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: 17549524.fa
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Query sequence: gi|17549524|ref|NP_522864.1|
Accession: [none]
Description: putative RHS-related protein [Ralstonia solanacearum GMI1000]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
RHS_repeat RHS Repeat 191.8 1.9e-54 9
ETF_QO Electron transfer flavoprotein-ubiqui 4.1 0.6 1
DUF1465 Protein of unknown function (DUF1465) 4.8 0.67 1
VacA2 Putative vacuolating cytotoxin 5.6 0.67 1
Adeno_E3B Adenovirus E3B protein 4.9 0.72 1
DUF1128 Protein of unknown function (DUF1128) 5.8 1.4 1
Pili_assembly_N Gram-negative pili assembly chaperone 3.0 2.7 1
DUF1026 Protein of unknown function (DUF1026) 2.8 4.2 1
Pyridox_oxidase Pyridoxamine 5'-phosphate oxidase 2.4 4.3 1
PI3Ka Phosphoinositide 3-kinase family, acc 1.4 4.6 1
F-112 F-112 protein 0.6 5.4 1
Rad1 Repair protein Rad1/Rec1/Rad17 1.5 5.8 1
P16-Arc ARP2/3 complex 16 kDa subunit (p16-Ar 1.5 6.6 1
ChiC Chitinase C 0.6 6.9 1
DUF1009 Protein of unknown function (DUF1009) 0.4 8.2 1
KorB_C KorB C-terminal beta-barrel domain 2.4 8.3 1
Glug The GLUG motif 2.2 8.5 1
Porin_2 Porin subfamily -0.3 8.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Adeno_E3B 1/1 29 45 .. 74 90 .] 4.9 0.72
RHS_repeat 1/9 62 103 .. 1 44 [] 35.9 2.5e-09
RHS_repeat 2/9 110 147 .. 1 44 [] 16.2 0.00095
VacA2 1/1 143 154 .. 1 12 [. 5.6 0.67
RHS_repeat 3/9 152 189 .. 1 44 [] 40.2 1.4e-10
RHS_repeat 4/9 204 241 .. 3 44 .] 23.6 7.5e-06
Rad1 1/1 219 227 .. 1 9 [. 1.5 5.8
RHS_repeat 5/9 254 293 .. 1 44 [] 18.5 0.00022
Glug 1/1 264 290 .. 2 38 .] 2.2 8.5
Pyridox_oxidase 1/1 265 295 .. 25 58 .. 2.4 4.3
ChiC 1/1 314 341 .. 169 195 .] 0.6 6.9
RHS_repeat 6/9 322 370 .. 1 44 [] 11.2 0.025
RHS_repeat 7/9 384 422 .. 1 44 [] 15.9 0.0012
RHS_repeat 8/9 444 476 .. 1 44 [] 14.3 0.0034
Porin_2 1/1 455 489 .. 465 505 .] -0.3 8.8
ETF_QO 1/1 473 489 .. 1 19 [. 4.1 0.6
RHS_repeat 9/9 480 519 .. 1 44 [] 16.0 0.0011
Pili_assembly_N 1/1 493 506 .. 1 14 [. 3.0 2.7
P16-Arc 1/1 551 559 .. 146 154 .] 1.5 6.6
PI3Ka 1/1 636 658 .. 1 24 [. 1.4 4.6
KorB_C 1/1 645 655 .. 1 12 [. 2.4 8.3
DUF1009 1/1 663 678 .. 206 221 .] 0.4 8.2
F-112 1/1 684 698 .. 1 16 [. 0.6 5.4
DUF1026 1/1 689 701 .. 1 13 [. 2.8 4.2
DUF1465 1/1 720 734 .. 146 160 .] 4.8 0.67
DUF1128 1/1 723 732 .. 62 71 .] 5.8 1.4
Alignments of top-scoring domains:
Adeno_E3B: domain 1 of 1, from 29 to 45: score 4.9, E = 0.72
*->RHHPqYRNqnvArLLrL<-*
RH P YR A+LL L
gi|1754952 29 RHTPLYRAVSAAALLTL 45
RHS_repeat: domain 1 of 9, from 62 to 103: score 35.9, E = 2.5e-09
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltltts...tdasGtt
YD G+Lt++tdp+g v+ t++YDa+gr+t + ++++ +++G++
gi|1754952 62 YDMVGNLTQITDPRGLVT-TLTYDALGRRTKV----QgppATPGGAV 103
<-*
gi|1754952 - -
RHS_repeat: domain 2 of 9, from 110 to 147: score 16.2, E = 0.00095
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YD ++r+ ++tdp+ v+ Y+ D++g+ t+ +++ t
gi|1754952 110 YDGQDRVRQITDPRSLVT-SYTVDGLGNTTQQ-----QSPDTGT 147
VacA2: domain 1 of 1, from 143 to 154: score 5.6, E = 0.67
*->gyvGYItGtFkA<-*
+++G++++t++A
gi|1754952 143 PDTGTTNATYDA 154
RHS_repeat: domain 3 of 9, from 152 to 189: score 40.2, E = 1.4e-10
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YDa G+Lt+ td++g ++ tY+YDa++r t++ +asGt
gi|1754952 152 YDAVGNLTSRTDARGKTT-TYSYDALNRPTRV-----AYASGTP 189
RHS_repeat: domain 4 of 9, from 204 to 241: score 23.6, E = 7.5e-06
*->anGrLtavtdpsgpvgqtYrYDaagrltaltltts.tdasGtt<-*
+ G+Lt +td sg+++ ++Y+++g+l + t++t+a+G++
gi|1754952 204 DIGQLTRMTDESGSTR--FQYNGFGNLLQK---TQtTTANGVA 241
Rad1: domain 1 of 1, from 219 to 227: score 1.5, E = 5.8
*->klsYqGyGn<-*
+ +Y+G+Gn
gi|1754952 219 RFQYNGFGN 227
RHS_repeat: domain 5 of 9, from 254 to 293: score 18.5, E = 0.00022
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
+++G+ ++ +psg+v+ Y+YD gr+ ltl t+a+G +
gi|1754952 254 GSSTGHAVSLAYPSGSVV-GYSYDTGGRIAGLTL---TTANGSV 293
Glug: domain 1 of 1, from 264 to 290: score 2.2, E = 8.5
*->nsavGGLvGgaegggrGeqenpgsienctatgnvtvt<-*
++ G++vG+ +++g g+i++ t t t +
gi|1754952 264 AYPSGSVVGYSYDTG-------GRIAGLTLT---TAN 290
Pyridox_oxidase: domain 1 of 1, from 265 to 295: score 2.4, E = 4.3
CS -EEEEEEECEEETTC...TTTEEEEEEETTSHHH
*->rPnvspvglkydddrvdptldgiyfatnydsrka<-*
+P+ s vg+ yd ++ ++ g++ t+++s ++
gi|1754952 265 YPSGSVVGYSYDTGG---RIAGLTLTTANGSVTL 295
ChiC: domain 1 of 1, from 314 to 341: score 0.6, E = 6.9
*->ggeqYALkkDyP.rgvalv.dataGtGPG<-*
+g++Y ++D+++r+++++ +at+GtG +
gi|1754952 314 NGTAYVRSFDLSgRLTQFPlGATTGTG-T 341
RHS_repeat: domain 6 of 9, from 322 to 370: score 11.2, E = 0.025
*->YDanGrLta..........vtdpsgpvgqtYrYDaagrltaltltts
+D GrLt+ + + ++++++t p+g ++ t YDaa r+ a +
gi|1754952 322 FDLSGRLTQfplgattgtgTT-PNGLSR-TVNYDAASRISAY----T 362
.tdasGtt<-*
+td+sG t
gi|1754952 363 hTDTSGST 370
RHS_repeat: domain 7 of 9, from 384 to 422: score 15.9, E = 0.0012
*->YDanGrLtavtdpsgpvgqtYrYDaagrlt..altlttstdasGtt<
YD+++rL+ + p++++ Y+YDa g++t++++ as t
gi|1754952 384 YDDQDRLI-SYLPANSSQ-SYSYDANGNRTgqTI-----GGASYTQ 422
-*
gi|1754952 - -
RHS_repeat: domain 8 of 9, from 444 to 476: score 14.3, E = 0.0034
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YDa+G+ t +++++ tY+Y ++grl ++ + tt
gi|1754952 444 YDAAGNQT-----GDATT-TYSYSDRGRLASV-----SKNGTTT 476
Porin_2: domain 1 of 1, from 455 to 489: score -0.3, E = 8.8
*->taevnYtdldqkystvasvrgsdakpgteyeakkqDsvsGi<-*
t++++Y+d++ +s +s + ++t+y +++ D+++
gi|1754952 455 TTTYSYSDRGRLAS------VSKNGTTTSYLYNGLDQRVLK 489
ETF_QO: domain 1 of 1, from 473 to 489: score 4.1, E = 0.6
*->GlllGlayagldqWtnilr<-*
G+ +y+gldq ++l+
gi|1754952 473 GTTTSYLYNGLDQ--RVLK 489
RHS_repeat: domain 9 of 9, from 480 to 519: score 16.0, E = 0.0011
*->YDanGrLtavtdpsgpvgq.tYrYDaagrltaltlttstdasGtt<-
Y+ +++ + ++ ++ p+g ++Y YD+ag+l+ d sG +
gi|1754952 480 YNGLDQRVLKSGSNVPTGAtRYVYDGAGHLIGE-----YDQSGNA 519
*
gi|1754952 - -
Pili_assembly_N: domain 1 of 1, from 493 to 506: score 3.0, E = 2.7
CS EEEESSSEEEEETT
*->gvvlggTRvIYpad<-*
+v g+TR++Y+++
gi|1754952 493 NVPTGATRYVYDGA 506
P16-Arc: domain 1 of 1, from 551 to 559: score 1.5, E = 6.6
*->RVLsdRkrv<-*
RV++d++++
gi|1754952 551 RVITDTNNL 559
PI3Ka: domain 1 of 1, from 636 to 658: score 1.4, E = 4.6
CS -----..CHHHHHHHHHHCS-TTS
*->kdlkpNlnekerkeleaIlayDPl<-*
+d++p ++ + + l++I+ ++P+
gi|1754952 636 VDSNP-ISVIDPDGLKKIILLPPT 658
KorB_C: domain 1 of 1, from 645 to 655: score 2.4, E = 8.3
CS --TTB-SSEEEE
*->sDPDklkKalll<-*
DPD lkK +ll
gi|1754952 645 -DPDGLKKIILL 655
DUF1009: domain 1 of 1, from 663 to 678: score 0.4, E = 8.2
*->eamiaaADaaGlfvvG<-*
+a + aAD+ +l++v+
gi|1754952 663 PAAVNAADDPNLCIVI 678
F-112: domain 1 of 1, from 684 to 698: score 0.6, E = 5.4
*->QslNsYkv.AeilykkL<-*
Q++N ++A++l k L
gi|1754952 684 QTVN--HMnAQQLNKRL 698
DUF1026: domain 1 of 1, from 689 to 701: score 2.8, E = 4.2
*->MkaGrLrhRItiq<-*
M+a +L++R+ i+
gi|1754952 689 MNAQQLNKRLAIL 701
DUF1465: domain 1 of 1, from 720 to 734: score 4.8, E = 0.67
*->gNPVseQlnrLktAF<-*
++ ++eQl+rL++A+
gi|1754952 720 ESSIAEQLARLRKAT 734
DUF1128: domain 1 of 1, from 723 to 732: score 5.8, E = 1.4
*->IAqELgrLRK<-*
IA+ L+rLRK
gi|1754952 723 IAEQLARLRK 732
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