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Classification of phyla is from NCBI page
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264 projects found  

6 accessions found for Aliivibrio salmonicida LFI1238  

Data for FM178379  

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hmmsearch - search a sequence database with a profile HMM
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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: FM178379.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
FM178379_2519 CDS_2701550-2704339 99.2 6.8e-28 1
FM178379_2131 CDS_2281293-2278417 96.5 4e-27 1
FM178379_1560 CDS_1673233-1671140 85.2 6.4e-24 1
FM178379_0930 CDS_1027355-1029592 79.7 2.3e-22 1
FM178379_2455 CDS_2629700-2628402 77.1 1.3e-21 1
FM178379_2574 CDS_2770458-2773841 76.9 1.4e-21 1
FM178379_2559 CDS_2743762-2741396 72.3 2.9e-20 2
FM178379_2828 CDS_3067406-3063960 52.2 1.4e-14 1
FM178379_2310 CDS_2484826-2483783 51.2 2.8e-14 1
FM178379_1403 CDS_1520143-1522170 47.5 3.1e-13 1
FM178379_2797 CDS_3029888-3031276 47.0 4.3e-13 1
FM178379_0203 CDS_245636-244329 44.3 2.4e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
FM178379_2519 1/1 289 354 .. 1 87 [] 99.2 6.8e-28
FM178379_2131 1/1 455 520 .. 1 87 [] 96.5 4e-27
FM178379_1560 1/1 331 396 .. 1 87 [] 85.2 6.4e-24
FM178379_0930 1/1 372 437 .. 1 87 [] 79.7 2.3e-22
FM178379_2455 1/1 205 272 .. 1 87 [] 77.1 1.3e-21
FM178379_2574 1/1 453 521 .. 1 87 [] 76.9 1.4e-21
FM178379_2559 1/2 282 347 .. 1 87 [] 70.5 9.2e-20
FM178379_2828 1/1 789 854 .. 1 87 [] 52.2 1.4e-14
FM178379_2310 1/1 125 191 .. 1 87 [] 51.2 2.8e-14
FM178379_1403 1/1 444 511 .. 1 87 [] 47.5 3.1e-13
FM178379_2797 1/1 246 308 .. 1 87 [] 47.0 4.3e-13
FM178379_0203 1/1 226 286 .. 1 87 [] 44.3 2.4e-12

Alignments of top-scoring domains:
FM178379_2519: domain 1 of 1, from 289 to 354: score 99.2, E = 6.8e-28
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++++g++ +l+ t ls+ q
FM178379_2 289 VKSEFLANMSHELRTPLNGVIGFTRQMLK---------TSLSDNQ-- 324

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl+ti+r+a+ ll +ind+Ld+s++eag
FM178379_2 325 ----------KDYLQTIERSANNLLTIINDILDFSKLEAG 354

FM178379_2131: domain 1 of 1, from 455 to 520: score 96.5, E = 4e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks fla++sHE+RTPL++++g+ elL+ + l+++q
FM178379_2 455 AKSAFLATMSHEIRTPLNGVLGTGELLRG---------SRLTAQQ-- 490

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y+++i r++e ll+L+nd+Ld+s+ieag
FM178379_2 491 ----------KQYVDIINRSGENLLDLLNDILDYSKIEAG 520

FM178379_1560: domain 1 of 1, from 331 to 396: score 85.2, E = 6.4e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fla++sHE+RTPL+aI+g++++ e + ls eq
FM178379_1 331 AKSQFLAMMSHEIRTPLNAILGMVDVFNE---------SLLSKEQ-- 366

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e l+ ++ +a+ ll++i+d+Ld+srieag
FM178379_1 367 ----------YEWLDQMEVSAQLLLAIISDVLDISRIEAG 396

FM178379_0930: domain 1 of 1, from 372 to 437: score 79.7, E = 2.3e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks+fla +sHE+RTPL++I+g + lL+ + l+ eq
FM178379_0 372 VKSDFLARMSHEIRTPLNGILGISGLLKQ---------AQLPLEQ-- 407

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +++i++ +e+ll+ +nd+Ld+s+ie+
FM178379_0 408 ----------KKQIQIIHQGGEHLLAVLNDILDFSQIEQD 437

FM178379_2455: domain 1 of 1, from 205 to 272: score 77.1, E = 1.3e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f+an+sHELRTP+t++rgy+e+ ++ +++
FM178379_2 205 MRRNFFANVSHELRTPMTVLRGYLEMSED---------PDMLVGP-- 240

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ ++ ++ +++ r++ L+++lL+ls+iea
FM178379_2 241 --------MWNRAHGVMTEQLTRMEGLVEQLLTLSKIEAA 272

FM178379_2574: domain 1 of 1, from 453 to 521: score 76.9, E = 1.4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+efla+ sHELRTPL+++ g ae+L ++++ ++ s+ +
FM178379_2 453 LKDEFLATTSHELRTPLHGMVGIAEALYTGAN------GPISASH-- 491

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r le+i+++++rl +L+ndlLd+ ++++g
FM178379_2 492 ----------RHQLEIIINSGQRLTNLVNDLLDYHKMRHG 521

FM178379_2559: domain 1 of 2, from 282 to 347: score 70.5, E = 9.2e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ f++++sHELRTPL++I g++ +Ll+ t l++eq
FM178379_2 282 DKTTFISTISHELRTPLNGIVGLSRMLLD---------TRLDDEQ-- 317

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y +ti +a l ++ nd+ d+ + +
FM178379_2 318 ----------HNYMRTINVSAITLGNIFNDIIDMDKFDRR 347

FM178379_2828: domain 1 of 1, from 789 to 854: score 52.2, E = 1.4e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k+++la++sH+L +PL+a r++a+ L e +++ e+
FM178379_2 789 SKTRLLAAVSHDLMQPLNAARLFASSLSE---------VAKDGET-- 824

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ i++++ ++Li dlLd+sr+eag
FM178379_2 825 ----------KKISGHIESALGAAEELIGDLLDISRLEAG 854

FM178379_2310: domain 1 of 1, from 125 to 191: score 51.2, E = 2.8e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++a+l+H+ RTPL++ ++ya+ L ++l++ ++
FM178379_2 125 SLGKMVASLAHQVRTPLSSAMLYASNLGS---------PNLPAATH- 161

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++ + ++ l++++nd+L +++ + +
FM178379_2 162 ----------KRFQTKLVDRLHDLEKQVNDMLLFAKGGDN 191

FM178379_1403: domain 1 of 1, from 444 to 511: score 47.5, E = 3.1e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e++a+++HE+++P ++I+g+ael++ el ++ +
FM178379_1 444 SLGELTAGIAHEINNPTAVILGNAELIKYEL-------GDNASVV-- 481

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e l+ i ++++r++++ + lL++sr +
FM178379_1 482 ----------SEELDAIMEQIDRIRNITRSLLQYSRQGGI 511

FM178379_2797: domain 1 of 1, from 246 to 308: score 47.0, E = 4.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++l+++sHELR PLt +r+++ l+ + + +
FM178379_2 246 GQQRLLSDISHELRSPLTRLRMATALATR---------KQGESSE-- 281

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l++i+ eaerl+++i++lL+lsri+ +
FM178379_2 282 -------------LSRIDMEAERLEQMISELLELSRIQVN 308

FM178379_0203: domain 1 of 1, from 226 to 286: score 44.3, E = 2.4e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++a++sH++RTPLt Ir+++e++ ++
FM178379_0 226 DRALLMAGVSHDIRTPLTRIRLATEMMSP---------QD------- 256

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e++++++e ++++i +++d+ + a
FM178379_0 257 ----------DYLAESMIKDTEECNEIIGQFMDYLKPVAK 286


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-14 6 0|=
-13 24 2|*==
-12 190 64|=====*============
-11 264 334|======================== *
-10 488 620|============================================= *
-9 615 641|======================================================== *
-8 394 479|==================================== *
-7 401 302|===========================*=========
-6 174 174|===============*
-5 119 95|========*==
-4 57 51|====*=
-3 34 26|==*=
-2 22 14|=*
-1 8 7|*
0 8 3|*
1 1 2|*
2 2 1|*
3 1 0|=
> 4 15 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 348.5303
P(chi-square) = 0

Total sequences searched: 3069

Whole sequence top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 25K


Acknowledgements:

This research is funded by:

Developed by: