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: 168746862.fa
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Query sequence: gi|168746862|ref|ZP_02771884.1|
Accession: [none]
Description: Rhs family protein [Escherichia coli O157:H7 str. EC4113]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
RHS_repeat RHS Repeat 247.7 2.8e-71 12
RHS RHS protein 94.8 1.7e-29 3
PAAR_motif PAAR motif 9.0 0.17 1
FerB FerB (NUC096) domain 4.5 0.63 1
Sucrose_synth Sucrose synthase 1.6 0.75 1
SpvB Salmonella virulence plasmid 65kDa B 0.7 0.97 1
CHD5 CHD5-like protein 2.8 1.2 1
PSCyt3 Protein of unknown function (DUF1588) 3.9 1.5 1
Pox_L5 Poxvirus L5 protein family 4.6 1.5 1
ATE_N Arginine-tRNA-protein transferase, N 4.1 1.6 1
DUF2147 Uncharacterized protein conserved in 4.9 1.7 1
SET SET domain 2.6 1.9 1
DUF2095 Uncharacterized protein conserved in 3.0 2.2 1
MerR MerR family regulatory protein 5.2 2.2 1
DBI_PRT Phosphoribosyltransferase 0.6 2.6 1
HXXSHH Protein of unknown function (DUF1552) 1.1 3.1 1
DUF480 Protein of unknown function, DUF480 3.0 3.2 1
PemK PemK-like protein 3.1 3.6 1
Spermine_synth Spermine/spermidine synthase 0.8 4 1
Raffinose_syn Raffinose synthase or seed inhibition -0.3 4.1 1
PilO Pilus assembly protein, PilO 1.3 5.5 1
CmcI Cephalosporin hydroxylase 0.2 5.6 1
MRP-S28 Mitochondrial ribosomal subunit prote 0.9 5.8 1
Vitellogenin_N Lipoprotein amino terminal region -1.2 6.5 1
IRF-3 Interferon-regulatory factor 3 0.8 6.6 1
Sak_Polo Sak polo-box 0.4 7.5 1
eIF_4EBP Eukaryotic translation initiation fac -0.8 7.7 1
Replicase Replicase family 1.4 7.7 1
Ricin_B_lectin Ricin-type beta-trefoil lectin domain 0.1 8 1
APC10 Anaphase-promoting complex, subunit 1 1.1 8 1
PDE8 PDE8 phosphodiesterase 1.5 8.4 1
His_biosynth Histidine biosynthesis protein 0.0 8.7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
eIF_4EBP 1/1 1 9 [. 1 9 [. -0.8 7.7
PAAR_motif 1/1 2 16 .. 11 25 .] 9.0 0.17
FerB 1/1 93 106 .. 60 74 .. 4.5 0.63
DUF2147 1/1 216 224 .. 120 128 .] 4.9 1.7
RHS_repeat 1/12 316 356 .. 1 44 [] 6.3 0.63
IRF-3 1/1 341 375 .. 9 48 .. 0.8 6.6
Raffinose_syn 1/1 356 371 .. 831 847 .] -0.3 4.1
RHS_repeat 2/12 361 397 .. 1 44 [] 18.3 0.00024
PilO 1/1 367 384 .. 132 151 .] 1.3 5.5
Vitellogenin_N 1/1 372 383 .. 1 12 [. -1.2 6.5
PSCyt3 1/1 424 438 .. 90 104 .] 3.9 1.5
RHS_repeat 3/12 425 463 .. 1 44 [] 24.9 3.2e-06
DBI_PRT 1/1 452 475 .. 1 24 [. 0.6 2.6
His_biosynth 1/1 463 472 .. 242 251 .] 0.0 8.7
RHS_repeat 4/12 468 505 .. 1 44 [] 26.4 1.2e-06
SpvB 1/1 476 483 .. 1 8 [. 0.7 0.97
RHS 1/3 488 502 .. 27 41 .] 11.0 0.009
Sak_Polo 1/1 499 508 .. 87 96 .. 0.4 7.5
RHS_repeat 5/12 533 570 .. 1 44 [] 17.5 0.00041
MerR 1/1 573 594 .. 17 39 .] 5.2 2.2
RHS_repeat 6/12 575 612 .. 1 44 [] 31.6 4.1e-08
PemK 1/1 577 591 .. 1 17 [. 3.1 3.6
RHS 2/3 616 624 .. 27 35 .. 0.0 28
RHS_repeat 7/12 637 674 .. 1 44 [] 30.7 7.2e-08
Pox_L5 1/1 646 663 .. 64 82 .] 4.6 1.5
DUF480 1/1 663 681 .. 62 81 .. 3.0 3.2
RHS_repeat 8/12 679 715 .. 1 44 [] 22.5 1.6e-05
RHS_repeat 9/12 720 764 .. 1 44 [] 18.1 0.00028
SET 1/1 729 749 .. 239 260 .] 2.6 1.9
Sucrose_synth 1/1 732 768 .. 518 550 .] 1.6 0.75
HXXSHH 1/1 758 782 .. 314 338 .] 1.1 3.1
Spermine_synth 1/1 796 817 .. 292 316 .] 0.8 4
ATE_N 1/1 810 831 .. 75 96 .] 4.1 1.6
CmcI 1/1 858 869 .. 253 264 .] 0.2 5.6
RHS_repeat 10/12 859 893 .. 1 44 [] 23.5 8.4e-06
PDE8 1/1 869 895 .. 24 52 .] 1.5 8.4
DUF2095 1/1 938 945 .. 122 129 .] 3.0 2.2
RHS_repeat 11/12 939 985 .. 1 44 [] 24.5 4.3e-06
RHS_repeat 12/12 994 1044 .. 1 44 [] 3.4 4.1
Replicase 1/1 1067 1079 .. 1 13 [. 1.4 7.7
RHS 3/3 1143 1183 .. 1 41 [] 83.7 5.7e-26
MRP-S28 1/1 1181 1201 .. 48 68 .. 0.9 5.8
APC10 1/1 1274 1291 .. 204 222 .] 1.1 8
Ricin_B_lectin 1/1 1303 1323 .. 20 42 .. 0.1 8
CHD5 1/1 1309 1319 .. 180 190 .] 2.8 1.2
Alignments of top-scoring domains:
eIF_4EBP: domain 1 of 1, from 1 to 9: score -0.8, E = 7.7
*->MSaspiarQ<-*
MS+ p+arQ
gi|1687468 1 MSGKPAARQ 9
PAAR_motif: domain 1 of 1, from 2 to 16: score 9.0, E = 0.17
*->nGkPAARlGDsvvCp<-*
+GkPAAR+GD+++ +
gi|1687468 2 SGKPAARQGDMTQYG 16
FerB: domain 1 of 1, from 93 to 106: score 4.5, E = 0.63
*->GpaGWkvpvkirvnl<-*
Gp GWk+p+ ir++l
gi|1687468 93 GP-GWKMPADIRLQL 106
DUF2147: domain 1 of 1, from 216 to 224: score 4.9, E = 1.7
*->lcrtQtWtR<-*
++rtQt +R
gi|1687468 216 FGRTQTFHR 224
RHS_repeat: domain 1 of 12, from 316 to 356: score 6.3, E = 0.63
*->YDanGrLtavtdpsgpvgqt.YrYDa..agrltaltlttstdasGtt
+ +G L v+d sg ++ ++++YD++ +gr++a+ + ++ +
gi|1687468 316 WTPRGELAVVYDRSGKQV-RsFTYDDkyRGRMVAH-----RHTGRPE 356
<-*
gi|1687468 - -
IRF-3: domain 1 of 1, from 341 to 375: score 0.8, E = 6.6
CS EETTEEEEEEEEE-TT-EEE...ES-STTS.TTSSSEEEE
*->yYrGrlVlqvtvsspeGcRLfyslglPtpplqeglfgpas<-*
+YrGr+V +++++ pe +R + ++ + + + + pa+
gi|1687468 341 KYRGRMVAHRHTGRPE-IRY---RYDSDGR-VTEQLNPAG 375
Raffinose_syn: domain 1 of 1, from 356 to 371: score -0.3, E = 4.1
*->eveFkYdedtglVtvqv<-*
e+ + Yd+d g Vt q+
gi|1687468 356 EIRYRYDSD-GRVTEQL 371
RHS_repeat: domain 2 of 12, from 361 to 397: score 18.3, E = 0.00024
*->YDanGrLtavtdpsgpvgq.t.YrYD.aagrltaltlttstdasGtt
YD++Gr+t+ + +p+g++++Y+Y +++ +t++ +++ +
gi|1687468 361 YDSDGRVTE---QLNPAGLsYtYQYEkDRITITDS-----LNRR--E 397
<-*
gi|1687468 - -
PilO: domain 1 of 1, from 367 to 384: score 1.3, E = 5.5
*->vsekslLrlsvrakTYrYkd<-*
v+e+ L ++ +TY+Y
gi|1687468 367 VTEQ--LNPAGLSYTYQYEK 384
Vitellogenin_N: domain 1 of 1, from 372 to 383: score -1.2, E = 6.5
CS --BTEEEEEEEE
*->fqpgkeYvYkye<-*
+g Y+Y+ye
gi|1687468 372 NPAGLSYTYQYE 383
PSCyt3: domain 1 of 1, from 424 to 438: score 3.9, E = 1.5
*->nFDaiGrWRdqedgg<-*
+FDa+Gr R q d
gi|1687468 424 QFDAVGRLRAQTDAA 438
RHS_repeat: domain 3 of 12, from 425 to 463: score 24.9, E = 3.2e-06
*->YDanGrLtavtdpsgpvgqtYrYD.aagrltaltlttstdasGtt<-
+Da GrL a+td++g+++ +Y+ D +g +t++ t+++G++
gi|1687468 425 FDAVGRLRAQTDAAGRTT-EYSPDvVTGLITRI-----TTPDGRA 463
*
gi|1687468 - -
DBI_PRT: domain 1 of 1, from 452 to 475: score 0.6, E = 2.6
CS HHHT-----HHHHHHHHHHHHTBS
*->liarippaDaaalaaararqdtLT<-*
li ri +D+ a+a + +++ +LT
gi|1687468 452 LITRITTPDGRASAFYYNHHSQLT 475
His_biosynth: domain 1 of 1, from 463 to 472: score 0.0, E = 8.7
CS SHHHHTTSS-
*->GsAlyeGeit<-*
+sA+y+++++
gi|1687468 463 ASAFYYNHHS 472
RHS_repeat: domain 4 of 12, from 468 to 505: score 26.4, E = 1.2e-06
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
Y+ + +Lt+ t p+g + + +YD++grl++ t ++G +
gi|1687468 468 YNHHSQLTSATGPDGLEI-RREYDEWGRLIQE-----TAPDGDI 505
SpvB: domain 1 of 1, from 476 to 483: score 0.7, E = 0.97
*->aaAGPDGl<-*
+a GPDGl
gi|1687468 476 SATGPDGL 483
RHS: domain 1 of 3, from 488 to 502: score 11.0, E = 0.009
*->rYdaWGnvleEevsq<-*
+Yd+WG++++E ++
gi|1687468 488 EYDEWGRLIQETAPD 502
Sak_Polo: domain 1 of 1, from 499 to 508: score 0.4, E = 7.5
*->TSPeGqiTRY<-*
T P+G iTRY
gi|1687468 499 TAPDGDITRY 508
RHS_repeat: domain 5 of 12, from 533 to 570: score 17.5, E = 0.00041
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
+++ G+L++ td sg v+ +Y +D +g++ta+ + +G
gi|1687468 533 WSRYGQLLSFTDCSGYVT-RYDHDRFGQMTAV-----HREEGLS 570
MerR: domain 1 of 1, from 573 to 594: score 5.2, E = 2.2
CS HHHHHTTSSS-SCEETTTS-EEE
*->RyYereGLllppprrtegGyRrY<-*
R+Y+++G +l + ++t+g rY
gi|1687468 573 RAYDSRG-QLIAVKDTQGHETRY 594
RHS_repeat: domain 6 of 12, from 575 to 612: score 31.6, E = 4.1e-08
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YD++G+L+av+d+ g ++ +Y+Y+aag lt++ ++G +
gi|1687468 575 YDSRGQLIAVKDTQGHET-RYEYNAAGDLTTV-----IAPDGSR 612
PemK: domain 1 of 1, from 577 to 591: score 3.1, E = 3.6
CS -TTEEEEEE--S--TTS
*->rRGeiwlvdldPasGSE<-*
+RG++++v + ++G+E
gi|1687468 577 SRGQLIAVKD--TQGHE 591
RHS: domain 2 of 3, from 616 to 624: score 0.0, E = 28
*->rYdaWGnvl<-*
+YdaWG+++
gi|1687468 616 QYDAWGKAI 624
RHS_repeat: domain 7 of 12, from 637 to 674: score 30.7, E = 7.2e-08
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YDa+Gr++ t +g+ + t+rYD ++rl++ t +G+t
gi|1687468 637 YDAAGRVIRLTSENGSHT-TFRYDVLDRLIQE-----TGFDGRT 674
Pox_L5: domain 1 of 1, from 646 to 663: score 4.6, E = 1.5
*->LrSINGrSskvSlndilrR<-*
L S NG S+++ +d+l R
gi|1687468 646 LTSENG-SHTTFRYDVLDR 663
DUF480: domain 1 of 1, from 663 to 681: score 3.0, E = 3.2
*->gLvreqsgfgsRVpKYeHrf<-*
+L+ e +gf +R+ +Y+H +
gi|1687468 663 RLIQE-TGFDGRTQRYHHDL 681
RHS_repeat: domain 8 of 12, from 679 to 715: score 22.5, E = 1.6e-05
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
+D +G+L+ + g v+ +++YD+a+rlt++ t + t+
gi|1687468 679 HDLTGKLIRSE-DEGLVT-HWHYDEADRLTHR-----TVKGETA 715
RHS_repeat: domain 9 of 12, from 720 to 764: score 18.1, E = 0.00028
*->YDanGrLtavt.dpsgpvgq.tYrYDaagrlt....altlttstdas
YD++G+Lt +++ + g +++ +Y+YD+ grlt++++++ + ++
gi|1687468 720 YDERGWLTDIShISEGHRVTvHYGYDEKGRLTgerqTV-----HHPQ 761
Gtt<-*
++
gi|1687468 762 TEA 764
SET: domain 1 of 1, from 729 to 749: score 2.6, E = 1.9
CS SS-B-TTSBEEEETBTTSSHHH
*->lrdIpaGeELtydYgddksnge<-*
+ +I+ G+ +t++Yg ++ g+
gi|1687468 729 ISHISEGHRVTVHYG-YDEKGR 749
Sucrose_synth: domain 1 of 1, from 732 to 768: score 1.6, E = 0.75
*->vsPGADmsiYFpytekek....RLtalHpeiEeLLYs<-*
+s G ++ + y ek + +++R t Hp+ E LL+
gi|1687468 732 ISEGHRVTVHYGYDEKGRltgeRQTVHHPQTEALLWQ 768
HXXSHH: domain 1 of 1, from 758 to 782: score 1.1, E = 3.1
*->HhgndeeklaklakidrwhveqfAy<-*
Hh + e l++ +++ +++++ +A
gi|1687468 758 HHPQTEALLWQHETRHAYNAQGLAN 782
Spermine_synth: domain 1 of 1, from 796 to 817: score 0.8, E = 4
CS TSGGGEEEEEEEESS...TT..SSS
*->TYpsggwgfavaskkislpevdlkn<-*
TY+sg+ + ++ + p+vd++
gi|1687468 796 TYGSGWLAGMKLGDT---PLVDFTR 817
ATE_N: domain 1 of 1, from 810 to 831: score 4.1, E = 1.6
*->ipveeFkpsRsQRRilkrnadl<-*
+p +F+ +R +R++l+r+ +
gi|1687468 810 TPLVDFTRDRLHRKTLRRFGRY 831
CmcI: domain 1 of 1, from 858 to 869: score 0.2, E = 5.6
*->AWnpnGYLkRlr<-*
+Wn nG L+R+
gi|1687468 858 TWNDNGELIRIS 869
RHS_repeat: domain 10 of 12, from 859 to 893: score 23.5, E = 8.4e-06
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
+++nG L+ ++ p+ ++ Y+Y + grlt + ++++ +
gi|1687468 859 WNDNGELIRISSPRQTRS--YSYSDSGRLTGV-----HTTA--A 893
PDE8: domain 1 of 1, from 869 to 895: score 1.5, E = 8.4
*->ssPrqttsvsqGtAAaLhGLFvktDAAea<-*
ssPrqt s s L G v+t AA+
gi|1687468 869 SSPRQTRSYSYSDSGRLTG--VHTTAANL 895
DUF2095: domain 1 of 1, from 938 to 945: score 3.0, E = 2.2
*->WYERHGkH<-*
WY+RHG+
gi|1687468 938 WYDRHGRL 945
RHS_repeat: domain 11 of 12, from 939 to 985: score 24.5, E = 4.3e-06
*->YDanGrLtavtd........psgpvgqt.YrYDaagrltaltlttst
YD++GrLt++td +++ ++++ ++ ++Y+YD+ +rl++ t
gi|1687468 939 YDRHGRLTEKTDlipegvirTDDERT-HrYHYDSQHRLVHY-----T 979
dasGtt<-*
++ ++
gi|1687468 980 RTQYEE 985
RHS_repeat: domain 12 of 12, from 994 to 1044: score 3.4, E = 4.1
*->YDanGrLta.............vtdpsgpvgqt.YrYDaagrltalt
YD +Gr +a++ +++++ ++ ++ ++ p++ t Y++D+ +rlt++
gi|1687468 994 YDPLGRRVAkrvwrrerdltgwMSLSRKPQV-TwYGWDG-DRLTTI- 1037
lttstdasGtt<-*
+ + ++
gi|1687468 1038 ----QNDRTRI 1044
Replicase: domain 1 of 1, from 1067 to 1079: score 1.4, E = 7.7
*->pglyrrsraaALr<-*
++++rrs a+AL+
gi|1687468 1067 AKTQRRSLADALQ 1079
RHS: domain 3 of 3, from 1143 to 1183: score 83.7, E = 5.7e-26
*->vyYYHtDqiGtPLeLtdseGeivWqArYdaWGnvleEevsq<-*
+++YH+D++G+PL+L++ eG + W+A+Yd+WGn+l+Ee+++
gi|1687468 1143 IHLYHCDHRGLPLALISKEGATEWCAEYDEWGNLLNEENPH 1183
MRP-S28: domain 1 of 1, from 1181 to 1201: score 0.9, E = 5.8
*->dekqrhKLklLAGpRYnpeTD<-*
+++q++ L++L G+ Y++e +
gi|1687468 1181 NPHQLQQLIRLPGQQYDEESG 1201
APC10: domain 1 of 1, from 1274 to 1291: score 1.1, E = 8
CS ---....XXXXXXXXXXXX
*->fhgNHATptsvdfqtyatl<-*
++g H Tpts++ +t++ +
gi|1687468 1274 IGG-HGTPTSIESATRSIM 1291
Ricin_B_lectin: domain 1 of 1, from 1303 to 1323: score 0.1, E = 8
CS .STSTTTEEEEEEE--SS-GG.G
*->ggntadggpvglypChggggndQ<-*
+gn +dg +v+l++C++ g Q
gi|1687468 1303 DGNYKDGMTVWLFSCNT-GKG-Q 1323
CHD5: domain 1 of 1, from 1309 to 1319: score 2.8, E = 1.2
*->SltiWlwAcnk<-*
+ t+Wl+ cn+
gi|1687468 1309 GMTVWLFSCNT 1319
//