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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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Data for CP000097  

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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)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000097.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]
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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
-------- ----------- ----- ------- ---
CP000097_0544 CDS_557900-555810 85.5 3.9e-24 1
CP000097_1564 CDS_1527688-1529124 74.5 5.3e-21 1
CP000097_1752 CDS_1702458-1701163 43.5 3.1e-12 1
CP000097_0267 CDS_283538-282414 40.1 2.8e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000097_0544 1/1 416 484 .. 1 87 [] 85.5 3.9e-24
CP000097_1564 1/1 256 323 .. 1 87 [] 74.5 5.3e-21
CP000097_1752 1/1 185 251 .. 1 87 [] 43.5 3.1e-12
CP000097_0267 1/1 130 196 .. 1 87 [] 40.1 2.8e-11

Alignments of top-scoring domains:
CP000097_0544: domain 1 of 1, from 416 to 484: score 85.5, E = 3.9e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+s+f++n+sHELRTPL I+ y+e+L + + + l+e+++
CP000097_0 416 AQSRFISNVSHELRTPLFNIKSYVETLHDLG-------DQLTEDEK- 454

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l ++ +e++rl rL+nd+Ldlsr+e+g
CP000097_0 455 ----------KEFLGVANDETDRLTRLVNDVLDLSRLESG 484

CP000097_1564: domain 1 of 1, from 256 to 323: score 74.5, E = 5.3e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f++++sHELRTPLt ++gy++ +++ ++ls+eq
CP000097_1 256 QQRQFVSAVSHELRTPLTIVQGYIHRTIKRG-------DNLSSEQ-- 293

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l+t+++e+ r++rL ++lLdlsr ++g
CP000097_1 294 ----------VHGLQTAKDESIRMQRLMDELLDLSRGDSG 323

CP000097_1752: domain 1 of 1, from 185 to 251: score 43.5, E = 3.1e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ +l HELRTPL+ + g+++ L + l++
CP000097_1 185 QQQRFMTDLTHELRTPLAIVNGNLQRLSR--------FKGLPSAA-- 221

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r l + +e++r++rLi+ l l+r+
CP000097_1 222 ----------RSRLAMAGEEVDRIRRLIEHLSLLTRLKVD 251

CP000097_0267: domain 1 of 1, from 130 to 196: score 40.1, E = 2.8e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ l +l H+LR+PL+a+r+ya+l+ + + e ++ +
CP000097_0 130 QQRNQLKTLVHQLRNPLAALRTYAQLMMR--------RLEPDSAH-- 166

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ il e ++l r i+ l l r +
CP000097_0 167 ----------LSLVDGILTEQHQLGRYIDALENLGRQSLP 196


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 1 0|=
-14 12 0|==
-13 41 1|*=====
-12 129 52|======*==========
-11 218 273|============================ *
-10 388 506|================================================= *
-9 457 523|==========================================================*
-8 376 391|=============================================== *
-7 249 246|==============================*=
-6 171 142|=================*====
-5 111 77|=========*====
-4 60 41|=====*==
-3 39 22|==*==
-2 24 11|=*=
-1 11 6|*=
0 8 3|*
1 2 1|*
2 0 0|
3 0 0|
> 4 7 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 217.0677
P(chi-square) = 3.989e-310

Total sequences searched: 2304

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: