Motif confirmation by HMMer


hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm5/seq/Y48E1B.14
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Query:  Y48E1B.14  CE28988    status:Partially_confirmed TR:Q95Q20 protein_id:CAC70107.1

Scores for sequence family classification (score includes all domains):
Model    Description                                    Score    E-value  N
-------- -----------                                    -----    ------- ---
PXA      PXA domain                                     402.8   3.2e-117   1
PX       PX domain                                       80.7    3.1e-20   1
Cnd3_C   Chromosome condensation protein 3, C-termina     3.4        5.4   1
OEP      Outer membrane efflux protein                    3.2        7.9   1
AmoA     Putative ammonia monooxygenase                   2.8        7.8   1
DUF518   Protein of unknown function (DUF518)             2.1        7.9   1

Parsed for domains:
Model    Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
-------- ------- ----- -----    ----- -----      -----  -------
AmoA       1/1     162   176 ..     1    15 [.     2.8      7.8
DUF518     1/1     155   176 ..   453   474 .]     2.1      7.9
Cnd3_C     1/1     346   359 ..   415   428 .]     3.4      5.4
PXA        1/1     234   436 ..     1   226 []   402.8 3.2e-117
OEP        1/1     539   571 ..   136   168 ..     3.2      7.9
PX         1/1     717   830 ..     1   134 []    80.7  3.1e-20

Alignments of top-scoring domains:
AmoA: domain 1 of 1, from 162 to 176: score 2.8, E = 7.8
                   *->wMiGpllaaIvlrkv<-*
                        iG+lla+I+++k+
   Y48E1B.14   162    VVIGSLLAGILFAKW    176

DUF518: domain 1 of 1, from 155 to 176: score 2.1, E = 7.9
                   *->ystaIlgvallvllaailarRr<-*
                      +++  ++v++++lla+il++
   Y48E1B.14   155    FGFVSILVVIGSLLAGILFAKW    176

Cnd3_C: domain 1 of 1, from 346 to 359: score 3.4, E = 5.4
                   *->RkeeeaEaeqeedl<-*
                      R+ee+a++ q++d
   Y48E1B.14   346    RDEETAYVRQISDF    359

PXA: domain 1 of 1, from 234 to 436: score 402.8, E = 3.2e-117
                   *->paqLeeeLesiIskIirdYVqsWYkkisvSeDasFlkeirqtlkyil
                      pa+L+e++e+++++I+++YV++WY++ ++S+D++F++eir++l+y++
   Y48E1B.14   234    PASLNEAVENLLNEIVEQYVNGWYGG-AISRDRAFINEIRYQLRYAS 279

                   aelkrrlsrqDsaelissklleIlkklistiedalEavlrkaspqepite
                   a+l+r+++r+D+ae++s+++l+I++++i++i+ +lE++lr++ p++p+++
   Y48E1B.14   280 ANLIRCIRRVDLAEFVSDQALPIASFYITRIN-ELEQKLRES-PTPPRSL 327

                   idlqiaetaedNYKihkaLsekenEltKEvCRDLvCtsPKDEEkyvRqlv
                   ++++iae+++d   ih+aLs++++E++                 yvRq++
   Y48E1B.14   328 LETKIAEQLDD---IHVALSGRDEETA-----------------YVRQIS 357

                   elLLklLlPedelesrlhDDDsPLRLFGRGKnERPWPsKsvrvllrEvLa
                   ++L+++Ll+e++l++r+hDDDsPLRLFGRGKnERPWPsKsvr++lrE+L+
   Y48E1B.14   358 DFLIPRLLDETRLAGRAHDDDSPLRLFGRGKNERPWPSKSVRGFLREMLT 407

                   tavilplIsklSdPDtiNlviIllfsesr<-*
                   +av+lp++++l++PDtiN+++Illf+e+r
   Y48E1B.14   408 NAVLLPVFDMLTQPDTINYWLILLFDEHR    436

OEP: domain 1 of 1, from 539 to 571: score 3.2, E = 7.9
                   *->ltaqeklkaaketleaakeslqlarqryeaGlg<-*
                      ++aqe++++a++ +e +k +++ + +r+ +G +
   Y48E1B.14   539    ESAQERVRIAESLVEQYKSAVEVNDIRVLEGII    571

PX: domain 1 of 1, from 717 to 830: score 80.7, E = 3.1e-20
                   *->dpilqvvvvdpetsrkgegdkkhtyyvyeittktn......ewsVkR
                       +++qv  +++  s     d++++++++e+++ + +++++++ws++R
   Y48E1B.14   717    VNVAQVNGLRDKIS-----DRVIFVFIIEVERPDAkphetqRWSIHR 758

                   RYsdFeeLhekLlrkfpdlgrilPplPpKklfgryrkeslemtsvkhssn
                   ++++F+ L +kL ++++  ++++ plP +k+f++
   Y48E1B.14   759 SFNEFYVLESKLNEFHG-DSLRFSPLPTRKTFVT---------------- 791

                   nfdeefiekRrkgLeeyLqkllqhPelsnhrlsevvleFLess<-*
                     d+ f e++r  +  +L  l++ ++l +   se++l FL+s+
   Y48E1B.14   792 -RDKPFMEQHRLIFSTFLSTLSKQRILNR---SELLLAFLSSN    830



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