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).
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HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm4/seq/R13G10.1
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Query: R13G10.1 CE01052 locus:dpy-27 chromosome segregation protein (SMC-1) status:Partially_confirmed SW:P48996 protein_id:CAA84669.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SMC_C SMC family, C-terminal domain 379.6 1.2e-111 2
SMC_N RecF/RecN/SMC N terminal domain 292.4 5.5e-84 1
ABC_tran ABC transporter 10.3 0.081 2
EFG_C Elongation factor G C-terminus 7.1 0.96 1
Pox_A_type_inc Viral A-type inclusion protein repeat 6.2 5.8 2
TAD Transport-associated domain 4.5 7.7 1
SRP54 SRP54-type protein, GTPase domain 4.5 3.4 1
TFR_dimer Transferrin receptor-like dimerisation 4.1 9.2 1
Krr1 Krr1 family 2.9 9 1
Asparaginase_2 Asparaginase 1.4 9.1 1
TIMELESS_C Timeless protein C terminal region 1.0 6.6 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
SRP54 1/1 113 128 .. 1 16 [. 4.5 3.4
ABC_tran 1/2 115 129 .. 1 15 [. 6.2 1.2
SMC_N 1/1 91 269 .. 1 330 [] 292.4 5.5e-84
TAD 1/1 780 794 .. 52 65 .] 4.5 7.7
Pox_A_type_inc 1/2 837 856 .. 4 23 .] 0.5 3.3e+02
Krr1 1/1 870 885 .. 241 256 .] 2.9 9
Pox_A_type_inc 2/2 866 888 .. 1 23 [] 10.9 0.22
SMC_C 1/2 865 913 .. 22 70 .. 2.3 14
Asparaginase_2 1/1 1069 1082 .. 365 378 .] 1.4 9.1
TFR_dimer 1/1 1164 1190 .. 1 27 [. 4.1 9.2
EFG_C 1/1 1262 1275 .. 80 93 .] 7.1 0.96
ABC_tran 2/2 1244 1297 .. 123 175 .. 3.9 5.8
SMC_C 2/2 1128 1336 .. 1 210 [] 376.8 7.8e-111
TIMELESS_C 1/1 1412 1425 .. 695 712 .] 1.0 6.6
Alignments of top-scoring domains:
SRP54: domain 1 of 1, from 113 to 128: score 4.5, E = 3.4
*->kkpnVillVGlqGsGK<-*
++n +++G++GsGK
R13G10.1 113 FHKNLTMILGPNGSGK 128
ABC_tran: domain 1 of 2, from 115 to 129: score 6.2, E = 1.2
*->GevlalvGpNGaGKS<-*
++ ++GpNG+GKS
R13G10.1 115 KNLTMILGPNGSGKS 129
SMC_N: domain 1 of 1, from 91 to 269: score 292.4, E = 5.5e-84
*->mylkrielegFKSYagktvigpFspgFtaIvGPNGSGKSNilDAIlF
m + +i++e+FKSYagk+++gpF++++t+I GPNGSGKSN++DA+lF
R13G10.1 91 MIILNIYVENFKSYAGKHILGPFHKNLTMILGPNGSGKSNVIDALLF 137
VLGegrsakkLRaerlsdLIhkgsggkppanksAeVtitFdnedkenise
V+G+ ++ k+R ++ls+LI++g+ + +s++Vti+F+++ ++++++
R13G10.1 138 VFGF-KA-GKIRTKKLSALINSGGNY-----ESCSVTIMFQMVKDMPVEN 180
lgqhirdgpldeenpevtItRrvyrlglgdGstSeYyiWknlrlNgkrvt
+ d+++++++++v+ItR++ r +++ S+Y+i ++k+++
R13G10.1 181 Y-----DKYEVLTDNCVCITRTINR----ENN-SKYRI------DDKDAS 214
klkevqelLesagIdiElatLangvskyRayaWCFHWDkELiLleqIswR
+ k+vqelL +agId+
R13G10.1 215 Q-KDVQELLLRAGIDM---------------------------------- 229
aeYeaLapeiETCqlFLPElLtvSFqrGWeKetdYaEvLarnFERDkqLg
R13G10.1 - -------------------------------------------------- -
YTqGPqKADLRlRAnGlPVEDvLSRGQLKLknpyfiilQGeyltrekgrh
+++f+ilQGe
R13G10.1 230 ------------------------------THNRFLILQGE--------- 240
ClYLvedIasmkPkeRreldeGLlellEEisGt<-*
ve+Ia mkP+ + +++eG+le++E+i+Gt
R13G10.1 241 ----VEAIALMKPTSKNPNEEGMLEYIEDIVGT 269
TAD: domain 1 of 1, from 780 to 794: score 4.5, E = 7.7
*->eGVkeViNd.lkvaq<-*
+GVk+V+ ++l++aq
R13G10.1 780 SGVKKVDLSkLRAAQ 794
Pox_A_type_inc: domain 1 of 2, from 837 to 856: score 0.5, E = 3.3e+02
*->drlRrrIsdLekqLsdcrrn<-*
+++++rI +L++++++ +r
R13G10.1 837 KEQKTRIAELKSSIAAHERR 856
Krr1: domain 1 of 1, from 870 to 885: score 2.9, E = 9
*->ekKrrlrelkkqvfks<-*
ek++++ +lk+qv s
R13G10.1 870 EKRAQIADLKRQVEES 885
Pox_A_type_inc: domain 2 of 2, from 866 to 888: score 10.9, E = 0.22
*->rEldrlRrrIsdLekqLsdcrrn<-*
++ld+ R +I dL++q ++ ++
R13G10.1 866 EDLDEKRAQIADLKRQVEESQKS 888
SMC_C: domain 1 of 2, from 865 to 913: score 2.3, E = 14
*->ieEYaeveeRyeelvekledleeerkkllevieeldkkrleeFmeaF
+e+ +e+ ++ +l+ ++e+ ++ +k++++ie +++k+ Fme +
R13G10.1 865 VEDLDEKRAQIADLKRQVEESQKSSAKIKQQIEQYKRKMDRMFMELV 911
nk<-*
+k
R13G10.1 912 QK 913
Asparaginase_2: domain 1 of 1, from 1069 to 1082: score 1.4, E = 9.1
*->gttleYseigiwek<-*
g++++Y++++i+ k
R13G10.1 1069 GKFVRYNDPDIAAK 1082
TFR_dimer: domain 1 of 1, from 1164 to 1190: score 4.1, E = 9.2
*->Ysekllsiqkelrqllndlvkelslsl<-*
s+kl++++++l++l+ + +e+s++l
R13G10.1 1164 FSDKLKAHREKLNELRMARFNEFSEAL 1190
[output cut off at A = 10 top alignments]