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: 119608798.fa
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Query sequence: gi|119608798|gb|EAW88392.1|
Accession: [none]
Description: nasal embryonic LHRH factor, isoform CRA_c [Homo sapiens]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
IQ IQ calmodulin-binding motif 7.8 0.4 1
Ribosomal_L20 Ribosomal protein L20 4.6 0.46 1
FliO Flagellar biosynthesis protein, FliO 4.9 0.8 1
NUP Purine nucleoside permease (NUP) 1.5 2 1
TP1 Nuclear transition protein 1 3.4 2 1
Orthopox_B11R Orthopoxvirus B11R protein 3.4 2.9 1
IMPDH IMP dehydrogenase / GMP reductase dom 0.6 6 1
Orthopox_N1 Orthopoxvirus N1 protein 0.7 6.4 1
IFRD Interferon-related developmental regu -0.2 6.5 1
c-SKI_SMAD_bind c-SKI Smad4 binding domain 1.4 6.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Ribosomal_L20 1/1 10 24 .. 1 15 [. 4.6 0.46
TP1 1/1 20 40 .. 38 54 .] 3.4 2
IQ 1/1 26 40 .. 1 15 [. 7.8 0.4
NUP 1/1 88 96 .. 1 9 [. 1.5 2
Orthopox_B11R 1/1 122 137 .. 1 16 [. 3.4 2.9
c-SKI_SMAD_bind 1/1 124 140 .. 82 98 .] 1.4 6.8
IFRD 1/1 125 136 .. 354 365 .] -0.2 6.5
FliO 1/1 197 219 .. 62 82 .] 4.9 0.8
Orthopox_N1 1/1 270 283 .. 100 113 .] 0.7 6.4
IMPDH 1/1 291 299 .] 1 9 [. 0.6 6
Alignments of top-scoring domains:
Ribosomal_L20: domain 1 of 1, from 10 to 24: score 4.6, E = 0.46
*->tRVKrGyiaRkRRKK<-*
+RV rGy RkRRK+
gi|1196087 10 PRVFRGYAERKRRKR 24
TP1: domain 1 of 1, from 20 to 40: score 3.4, E = 2
*->KsRKRgDDAn....RnyRsHL<-*
K RKR D + +Rn+R HL
gi|1196087 20 KRRKRENDSAsviqRNFRKHL 40
IQ: domain 1 of 1, from 26 to 40: score 7.8, E = 0.4
CS HHHCHHHHHHHHHHH
*->rraaikIQaawRGyl<-*
++a +IQ+ +R +l
gi|1196087 26 NDSASVIQRNFRKHL 40
NUP: domain 1 of 1, from 88 to 96: score 1.5, E = 2
*->iqpKVmvIt<-*
++pKVm+I+
gi|1196087 88 VPPKVMLIS 96
Orthopox_B11R: domain 1 of 1, from 122 to 137: score 3.4, E = 2.9
*->DtdvanvEDimnEiDR<-*
D + a EDi+ Ei+R
gi|1196087 122 DHEHATFEDILEEIER 137
c-SKI_SMAD_bind: domain 1 of 1, from 124 to 140: score 1.4, E = 6.8
CS CHHHHHHHHHHHHCC--
*->eeakLeqvLeevkekFd<-*
e+a+ e +Lee++ k +
gi|1196087 124 EHATFEDILEEIERKLN 140
IFRD: domain 1 of 1, from 125 to 136: score -0.2, E = 6.5
*->RstFRDVlrfvE<-*
++tF D+l+ +E
gi|1196087 125 HATFEDILEEIE 136
FliO: domain 1 of 1, from 197 to 219: score 4.9, E = 0.8
*->Pv..egappagsFAqrLkqllkk<-*
P++ +++p+++sF +rL++l+ k
gi|1196087 197 PLplGDPPLSTSFWKRLSRLMSK 219
Orthopox_N1: domain 1 of 1, from 270 to 283: score 0.7, E = 6.4
*->rmiekyfddlmidl<-*
+mie+yfd + l
gi|1196087 270 QMIETYFDFRLYRL 283
IMPDH: domain 1 of 1, from 291 to 299: score 0.6, E = 6
CS EB-GGGGEE
RF xxxxxxxxx
*->egLTFDDVL<-*
+ L+FDDVL
gi|1196087 291 KLLDFDDVL 299
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