Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
132 projects found  

2 accessions found for Brucella abortus S19  

Data for CP000888  

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: CP000888.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
-------- ----------- ----- ------- ---
CP000888_0198 CDS_219190-217847 44.9 5.6e-13 1
CP000888_0674 CDS_753774-755198 35.9 2e-10 1
CP000888_0037 CDS_37370-38440 34.0 6.8e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000888_0198 1/1 228 293 .. 1 87 [] 44.9 5.6e-13
CP000888_0674 1/1 264 322 .. 1 87 [] 35.9 2e-10
CP000888_0037 1/1 129 199 .. 1 87 [] 34.0 6.8e-10

Alignments of top-scoring domains:
CP000888_0198: domain 1 of 1, from 228 to 293: score 44.9, E = 5.6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + f+an +HELRTP++a ++ ++ L + ++++
CP000888_0 228 AERSFTANSAHELRTPIAAALAQTQRLIA---------ETQDKAA-- 263

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ e i+ +++rl+rL + l++l+++e g
CP000888_0 264 ----------RDRGEQIEAALHRLSRLSEKLMQLAKAEGG 293

CP000888_0674: domain 1 of 1, from 264 to 322: score 35.9, E = 2e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++a+l+H+LRTPLt +++ elL +
CP000888_0 264 EREQLAAALAHDLRTPLTRMKLRMELLDD------------------ 292

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++ r+++ ++++ + + d++ e
CP000888_0 293 ----------DALRQSLSRDLNDIEEISRSVIDFATSELA 322

CP000888_0037: domain 1 of 1, from 129 to 199: score 34.0, E = 6.8e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++++++HE +PL aI a++ +++l a++++ +e
CP000888_0 129 TLGQLTSSIAHEVSQPLVAIEISASAGRRWL----AQSPPNNERA-- 169

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++e+i +++r +++++++ lsr e +
CP000888_0 170 ----------AAAIERISADSHRAIEILDRVRRLSRGEKP 199


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-15 1 0|=
-14 8 0|==
-13 15 0|====
-12 49 23|=====*=======
-11 82 122|===================== *
-10 146 227|===================================== *
-9 224 234|======================================================== *
-8 174 175|===========================================*
-7 139 110|===========================*=======
-6 94 63|===============*========
-5 36 34|========*
-4 26 18|====*==
-3 16 9|==*=
-2 11 5|=*=
-1 5 2|*=
0 1 1|*
1 1 0|=
2 1 0|=
> 3 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 105.0165
P(chi-square) = 5.375e-18

Total sequences searched: 1033

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: