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Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
264 projects found  

1 accessions found for Pseudomonas putida W619  

Data for CP000949  

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_2.hmm [HisKA_2]
Sequence database: CP000949.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
CP000949_2843 CDS_3161554-3160007 75.3 3.9e-21 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000949_2843 1/1 333 416 .. 1 94 [] 75.3 3.9e-21

Alignments of top-scoring domains:
CP000949_2843: domain 1 of 1, from 333 to 416: score 75.3, E = 3.9e-21
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKN+L ++ LL LQa + d v + L+ + +RV +
CP000949_2 333 EIHHRVKNSLHLVNTLLLLQANLTPDAGV-----KLQLETAAGRVVT 374

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A +HE+LY++ d v +Yl L+++L ++ +++++ ++
CP000949_2 375 IASVHERLYQTAD-QEVLACDYLGALLGDLGRALADRKIVLD----A 416


Histogram of all scores:
score obs exp (one = represents 22 sequences)
----- --- ---
-15 6 0|=
-14 24 0|==
-13 76 32|=*==
-12 321 340|===============*
-11 1245 947|===========================================*=============
-10 1143 1226|==================================================== *
-9 897 1035|========================================= *
-8 667 694|===============================*
-7 345 412|================ *
-6 235 229|==========*
-5 89 123|=====*
-4 65 65|==*
-3 34 34|=*
-2 19 17|*
-1 6 9|*
0 4 4|*
1 1 2|*
2 2 1|*
> 3 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 200.5299
P(chi-square) = 2.535e-36

Total sequences searched: 5182

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: