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:
35 projects found  

1 accessions found for Myxococcus xanthus DK 1622  

Data for CP000113  

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_3.hmm [HisKA_3]
Sequence database: CP000113.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000113_5995 CDS_7609386-7606144 62.9 5.6e-18 1
CP000113_3963 CDS_4987823-4989106 61.9 1.1e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000113_5995 1/1 867 930 .. 1 70 [] 62.9 5.6e-18
CP000113_3963 1/1 234 299 .. 1 70 [] 61.9 1.1e-17

Alignments of top-scoring domains:
CP000113_5995: domain 1 of 1, from 867 to 930: score 62.9, E = 5.6e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+++ARELHD+ gQ+L+a+kl l+l + + + ++l e+
CP000113_5 867 ERKHLARELHDEFGQALTAVKLNLGLM------NTFASPSVTRLPEV 907

relarealaevRrllgdLRpaal<-*
+l+++ + +vR+l dLRp++l
CP000113_5 908 VALIDRLIGQVRALSVDLRPPQL 930

CP000113_3963: domain 1 of 1, from 234 to 299: score 61.9, E = 1.1e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+ARE+HD++g sLs++++q+e ++ l+ +++ +re+++e+
CP000113_3 234 ERNRMAREIHDGLGASLSSMIIQSEYILNLA--REE--GLREEIREL 276

relarealaevRrllgdLRpaal<-*
+ +a+e+++e+Rr l+ +R++ +
CP000113_3 277 KLTAEESIEELRRSLRMMREDFE 299


Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-14 20 0|=
-13 53 1|*==
-12 106 81|====*=
-11 225 671|============ *
-10 647 1559|================================= *
-9 1159 1770|==========================================================*
-8 969 1364|================================================= *
-7 970 857|==========================================*======
-6 887 485|========================*====================
-5 884 260|============*================================
-4 478 135|======*=================
-3 325 69|===*=============
-2 214 35|=*=========
-1 149 18|*=======
0 84 9|*====
1 62 4|*===
2 35 2|*=
3 27 1|*=
4 14 0|=
5 8 0|=
6 3 0|=
7 3 0|=
8 4 0|=
9 0 0|
10 1 0|=
11 0 0|
> 12 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 7230.1445
P(chi-square) = 0

Total sequences searched: 7331

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: