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).
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm1/seq/C44E4.1a
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: C44E4.1a CE23594 status:Partially_confirmed TR:O01808 protein_id:AAD47119.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
DNA_PPF DNA polymerase processivity factor 241.2 1.4e-68 2
DUF603 Protein of unknown function, DUF603 6.7 0.3 1
granulin Granulin 5.6 2.2 1
DNA_pack_C Probable DNA packing protein, C-terminu 5.3 0.7 1
Neuregulin Neuregulin family 4.2 0.85 1
M-factor M-factor 4.0 8.6 1
squash Squash family serine protease inhibitor 3.7 2 1
Peptidase_C57 Vaccinia virus I7 processing peptidase 3.6 3.1 1
CPSase_L_D3 Carbamoyl-phosphate synthetase large ch 3.1 1.3 1
Orbi_VP6 Orbivirus helicase VP6 3.1 6.4 1
Birna_VP2 Birnavirus VP2 protein 1.8 9.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
DNA_PPF 1/2 3 114 .. 1 121 [] 240.0 3.4e-68
DNA_pack_C 1/1 219 237 .. 348 366 .] 5.3 0.7
Neuregulin 1/1 308 322 .. 392 406 .] 4.2 0.85
Birna_VP2 1/1 345 353 .. 445 453 .] 1.8 9.9
Orbi_VP6 1/1 513 521 .. 1 9 [. 3.1 6.4
CPSase_L_D3 1/1 639 664 .. 51 79 .. 3.1 1.3
Peptidase_C57 1/1 1172 1186 .. 246 260 .. 3.6 3.1
DUF603 1/1 1227 1244 .. 152 169 .. 6.7 0.3
granulin 1/1 1374 1384 .. 33 43 .] 5.6 2.2
DNA_PPF 2/2 1633 1652 .. 102 121 .] 1.7 34
M-factor 1/1 2055 2066 .. 1 12 [. 4.0 8.6
squash 1/1 2414 2430 .. 13 30 .] 3.7 2
Alignments of top-scoring domains:
DNA_PPF: domain 1 of 2, from 3 to 114: score 240.0, E = 3.4e-68
*->kKlsKdtiaLLknfalissgillkvgkFiGltralngttnYseFFan
K++K+++aL++nf+++s+++++k++kF+ ++++l+++t +s+FFa+
C44E4.1a 3 -KSQKKNLALYQNFGRHSKQDFIKILKFF-YWKLLKNQT-FSKFFAT 46
isdiilfDvalydlnqflsilsLvaGnvdDaEiiqkedGnIKiaqdtrst
+++i+++D++l+++n f+++++L+aGnv+D+Eii++edGn++i+ +++s+
C44E4.1a 47 MQYIRIYDLTLHETN-FVEEMVLPAGNVEDVEIINQEDGNVRIL-VLSSS 94
vyqsssylaadkSvivaenkpIvL<-*
+y ++++++Sv++aen++I+L
C44E4.1a 95 GY----LYEHNISVFNAENNSIFL 114
DNA_pack_C: domain 1 of 1, from 219 to 237: score 5.3, E = 0.7
*->VMAvYlatsnktdhsFkpi<-*
+M+++l+ts+k ++++ +
C44E4.1a 219 IMTYFLMTSAKNQSVYSVL 237
Neuregulin: domain 1 of 1, from 308 to 322: score 4.2, E = 0.85
*->sRFstqEELqARLss<-*
+ F t EEL RLss
C44E4.1a 308 GMFYTHEELNNRLSS 322
Birna_VP2: domain 1 of 1, from 345 to 353: score 1.8, E = 9.9
*->frDivrqIR<-*
fr+ivr IR
C44E4.1a 345 FRQIVRMIR 353
Orbi_VP6: domain 1 of 1, from 513 to 521: score 3.1, E = 6.4
*->lvDWaEsEs<-*
l+DW+EsE+
C44E4.1a 513 LIDWTESEG 521
CPSase_L_D3: domain 1 of 1, from 639 to 664: score 3.1, E = 1.3
*->eEkelksygldlselpaelLrkAKqlGFS<-*
eEk+l+ +++ +++e ++ K +GFS
C44E4.1a 639 EEKKLMVEHEN---MDKESVLRIKNYGFS 664
Peptidase_C57: domain 1 of 1, from 1172 to 1186: score 3.6, E = 3.1
*->WKcviyDkeqdlVcF<-*
WK++ +D++ +lVcF
C44E4.1a 1172 WKSINFDRNPCLVCF 1186
DUF603: domain 1 of 1, from 1227 to 1244: score 6.7, E = 0.3
*->kLDElkkErelkkMeLYY<-*
kL Elkk ++kk +LYY
C44E4.1a 1227 KLTELKKSKSIKKVSLYY 1244
granulin: domain 1 of 1, from 1374 to 1384: score 5.6, E = 2.2
*->hCdadggrClq<-*
+Cda+ g+C+q
C44E4.1a 1374 TCDAERGQCVQ 1384
DNA_PPF: domain 2 of 2, from 1633 to 1652: score 1.7, E = 34
*->ssylaadkSvivaenkpIvL<-*
s yl+a kSv e k I L
C44E4.1a 1633 SKYLEATKSVTLDERKKIKL 1652
[output cut off at A = 10 top alignments]