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

1 accessions found for Shewanella loihica PV-4  

Data for CP000606  

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: CP000606.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
-------- ----------- ----- ------- ---
CP000606_3498 CDS_4192016-4193107 84.5 1.2e-24 1
CP000606_0842 CDS_966866-965163 67.4 1.3e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000606_3498 1/1 178 246 .. 1 70 [] 84.5 1.2e-24
CP000606_0842 1/1 364 433 .. 1 70 [] 67.4 1.3e-19

Alignments of top-scoring domains:
CP000606_3498: domain 1 of 1, from 178 to 246: score 84.5, E = 1.2e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD g+sLs+i+l++elar+ll +k +++a ++l+e
CP000606_3 178 ERERIARDLHDIMGHSLSSISLKAELARKLL--AKGQAdQASAELAE 222

irelarealaevRrllgdLRpaal<-*
++++ar++l+++R++++++++ +l
CP000606_3 223 LETIARDSLSQIRQTVSGYKHKGL 246

CP000606_0842: domain 1 of 1, from 364 to 433: score 67.4, E = 1.3e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q+ l+ + l d+ +++++e+l+
CP000606_0 364 ERGVIARELHDSLGQLLSFLKIQVNLLSKGL--DSQCRspQVEEQLK 408

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
CP000606_0 409 EINEGVNTAYVQLRELLSTFRLTIK 433


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-15 1 0|=
-14 11 0|=
-13 84 0|======
-12 140 43|===*======
-11 232 353|================= *
-10 616 820|============================================ *
-9 823 931|==========================================================*
-8 635 718|============================================== *
-7 495 451|================================*===
-6 318 255|==================*====
-5 235 137|=========*=======
-4 105 71|=====*==
-3 65 36|==*==
-2 39 18|=*=
-1 26 9|*=
0 13 4|*
1 7 2|*
2 5 1|*
3 4 0|=
4 1 0|=
5 0 0|
6 1 0|=
7 0 0|
> 8 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 509.6018
P(chi-square) = 0

Total sequences searched: 3859

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: