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: 78214028.fa
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Query sequence: gi|78214028|ref|YP_382807.1|
Accession: [none]
Description: VCBS [Synechococcus sp. CC9605]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
PQQ PQQ enzyme repeat 11.9 0.012 1
NHL NHL repeat 9.6 0.2 1
DUF1711 Fungal protein of unknown function (D 4.3 0.46 1
Fil_haemagg Haemagluttinin repeat 5.8 0.6 3
SBBP Beta-propeller repeat 5.4 1.2 3
AHS2 Allophanate hydrolase subunit 2 2.4 1.5 1
HIM Haemagglutinin 5.4 1.6 1
HemolysinCabind Hemolysin-type calcium-binding repeat 5.4 1.8 1
NifT NifT/FixU protein 3.9 1.8 2
DUF2510 Protein of unknown function (DUF2510) 3.8 2.1 1
Terminase_5 Putative ATPase subunit of terminase 4.3 2.3 1
PKD PKD domain 2.6 3 1
DUF843 Baculovirus protein of unknown functi 0.7 4.1 2
FG-GAP FG-GAP repeat 3.8 4.2 1
PyrI Aspartate carbamoyltransferase regula 2.8 4.3 1
DUF1493 Protein of unknown function (DUF1493) 1.2 4.7 1
Glyco_hydro_53 Glycosyl hydrolase family 53 1.1 4.7 1
Chlam_PMP Chlamydia polymorphic membrane protei 4.8 5.3 2
Fork_head_N Forkhead N-terminal region -2.1 5.4 1
Peptidase_M14 Zinc carboxypeptidase -0.1 8.5 1
Fn_bind Fibronectin binding repeat 2.9 8.9 2
HutD HutD 0.3 9.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Peptidase_M14 1/1 29 50 .. 43 64 .. -0.1 8.5
Terminase_5 1/1 34 53 .. 40 60 .] 4.3 2.3
SBBP 1/3 190 217 .. 6 30 .. 2.1 11
NHL 1/1 200 217 .. 1 19 [. 9.6 0.2
AHS2 1/1 267 281 .. 278 292 .] 2.4 1.5
FG-GAP 1/1 269 284 .. 1 16 [. 3.8 4.2
PQQ 1/1 282 301 .. 1 20 [. 11.9 0.012
SBBP 2/3 304 334 .. 1 30 [. 2.7 7.6
HutD 1/1 329 345 .. 182 200 .] 0.3 9.9
Fork_head_N 1/1 344 367 .. 1 25 [. -2.1 5.4
Fil_haemagg 1/3 435 501 .. 1 75 [] 0.1 27
Fn_bind 1/2 455 471 .. 1 18 [. 1.4 23
NifT 1/2 480 493 .. 55 68 .] 1.9 6.8
Chlam_PMP 1/2 500 518 .. 1 19 [] 2.4 24
DUF843 1/2 502 510 .. 76 83 .] 0.3 5.6
HIM 1/1 544 564 .. 3 24 .] 5.4 1.6
Fil_haemagg 2/3 559 625 .. 1 75 [] 0.1 27
Fn_bind 2/2 579 595 .. 1 18 [. 1.4 23
NifT 2/2 604 617 .. 55 68 .] 1.9 6.8
Chlam_PMP 2/2 624 642 .. 1 19 [] 2.4 24
DUF843 2/2 626 634 .. 76 83 .] 0.3 5.6
SBBP 3/3 659 685 .. 12 39 .] 0.5 33
Fil_haemagg 3/3 679 750 .. 1 75 [] 5.6 0.69
Glyco_hydro_53 1/1 780 1117 .. 6 29 .. 1.1 4.7
PKD 1/1 900 918 .. 73 92 .] 2.6 3
DUF2510 1/1 921 938 .. 34 51 .] 3.8 2.1
DUF1711 1/1 952 971 .. 273 292 .] 4.3 0.46
HemolysinCabind 1/1 1022 1039 .. 1 18 [] 5.4 1.8
DUF1493 1/1 1039 1059 .. 80 103 .. 1.2 4.7
PyrI 1/1 1076 1086 .. 1 11 [. 2.8 4.3
Alignments of top-scoring domains:
Peptidase_M14: domain 1 of 1, from 29 to 50: score -0.1, E = 8.5
CS SEEEEEE-SSTT-HHHHHHHHH
*->pavlidagiHarEwigpataly<-*
p+ ++ ag+H+ E+++ a+ ++
gi|7821402 29 PVLWLKAGQHPLETVTAALEMR 50
Terminase_5: domain 1 of 1, from 34 to 53: score 4.3, E = 2.3
*->WddllpvmervesaieaRlvq<-*
++++ p+ e+v+ a+e R +q
gi|7821402 34 KAGQHPL-ETVTAALEMRRQQ 53
SBBP: domain 1 of 3, from 190 to 217: score 2.1, E = 11
*->lGP...gpgasifgngIavDsnGNiYvt<-*
lG+ ++g+++ + + g+a+ +GN+Yvt
gi|7821402 190 LGNfndGTDNLTRVWGLAFSQDGNLYVT 217
NHL: domain 1 of 1, from 200 to 217: score 9.6, E = 0.2
CS BSSEEEEEE-TTTS-EEEE
*->lnrPhGvavdpsdGrvyVa<-*
l+r +G+a + dG++yV+
gi|7821402 200 LTRVWGLAFS-QDGNLYVT 217
AHS2: domain 1 of 1, from 267 to 281: score 2.4, E = 1.5
*->PGdkvRFvpvsleeA<-*
PG +++F++v+++
gi|7821402 267 PGGPIQFHAVDVDSD 281
FG-GAP: domain 1 of 1, from 269 to 284: score 3.8, E = 4.2
CS CCSCEEEC-TTSSSSS
*->fgssvaagDlnGDGrp<-*
++ + +a+D++ DG++
gi|7821402 269 GPIQFHAVDVDSDGLM 284
PQQ: domain 1 of 1, from 282 to 301: score 11.9, E = 0.012
CS TEEEEETTTSEEEEEETTTT
*->gvvyvgtadGylyAlDakTG<-*
g +y+ + +Gy+y +D++TG
gi|7821402 282 GLMYALDLRGYIYSIDITTG 301
SBBP: domain 2 of 3, from 304 to 334: score 2.7, E = 7.6
*->qWstqlGP.gpgasifgngIavDsnGNiYvt<-*
++++ + +++++ +++ +Ia+D++GN++ +
gi|7821402 304 TYVAETSKsDNSKITSAMDIAFDIEGNLFAV 334
HutD: domain 1 of 1, from 329 to 345: score 0.3, E = 9.9
CS EEEE.EEEEE.EEEEEEEE
*->dalllpltgdrgrlllvsl<-*
++l+ +++gd g+l+ +sl
gi|7821402 329 GNLF-AVDGD-GALYQISL 345
Fork_head_N: domain 1 of 1, from 344 to 367: score -2.1, E = 5.4
*->syYpeamsesYSsvsaGsmsmnagl<-*
s+++++ + ++ ++s+sm +gl
gi|7821402 344 SLDGTT-TAGATQLGSTSTSMLMGL 367
Fil_haemagg: domain 1 of 3, from 435 to 501: score 0.1, E = 27
CS EEESSEEEETT TT--EE-SEEEEEE-STT-EEEE-S-EEES
*->vaaGaltlnaa......alggldlnnggtlsagggltltaagllnng
+++Galt++ + + +++++ + tl +gg t t ++++
gi|7821402 435 ASTGALTVTGIdlpaysGATNDIDISKLTLTGEGGATYTLTSDDV-- 479
CS SE...................EEEEESS-EEEEE
gtliaggdlllaagalrnggdltltaaGdLdnsg<-*
l+++ +tl+aa++L+++g
gi|7821402 480 -ELTSSTEFS-----------ITLNAADQLQLAG 501
Fn_bind: domain 1 of 2, from 455 to 471: score 1.4, E = 23
CS XXXXX--..---------
*->eviDitEPDTqpgmSGqs<-*
+ iDi++ T++g+ G +
gi|7821402 455 NDIDISK-LTLTGEGGAT 471
NifT: domain 1 of 2, from 480 to 493: score 1.9, E = 6.8
*->plpadtrLPiTveA<-*
+l + t++ iT++A
gi|7821402 480 ELTSSTEFSITLNA 493
Chlam_PMP: domain 1 of 2, from 500 to 518: score 2.4, E = 24
*->ditFsgNsaaggGGAiyas<-*
+ +++N++++gGG +y+
gi|7821402 500 AGLLNKNGTSSGGGTTYNI 518
DUF843: domain 1 of 2, from 502 to 510: score 0.3, E = 5.6
*->ILNKN.nSS<-*
+LNKN++SS
gi|7821402 502 LLNKNgTSS 510
HIM: domain 1 of 1, from 544 to 564: score 5.4, E = 1.6
CS EEEE--S...-EETT-TT--CC
*->ItNVasGeitvtktDAvnvsQL<-*
++NVa+ ++t + DA+++ +L
gi|7821402 544 VSNVAAPTLTSASYDASTG-AL 564
Fil_haemagg: domain 2 of 3, from 559 to 625: score 0.1, E = 27
CS EEESSEEEETT TT--EE-SEEEEEE-STT-EEEE-S-EEES
*->vaaGaltlnaa......alggldlnnggtlsagggltltaagllnng
+++Galt++ + + +++++ + tl +gg t t ++++
gi|7821402 559 ASTGALTVTGIdlpaysGATNDIDISKLTLTGEGGATYTLTSDDV-- 603
CS SE...................EEEEESS-EEEEE
gtliaggdlllaagalrnggdltltaaGdLdnsg<-*
l+++ +tl+aa++L+++g
gi|7821402 604 -ELTSSTEFS-----------ITLNAADQLQLAG 625
Fn_bind: domain 2 of 2, from 579 to 595: score 1.4, E = 23
CS XXXXX--..---------
*->eviDitEPDTqpgmSGqs<-*
+ iDi++ T++g+ G +
gi|7821402 579 NDIDISK-LTLTGEGGAT 595
NifT: domain 2 of 2, from 604 to 617: score 1.9, E = 6.8
*->plpadtrLPiTveA<-*
+l + t++ iT++A
gi|7821402 604 ELTSSTEFSITLNA 617
Chlam_PMP: domain 2 of 2, from 624 to 642: score 2.4, E = 24
*->ditFsgNsaaggGGAiyas<-*
+ +++N++++gGG +y+
gi|7821402 624 AGLLNKNGTSSGGGTTYNI 642
DUF843: domain 2 of 2, from 626 to 634: score 0.3, E = 5.6
*->ILNKN.nSS<-*
+LNKN++SS
gi|7821402 626 LLNKNgTSS 634
SBBP: domain 3 of 3, from 659 to 685: score 0.5, E = 33
*->asifgngIavDsnGNiYvtGstngnnfe<-*
a+ +gn I+v + N+ vtGs+ g +
gi|7821402 659 ADLTGNAITVSNFNNAPVTGSASG-TLA 685
Fil_haemagg: domain 3 of 3, from 679 to 750: score 5.6, E = 0.69
CS EEESSEEEETTTT--EE-SEEEEEE-STT-EEEE-S-EEESSE....
*->vaaGaltlnaaalggldlnnggtlsagggltltaagllnnggtliag
a+G+l + + +g++ + + t+ + ++++ +a + g ++a
gi|7821402 679 SASGTLAFTEG-DGATVIDPSLTITDDDDTNIESATITISSGYQSAE 724
CS ...............EEEEESS-EEEEE
gdlllaagalrnggdltltaaGdLdnsg<-*
l + +++++g t++G L+++g
gi|7821402 725 DVLAFSDTSAITG--SWNTSTGVLTLTG 750
Glyco_hydro_53: domain 1 of 1, from 780 to 1117: score 1.1, E = 4.7
CS -TTHHH
*->vSslne.........................................
+S+++++++++++ +++ + + ++ + ++++ ++ ++ +++++
gi|7821402 780 ISWVVNdgtdsssavtsrvtitavndapvlttptagsiaetagssdn 826
CS
..................................................
++++ +++ + ++ ++++ + ++++++++ ++ ++ ++ + +++++
gi|7821402 827 ttsgltgtlsasdadgdtltyainggsttdgvstlagsygslslntstga 876
CS
..................................................
+++++ + +++++ ++ + + ++++++++ + + + ++ +++++
gi|7821402 877 yaytpdssavkalddgdsaadsftltasdstdttsatytvnltgadeptp 926
CS
..................................................
++++++++++++++++++++++++++++++++++++++++++ + ++ ++
gi|7821402 927 sptptpsptptpspspdpstsptpspspdpstsptpsskssnvklpsidd 976
CS
..................................................
++++++++ + ++++ ++++ ++ +++++++ +++++++ + ++
gi|7821402 977 attqqetstfelinptkvrekeinsiivgtekkekitgtssgeiiagmsg 1026
CS
..................................................
+++ ++++++++ +++++ +++++++ + +++++++ +++ + +
gi|7821402 1027 kdeikgsggsdgflfqdpnnfgkkerdtildftpkegdsllidkdvfdfg 1076
CS .HHHTT--..-B-TTS-B
.........................YlEaaGvsyiykneNGqt<-*
++ + + +++++ +++++++ + Y+E G ++neNG++
gi|7821402 1077 nnlkvkaiknkkeakkqddskadfiYEEKKGLL--WYNENGKK 1117
PKD: domain 1 of 1, from 900 to 918: score 2.6, E = 3
CS EEEEEETTCEEEEEEEEEEE
*->tLtvsngvgsasattttvtV<-*
tLt+s++ ++sat tv
gi|7821402 900 TLTASDSTDTTSAT-YTVNL 918
DUF2510: domain 1 of 1, from 921 to 938: score 3.8, E = 2.1
*->avqpaaaappaPaaapqP<-*
a+ p++++ p+P+++p+P
gi|7821402 921 ADEPTPSPTPTPSPTPTP 938
DUF1711: domain 1 of 1, from 952 to 971: score 4.3, E = 0.46
*->nspgssTAPvsAseesatkv<-*
+sp +sT+P ++s s +k+
gi|7821402 952 PSPDPSTSPTPSSKSSNVKL 971
HemolysinCabind: domain 1 of 1, from 1022 to 1039: score 5.4, E = 1.8
CS E--SSS-EEEEESSCGEE
*->yGGaGnDtLyGgaGnDtl<-*
G G D + G +G D +
gi|7821402 1022 AGMSGKDEIKGSGGSDGF 1039
DUF1493: domain 1 of 1, from 1039 to 1059: score 1.2, E = 4.7
*->sllsnPeyFKkkrdlepepvppLt<-*
+l+ P F+kk e +++ ++t
gi|7821402 1039 FLFQDPNNFGKK---ERDTILDFT 1059
PyrI: domain 1 of 1, from 1076 to 1086: score 2.8, E = 4.3
CS -----B---SS
*->mneLqVkaIkN<-*
n L+VkaIkN
gi|7821402 1076 GNNLKVKAIKN 1086
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