Документ взят из кэша поисковой машины. Адрес оригинального документа : http://mouse.belozersky.msu.ru/npidb/data/pdb_new/hmm/3ice.pdb1.pdb.hmm.txt Дата изменения: Thu May 16 23:54:57 2013 Дата индексирования: Fri Feb 28 21:42:07 2014 Кодировка:

# pfam_scan.pl, run at Thu May 16 23:54:53 2013
#
# Copyright (c) 2009 Genome Research Ltd
# Freely distributed under the GNU
# General Public License
#
# Authors: Jaina Mistry (jm14@sanger.ac.uk), John Tate (jt6@sanger.ac.uk),
# Rob Finn (rdf@sanger.ac.uk)
#
# This is free software; you can redistribute it and/or modify it under
# the terms of the GNU General Public License as published by the Free Software
# Foundation; either version 2 of the License, or (at your option) any later version.
# This program is distributed in the hope that it will be useful, but WITHOUT
# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
#
# You should have received a copy of the GNU General Public License along with
# this program. If not, see .
# = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
# query sequence file: /data/npidb/pdb/pdb_new/fasta/3ice.pdb1.pdb.fas
# searching against: /mnt/databanks/pfamdata/Pfam-A.hmm, with cut off -E 0.001 --domE 0.001
# resolve clan overlaps: on
# predict active sites: off
# = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
#
#

3ice_A 5 29 3 29 PF07498.7 Rho_N Family 19 43 43 27.9 1.4e-06 1 CL0306
#HMM ienysrlrKqeLIfaIlkaqaekgg
#MATCH ++n+ rKq++IfaIlk++a++g+
#PP 6777788****************97
#SEQ LKNTPVSRKQDIIFAILKQHAKSGE
3ice_A 31 108 31 108 PF07497.7 Rho_RNA_bind Domain 1 78 78 140.4 9.8e-42 1 CL0021
#HMM ilgeGvleilpdGfGfLRsieasylpgedDiYvspsqirrfnLrtGDtveGkirsPkegeryfallkvekingeepek
#MATCH i+g+Gvleil+dGfGfLRs+++syl+g+dDiYvspsqirrfnLrtGDt++Gkir+Pkegeryfallkv+++n+++pe+
#PP 799************************************************************************985
#SEQ IFGDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPEN
#CS EEEEEEEEE-TTS-EEEE-GGGTT---TT-EEE-CCCCCCTT--TT-EEEEEEEXXXSSSXSEEECEECEETTEEXXX
3ice_A 140 339 138 340 PF00006.20 ATP-synt_ab Family 3 214 215 117.7 4.8e-34 1 CL0023
#HMM irvlDslfPivqGqttlipGafgcGktvi..sqslsknsnsdaiiyvgiGergnevaevleefrkepimkrttlvantsnepvaareasiytgitlAeyfrdqgknVlliaDslsrwaealreisgrlgempadqgypaylgaklaslyeRagkagspdriGSvtivaavspaggdfsdpvttstlgitdvfivLdkklaqrkhfPaintlvSy
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF rvlD+ Pi++Gq+ li+++++ Gkt + +++ + +++ d++ +++i+er +ev+e + + +va+t +ep+ +++++ i+ A+++ +++k+V++++Ds++r+a+a++ + + g+ ++g++a+++++ ++++ a+++ +++GS+ti+a++++++g+ +++++++++g+ ++ L++k+a++++fPai+ S
#PP 69************************976222334445567888999********98732........334579********998888876.69************************************.788*********************...******************9999999998865.689****************99985
#SEQ ARVLDLASPIGRGQRGLIVAPPKAGKTLLqnIAQSIAYNHPDCVLVLLIDERPEEVTEQR--------LVKGEVVASTFDEPASRHVQVAE-VIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGK-VLTGGVDANALHRPKRFFGAARNV---EEGGSLTIIATALIDTGSKDEVIYEEFKGTG-NELHLSRKIAEKRVFPAIDYNRSG
#CS HHHHHHHS--BTT-EEEEEE-TTSSHHHH..HHHHHHHHHHH-TEEEEECE-HHHHCCCCTTS......-S.EEEEEETTS-HHHHHHHHHHHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHS-S-SS.--SSS--TTTTCCHHHHHCT-EEE...SSS-EEEEEEEEE-SSS-TCCCCHHHCTT--SEEEEB-HHHHTTT-SS-B-CCC-E
3ice_B 21 38 20 38 PF07498.7 Rho_N Family 26 43 43 25.1 1e-05 1 CL0306
#HMM rKqeLIfaIlkaqaekgg
#MATCH rKq++IfaIlk++a++g+
#PP 9***************97
#SEQ RKQDIIFAILKQHAKSGE
3ice_B 40 117 40 117 PF07497.7 Rho_RNA_bind Domain 1 78 78 140.4 1e-41 1 CL0021
#HMM ilgeGvleilpdGfGfLRsieasylpgedDiYvspsqirrfnLrtGDtveGkirsPkegeryfallkvekingeepek
#MATCH i+g+Gvleil+dGfGfLRs+++syl+g+dDiYvspsqirrfnLrtGDt++Gkir+Pkegeryfallkv+++n+++pe+
#PP 799************************************************************************985
#SEQ IFGDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPEN
#CS EEEEEEEEE-TTS-EEEE-GGGTT---TT-EEE-CCCCCCTT--TT-EEEEEEEXXXSSSXSEEECEECEETTEEXXX
3ice_B 149 348 147 349 PF00006.20 ATP-synt_ab Family 3 214 215 117.6 5.1e-34 1 CL0023
#HMM irvlDslfPivqGqttlipGafgcGktvi..sqslsknsnsdaiiyvgiGergnevaevleefrkepimkrttlvantsnepvaareasiytgitlAeyfrdqgknVlliaDslsrwaealreisgrlgempadqgypaylgaklaslyeRagkagspdriGSvtivaavspaggdfsdpvttstlgitdvfivLdkklaqrkhfPaintlvSy
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF rvlD+ Pi++Gq+ li+++++ Gkt + +++ + +++ d++ +++i+er +ev+e + + +va+t +ep+ +++++ i+ A+++ +++k+V++++Ds++r+a+a++ + + g+ ++g++a+++++ ++++ a+++ +++GS+ti+a++++++g+ +++++++++g+ ++ L++k+a++++fPai+ S
#PP 69************************976222334445567888999********98732........334579********998888876.69************************************.788*********************...******************9999999998865.689****************99985
#SEQ ARVLDLASPIGRGQRGLIVAPPKAGKTLLqnIAQSIAYNHPDCVLVLLIDERPEEVTEQR--------LVKGEVVASTFDEPASRHVQVAE-VIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGK-VLTGGVDANALHRPKRFFGAARNV---EEGGSLTIIATALIDTGSKDEVIYEEFKGTG-NELHLSRKIAEKRVFPAIDYNRSG
#CS HHHHHHHS--BTT-EEEEEE-TTSSHHHH..HHHHHHHHHHH-TEEEEECE-HHHHCCCCTTS......-S.EEEEEETTS-HHHHHHHHHHHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHS-S-SS.--SSS--TTTTCCHHHHHCT-EEE...SSS-EEEEEEEEE-SSS-TCCCCHHHCTT--SEEEEB-HHHHTTT-SS-B-CCC-E
3ice_C 4 43 4 43 PF07498.7 Rho_N Family 1 43 43 32.8 4.2e-08 1 CL0306
#HMM eLkektleeLreiAkelgienysrlrKqeLIfaIlkaqaekgg
#MATCH eLk+ +++eL + + ++en++r rKq++IfaIlk++a++g+
#PP 8*************9..679**88.****************97
#SEQ ELKNTPVSELITLGE--NLENLAR-RKQDIIFAILKQHAKSGE
3ice_C 45 122 45 122 PF07497.7 Rho_RNA_bind Domain 1 78 78 140.3 1e-41 1 CL0021
#HMM ilgeGvleilpdGfGfLRsieasylpgedDiYvspsqirrfnLrtGDtveGkirsPkegeryfallkvekingeepek
#MATCH i+g+Gvleil+dGfGfLRs+++syl+g+dDiYvspsqirrfnLrtGDt++Gkir+Pkegeryfallkv+++n+++pe+
#PP 799************************************************************************985
#SEQ IFGDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPEN
#CS EEEEEEEEE-TTS-EEEE-GGGTT---TT-EEE-CCCCCCTT--TT-EEEEEEEXXXSSSXSEEECEECEETTEEXXX
3ice_C 154 353 152 354 PF00006.20 ATP-synt_ab Family 3 214 215 117.6 5.3e-34 1 CL0023
#HMM irvlDslfPivqGqttlipGafgcGktvi..sqslsknsnsdaiiyvgiGergnevaevleefrkepimkrttlvantsnepvaareasiytgitlAeyfrdqgknVlliaDslsrwaealreisgrlgempadqgypaylgaklaslyeRagkagspdriGSvtivaavspaggdfsdpvttstlgitdvfivLdkklaqrkhfPaintlvSy
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF rvlD+ Pi++Gq+ li+++++ Gkt + +++ + +++ d++ +++i+er +ev+e + + +va+t +ep+ +++++ i+ A+++ +++k+V++++Ds++r+a+a++ + + g+ ++g++a+++++ ++++ a+++ +++GS+ti+a++++++g+ +++++++++g+ ++ L++k+a++++fPai+ S
#PP 69************************976222334445567888999********98732........334579********998888876.69************************************.788*********************...******************9999999998865.689****************99985
#SEQ ARVLDLASPIGRGQRGLIVAPPKAGKTLLqnIAQSIAYNHPDCVLVLLIDERPEEVTEQR--------LVKGEVVASTFDEPASRHVQVAE-VIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGK-VLTGGVDANALHRPKRFFGAARNV---EEGGSLTIIATALIDTGSKDEVIYEEFKGTG-NELHLSRKIAEKRVFPAIDYNRSG
#CS HHHHHHHS--BTT-EEEEEE-TTSSHHHH..HHHHHHHHHHH-TEEEEECE-HHHHCCCCTTS......-S.EEEEEETTS-HHHHHHHHHHHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHS-S-SS.--SSS--TTTTCCHHHHHCT-EEE...SSS-EEEEEEEEE-SSS-TCCCCHHHCTT--SEEEEB-HHHHTTT-SS-B-CCC-E
3ice_D 19 39 4 39 PF07498.7 Rho_N Family 23 43 43 29.4 4.8e-07 1 CL0306
#HMM srlrKqeLIfaIlkaqaekgg
#MATCH ++lrKq++IfaIlk++a++g+
#PP 589****************97
#SEQ NGLRKQDIIFAILKQHAKSGE
3ice_D 41 118 41 118 PF07497.7 Rho_RNA_bind Domain 1 78 78 140.3 1e-41 1 CL0021
#HMM ilgeGvleilpdGfGfLRsieasylpgedDiYvspsqirrfnLrtGDtveGkirsPkegeryfallkvekingeepek
#MATCH i+g+Gvleil+dGfGfLRs+++syl+g+dDiYvspsqirrfnLrtGDt++Gkir+Pkegeryfallkv+++n+++pe+
#PP 799************************************************************************985
#SEQ IFGDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPEN
#CS EEEEEEEEE-TTS-EEEE-GGGTT---TT-EEE-CCCCCCTT--TT-EEEEEEEXXXSSSXSEEECEECEETTEEXXX
3ice_D 150 349 148 350 PF00006.20 ATP-synt_ab Family 3 214 215 117.6 5.1e-34 1 CL0023
#HMM irvlDslfPivqGqttlipGafgcGktvi..sqslsknsnsdaiiyvgiGergnevaevleefrkepimkrttlvantsnepvaareasiytgitlAeyfrdqgknVlliaDslsrwaealreisgrlgempadqgypaylgaklaslyeRagkagspdriGSvtivaavspaggdfsdpvttstlgitdvfivLdkklaqrkhfPaintlvSy
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF rvlD+ Pi++Gq+ li+++++ Gkt + +++ + +++ d++ +++i+er +ev+e + + +va+t +ep+ +++++ i+ A+++ +++k+V++++Ds++r+a+a++ + + g+ ++g++a+++++ ++++ a+++ +++GS+ti+a++++++g+ +++++++++g+ ++ L++k+a++++fPai+ S
#PP 69************************976222334445567888999********98732........334579********998888876.69************************************.788*********************...******************9999999998865.689****************99985
#SEQ ARVLDLASPIGRGQRGLIVAPPKAGKTLLqnIAQSIAYNHPDCVLVLLIDERPEEVTEQR--------LVKGEVVASTFDEPASRHVQVAE-VIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGK-VLTGGVDANALHRPKRFFGAARNV---EEGGSLTIIATALIDTGSKDEVIYEEFKGTG-NELHLSRKIAEKRVFPAIDYNRSG
#CS HHHHHHHS--BTT-EEEEEE-TTSSHHHH..HHHHHHHHHHH-TEEEEECE-HHHHCCCCTTS......-S.EEEEEETTS-HHHHHHHHHHHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHS-S-SS.--SSS--TTTTCCHHHHHCT-EEE...SSS-EEEEEEEEE-SSS-TCCCCHHHCTT--SEEEEB-HHHHTTT-SS-B-CCC-E
3ice_E 19 37 4 37 PF07498.7 Rho_N Family 25 43 43 25.9 6.1e-06 1 CL0306
#HMM lrKqeLIfaIlkaqaekgg
#MATCH rKq++IfaIlk++a++g+
#PP 6****************97
#SEQ NRKQDIIFAILKQHAKSGE
3ice_E 39 116 39 116 PF07497.7 Rho_RNA_bind Domain 1 78 78 140.4 1e-41 1 CL0021
#HMM ilgeGvleilpdGfGfLRsieasylpgedDiYvspsqirrfnLrtGDtveGkirsPkegeryfallkvekingeepek
#MATCH i+g+Gvleil+dGfGfLRs+++syl+g+dDiYvspsqirrfnLrtGDt++Gkir+Pkegeryfallkv+++n+++pe+
#PP 799************************************************************************985
#SEQ IFGDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPEN
#CS EEEEEEEEE-TTS-EEEE-GGGTT---TT-EEE-CCCCCCTT--TT-EEEEEEEXXXSSSXSEEECEECEETTEEXXX
3ice_E 148 347 146 348 PF00006.20 ATP-synt_ab Family 3 214 215 117.6 5.1e-34 1 CL0023
#HMM irvlDslfPivqGqttlipGafgcGktvi..sqslsknsnsdaiiyvgiGergnevaevleefrkepimkrttlvantsnepvaareasiytgitlAeyfrdqgknVlliaDslsrwaealreisgrlgempadqgypaylgaklaslyeRagkagspdriGSvtivaavspaggdfsdpvttstlgitdvfivLdkklaqrkhfPaintlvSy
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF rvlD+ Pi++Gq+ li+++++ Gkt + +++ + +++ d++ +++i+er +ev+e + + +va+t +ep+ +++++ i+ A+++ +++k+V++++Ds++r+a+a++ + + g+ ++g++a+++++ ++++ a+++ +++GS+ti+a++++++g+ +++++++++g+ ++ L++k+a++++fPai+ S
#PP 69************************976222334445567888999********98732........334579********998888876.69************************************.788*********************...******************9999999998865.689****************99985
#SEQ ARVLDLASPIGRGQRGLIVAPPKAGKTLLqnIAQSIAYNHPDCVLVLLIDERPEEVTEQR--------LVKGEVVASTFDEPASRHVQVAE-VIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGK-VLTGGVDANALHRPKRFFGAARNV---EEGGSLTIIATALIDTGSKDEVIYEEFKGTG-NELHLSRKIAEKRVFPAIDYNRSG
#CS HHHHHHHS--BTT-EEEEEE-TTSSHHHH..HHHHHHHHHHH-TEEEEECE-HHHHCCCCTTS......-S.EEEEEETTS-HHHHHHHHHHHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHS-S-SS.--SSS--TTTTCCHHHHHCT-EEE...SSS-EEEEEEEEE-SSS-TCCCCHHHCTT--SEEEEB-HHHHTTT-SS-B-CCC-E
3ice_F 10 27 7 27 PF07498.7 Rho_N Family 26 43 43 25.6 7.1e-06 1 CL0306
#HMM rKqeLIfaIlkaqaekgg
#MATCH rKq++IfaIlk++a++g+
#PP 9***************97
#SEQ RKQDIIFAILKQHAKSGE
3ice_F 29 106 29 106 PF07497.7 Rho_RNA_bind Domain 1 78 78 140.4 9.7e-42 1 CL0021
#HMM ilgeGvleilpdGfGfLRsieasylpgedDiYvspsqirrfnLrtGDtveGkirsPkegeryfallkvekingeepek
#MATCH i+g+Gvleil+dGfGfLRs+++syl+g+dDiYvspsqirrfnLrtGDt++Gkir+Pkegeryfallkv+++n+++pe+
#PP 799************************************************************************985
#SEQ IFGDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPEN
#CS EEEEEEEEE-TTS-EEEE-GGGTT---TT-EEE-CCCCCCTT--TT-EEEEEEEXXXSSSXSEEECEECEETTEEXXX
3ice_F 138 337 136 338 PF00006.20 ATP-synt_ab Family 3 214 215 117.7 4.7e-34 1 CL0023
#HMM irvlDslfPivqGqttlipGafgcGktvi..sqslsknsnsdaiiyvgiGergnevaevleefrkepimkrttlvantsnepvaareasiytgitlAeyfrdqgknVlliaDslsrwaealreisgrlgempadqgypaylgaklaslyeRagkagspdriGSvtivaavspaggdfsdpvttstlgitdvfivLdkklaqrkhfPaintlvSy
#MATCH xxxxxxxxxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF rvlD+ Pi++Gq+ li+++++ Gkt + +++ + +++ d++ +++i+er +ev+e + + +va+t +ep+ +++++ i+ A+++ +++k+V++++Ds++r+a+a++ + + g+ ++g++a+++++ ++++ a+++ +++GS+ti+a++++++g+ +++++++++g+ ++ L++k+a++++fPai+ S
#PP 69************************976222334445567888999********98732........334579********998888876.69************************************.788*********************...******************9999999998865.689****************99985
#SEQ ARVLDLASPIGRGQRGLIVAPPKAGKTLLqnIAQSIAYNHPDCVLVLLIDERPEEVTEQR--------LVKGEVVASTFDEPASRHVQVAE-VIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGK-VLTGGVDANALHRPKRFFGAARNV---EEGGSLTIIATALIDTGSKDEVIYEEFKGTG-NELHLSRKIAEKRVFPAIDYNRSG
#CS HHHHHHHS--BTT-EEEEEE-TTSSHHHH..HHHHHHHHHHH-TEEEEECE-HHHHCCCCTTS......-S.EEEEEETTS-HHHHHHHHHHHHHHHHHHHHTT-EEEEEEE-HHHHHHHHHHHS-S-SS.--SSS--TTTTCCHHHHHCT-EEE...SSS-EEEEEEEEE-SSS-TCCCCHHHCTT--SEEEEB-HHHHTTT-SS-B-CCC-E