hmmpfam - search one or more sequences against HMM database
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file: /usr1/pfam-23.0/Pfam_fs
Sequence file: 148676248.fa
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Query sequence: gi|148676248|gb|EDL08195.1|
Accession: [none]
Description: nasal embryonic LHRH factor, isoform CRA_c [Mus musculus]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
PRD PRD domain 3.7 2.6 1
Arena_nucleocap Arenavirus nucleocapsid protein -0.2 2.6 1
Pol_alpha_B_N DNA polymerase alpha subunit B N-term 1.2 2.7 1
AMP_N Aminopeptidase P, N-terminal domain 1.9 4.4 1
TIR TIR domain 0.9 5.4 1
IMPDH IMP dehydrogenase / GMP reductase dom 0.6 6 1
c-SKI_SMAD_bind c-SKI Smad4 binding domain 1.6 6.1 1
NUP Purine nucleoside permease (NUP) -0.2 6.3 1
Orthopox_N1 Orthopoxvirus N1 protein 0.7 6.4 1
IFRD Interferon-related developmental regu -0.2 6.5 1
HNH HNH endonuclease 2.4 8.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Pol_alpha_B_N 1/1 14 21 .. 247 254 .] 1.2 2.7
Arena_nucleocap 1/1 82 96 .. 522 536 .] -0.2 2.6
HNH 1/1 110 122 .. 46 58 .] 2.4 8.5
AMP_N 1/1 128 139 .. 1 12 [. 1.9 4.4
NUP 1/1 198 206 .. 1 9 [. -0.2 6.3
c-SKI_SMAD_bind 1/1 234 250 .. 82 98 .] 1.6 6.1
IFRD 1/1 235 246 .. 354 365 .] -0.2 6.5
PRD 1/1 239 251 .. 1 13 [. 3.7 2.6
TIR 1/1 286 301 .. 131 150 .] 0.9 5.4
Orthopox_N1 1/1 355 368 .. 100 113 .] 0.7 6.4
IMPDH 1/1 376 384 .] 1 9 [. 0.6 6
Alignments of top-scoring domains:
Pol_alpha_B_N: domain 1 of 1, from 14 to 21: score 1.2, E = 2.7
*->gNpslPaQ<-*
++p++PaQ
gi|1486762 14 ASPCVPAQ 21
Arena_nucleocap: domain 1 of 1, from 82 to 96: score -0.2, E = 2.6
*->ALLDCiMFeaavtGs<-*
AL+ C+M + v Gs
gi|1486762 82 ALMECLMMSPSVPGS 96
HNH: domain 1 of 1, from 110 to 122: score 2.4, E = 8.5
CS E-HHHHHHHHTT-
*->lcpkcHrrkhark<-*
lc++++ rkh r+
gi|1486762 110 LCKRENFRKHLRM 122
AMP_N: domain 1 of 1, from 128 to 139: score 1.9, E = 4.4
*->ipadefaaRRkr<-*
++a+ fa+RR+r
gi|1486762 128 VKAQTFAERRER 139
NUP: domain 1 of 1, from 198 to 206: score -0.2, E = 6.3
*->iqpKVmvIt<-*
+pKVm+I+
gi|1486762 198 LPPKVMLIS 206
c-SKI_SMAD_bind: domain 1 of 1, from 234 to 250: score 1.6, E = 6.1
CS CHHHHHHHHHHHHCC--
*->eeakLeqvLeevkekFd<-*
e+a+ e +Lee++ k +
gi|1486762 234 EHATFEDILEEIEKKLN 250
IFRD: domain 1 of 1, from 235 to 246: score -0.2, E = 6.5
*->RstFRDVlrfvE<-*
++tF D+l+ +E
gi|1486762 235 HATFEDILEEIE 246
PRD: domain 1 of 1, from 239 to 251: score 3.7, E = 2.6
CS HHHHHHHHHHHTS
*->eelleeiekklqi<-*
e++leeiekkl+i
gi|1486762 239 EDILEEIEKKLNI 251
TIR: domain 1 of 1, from 286 to 301: score 0.9, E = 5.4
CS SG.....GGCCHHHHHHHHH
*->dktersqsdrikfWkkalya<-*
+k+e d+i+fWk++
gi|1486762 286 EKEE----DMIHFWKRLSRL 301
Orthopox_N1: domain 1 of 1, from 355 to 368: score 0.7, E = 6.4
*->rmiekyfddlmidl<-*
+mie+yfd + l
gi|1486762 355 QMIETYFDFRLYRL 368
IMPDH: domain 1 of 1, from 376 to 384: score 0.6, E = 6
CS EB-GGGGEE
RF xxxxxxxxx
*->egLTFDDVL<-*
+ L+FDDVL
gi|1486762 376 KLLDFDDVL 384
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