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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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39 projects found  

1 accessions found for Synechococcus sp. CC9605  

Data for CP000110  

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: CP000110.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
-------- ----------- ----- ------- ---
CP000110_2080 CDS_1945146-1947212 87.2 1.4e-24 1
CP000110_1584 CDS_1487664-1486534 64.9 3e-18 1
CP000110_0234 CDS_249580-248459 42.4 7.5e-12 1
CP000110_1874 CDS_1736504-1737739 30.3 2e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000110_2080 1/1 416 484 .. 1 87 [] 87.2 1.4e-24
CP000110_1584 1/1 150 214 .. 1 87 [] 64.9 3e-18
CP000110_0234 1/1 130 185 .. 1 76 [. 42.4 7.5e-12
CP000110_1874 1/1 173 229 .. 1 80 [. 30.3 2e-08

Alignments of top-scoring domains:
CP000110_2080: domain 1 of 1, from 416 to 484: score 87.2, E = 1.4e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+s+f++n+sHELRTPL I+ y+e+L + +gd+ ++eq
CP000110_2 416 AQSRFISNVSHELRTPLFNIKSYVETLHD------LGDQLSPDEQ-- 454

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l ++ +e++rl rL+nd+Ldlsr+e+g
CP000110_2 455 ----------KEFLGVANDETDRLTRLVNDVLDLSRLESG 484

CP000110_1584: domain 1 of 1, from 150 to 214: score 64.9, E = 3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++++++HEL+TPLta+++ ++ L+ + e++
CP000110_1 150 QQERWVSDVAHELKTPLTALMLVSDRLEL----------AVKEDD-- 184

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++++e++rl+ L++dlL+lsr+e+
CP000110_1 185 ----------AALVQRLQKELRRLQLLVEDLLELSRLENS 214

CP000110_0234: domain 1 of 1, from 130 to 185: score 42.4, E = 7.5e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ l++l H+LR+PL+a+r+ya+lLl+ + e+++ +
CP000110_0 130 QQNDQLRTLVHQLRNPLAALRTYAQLLLR--------RLEADSSH-- 166

peLRledpeyreyletilreaerllrLin<-*
r ++e +l+e ++l + i+
CP000110_0 167 ----------RPLVEGMLSEQRQLGQYID 185

CP000110_1874: domain 1 of 1, from 173 to 229: score 30.3, E = 2e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++l++++HELRTPLta ++++ ++l+ ++
CP000110_1 173 AQERLLRMVAHELRTPLTAAALALQS------------QKLGQIDM- 206

peLRledpeyreyletilreaerllrLindlLd<-*
++ ++i r +e +++L dlL+
CP000110_1 207 ----------DRFQDVITRRLEEMEALSKDLLE 229


Histogram of all scores:
score obs exp (one = represents 9 sequences)
----- --- ---
-15 1 0|=
-14 11 0|==
-13 41 1|*====
-12 147 60|======*==========
-11 274 312|=============================== *
-10 443 580|================================================== *
-9 498 599|======================================================== *
-8 425 448|================================================ *
-7 325 282|===============================*=====
-6 194 162|=================*====
-5 118 89|=========*====
-4 71 47|=====*==
-3 33 25|==*=
-2 21 13|=*=
-1 11 6|*=
0 10 3|*=
1 8 1|*
2 0 0|
3 0 0|
> 4 7 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 222.4786
P(chi-square) = 2.976e-311

Total sequences searched: 2638

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: