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Classification of phyla is from NCBI page
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2 accessions found for Vibrio cholerae M66-2  

Data for CP001234  

Available Atlases
Other Plots
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)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP001234.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
-------- ----------- ----- ------- ---
CP001234_0642 CDS_629899-626837 94.5 4.8e-27 1
CP001234_0669 CDS_657062-654489 91.9 2.6e-26 1
CP001234_1033 CDS_1035586-1034171 61.6 1.1e-17 1
CP001234_0466 CDS_443008-444501 55.8 4.6e-16 1
CP001234_0226 CDS_258670-260319 52.9 3.1e-15 1
CP001234_0638 CDS_622191-619822 44.3 8.3e-13 2
CP001234_0246 CDS_278364-276910 28.2 3e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001234_0642 1/1 505 570 .. 1 87 [] 94.5 4.8e-27
CP001234_0669 1/1 479 544 .. 1 87 [] 91.9 2.6e-26
CP001234_1033 1/1 254 319 .. 1 87 [] 61.6 1.1e-17
CP001234_0466 1/1 269 337 .. 1 87 [] 55.8 4.6e-16
CP001234_0226 1/1 312 379 .. 1 87 [] 52.9 3.1e-15
CP001234_0638 2/2 563 631 .. 1 87 [] 41.9 4e-12
CP001234_0246 1/1 279 333 .. 1 74 [. 28.2 3e-08

Alignments of top-scoring domains:
CP001234_0642: domain 1 of 1, from 505 to 570: score 94.5, E = 4.8e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks fla++sHE+RTP+++++g+a lL++ t+l++ q
CP001234_0 505 AKSAFLATMSHEIRTPMNGVLGTARLLQD---------TTLTSTQ-- 540

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y+++i r++++ll+++nd+Ld+s+ieag
CP001234_0 541 ----------QHYVQVINRSGRSLLAILNDVLDYSKIEAG 570

CP001234_0669: domain 1 of 1, from 479 to 544: score 91.9, E = 2.6e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ efla +sHELRTPL++++g ++lL++ t+l++eq
CP001234_0 479 VRAEFLAKMSHELRTPLNGVLGVSQLLKR---------TPLNDEQ-- 514

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re + ++ +++e+ll+ +nd+Ld+sr+e+g
CP001234_0 515 ----------REHVAVLCSSGEHLLAVLNDILDFSRLEQG 544

CP001234_1033: domain 1 of 1, from 254 to 319: score 61.6, E = 1.1e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +f+++++HEL+TPLt++r +ae +l+ + eq+
CP001234_1 254 REKRFTRMAAHELKTPLTVLRVNAENALR----------STNQEQL- 289

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ le+i + +er +rLi +lL l++ e+
CP001234_1 290 ----------KQDLERIFKGIERTDRLIHQLLMLAKVEST 319

CP001234_0466: domain 1 of 1, from 269 to 337: score 55.8, E = 4.6e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +la++sH+L+TPL aI+g a +L + + +ls e++
CP001234_0 269 TRTTLLASVSHDLKTPLGAIIGSATTLTD-------PSLHLSTETQ- 307

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l +i +++erl+r + lLd++r a
CP001234_0 308 ----------QELLTSIAEQGERLNRSLTKLLDITRYTAS 337

CP001234_0226: domain 1 of 1, from 312 to 379: score 52.9, E = 3.1e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ ef+an+sHELR P taI+g a++ l+ + ++++
CP001234_0 312 QQKEFFANVSHELRSPATAILGEAQITLR---------SRHNSDD-- 347

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
eyr+ l +i ++ae+l i+dlL l r ++
CP001234_0 348 --------EYRQTLLRISESAEQLAFRIEDLLMLIRHDER 379

CP001234_0638: domain 2 of 2, from 563 to 631: score 41.9, E = 4e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ + +l+HEL++PL+a+++y+ ++ l +e++ q+
CP001234_0 563 VVGQTMTSLAHELNQPLSAMSAYLFSARLAL-------EEAPQAQL- 601

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l+ i++ +er+ +++n l+ ++r +
CP001234_0 602 ----------ATSLDHIENLTERMGKIVNSLRHFARKNSS 631

CP001234_0246: domain 1 of 1, from 279 to 333: score 28.2, E = 3e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ l l HELRTP+t++ +++e L+ ++ +els++
CP001234_0 279 ERRFILQLLTHELRTPITSLGFTVESLRSQF-------DELSPKA-- 316

peLRledpeyreyletilreaerllrL<-*
+e l ++ + +rl +L
CP001234_0 317 ----------QESLWRLMADHQRLAQL 333


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-15 1 0|=
-14 15 0|=====
-13 27 0|=========
-12 69 23|=======*===============
-11 119 123|========================================*
-10 169 229|========================================================= *
-9 177 236|==========================================================*
-8 142 177|================================================ *
-7 119 111|====================================*===
-6 66 64|=====================*
-5 58 35|===========*========
-4 22 18|=====*==
-3 18 9|==*===
-2 15 5|=*===
-1 8 2|*==
> 0 18 -|======


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 164.1255
P(chi-square) = 4.554e-30

Total sequences searched: 1043

Whole sequence top hits:
tophits_s report:
Total hits: 7
Satisfying E cutoff: 7
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 7
Satisfying E cutoff: 7
Total memory: 23K


Acknowledgements:

This research is funded by:

Developed by: