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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  

1 accessions found for Rhodopseudomonas palustris BisA53  

Data for CP000463  

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: CP000463.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
-------- ----------- ----- ------- ---
CP000463_2795 CDS_3171532-3170138 50.4 1.7e-14 1
CP000463_0631 CDS_700668-701807 50.1 2.2e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000463_2795 1/1 255 325 .. 1 70 [] 50.4 1.7e-14
CP000463_0631 1/1 176 242 .. 1 70 [] 50.1 2.2e-14

Alignments of top-scoring domains:
CP000463_2795: domain 1 of 1, from 255 to 325: score 50.4, E = 1.7e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
ER+ IARELHD+ g L+a++ +++ + r++ + + ++ +++++
CP000463_2 255 ERKEIARELHDEFGPFLFALRAHAGSLTRMA--ALPSPdiaALQKHG 299

deirelarealaevRrllgdLRpaal<-*
+++ e ++ ++ Rr+l +LRpa+l
CP000463_2 300 AAMLEQINALQRSNRRVLERLRPAGL 325

CP000463_0631: domain 1 of 1, from 176 to 242: score 50.1, E = 2.2e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARELHD +gQs ++ l+l++++r + + ++ + e ++
CP000463_0 176 ERKRIARELHDNLGQSVVLVQLGLDAIARSV--PIHN-DIVEKTVAL 219

relarealaevRrllgdLRpaal<-*
+++ar+ + + r++++ Rp al
CP000463_0 220 KRIARDIGTSLHRIAWEVRPVAL 242


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 9 0|=
-13 63 0|=====
-12 132 54|===*=====
-11 191 447|============= *
-10 607 1037|========================================= *
-9 875 1178|==========================================================*
-8 704 907|=============================================== *
-7 646 570|=====================================*======
-6 491 323|=====================*===========
-5 494 173|===========*=====================
-4 234 90|=====*==========
-3 156 46|===*=======
-2 116 23|=*======
-1 68 12|*====
0 36 6|*==
1 17 3|*=
2 11 1|*
3 14 0|=
4 2 0|=
5 0 0|
6 3 0|=
7 2 0|=
8 0 0|
9 2 0|=
10 0 0|
> 11 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2496.4705
P(chi-square) = 0

Total sequences searched: 4878

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: