3.0, E = 3.3
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331 *->KPfvdevdqllaeWkelA<-*
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332 +P+vd+vd++++++k+lA
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333 blumeria_G 2 VPEVDMVDAEVEKLKTLA 19
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334
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335 DUF881: domain 1 of 1, from 46 to 69: score 4.0, E = 1.6
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336 *->VeksdditiPAydgplklrYAkPv<-*
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337 V + +it+PA++ p +r Ak++
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338 blumeria_G 46 VAPEKRITVPALPRPAEVRPAKRA 69
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339
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340 Jun: domain 1 of 1, from 77 to 93: score -0.7, E = 6.5
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341 *->qHheNPpgfqhsavgpPRlaa<-*
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342 +++eNPp+ a++pP+l a
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343 blumeria_G 77 AGAENPPL----APQPPALEA 93
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344
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345 SLT: domain 1 of 1, from 89 to 108: score 4.5, E = 1.2
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346 CS HHHHHHHHHHTS-HHHHHHH
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347 *->dliikaaekygidpsllaAi<-*
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348 ++ ++a+ k+ ++p llaAi
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349 blumeria_G 89 PALEAAGRKNTHPPELLAAI 108
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350
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351 DUF2346: domain 1 of 1, from 93 to 115: score 3.2, E = 2.8
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352 *->AtKRrEkhdneLlealeeeEaKk<-*
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353 A R+ h eLl+a+e eE+
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354 blumeria_G 93 AAGRKNTHPPELLAAIEAEERRA 115
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355
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356 LBP_BPI_CETP: domain 1 of 1, from 124 to 139: score 1.8, E = 3.8
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357 CS HHHHHHHCHHHH...HTTS
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358 *->lCPviessVnslNvhLstl<-*
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359 +C +++ssV++ L++l
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360 blumeria_G 124 ICSTAISSVEAA---LQPL 139
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361
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362 //
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363
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364 Query sequence: blumeria_Grouper_4152_12:NoCat_6
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365 Accession: [none]
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366 Description: [none]
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367
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368 Scores for sequence family classification (score includes all domains):
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369 Model Description Score E-value N
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370 -------- ----------- ----- ------- ---
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371 DUF258 Protein of unknown function, DUF258 1.5 3.8 1
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372 TRAP_alpha Translocon-associated protein (TRAP), alph 0.1 4.1 1
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373 DUF1289 Protein of unknown function (DUF1289) 2.8 5.3 1
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374 SOCS_box SOCS box 2.4 9.7 1
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375
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376 Parsed for domains:
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377 Model Domain seq-f seq-t hmm-f hmm-t score E-value
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378 -------- ------- ----- ----- ----- ----- ----- -------
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379 DUF258 1/1 50 62 .. 293 305 .] 1.5 3.8
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380 SOCS_box 1/1 85 90 .. 1 6 [. 2.4 9.7
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381 DUF1289 1/1 95 115 .. 36 56 .] 2.8 5.3
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382 TRAP_alpha 1/1 106 116 .. 317 327 .] 0.1 4.1
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383
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384 Alignments of top-scoring domains:
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385 DUF258: domain 1 of 1, from 50 to 62: score 1.5, E = 3.8
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386 CS -HHHHHHHHHHHH
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387 *->seeRYesYlklle<-*
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388 s++R+++Y+ l++
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389 blumeria_G 50 SASRFQHYRDLQK 62
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390
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391 SOCS_box: domain 1 of 1, from 85 to 90: score 2.4, E = 9.7
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392 *->prSLqh<-*
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393 prSLqh
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394 blumeria_G 85 PRSLQH 90
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395
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396 DUF1289: domain 1 of 1, from 95 to 115: score 2.8, E = 5.3
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397 *->dERravlqllpqRlaalglkp<-*
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398 +E+ + lq+++qR +++++ +
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399 blumeria_G 95 AEKIHTLQNCLQRSKRRSAGQ 115
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400
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401 TRAP_alpha: domain 1 of 1, from 106 to 116: score 0.1, E = 4.1
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402 *->kRkvKRsvGdD<-*
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403 +R +Rs+G+D
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404 blumeria_G 106 QRSKRRSAGQD 116
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405
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406 //
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