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: 27379825.fa
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Query sequence: gi|27379825|ref|NP_771354.1|
Accession: [none]
Description: hypothetical protein blr4714 [Bradyrhizobium japonicum USDA 110]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Collar Phage Tail Collar Domain 254.2 3.1e-73 3
JmjC JmjC domain 10.0 0.019 2
LysM LysM domain 11.7 0.021 2
FBPase Fructose-1-6-bisphosphatase 5.2 0.24 1
Adeno_knob Adenoviral fibre protein (knob domain -0.3 0.43 1
Peptidase_C54 Peptidase family C54 3.8 0.69 1
CBM_19 Carbohydrate binding domain (family 1 5.0 0.99 2
S1 S1 RNA binding domain 5.8 1 1
DUF1888 Domain of unknown function (DUF1888) 4.3 1.1 1
Chlorovi_GP_rpt Chlorovirus glycoprotein repeat 5.1 1.2 1
SDF Sodium:dicarboxylate symporter family 2.6 1.2 1
DP Transcription factor DP 4.0 1.2 1
HemolysinCabind Hemolysin-type calcium-binding repeat 5.9 1.3 1
CesT Tir chaperone protein (CesT) 4.8 1.4 1
ATP-synt_ab ATP synthase alpha/beta family, nucle 2.8 1.5 1
Nit_Regul_Hom Uncharacterized protein, homolog of n 3.5 1.7 1
CHMI 5-carboxymethyl-2-hydroxymuconate iso 2.4 1.9 1
DUF2402 Putative GPI-anchored glycine-serine 4.2 2.3 1
Fil_haemagg Haemagluttinin repeat 3.6 2.5 1
Cytochrom_NNT NapC/NirT cytochrome c family, N-term 2.8 2.8 1
Flagellin_IN Flagellin hook IN motif 3.9 3 3
Methyltransf_12 Methyltransferase domain 3.5 3.3 1
Tuberin Tuberin -0.5 3.9 1
PsbW Photosystem II reaction centre W prot 1.2 4 1
TRAPP Transport protein particle (TRAPP) co 2.5 4.1 1
DUF1929 Domain of unknown function (DUF1929) 1.3 4.2 1
FH2 Formin Homology 2 Domain 1.3 4.4 1
CytoC_RC Photosynthetic reaction centre cytoch 0.8 4.6 1
DRY_EERY Alternative splicing regulator 2.4 4.6 1
Fibrinogen_BP Fibrinogen binding protein 0.7 4.7 1
Denso_VP4 Capsid protein VP4 0.0 4.8 1
CemA CemA family 1.2 6 1
MCE mce related protein 2.0 6.7 1
Memo Memo-like protein -0.4 6.9 1
SUN Beta-glucosidase (SUN family) -0.2 7.1 1
HDPD Bacteriophage lambda head decoration 0.3 8.1 1
ASFV_p27 IAP-like protein p27 C-terminus 0.1 8.2 1
TMP-TENI Thiamine monophosphate synthase/TENI 0.6 8.4 1
Big_2 Bacterial Ig-like domain (group 2) 1.6 8.6 2
Flagellin_D3 Flagellin D3 domain 2.1 8.9 1
NAGidase beta-N-acetylglucosaminidase -0.2 9.1 1
YopE Yersinia virulence determinant (YopE) 1.9 9.2 1
NAD_Gly3P_dh_C NAD-dependent glycerol-3-phosphate de 1.1 9.2 1
Chorion_2 Chorion family 2 0.4 9.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Tuberin 1/1 7 24 .. 1 18 [. -0.5 3.9
Methyltransf_12 1/1 73 101 .. 81 109 .] 3.5 3.3
DUF1888 1/1 95 118 .. 80 104 .. 4.3 1.1
CBM_19 1/2 149 162 .. 1 14 [. 1.5 9.4
CesT 1/1 163 176 .. 1 14 [. 4.8 1.4
ASFV_p27 1/1 172 179 .. 1 8 [. 0.1 8.2
Cytochrom_NNT 1/1 205 223 .. 1 19 [. 2.8 2.8
CHMI 1/1 224 238 .. 113 126 .] 2.4 1.9
Collar 1/3 336 392 .. 1 57 [] 84.9 3.2e-23
YopE 1/1 343 355 .. 1 13 [. 1.9 9.2
HDPD 1/1 347 357 .. 1 13 [. 0.3 8.1
Collar 2/3 460 516 .. 1 57 [] 84.6 3.8e-23
CytoC_RC 1/1 484 493 .. 331 340 .] 0.8 4.6
DRY_EERY 1/1 491 502 .. 144 155 .] 2.4 4.6
CemA 1/1 555 570 .. 1 16 [. 1.2 6
Collar 3/3 589 651 .. 1 57 [] 84.8 3.3e-23
Fibrinogen_BP 1/1 633 664 .. 1 32 [. 0.7 4.7
NAGidase 1/1 741 754 .. 327 340 .] -0.2 9.1
DP 1/1 805 838 .. 126 162 .] 4.0 1.2
LysM 1/2 888 895 .. 1 8 [. 4.3 2.9
FH2 1/1 946 969 .. 388 413 .] 1.3 4.4
TRAPP 1/1 956 966 .. 1 11 [. 2.5 4.1
Memo 1/1 980 987 .. 326 333 .] -0.4 6.9
S1 1/1 989 1007 .. 1 20 [. 5.8 1
Flagellin_IN 1/3 990 1020 .. 1 44 [. 0.1 36
Big_2 1/2 997 1015 .. 72 90 .] 1.1 12
SDF 1/1 1013 1024 .. 446 457 .] 2.6 1.2
MCE 1/1 1060 1077 .. 1 18 [. 2.0 6.7
Flagellin_D3 1/1 1094 1129 .. 1 41 [. 2.1 8.9
Flagellin_IN 2/3 1110 1131 .. 1 27 [. 1.0 20
Flagellin_IN 3/3 1218 1245 .. 1 32 [. 2.8 6.3
Nit_Regul_Hom 1/1 1259 1275 .. 1 18 [. 3.5 1.7
Big_2 2/2 1267 1304 .. 1 33 [. 0.5 18
JmjC 1/2 1277 1295 .. 108 126 .] 10.0 0.02
Peptidase_C54 1/1 1283 1314 .. 221 252 .. 3.8 0.69
NAD_Gly3P_dh_C 1/1 1337 1347 .. 1 11 [. 1.1 9.2
TMP-TENI 1/1 1339 1348 .. 185 194 .] 0.6 8.4
JmjC 2/2 1413 1420 .. 119 126 .] 0.1 17
Adeno_knob 1/1 1445 1452 .. 188 195 .] -0.3 0.43
DUF1929 1/1 1503 1534 .. 1 31 [. 1.3 4.2
DUF2402 1/1 1507 1526 .. 1 21 [. 4.2 2.3
PsbW 1/1 1549 1573 .. 1 25 [. 1.2 4
LysM 2/2 1570 1580 .. 1 11 [. 7.4 0.37
Denso_VP4 1/1 1597 1607 .. 432 442 .] 0.0 4.8
Chlorovi_GP_rpt 1/1 1599 1618 .. 4 23 .. 5.1 1.2
ATP-synt_ab 1/1 1612 1622 .. 1 11 [. 2.8 1.5
Fil_haemagg 1/1 1675 1773 .. 1 47 [. 3.6 2.5
SUN 1/1 1721 1734 .. 282 295 .] -0.2 7.1
Chorion_2 1/1 1734 1748 .. 169 184 .] 0.4 9.8
FBPase 1/1 1736 1750 .. 298 312 .. 5.2 0.24
HemolysinCabind 1/1 1771 1788 .. 1 18 [] 5.9 1.3
CBM_19 2/2 1845 1860 .. 1 16 [. 3.5 2.7
Alignments of top-scoring domains:
Tuberin: domain 1 of 1, from 7 to 24: score -0.5, E = 3.9
*->lVrsEsEieDIIllVDGL<-*
+V s ++DI +l DGL
gi|2737982 7 VVFIDSRVSDIDALLDGL 24
Methyltransf_12: domain 1 of 1, from 73 to 101: score 3.5, E = 3.3
*->snvLhhldpedprevLrnlrrlLkPGGvl<-*
s+v+h d ++ +++L+ + ++L+ +G l
gi|2737982 73 SSVIHDADLANDAAALSAIGASLASDGAL 101
DUF1888: domain 1 of 1, from 95 to 118: score 4.3, E = 1.1
*->LssDGtLvqLvDlDeipGtTkFqfV<-*
L sDG L+ L+ D+ G T+ qf+
gi|2737982 95 LASDGALA-LYACDTAAGATGSQFI 118
CBM_19: domain 1 of 2, from 149 to 162: score 1.5, E = 9.4
*->iTTTalaTAsSAlf<-*
+ TT +a A SA+f
gi|2737982 149 VSTTPAAAAVSAPF 162
CesT: domain 1 of 1, from 163 to 176: score 4.8, E = 1.4
CS CHHHHHHHHHHHS-
*->feqLLkeLatkLGl<-*
+eq+L++++t+LG+
gi|2737982 163 AEQALANFSTTLGI 176
ASFV_p27: domain 1 of 1, from 172 to 179: score 0.1, E = 8.2
*->AtLGiiGL<-*
tLGiiGL
gi|2737982 172 TTLGIIGL 179
Cytochrom_NNT: domain 1 of 1, from 205 to 223: score 2.8, E = 2.8
*->rpslrksllaLllvGiviG<-*
+ s+++s+ ++ lvG+v+G
gi|2737982 205 SASSTLSSAVVSLVGFVAG 223
CHMI: domain 1 of 1, from 224 to 238: score 2.4, E = 1.9
CS SSEEEE EGGGGG--
*->ptlnyK.qNNvHAlf<-*
+tln+ +qNN+H +
gi|2737982 224 DTLNFTdQNNIHGSY 238
Collar: domain 1 of 3, from 336 to 392: score 84.9, E = 3.2e-23
CS TEEEEESSSS-SSTEEESBS-B--TTT-HHHHHHCTTTTSB-SSSB.
*->GmiimwagsvaPqGWalCnGaafsasdYPvLakvlGttYGGtgsptf
G i+ +ags+aP+++al G+++s++++++L++++GttYGG+g++tf
gi|2737982 336 GSIRTFAGSLAPNHTALASGQLLSIAQNTALFSLFGTTYGGNGQTTF 382
CS B--B-TTXXX
glPDLRGrFv<-*
lP+L
gi|2737982 383 ELPNLQAKLT 392
YopE: domain 1 of 1, from 343 to 355: score 1.9, E = 9.2
*->EqLrknHarLAtG<-*
+L+ nH+ LA+G
gi|2737982 343 GSLAPNHTALASG 355
HDPD: domain 1 of 1, from 347 to 357: score 0.3, E = 8.1
CS SS--CEEEEEB--
*->sDPAHTAtgpggl<-*
P HTA ++g l
gi|2737982 347 --PNHTALASGQL 357
Collar: domain 2 of 3, from 460 to 516: score 84.6, E = 3.8e-23
CS TEEEEESSSS-SSTEEESBS-B--TTT-HHHHHHCTTTTSB-SSSB.
*->GmiimwagsvaPqGWalCnGaafsasdYPvLakvlGttYGGtgsptf
G+i+++ +++aP+G++l G+ + ++dYP L+ ++GttYGG+g++tf
gi|2737982 460 GEIVPFLSNFAPAGYLLAAGQVLNIADYPNLYNAIGTTYGGDGVTTF 506
CS B--B-TTXXX
glPDLRGrFv<-*
lPDL Gr++
gi|2737982 507 ALPDLTGRTI 516
CytoC_RC: domain 1 of 1, from 484 to 493: score 0.8, E = 4.6
CS TTT-GGGS--
*->lKDYPELatp<-*
++DYP+L+ +
gi|2737982 484 IADYPNLYNA 493
DRY_EERY: domain 1 of 1, from 491 to 502: score 2.4, E = 4.6
*->ysavGFsYgdse<-*
y+a+G +Yg+++
gi|2737982 491 YNAIGTTYGGDG 502
CemA: domain 1 of 1, from 555 to 570: score 1.2, E = 6
*->isRYqtltSlkyLisL<-*
+s Yq ++l yLisL
gi|2737982 555 FSNYQPSIALHYLISL 570
Collar: domain 3 of 3, from 589 to 651: score 84.8, E = 3.3e-23
CS TEEEEESSSS- SSTEEESBS-B--TTT-HHHHHHCTTTTSB
*->Gmiimwagsva......PqGWalCnGaafsasdYPvLakvlGttYGG
G+ii++ag+ + + +GWa C+G+++s+s+++vL++++GttYGG
gi|2737982 589 GEIISYAGNGTdldymlAHGWAECQGQLLSISQNQVLFALIGTTYGG 635
CS -SSSB.B--B-TTXXX
tgsptfglPDLRGrFv<-*
+g++tf lPDL Gr+v
gi|2737982 636 DGQSTFALPDLTGRAV 651
Fibrinogen_BP: domain 1 of 1, from 633 to 664: score 0.7, E = 4.7
*->YmGvLGstiiLGsspvsAmDsvGnqsqGnvLE<-*
Y G st L A+ svG sqGn +E
gi|2737982 633 YGGDGQSTFALPDLTGRAVASVGTNSQGNQVE 664
NAGidase: domain 1 of 1, from 741 to 754: score -0.2, E = 9.1
*->vatlllnafakhny<-*
v+ ++l +++++n+
gi|2737982 741 VSGDALSFISQNNI 754
DP: domain 1 of 1, from 805 to 838: score 4.0, E = 1.2
*->gscsaenlktaivkkslvpkalepyvteiakgtsgkv<-*
gs+s+ +++ta +s+v +++ p v+ +++ t+g++
gi|2737982 805 GSSSNGTSNTA---TSTVNLLHVPLVSSVTAATTGNA 838
LysM: domain 1 of 2, from 888 to 895: score 4.3, E = 2.9
CS EE--TT--
*->YtVkkGDT<-*
YtV+ GD+
gi|2737982 888 YTVQAGDS 895
FH2: domain 1 of 1, from 946 to 969: score 1.3, E = 4.4
CS T--TT.SCCHHHHHHHHHHHHHHHHH
*->gedpkldetspeeFFkilrdFlnafk<-*
g++p+ +++++ F +++++ ++a++
gi|2737982 946 GSNPS--NATSDTFTVTFSEIVSAVD 969
TRAPP: domain 1 of 1, from 956 to 966: score 2.5, E = 4.1
CS HHHHHHHHHHH
*->lFalLfsEmVq<-*
+F+++fsE+V+
gi|2737982 956 TFTVTFSEIVS 966
Memo: domain 1 of 1, from 980 to 987: score -0.4, E = 6.9
*->vVgYAsav<-*
+V+Y+++v
gi|2737982 980 SVSYGGMV 987
S1: domain 1 of 1, from 989 to 1007: score 5.8, E = 1
CS TSSTTCEEEEEEEEEETGTE
*->klevGdvvkGtVtrvtklfG<-*
+++ G+v++ tVt+vt +G
gi|2737982 989 LPFSGSVYTVTVTGVTG-DG 1007
Flagellin_IN: domain 1 of 3, from 990 to 1020: score 0.1, E = 36
*->tltinggggkensvadgvdislsagdslaaladaINsaaaktGV<-*
++ g++++ +++++++ ++l ++N a++tG+
gi|2737982 990 PFS----GSVYT-------VTVTGVTGDGTLGLKLN--ASGTGI 1020
Big_2: domain 1 of 2, from 997 to 1015: score 1.1, E = 12
CS -EEEEEEETT.TEEEEEEE
*->tatItatsgdgnksasvtv<-*
t+t+t ++gdg+ + ++
gi|2737982 997 TVTVTGVTGDGTLGLKLNA 1015
SDF: domain 1 of 1, from 1013 to 1024: score 2.6, E = 1.2
*->Gnalaaiivakl<-*
+na++++iv+++
gi|2737982 1013 LNASGTGIVDRA 1024
MCE: domain 1 of 1, from 1060 to 1077: score 2.0, E = 6.7
*->rgytvtayFddalgGLkv<-*
++ ++t++F+++++GL +
gi|2737982 1060 GTEQFTVTFSESVSGLTA 1077
Flagellin_D3: domain 1 of 1, from 1094 to 1129: score 2.1, E = 8.9
CS EEEEE.-BG.GGSTTT-GGG..-SSEEEE-SSEEE-TTT--
*->atldlTaldldaaiktgvgGagttgtaaikDGkvyfddtdG<-*
+t+ ++ ++ +a+ kt + t+++ + DG+v +d+++G
gi|2737982 1094 STTGISQIT-SADGKTYT----VTVGGVTGDGTVRLDFKSG 1129
Flagellin_IN: domain 2 of 3, from 1110 to 1131: score 1.0, E = 20
*->tltinggggkensvadgvdislsagds<-*
t+t g++g+++ v++++++g+s
gi|2737982 1110 TVTVGGVTGDGT-----VRLDFKSGSS 1131
Flagellin_IN: domain 3 of 3, from 1218 to 1245: score 2.8, E = 6.3
*->tltinggggkensvadgvdislsag.dslaala<-*
t+t ng++g+++ +++l+a ++ +a++a
gi|2737982 1218 TVTVNGVTGDGT-----LRLDLNASgTGIADAA 1245
Nit_Regul_Hom: domain 1 of 1, from 1259 to 1275: score 3.5, E = 1.7
*->MiHLqHtPPAvyelslcy<-*
+qHt PAv+ s+++
gi|2737982 1259 -YTVQHTAPAVTSVSVPA 1275
Big_2: domain 2 of 2, from 1267 to 1304: score 0.5, E = 18
CS EEEEEEETTT. TEEES--SEEETTSEEEEEEES
*->avtsvtvsptg.....ntaslakGatlqlkatvtpsda<-*
avtsv+v +g+ + ++ +++ ++ +++t+tp a
gi|2737982 1267 AVTSVSVPANGtyvagQNLDFTVNFSEAVSVTGTPEVA 1304
JmjC: domain 1 of 2, from 1277 to 1295: score 10.0, E = 0.02
*->gayHavfNlGfniaeavNF<-*
g+y a++Nl+f+++++ +
gi|2737982 1277 GTYVAGQNLDFTVNFSEAV 1295
Peptidase_C54: domain 1 of 1, from 1283 to 1314: score 3.8, E = 0.69
*->kNldknvkylkpvkfvgapvlaidfatnsnqd<-*
+Nld++v++ + v +g+p++ai t +++d
gi|2737982 1283 QNLDFTVNFSEAVSVTGTPEVAIMLDTGGLVD 1314
NAD_Gly3P_dh_C: domain 1 of 1, from 1337 to 1347: score 1.1, E = 9.2
CS S-HHHHHHHHH
*->eDvvGvEigGA<-*
+D +Gv++g+A
gi|2737982 1337 SDANGVALGSA 1347
TMP-TENI: domain 1 of 1, from 1339 to 1348: score 0.6, E = 8.4
*->adGvAVvSAI<-*
a+GvA+ SAI
gi|2737982 1339 ANGVALGSAI 1348
JmjC: domain 2 of 2, from 1413 to 1420: score 0.1, E = 17
*->niaeavNF<-*
n++eavN+
gi|2737982 1413 NLSEAVNV 1420
Adeno_knob: domain 1 of 1, from 1445 to 1452: score -0.3, E = 0.43
CS B--EEEEE
*->tssfTFSY<-*
+s +TFSY
gi|2737982 1445 SSALTFSY 1452
DUF1929: domain 1 of 1, from 1503 to 1534: score 1.3, E = 4.2
CS ---EEE .ES-SE EETT-E.EEEEESS--...
*->RPtIts.tvaPss..ikYGgsyftvtvsvpisvv<-*
P I++ + +P+s+ ++ G+s +t+tv+ + v+
gi|2737982 1503 -PDIVAvSASPASgaVGAGQS-VTITVALAEAVT 1534
DUF2402: domain 1 of 1, from 1507 to 1526: score 4.2, E = 2.3
*->aitnsPnlgesveaGkpytIt<-*
a+++sP++g v aG+++tIt
gi|2737982 1507 AVSASPASG-AVGAGQSVTIT 1526
PsbW: domain 1 of 1, from 1549 to 1573: score 1.2, E = 4
*->mAsitAsasavlvARaaLllksrva<-*
+A++ A+a a+l + L+++ +v+
gi|2737982 1549 IATFDAAATAALHDSSKLVFNYTVG 1573
LysM: domain 2 of 2, from 1570 to 1580: score 7.4, E = 0.37
CS EE--TT--HHH
*->YtVkkGDTLws<-*
YtV GDTL+s
gi|2737982 1570 YTVGAGDTLTS 1580
Denso_VP4: domain 1 of 1, from 1597 to 1607: score 0.0, E = 4.8
CS SSS--SS---X
*->LYGngAtLGnv<-*
L Gn+A LGn+
gi|2737982 1597 LAGNAANLGNI 1607
Chlorovi_GP_rpt: domain 1 of 1, from 1599 to 1618: score 5.1, E = 1.2
*->GNGsfLtGvtatiPgtqniD<-*
GN+++L ++ +t++g ++iD
gi|2737982 1599 GNAANLGNIATTFTGLAVID 1618
ATP-synt_ab: domain 1 of 1, from 1612 to 1622: score 2.8, E = 1.5
CS ---HHHHHHS-
RF xxxxxxxxxxx
*->TGiraIDgllP<-*
TG+ +ID+l++
gi|2737982 1612 TGLAVIDSLVT 1622
Fil_haemagg: domain 1 of 1, from 1675 to 1773: score 3.6, E = 2.5
CS EEESSEEEETT
*->vaaGaltlnaa....................................
a G+lt++a+++ + +++ ++ ++ + + ++++ +++++ +
gi|2737982 1675 GAYGSLTVHADgsysyaasggvtgvaydnftytasnghaapststlt 1721
CS TT--EE-SEEEEEE-STT-EEEE-S-EEESSE..
................alggldlnnggtlsagggltltaagllnnggtli
+ +++++ + ++++++ +n+ + +++gg t+taa+++n++ li
gi|2737982 1722 vqviggnqnfvfvpagGSATTGYGNTVLDGSAGGATITAASTFNAHEILI 1771
CS ..
ag<-*
+g
gi|2737982 1772 GG 1773
SUN: domain 1 of 1, from 1721 to 1734: score -0.2, E = 7.1
*->TVSVtsGsAkFVfY<-*
TV V+ G +FVf
gi|2737982 1721 TVQVIGGNQNFVFV 1734
Chorion_2: domain 1 of 1, from 1734 to 1748: score 0.4, E = 9.8
*->VPAgAGqLsYGyGqga<-*
VPAg G +GyG
gi|2737982 1734 VPAG-GSATTGYGNTV 1748
FBPase: domain 1 of 1, from 1736 to 1750: score 5.2, E = 0.24
CS TTEEEESST.CCGCS
*->AGGgAtdGrGkriLD<-*
AGG+At+G+G+ +LD
gi|2737982 1736 AGGSATTGYGNTVLD 1750
HemolysinCabind: domain 1 of 1, from 1771 to 1788: score 5.9, E = 1.3
CS E--SSS-EEEEESSCGEE
*->yGGaGnDtLyGgaGnDtl<-*
+GG G+ + G+ G Dt+
gi|2737982 1771 IGGPGDTLIAGNYGRDTF 1788
CBM_19: domain 2 of 2, from 1845 to 1860: score 3.5, E = 2.7
*->iTTTalaTAsSAlfsl<-*
iT Tala +SA f l
gi|2737982 1845 ITNTALASLTSANFHL 1860
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