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: 162453020.fa
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Query sequence: gi|162453020|ref|YP_001615387.1|
Accession: [none]
Description: Rhs family carbohydrate-binding protein [Sorangium cellulosum 'So ce 56']
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
RHS_repeat RHS Repeat 160.8 4.2e-45 11
DUF1260 Protein of unknown function (DUF1260) 8.8 0.26 1
DUF1215 Protein of unknown function (DUF1215) 7.3 0.28 1
Flu_NP Influenza virus nucleoprotein 2.2 1.8 1
Cellulase Cellulase (glycosyl hydrolase family 1.2 2.4 1
Fucose_iso_N1 L-fucose isomerase, first N-terminal 2.1 3.7 1
DUF2516 Protein of unknown function (DUF2516) 2.0 3.8 1
Bcl-2 Apoptosis regulator proteins, Bcl-2 f 0.1 4.2 1
SPO11_like SPO11 homologue 2.6 4.5 1
DUF101 Protein of unknown function DUF101 0.7 4.5 1
MltA MltA specific insert domain 1.9 4.6 1
Fe_dep_repr_C Iron dependent repressor, metal bindi 2.6 4.6 1
PseudoU_synth_1 tRNA pseudouridine synthase 1.6 4.6 1
Gastrin Gastrin/cholecystokinin family 1.8 6.2 1
PI31_Prot_Reg PI31 proteasome regulator 1.1 7.6 1
Vesiculo_matrix Vesiculovirus matrix protein 1.3 7.8 1
PBP_dimer Penicillin-binding Protein dimerisati 1.0 8 1
MerR MerR family regulatory protein 3.1 8.3 1
Cbb3_Q_epsi Cytochrome c oxidase cbb3-type (Cbb3_ 2.3 8.7 1
DUF2394 Domain of unknown function (DUF2394) 1.9 9.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
DUF2516 1/1 2 10 .. 112 120 .] 2.0 3.8
DUF2394 1/1 25 40 .. 27 44 .] 1.9 9.3
PBP_dimer 1/1 27 42 .. 180 195 .] 1.0 8
RHS_repeat 1/11 32 68 .. 2 44 .] 22.5 1.6e-05
MltA 1/1 63 80 .. 100 118 .. 1.9 4.6
PseudoU_synth_1 1/1 112 118 .. 119 125 .] 1.6 4.6
RHS_repeat 2/11 140 177 .. 1 44 [] 29.3 1.9e-07
RHS_repeat 3/11 182 220 .. 1 44 [] 1.4 15
RHS_repeat 4/11 234 260 .. 12 44 .] 9.4 0.081
RHS_repeat 5/11 265 302 .. 1 44 [] 25.7 1.9e-06
DUF101 1/1 277 288 .. 137 149 .] 0.7 4.5
RHS_repeat 6/11 307 344 .. 1 44 [] 6.0 0.76
Fucose_iso_N1 1/1 348 363 .. 43 58 .. 2.1 3.7
RHS_repeat 7/11 348 385 .. 1 44 [] 6.0 0.78
RHS_repeat 8/11 390 426 .. 1 44 [] 21.6 2.8e-05
Vesiculo_matrix 1/1 417 429 .. 235 247 .] 1.3 7.8
RHS_repeat 9/11 432 469 .. 1 44 [] 8.9 0.11
DUF1260 1/1 471 487 .. 1 17 [. 8.8 0.26
Bcl-2 1/1 483 489 .. 101 107 .] 0.1 4.2
RHS_repeat 10/11 497 511 .. 1 15 [. 1.3 16
MerR 1/1 596 609 .. 26 39 .] 3.1 8.3
Fe_dep_repr_C 1/1 627 641 .. 57 71 .] 2.6 4.6
SPO11_like 1/1 645 663 .. 25 43 .] 2.6 4.5
DUF1215 1/1 665 680 .. 1 24 [. 7.3 0.28
RHS_repeat 11/11 684 721 .. 1 44 [] 28.6 2.9e-07
PI31_Prot_Reg 1/1 705 710 .. 84 90 .] 1.1 7.6
Flu_NP 1/1 708 718 .. 524 534 .] 2.2 1.8
Gastrin 1/1 708 720 .. 114 126 .] 1.8 6.2
Cbb3_Q_epsi 1/1 729 738 .. 48 57 .] 2.3 8.7
Cellulase 1/1 922 954 .. 1 51 [. 1.2 2.4
Alignments of top-scoring domains:
DUF2516: domain 1 of 1, from 2 to 10: score 2.0, E = 3.8
*->ssdGpGgpW<-*
++dGp+ +W
gi|1624530 2 RRDGPYRSW 10
DUF2394: domain 1 of 1, from 25 to 40: score 1.9, E = 9.3
*->rvrvYrldaaadGkLtpa<-*
r+++Y++d a G L+ +
gi|1624530 25 RLVTYEID--ARGDLVRV 40
PBP_dimer: domain 1 of 1, from 27 to 42: score 1.0, E = 8
*->rkyevDarGrviptls<-*
++ye+DarG ++++
gi|1624530 27 VTYEIDARGDLVRVID 42
RHS_repeat: domain 1 of 11, from 32 to 68: score 22.5, E = 1.6e-05
*->DanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
Da+G+L+ v d++g ++ Y YD+ + l++ ++Gt+
gi|1624530 32 DARGDLVRVIDAGGVET-SYAYDEQHYLVSE-----SLPDGTV 68
MltA: domain 1 of 1, from 63 to 80: score 1.9, E = 4.6
CS -SSS---EEEEEEEE-SS-
*->LpDGrtlryigYAGkNGhP<-*
LpDG+ r + YA++ G++
gi|1624530 63 LPDGTVYR-FLYADHAGQR 80
PseudoU_synth_1: domain 1 of 1, from 112 to 118: score 1.6, E = 4.6
CS T--TTTT
*->lfharys<-*
lfhar++
gi|1624530 112 LFHARFD 118
RHS_repeat: domain 2 of 11, from 140 to 177: score 29.3, E = 1.9e-07
*->YDanGrLtavtdpsgpvgq.t.YrYDaagrltaltlttstdasGtt<
+a+G + + + +p+g+ ++YrYD+agrl+++ d++G++
gi|1624530 140 GNALGLVEE---YVDPRGYcWtYRYDGAGRLISM-----SDGGGRV 177
-*
gi|1624530 - -
RHS_repeat: domain 3 of 11, from 182 to 220: score 1.4, E = 15
*->YDanGrLtavtdpsgpvgqtYrYD.aagrltaltlttstdasGtt<-
+D +Gr ++ t p+g+++ + D++ ++++ + a++++
gi|1624530 182 FDLHGRMLGLTRPDGARW-AWKQDdEQSKVVSV-----DAAGKRE 220
*
gi|1624530 - -
RHS_repeat: domain 4 of 11, from 234 to 260: score 9.4, E = 0.081
*->dpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
d++g+ + ++ YDa g l ++ +++Gt+
gi|1624530 234 DARGRIT-RFAYDAHGLLRDI-----AYPDGTV 260
RHS_repeat: domain 5 of 11, from 265 to 302: score 25.7, E = 1.9e-06
*->YDanGrLtavt.dpsgpvgqtYrYDaagrltaltlttstdasGtt<-
YDa+G++ + ++ +++ Y++D +gr +++ ++++G++
gi|1624530 265 YDAHGNISEHIfEDGSRAR--YTFDLFGRPVRI-----RTPRGAE 302
*
gi|1624530 - -
DUF101: domain 1 of 1, from 277 to 288: score 0.7, E = 4.5
CS CTCEEEEEEEEE-
*->edggWkaqVvvDi<-*
edg +a++ +D+
gi|1624530 277 EDG-SRARYTFDL 288
RHS_repeat: domain 6 of 11, from 307 to 344: score 6.0, E = 0.76
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YD++G+L+ + p++ ++ ++r ++++ ++a+ +d+sG+
gi|1624530 307 YDSRGDLVFIAEPGDKAT-EFRIGPTRLIEAM-----RDPSGEM 344
Fucose_iso_N1: domain 1 of 1, from 348 to 363: score 2.1, E = 3.7
*->rypdGtpVecViAdtt<-*
r+ G VecV+Ad t
gi|1624530 348 RHVAGALVECVRADGT 363
RHS_repeat: domain 7 of 11, from 348 to 385: score 6.0, E = 0.78
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
+G L++ ++g++ ++YDa++rl+ + +++G++
gi|1624530 348 RHVAGALVECVRADGTRY-AFGYDALRRLVWI-----ENPAGER 385
RHS_repeat: domain 8 of 11, from 390 to 426: score 21.6, E = 2.8e-05
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YDa G+++ t +g ++ +Y YD+ ++l+++ t a+G t
gi|1624530 390 YDAVGNIVRETSFAGVTT-EYAYDGSRQLVSV-----TRADG-T 426
Vesiculo_matrix: domain 1 of 1, from 417 to 429: score 1.3, E = 7.8
*->Lelkkqadgtwif<-*
L+ +++adgtwi+
gi|1624530 417 LVSVTRADGTWIH 429
RHS_repeat: domain 9 of 11, from 432 to 469: score 8.9, E = 0.11
*->YDanGrLtavtdpsgpvgq.t.YrYDaagrltaltltts.tdasGtt
Da Gr++a +++g+ ++++Y+a g lta+ ++ d + +
gi|1624530 432 RDAEGRIVA---REHSTGLvErFTYGAGGALTAA----EsQDVR--V 469
<-*
gi|1624530 - -
DUF1260: domain 1 of 1, from 471 to 487: score 8.8, E = 0.26
*->fpedetgevlaaLledG<-*
f +de+g +l++++e+G
gi|1624530 471 FERDEDGRILREIQEAG 487
Bcl-2: domain 1 of 1, from 483 to 489: score 0.1, E = 4.2
CS HHHSS-H
*->iqenGGW<-*
iqe GGW
gi|1624530 483 IQEAGGW 489
RHS_repeat: domain 10 of 11, from 497 to 511: score 1.3, E = 16
*->YDanGrLtavtdpsg<-*
YD+nG ++++++++g
gi|1624530 497 YDDNGGVLGKSYSTG 511
MerR: domain 1 of 1, from 596 to 609: score 3.1, E = 8.3
CS S-SCEETTTS-EEE
*->lppprrtegGyRrY<-*
l+ ++t++G+RrY
gi|1624530 596 LRRVVDTHAGQRRY 609
Fe_dep_repr_C: domain 1 of 1, from 627 to 641: score 2.6, E = 4.6
*->gfPetdPHGdPIPdk<-*
+++++ PHG P P++
gi|1624530 627 EHFRYAPHGTPVPRA 641
SPO11_like: domain 1 of 1, from 645 to 663: score 2.6, E = 4.5
*->alkRGarEtPaGasRlAss<-*
a+ RG+r t aG R+A
gi|1624530 645 AIGRGGRPTNAGDVRVAWD 663
DUF1215: domain 1 of 1, from 665 to 680: score 7.3, E = 0.28
*->LgrqiaarLldtsgdewPaPlnsw<-*
Lgr++a+ + P Pl+ w
gi|1624530 665 LGRLAAQNS--------PDPLRTW 680
RHS_repeat: domain 11 of 11, from 684 to 721: score 28.6, E = 2.9e-07
*->YDanGrLtavtdpsgpvgqtYrYDaagrltaltlttstdasGtt<-*
YD+n+rL++ + +g+++ +Y YD++gr+ a t+ +G+
gi|1624530 684 YDENDRLIEARRGDGRSV-RYLYDPFGRRLAE-----TYDDGES 721
PI31_Prot_Reg: domain 1 of 1, from 705 to 710: score 1.1, E = 7.6
*->yDDPfGP<-*
y DPfG+
gi|1624530 705 Y-DPFGR 710
Flu_NP: domain 1 of 1, from 708 to 718: score 2.2, E = 1.8
*->FGRDtAEdYDd<-*
FGR AE YDd
gi|1624530 708 FGRRLAETYDD 718
Gastrin: domain 1 of 1, from 708 to 720: score 1.8, E = 6.2
*->FGRRSaEEydyas<-*
FGRR aE yd++
gi|1624530 708 FGRRLAETYDDGE 720
Cbb3_Q_epsi: domain 1 of 1, from 729 to 738: score 2.3, E = 8.7
*->DellEarskk<-*
D+++E rs+k
gi|1624530 729 DSPVEERSTK 738
Cellulase: domain 1 of 1, from 922 to 954: score 1.2, E = 2.4
CS CEECTTSCE..SSESGEEEEECTCCSTT.S.TTTCCC.HHHHCHHHH
*->nlldatgkpeksyvqlrGvstfwgnpkervahglwypstkdmidevk
+ + +g p s +wgn + ++ +++ d k
gi|1624530 922 VVVTTHGAP---------GSAQWGNGS-------ASG--EQIGDMLK 950
CS HHCH
aaGf<-*
+aGf
gi|1624530 951 NAGF 954
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