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:
264 projects found  

2 accessions found for Shewanella sp. ANA-3  

Data for CP000469  

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: CP000469.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
-------- ----------- ----- ------- ---
CP000469_3790 CDS_4584084-4585163 83.2 3.2e-24 1
CP000469_0650 CDS_778071-776275 70.0 2.4e-20 1
CP000469_1143 CDS_1360868-1359708 60.2 1.9e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000469_3790 1/1 171 239 .. 1 70 [] 83.2 3.2e-24
CP000469_0650 1/1 364 433 .. 1 70 [] 70.0 2.4e-20
CP000469_1143 1/1 191 249 .. 1 64 [. 60.2 1.9e-17

Alignments of top-scoring domains:
CP000469_3790: domain 1 of 1, from 171 to 239: score 83.2, E = 3.2e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD g+sLs+i+l++ela++ll +k + a ++l+e
CP000469_3 171 ERERIARDLHDIMGHSLSSIALKAELAEKLL--AKQEYqLATTQLQE 215

irelarealaevRrllgdLRpaal<-*
+ ++are+l+++R++++d+++ +l
CP000469_3 216 LGQIARESLSQIRHTVSDYKHKGL 239

CP000469_0650: domain 1 of 1, from 364 to 433: score 70.0, E = 2.4e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q++l+r+ l d +++++ +l+
CP000469_0 364 ERGVIARELHDSLGQVLSFLKIQISLLRKNL--DHSCRspAIEGQLT 408

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
CP000469_0 409 EINEGVSTAYVQLRELLSTFRLTIK 433

CP000469_1143: domain 1 of 1, from 191 to 249: score 60.2, E = 1.9e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RI+R+LHD +g++L+a++lqlel+ + +p e++ ++ +
CP000469_1 191 ERLRISRDLHDILGHQLTALSLQLELLS-----HQAPSELKPTVNQS 232

relarealaevRrllgd<-*
+ la+e l+ +R+++++
CP000469_1 233 KSLAKELLESIRAVVRA 249


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-14 19 0|==
-13 74 0|=====
-12 156 45|==*=======
-11 268 376|================= *
-10 702 874|============================================ *
-9 892 992|======================================================== *
-8 619 765|======================================= *
-7 486 481|==============================*
-6 338 272|================*=====
-5 248 146|=========*======
-4 117 76|====*===
-3 75 39|==*==
-2 43 20|=*=
-1 35 10|*==
0 16 5|*
1 7 2|*
2 6 1|*
3 5 0|=
4 1 0|=
5 0 0|
> 6 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 618.2087
P(chi-square) = 0

Total sequences searched: 4111

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: 21K


Acknowledgements:

This research is funded by:

Developed by: