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: hmm4/seq/R09E10.3
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: R09E10.3 CE23909 long-chain-fatty-acid-CoA ligase status:Partially_confirmed TR:Q21872 protein_id:CAA94298.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
AMP-binding AMP-binding enzyme 266.0 4.9e-76 2
gla Vitamin K-dependent carboxylation/gam 11.5 0.052 1
Nairo_nucleocap Nucleocapsid N protein 3.7 0.67 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
gla 1/1 287 311 .. 18 42 .] 11.5 0.052
AMP-binding 1/2 116 384 .. 1 218 [. 124.0 2.7e-33
Nairo_nucleocap 1/1 472 491 .. 425 444 .] 3.7 0.67
AMP-binding 2/2 418 580 .. 208 373 .] 142.0 1.1e-38
Alignments of top-scoring domains:
gla: domain 1 of 1, from 287 to 311: score 11.5, E = 0.052
*->CeleearEefedtegtkefyrkYyg<-*
C+ +Eefe+++g + +y +Y
R09E10.3 287 CSATMSCEEFENEAGVQDAYLSYLP 311
AMP-binding: domain 1 of 2, from 116 to 384: score 124.0, E = 2.7e-33
*->TYrELderanrlAaaLr..alGvgpGdrVaillpnspelvvailAvl
+Y + e ++ +a r+ + +g ++ ++i++ n+pe++ + +A++
R09E10.3 116 SYDQAFETSDHASQAIRklGIEIGEESKIGIYSNNRPEWILSEMAIH 162
kaGaayvPldpsypaerlayiledsgakllltddallarl..........
+ vPl+ + + + + yi + ++++l+++d++ + + +++ ++
R09E10.3 163 NFSNVSVPLYDTITNDDMHYITNLCEISLMFVDAEIKTKQlirdksylss 212
.....................................s.e.p.ppvdpdd
+ + + +++ ++ + + + + + ++ +++++ +p++p++p+
R09E10.3 213 lkyivqfnecsddikemarendfrlwsfnefvemgkkQkHrPhVPPTPET 262
lAyiiYTSGTTGkPKGVmltHrnlvnlvaala.rf.l.pddaervlllap
lA+i +TSGTTG+PKGVmltH n+++ ++++ + + + + +l+++p
R09E10.3 263 LATISFTSGTTGRPKGVMLTHLNMCSATMSCEeFEnEaGVQ-DAYLSYLP 311
plyhfdgsvwelfgpLlaGatlvlvpkftryrdp.alldliekykvTvlf
+++ ++l++ + G ++ + ++++ p++l+d++++ + +
R09E10.3 312 --LAHIYERLCLLSNFMIGSRIGF-SRGD----PkLLVDDVQALAPRSFA 354
lvPtllrlllaape...dlssLrlvlsgGe<-*
+vP++++ + +a ++ + + L+ +++ ++
R09E10.3 355 TVPRVIDKIHKAVMkqvQDKPLKKMILNAA 384
Nairo_nucleocap: domain 1 of 1, from 472 to 491: score 3.7, E = 0.67
*->vqNPCAstIvkLfeiqkiGy<-*
v+ P A+ kL+++++ Gy
R09E10.3 472 VGPPMACAMIKLIDVPELGY 491
AMP-binding: domain 2 of 2, from 418 to 580: score 142.0, E = 1.1e-38
*->ssLrlvlsgGealppellrrlrerfgsggvrlvngYGpTEttvvata
+++r +++g+++ +++++r +r +fg v++++gYG+TEt++ +t
R09E10.3 418 PNIRQLILGAAKSDVSAMRFARGAFG---VEVLEGYGQTETSGPTTL 461
nppg.d.pgsiGrPlpgvevyvlDeeg.rpvppGevGELyirGwpgvarG
+++g+++ g++G+P++++ ++++D + GE++++G +v+ G
R09E10.3 462 QLVGdTrIGCVGPPMACAMIKLIDVPElGYSVDKNGGEVLVKG-HNVTSG 510
YlnrPelTaerFvadgwgRmYrTGDlarwdpDGyleilGRiDdqvKi.rG
Y+++Pe+Ta++F++dg+ ++TGD++r++++G l i++R ++++K + G
R09E10.3 511 YYKNPEATASSFTEDGY---MKTGDIGRFTAEGSLQIIDRRKNVFKMpQG 557
erIepgEiEavLlehPgVaeAaV<-*
++p E+ + + V+++ V
R09E10.3 558 KFVAPDLTESLYTSSSFVQQIYV 580