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: 148676247.fa
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Query sequence: gi|148676247|gb|EDL08194.1|
Accession: [none]
Description: nasal embryonic LHRH factor, isoform CRA_b [Mus musculus]
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
TP1 Nuclear transition protein 1 3.4 2 1
PRD PRD domain 3.7 2.6 1
TIR TIR domain 2.0 2.6 2
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
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
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
TIR 1/2 108 146 .. 112 150 .] 1.0 5
TP1 1/1 123 143 .. 38 54 .] 3.4 2
IQ 1/1 129 143 .. 1 15 [. 7.8 0.4
AMP_N 1/1 151 162 .. 1 12 [. 1.9 4.4
NUP 1/1 221 229 .. 1 9 [. -0.2 6.3
c-SKI_SMAD_bind 1/1 257 273 .. 82 98 .] 1.6 6.1
IFRD 1/1 258 269 .. 354 365 .] -0.2 6.5
PRD 1/1 262 274 .. 1 13 [. 3.7 2.6
TIR 2/2 309 324 .. 131 150 .] 0.9 5.4
Orthopox_N1 1/1 378 391 .. 100 113 .] 0.7 6.4
IMPDH 1/1 399 407 .] 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
TIR: domain 1 of 2, from 108 to 146: score 1.0, E = 5
CS T-HHHHHHHHCT-SEE--SSG... ..GGCCHHHHHHHHH
*->pkqtgkFgkaflktlkwsgdkter...sqsdrikfWkkalya<-*
p q +k +++f+++++++++k e+++ s+++r f+k+++
gi|1486762 108 P-QLCK-REVFRGYAERKRRKRENdsaSVIQR-NFRKHLRMV 146
TP1: domain 1 of 1, from 123 to 143: score 3.4, E = 2
*->KsRKRgDDAn....RnyRsHL<-*
K RKR D + +Rn+R HL
gi|1486762 123 KRRKRENDSAsviqRNFRKHL 143
IQ: domain 1 of 1, from 129 to 143: score 7.8, E = 0.4
CS HHHCHHHHHHHHHHH
*->rraaikIQaawRGyl<-*
++a +IQ+ +R +l
gi|1486762 129 NDSASVIQRNFRKHL 143
AMP_N: domain 1 of 1, from 151 to 162: score 1.9, E = 4.4
*->ipadefaaRRkr<-*
++a+ fa+RR+r
gi|1486762 151 VKAQTFAERRER 162
NUP: domain 1 of 1, from 221 to 229: score -0.2, E = 6.3
*->iqpKVmvIt<-*
+pKVm+I+
gi|1486762 221 LPPKVMLIS 229
c-SKI_SMAD_bind: domain 1 of 1, from 257 to 273: score 1.6, E = 6.1
CS CHHHHHHHHHHHHCC--
*->eeakLeqvLeevkekFd<-*
e+a+ e +Lee++ k +
gi|1486762 257 EHATFEDILEEIEKKLN 273
IFRD: domain 1 of 1, from 258 to 269: score -0.2, E = 6.5
*->RstFRDVlrfvE<-*
++tF D+l+ +E
gi|1486762 258 HATFEDILEEIE 269
PRD: domain 1 of 1, from 262 to 274: score 3.7, E = 2.6
CS HHHHHHHHHHHTS
*->eelleeiekklqi<-*
e++leeiekkl+i
gi|1486762 262 EDILEEIEKKLNI 274
TIR: domain 2 of 2, from 309 to 324: score 0.9, E = 5.4
CS SG.....GGCCHHHHHHHHH
*->dktersqsdrikfWkkalya<-*
+k+e d+i+fWk++
gi|1486762 309 EKEE----DMIHFWKRLSRL 324
Orthopox_N1: domain 1 of 1, from 378 to 391: score 0.7, E = 6.4
*->rmiekyfddlmidl<-*
+mie+yfd + l
gi|1486762 378 QMIETYFDFRLYRL 391
IMPDH: domain 1 of 1, from 399 to 407: score 0.6, E = 6
CS EB-GGGGEE
RF xxxxxxxxx
*->egLTFDDVL<-*
+ L+FDDVL
gi|1486762 399 KLLDFDDVL 407
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