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: 194681197.fa
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Query sequence: gi|194681197|ref|XP_873910.3|
Accession: [none]
Description: PREDICTED: similar to NELF protein isoform 1 [Bos taurus]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
NUP Purine nucleoside permease (NUP) 1.5 2 1
PRD PRD domain 3.7 2.6 1
Shigella_OspC Shigella flexneri OspC protein 0.4 4.2 1
AMP_N Aminopeptidase P, N-terminal domain 1.9 4.4 1
TIR TIR domain 0.9 5.4 1
c-SKI_SMAD_bind c-SKI Smad4 binding domain 1.6 6.1 1
Orthopox_N1 Orthopoxvirus N1 protein 0.7 6.4 1
IFRD Interferon-related developmental regu -0.2 6.5 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AMP_N 1/1 17 28 .. 1 12 [. 1.9 4.4
NUP 1/1 87 95 .. 1 9 [. 1.5 2
Shigella_OspC 1/1 112 146 .. 44 78 .. 0.4 4.2
c-SKI_SMAD_bind 1/1 123 139 .. 82 98 .] 1.6 6.1
IFRD 1/1 124 135 .. 354 365 .] -0.2 6.5
PRD 1/1 128 140 .. 1 13 [. 3.7 2.6
TIR 1/1 175 190 .. 131 150 .] 0.9 5.4
Orthopox_N1 1/1 244 257 .. 100 113 .] 0.7 6.4
Alignments of top-scoring domains:
AMP_N: domain 1 of 1, from 17 to 28: score 1.9, E = 4.4
*->ipadefaaRRkr<-*
++a+ fa+RR+r
gi|1946811 17 VKAQTFAERRER 28
NUP: domain 1 of 1, from 87 to 95: score 1.5, E = 2
*->iqpKVmvIt<-*
++pKVm+I+
gi|1946811 87 VPPKVMLIS 95
Shigella_OspC: domain 1 of 1, from 112 to 146: score 0.4, E = 4.2
*->DnAiPPvFY.HEHqsfFLDkFkEvvdEvsRYvHGsk<-*
D Ai P+ Y+HEH F D +E+ + Y G k
gi|1946811 112 DPAIIPILYdHEHAT-FEDILEEIEKKLNIYHKGAK 146
c-SKI_SMAD_bind: domain 1 of 1, from 123 to 139: score 1.6, E = 6.1
CS CHHHHHHHHHHHHCC--
*->eeakLeqvLeevkekFd<-*
e+a+ e +Lee++ k +
gi|1946811 123 EHATFEDILEEIEKKLN 139
IFRD: domain 1 of 1, from 124 to 135: score -0.2, E = 6.5
*->RstFRDVlrfvE<-*
++tF D+l+ +E
gi|1946811 124 HATFEDILEEIE 135
PRD: domain 1 of 1, from 128 to 140: score 3.7, E = 2.6
CS HHHHHHHHHHHTS
*->eelleeiekklqi<-*
e++leeiekkl+i
gi|1946811 128 EDILEEIEKKLNI 140
TIR: domain 1 of 1, from 175 to 190: score 0.9, E = 5.4
CS SG.....GGCCHHHHHHHHH
*->dktersqsdrikfWkkalya<-*
+k+e d+i+fWk++
gi|1946811 175 EKEE----DMIHFWKRLSRL 190
Orthopox_N1: domain 1 of 1, from 244 to 257: score 0.7, E = 6.4
*->rmiekyfddlmidl<-*
+mie+yfd + l
gi|1946811 244 QMIETYFDFRLYRL 257
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