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: hmm2/seq/F35G12.8
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Query: F35G12.8 CE03287 locus:smc-4 chromosome segregation protein status:Partially_confirmed TR:Q20060 protein_id:CAA86336.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
SMC_C SMC family, C-terminal domain 416.3 1.5e-122 1
SMC_N RecF/RecN/SMC N terminal domain 290.3 2.4e-83 1
ABC_tran ABC transporter 15.9 0.0019 2
DUF641 Plant protein of unknown function (DUF 6.8 1.2 1
DUF526 Protein of unknown function (DUF526) 6.5 1 3
Bro-N BRO family, N-terminal domain 5.9 1.5 1
K-box K-box region 4.3 5.9 1
FCH Fes/CIP4 homology domain 4.2 9.2 1
DUF594 Protein of unknown function, DUF594 4.1 9.9 1
5-FTHF_cyc-lig 5-formyltetrahydrofolate cyclo-ligase 3.9 6.3 1
VanY D-alanyl-D-alanine carboxypeptidase 3.9 5.1 1
tRNA-synt_2 tRNA synthetases class II (D, K and N) 3.4 5.7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ABC_tran 1/2 114 128 .. 1 15 [. 9.8 0.12
SMC_N 1/1 90 266 .. 1 330 [] 290.3 2.4e-83
tRNA-synt_2 1/1 327 338 .. 1 12 [. 3.4 5.7
FCH 1/1 348 387 .. 1 42 [. 4.2 9.2
DUF594 1/1 454 468 .. 1 15 [. 4.1 9.9
DUF526 1/3 582 594 .. 60 72 .. 1.6 31
DUF526 2/3 876 892 .. 74 96 .] -1.4 2.8e+02
VanY 1/1 958 974 .. 171 187 .] 3.9 5.1
DUF641 1/1 987 1023 .. 105 141 .] 6.8 1.2
5-FTHF_cyc-lig 1/1 1028 1062 .. 1 36 [. 3.9 6.3
K-box 1/1 1155 1177 .. 83 105 .] 4.3 5.9
Bro-N 1/1 1290 1327 .. 1 39 [. 5.9 1.5
ABC_tran 2/2 1278 1355 .. 124 199 .] 5.8 1.7
SMC_C 1/1 1164 1367 .. 1 210 [] 416.3 1.5e-122
DUF526 3/3 1363 1402 .. 1 41 [. 3.8 6.7
Alignments of top-scoring domains:
ABC_tran: domain 1 of 2, from 114 to 128: score 9.8, E = 0.12
*->GevlalvGpNGaGKS<-*
+ ++GpNG+GKS
F35G12.8 114 KSFTSIIGPNGSGKS 128
SMC_N: domain 1 of 1, from 90 to 266: score 290.3, E = 2.4e-83
*->mylkrielegFKSYagktvigpFspgFtaIvGPNGSGKSNilDAIlF
++++++e+++FKSY gk++igpF+++Ft+I+GPNGSGKSN++D++lF
F35G12.8 90 LMIRNVEVDNFKSYFGKASIGPFHKSFTSIIGPNGSGKSNLIDSLLF 136
VLGegrsakkLRaerlsdLIhkgsggkppanksAeVtitFdnedkenise
V+G+ r+ +k+R+ + s LIhk+ g++p ++++Vti+F+++ + +++
F35G12.8 137 VFGF-RA-SKIRSAKVSNLIHKSAGRNP---DKCTVTIHFQRIVDIPGH- 180
lgqhirdgpldeenpevtItRrvyrlglgdGstSeYyiWknlrlNgkrvt
+++++++ e+tI+R++++ ++s S+Y i +g+++t
F35G12.8 181 ------YEVVKDS--EFTISRTAFQ----NNS-SSYAI------DGRPAT 211
klkevqelLesagIdiElatLangvskyRayaWCFHWDkELiLleqIswR
k +ev L+++ Idi
F35G12.8 212 K-NEVEARLRRVDIDI---------------------------------- 226
aeYeaLapeiETCqlFLPElLtvSFqrGWeKetdYaEvLarnFERDkqLg
F35G12.8 - -------------------------------------------------- -
YTqGPqKADLRlRAnGlPVEDvLSRGQLKLknpyfiilQGeyltrekgrh
++++f+ilQGe
F35G12.8 227 ------------------------------EHNRFLILQGE--------- 237
ClYLvedIasmkPkeRreldeGLlellEEisGt<-*
ve+Ia+mkP+ +++++G++e+lE+i+Gt
F35G12.8 238 ----VEQIAMMKPVKTTKSETGMVEYLEDIIGT 266
tRNA-synt_2: domain 1 of 1, from 327 to 338: score 3.4, E = 5.7
*->dqetRyrqRyld<-*
+e+R+rqRyld
F35G12.8 327 KLEQRRRQRYLD 338
FCH: domain 1 of 1, from 348 to 387: score 4.2, E = 9.2
*->dgFwselnsddgykaLlkrlddglrlleelkkflr.eRakiEe<-*
d++++e+ ++++++l+ ++++ ++ ee +k + +eR+k+++
F35G12.8 348 DKMKEEM---KSIAETLDTNKNEYKQSEEAQKVMIeERSKLDK 387
DUF594: domain 1 of 1, from 454 to 468: score 4.1, E = 9.9
*->eLleleedkndgeem<-*
+Lle+e+++n+++++
F35G12.8 454 QLLEIEKTANEEADK 468
DUF526: domain 1 of 3, from 582 to 594: score 1.6, E = 31
*->LlrTRekLaaLea<-*
L++TR++L++L +
F35G12.8 582 LAKTRDRLETLRQ 594
DUF526: domain 2 of 3, from 876 to 892: score -1.4, E = 2.8e+02
*->laeLEakqnPeRalaElakqAdp<-*
++eLE k El + A++
F35G12.8 876 VEELEKK------RDELGEEAAK 892
VanY: domain 1 of 1, from 958 to 974: score 3.9, E = 5.1
*->vkaaalikkfcltleeY<-*
+k ++++kk+c++l e+
F35G12.8 958 DKDIEKMKKKCEELMEK 974
DUF641: domain 1 of 1, from 987 to 1023: score 6.8, E = 1.2
*->vvkkLeaEvkaKdseIdsLkekleealrankklekrl<-*
+v+++e+++k +++ +++ +k+ e+++a+ kle l
F35G12.8 987 TVERFEKQIKKLQTKGEEMTKKQSELSAAETKLEGEL 1023
5-FTHF_cyc-lig: domain 1 of 1, from 1028 to 1062: score 3.9, E = 6.3
*->mdKseLRkqilaarralseeekarlseavfqklisl<-*
++ +eL+ +la r ++ + ek ++ +v +++++
F35G12.8 1028 EGIKELKESMLADRLKVEDIEKKLAALKV-NRIPRF 1062
[output cut off at A = 10 top alignments]