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: 116074347.fa
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Query sequence: gi|116074347|ref|ZP_01471609.1|
Accession: [none]
Description: hypothetical protein RS9916_37892 [Synechococcus sp. RS9916]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Rrf2 Transcriptional regulator 7.6 0.087 1
FG-GAP FG-GAP repeat 8.4 0.19 1
YadA YadA-like C-terminal region 6.3 0.21 1
DDRGK DDRGK domain 4.3 0.5 1
ApoL Apolipoprotein L 3.9 1.3 1
Ribosomal_S27 Ribosomal protein S27a 5.4 1.4 1
DUF2007 Protein of unknown function (DUF2007) 4.3 1.8 1
ABC_transp_aux ABC-type uncharacterized transport sy 2.7 1.9 1
DUF13 Domain of unknown function DUF13 4.3 2 1
DUF522 Protein of unknown function (DUF522) 0.9 4.1 1
PUA PUA domain 3.5 4.1 1
cobW CobW/HypB/UreG, nucleotide-binding do 1.7 4.2 1
TruB-C_2 Pseudouridine synthase II TruB, C-ter 2.7 4.6 1
Gp5_C Gp5 C-terminal repeat (3 copies) 3.8 4.7 1
Flagellin_D3 Flagellin D3 domain 3.1 4.9 1
RnaseH RNase H 1.1 4.9 1
MAM33 Mitochondrial glycoprotein 1.0 5 1
LigB Catalytic LigB subunit of aromatic ri 1.2 5 1
DUF561 Protein of unknown function (DUF561) 1.0 5.4 1
DUF1355 Protein of unknown function (DUF1355) 0.9 6.1 1
PTS-HPr PTS HPr component phosphorylation sit 1.9 6.8 1
Glyco_hydro_6 Glycosyl hydrolases family 6 0.3 7.1 1
NosD Periplasmic copper-binding protein (N 2.5 7.5 1
Calreticulin Calreticulin family -0.7 7.5 1
Glyco_hydro_42M Beta-galactosidase trimerisation doma 0.4 7.6 1
AstA Arginine N-succinyltransferase beta s 0.1 8 1
Gemini_C4 Geminivirus C4 protein 1.4 8.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Gemini_C4 1/1 8 22 .. 71 85 .] 1.4 8.9
DUF522 1/1 47 56 .. 269 279 .] 0.9 4.1
PTS-HPr 1/1 52 66 .. 73 87 .] 1.9 6.8
TruB-C_2 1/1 55 75 .. 1 21 [. 2.7 4.6
LigB 1/1 75 90 .. 1 16 [. 1.2 5
DDRGK 1/1 93 108 .. 203 219 .] 4.3 0.5
ABC_transp_aux 1/1 251 284 .. 213 246 .. 2.7 1.9
DUF1355 1/1 259 286 .. 91 118 .. 0.9 6.1
MAM33 1/1 269 276 .. 218 225 .] 1.0 5
Gp5_C 1/1 270 289 .. 1 20 [. 3.8 4.7
Glyco_hydro_42M 1/1 271 284 .. 77 90 .. 0.4 7.6
DUF561 1/1 334 342 .. 89 97 .. 1.0 5.4
PUA 1/1 356 369 .. 1 14 [. 3.5 4.1
Calreticulin 1/1 407 413 .. 382 388 .] -0.7 7.5
DUF2007 1/1 472 484 .. 57 69 .] 4.3 1.8
Ribosomal_S27 1/1 529 543 .. 1 15 [. 5.4 1.4
FG-GAP 1/1 551 567 .. 1 17 [. 8.4 0.19
NosD 1/1 557 567 .. 44 54 .. 2.5 7.5
Glyco_hydro_6 1/1 590 609 .. 1 19 [. 0.3 7.1
cobW 1/1 650 674 .. 197 222 .] 1.7 4.2
AstA 1/1 694 707 .. 333 346 .] 0.1 8
Flagellin_D3 1/1 729 742 .. 65 82 .. 3.1 4.9
YadA 1/1 729 746 .. 63 80 .] 6.3 0.21
Rrf2 1/1 782 797 .. 112 126 .] 7.6 0.087
ApoL 1/1 786 804 .. 299 317 .] 3.9 1.3
RnaseH 1/1 806 825 .. 1 23 [. 1.1 4.9
DUF13 1/1 874 892 .. 76 94 .] 4.3 2
Alignments of top-scoring domains:
Gemini_C4: domain 1 of 1, from 8 to 22: score 1.4, E = 8.9
*->lEEvnrlpTTltpRh<-*
lE n+ TT+ +R+
gi|1160743 8 LEQINNSTTTQGQRQ 22
DUF522: domain 1 of 1, from 47 to 56: score 0.9, E = 4.1
*->illdeEgietv<-*
++ld+E+ e++
gi|1160743 47 LWLDGEQ-EPL 56
PTS-HPr: domain 1 of 1, from 52 to 66: score 1.9, E = 6.8
CS HHHHHHHHHHHHHHT
*->eeeAlaAlvdliake<-*
e+e laA++d+++ +
gi|1160743 52 EQEPLAAISDALSDR 66
TruB-C_2: domain 1 of 1, from 55 to 75: score 2.7, E = 4.6
*->PeVnLdeeqagrilqGQaVrv<-*
P+ +++++++r +GQ+V++
gi|1160743 55 PLAAISDALSDRREHGQPVKA 75
LigB: domain 1 of 1, from 75 to 90: score 1.2, E = 5
CS EEEEE---HHHHHHHH
*->palflSHgPpmlaled<-*
+++++SHg+p +++++
gi|1160743 75 ALHWVSHGSPGVLRVG 90
DDRGK: domain 1 of 1, from 93 to 108: score 4.3, E = 0.5
CS XXXXX.XXXXXXXXXXX
*->RVSiskeLasesNrlId<-*
+V++ L+++sN+lId
gi|1160743 93 KVNRA-ALLAASNQLID 108
ABC_transp_aux: domain 1 of 1, from 251 to 284: score 2.7, E = 1.9
*->dadvLviagPkrdLseqevyaLdqYlmrGGkllv<-*
dad++ i+ Pk+ + +++ L+q++++GG ll+
gi|1160743 251 DADLVYIIFPKSVPTTSQLDNLKQFVEGGGTLLI 284
DUF1355: domain 1 of 1, from 259 to 286: score 0.9, E = 6.1
*->wlrsketpnrLkllkeYVanGGALlMvG<-*
+ +s +t+ +L+ lk+ V++GG Ll G
gi|1160743 259 FPKSVPTTSQLDNLKQFVEGGGTLLISG 286
MAM33: domain 1 of 1, from 269 to 276: score 1.0, E = 5
CS HHHHHHHH
*->LekvkkFv<-*
L+++k+Fv
gi|1160743 269 LDNLKQFV 276
Gp5_C: domain 1 of 1, from 270 to 289: score 3.8, E = 4.7
CS S-EEEEESS-EEEEESSEEE
*->GnesltVkGnrtvtVgGnqT<-*
+n+++ V+G +t+++ G ++
gi|1160743 270 DNLKQFVEGGGTLLISGEWS 289
Glyco_hydro_42M: domain 1 of 1, from 271 to 284: score 0.4, E = 7.6
CS .HHHHHT-SS-EEE
*->kLeayVknGGtLvt<-*
+L+ +V+ GGtL++
gi|1160743 271 NLKQFVEGGGTLLI 284
DUF561: domain 1 of 1, from 334 to 342: score 1.0, E = 5.4
*->dLvEIGNFD<-*
d+vEIGN+D
gi|1160743 334 DIVEIGNYD 342
PUA: domain 1 of 1, from 356 to 369: score 3.5, E = 4.1
CS CEEEETTTTHHHHH
*->grvvvDdGAveAil<-*
g +++Dd+ +eAil
gi|1160743 356 GALEIDDESAEAIL 369
Calreticulin: domain 1 of 1, from 407 to 413: score -0.7, E = 7.5
CS B-EEEEE
*->lFDNIli<-*
lF+NI+i
gi|1160743 407 LFSNIII 413
DUF2007: domain 1 of 1, from 472 to 484: score 4.3, E = 1.8
*->rARriLrDAgleh<-*
+AR++L D+g++
gi|1160743 472 KARAVLSDSGITL 484
Ribosomal_S27: domain 1 of 1, from 529 to 543: score 5.4, E = 1.4
*->avlkYYkvdeeGKve<-*
+l YY vd+eG v+
gi|1160743 529 QKLLYYSVDDEGEVS 543
FG-GAP: domain 1 of 1, from 551 to 567: score 8.4, E = 0.19
CS CCSCEEEC-TTSSSSSE
*->fgssvaagDlnGDGrpD<-*
++++++Dl+GDG++D
gi|1160743 551 VNAGARFYDLDGDGLAD 567
NosD: domain 1 of 1, from 557 to 567: score 2.5, E = 7.5
*->ntDlDgDGIgD<-*
++DlDgDG +D
gi|1160743 557 FYDLDGDGLAD 567
Glyco_hydro_6: domain 1 of 1, from 590 to 609: score 0.3, E = 7.1
CS --CCCHHHHHHHC GGCT-C
*->vnPksaaevwvaA.rnpgDg<-*
v+P++aa+v+ ++ ++ +Dg
gi|1160743 590 VDPSTAASVALDPvIQANDG 609
cobW: domain 1 of 1, from 650 to 674: score 1.7, E = 4.2
CS -S-T....HHHHHHHHHH-SSS-EEE
*->apavgadlekleadlrrlnpeapiip<-*
a +v a+++ dl +l+ +a+i++
gi|1160743 650 ANEV-ASAKTILGDLDQLKERATIVF 674
AstA: domain 1 of 1, from 694 to 707: score 0.1, E = 8
CS HT--TT-EEEEEE-
*->LgVsaGDpVRivpL<-*
L V++G++ R+ L
gi|1160743 694 LLVRNGQSLRFFSL 707
Flagellin_D3: domain 1 of 1, from 729 to 742: score 3.1, E = 4.9
CS E-TT...T-BEEESTT-S
*->tVddPTPadGkVtlaaga<-*
tV++ dG+V++aa+a
gi|1160743 729 TVNS----DGSVSFAASA 742
YadA: domain 1 of 1, from 729 to 746: score 6.3, E = 0.21
*->stnsrgdvgagaGvGYqW<-*
+ ns g+v+++a++G ++
gi|1160743 729 TVNSDGSVSFAASAGLSF 746
Rrf2: domain 1 of 1, from 782 to 797: score 7.6, E = 0.087
CS HH HHHHHHHHHHHHH
*->lr.vweraeeaiedvL<-*
lr+vw++a+ea +d+L
gi|1160743 782 LRgVWAQAREATLDAL 797
ApoL: domain 1 of 1, from 786 to 804: score 3.9, E = 1.3
*->lAqELEekLneLTqiYrkL<-*
+Aq +E L+ LT +Yr
gi|1160743 786 WAQAREATLDALTGFYRVV 804
RnaseH: domain 1 of 1, from 806 to 825: score 1.1, E = 4.9
CS -----EEEEEEESSTTEEEEEEE
*->peavtvYTDGSsngnpgtGgAGy<-*
p++v++ DGS + +G+AGy
gi|1160743 806 PTGVVMAADGSLI---APGAAGY 825
DUF13: domain 1 of 1, from 874 to 892: score 4.3, E = 2
*->KYFpfAVGgenGmqkarVl<-*
++F fA ++ G++ +rVl
gi|1160743 874 TFFAFAKANADGISHFRVL 892
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