Документ взят из кэша поисковой машины. Адрес оригинального документа : http://mouse.belozersky.msu.ru/npidb/data/pdb_new/hmm/3e2e.pdb1.pdb.hmm.txt Дата изменения: Thu May 16 23:22:37 2013 Дата индексирования: Fri Feb 28 21:35:15 2014 Кодировка:

# pfam_scan.pl, run at Thu May 16 23:22:35 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/3e2e.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
# = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
#
#

3e2e_A 27 283 27 283 PF14700.1 RPOL_N Domain 1 318 318 177.6 3.6e-52 1 No_clan
#HMM erQlklEeeaieaaveryreeleeaqkrglaanlpllkslllewyeplaeaieeeqeevkakskkkgdraeygpyLkllppeklavitihellslllssggvdkgvkvtrlaisiGkavedevrierlrkkeakyfkkllkklknkrkekkskkavkklvkkakksdgdkslkeesaskkWskeikakvGavLlelLle.takveveaedpetseeqPAFthsyqyvkgkkvgviklhpelvkllskeaesavllatlprylPMlvpPkpWtsvndGGYlslk...tslmRtkgseqskylkaaleradldkVfeaLNvLgn
#MATCH ++Ql+lE+e++e++++r+r+++e +l++++++++ ++i+++ eevk +k+g+r+++ ++L+ ++pe +a+iti+++l +l+s+++ +v+++a++iG+a+ede+r++r+r+ eak+f k++++kka++++v++++ s+g +e++ s W ke+ ++vG +++e+L+e t++v ++++ gv+ + e ++l + ae+ ++ +++P++vpPkpWt++++GGY+++ l+Rt+ sk+++ ++e++ +++V++a+N+++n
#PP 68*******************99...............588999*************996...79999*****************************77655....***************************988...........3344569***********998.566788988..****************************33.....................35555555555555555552222....5789******************888888******5....8*********************997
#SEQ REQLALEHESYEMGEARFRKMFE---------------RLITTLLPKMIARINDWFEEVK---AKRGKRPTAFQFLQEIKPEAVAYITIKTTLACLTSADNT----TVQAVASAIGRAIEDEARFGRIRDLEAKHF-----------KKNVYKKAFMQVVEADMLSKG-LLGGEAWSS--WHKEDSIHVGVRCIEMLIEsTGMVSLHRQN---------------------AGVVGQDSETIELAPEYAEAIIS----LMFQPCVVPPKPWTGITGGGYWANGrrpLALVRTH----SKKALMRYEDVYMPEVYKAINIAQN
3e2e_A 404 831 404 832 PF00940.14 RNA_pol Family 1 404 405 378.0 3.7e-113 1 No_clan
#HMM gkplgekglewLkihlanlfGvdKasfdervkfveenleeildsaknPldgerwwlkadepwqfLaaclelknalesgnpakyesklPvhqDgsCnGlQhyaaLgrDeegakqvNLipsdkpqDvYsevaeevkekleedik................eaekenelakllkgkitRkvvKqtvMtsvYGvtfigarkqikkqlkdkkekee...eeaasrkaasylaklileslkevfsaakeimkwLtevakiisksekp............vvWttplglpvvqpyrkskkkkvktllqkvslkkkndtspv....dkrkqraafpPNfiHSlDAthlmltaekcak..aglsfasVHDsfwthasdvdklnallreaFvelyse.dvlerlaeefekrykkeleeakvkkkellplefpelpekgeldleevkkskyff
#MATCH gkp+g++g +wLkih+an++GvdK+ f er+kf+een+e+i+++ak+Pl++ +ww + d+p++fLa+c+e++ + ++g +y+++lP ++DgsC+G+Qh++a++rDe g+++vNL+ps++ qD+Y va++v+e l++d+ + ++ ++l ++tR+v+K++vMt+ YG++++g+r+q+ +++ + ++ ++ ++aa y+akli+es++ ++ aa e+m+wL+++ak+++ k v+W+tp g+pv+q+y+k ++++++++ ++ + +++ ++++ d +kq+++++PNf+HS D +hl t+ +++ sfa +HDsf+t ++d+ +l + +re++v+ y++ dvl +++++f ++++++ + ++p+lp+kg+l+l+++++s+++f
#PP 69************************************************8.8*********************8888..99********************************************************8876899999*****99987666667778899******************************9999988665555689999************************************99777779************************************9888777766555555788***************************8888777789***********************************************995...........6689******************9998
#SEQ GKPIGKEGYYWLKIHGANCAGVDKVPFPERIKFIEENHENIMACAKSPLEN-TWWAEQDSPFCFLAFCFEYAGVQHHG--LSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYGIVAKKVNEILQADAIngtdnevvtvtisekvKLGTKALAGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGkglMFTQPNQAAGYMAKLIWESVSVTVVAAVEAMNWLKSAAKLLAAEVKDkktgeilrkrcaVHWVTPDGFPVWQEYKKPIQTRLNLMFLGQFRLQPTINTNKdseiDAHKQESGIAPNFVHSQDGSHLRKTVVWAHEkyGIESFALIHDSFGTIPADAANLFKAVRETMVDTYEScDVLADFYDQFADQLHES-----------QLDKMPALPAKGNLNLRDILESDFAF