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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 Caulobacter crescentus NA1000  

Data for CP001340  

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: CP001340.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
-------- ----------- ----- ------- ---
CP001340_0287 CDS_299318-298212 128.7 1.9e-36 1
CP001340_3586 CDS_3743956-3742253 124.3 3.4e-35 1
CP001340_3299 CDS_3479457-3478474 51.6 1.6e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001340_0287 1/1 177 265 .. 1 94 [] 128.7 1.9e-36
CP001340_3586 1/1 368 446 .. 1 84 [. 124.3 3.4e-35
CP001340_3299 1/1 136 186 .. 1 56 [. 51.6 1.6e-14

Alignments of top-scoring domains:
CP001340_0287: domain 1 of 1, from 177 to 265: score 128.7, E = 1.9e-36
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E+ HRVKNNLQ+ISSLL LQ r++ d++v ++ Lr +RV +
CP001340_0 177 EVDHRVKNNLQLISSLLLLQNRRVPDPAV-----KASLRGMLGRVNA 218

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+A++H++L +sed+++ d+s++++ ++++L+ s+++++++++L+l+
CP001340_0 219 IATVHRRLFQSEDVERFDVSAFIRDMVADLMGSAMRDDIRVELDLER 265

CP001340_3586: domain 1 of 1, from 368 to 446: score 124.3, E = 3.4e-35
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ+I+SLL++Q r +d+++ ++a++++++R+ +
CP001340_3 368 EIHHRVKNNLQIITSLLNMQQRALSDPAA-----KAAMNDTRQRITA 409

mAliHEeLYksedldtvdfseYlekLtenLfqsygvg<-*
A+i++ LY++ dl++vd++++le+Lt++L+ s ++g
CP001340_3 410 LAQIYRALYQGPDLKRVDLRPFLEELTAQLLASDMGG 446

CP001340_3299: domain 1 of 1, from 136 to 186: score 51.6, E = 1.6e-14
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
E HHRV NNL v+ +LLrLQ ++de++ + aL E+ +R+
CP001340_3 136 ELHHRVSNNLHVVGALLRLQGAGVQDEDA-----RHALAEAGGRIEL 177

mAliHEeLY<-*
+A i++eL+
CP001340_3 178 IAKIQRELH 186


Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-15 13 0|=
-14 47 0|===
-13 64 24|=*==
-12 278 254|============*=
-11 1131 709|===================================*=====================
-10 867 917|============================================ *
-9 597 774|============================== *
-8 382 519|==================== *
-7 190 308|========== *
-6 166 171|========*
-5 43 92|=== *
-4 47 49|==*
-3 18 25|=*
-2 11 13|*
-1 8 7|*
0 2 3|*
1 0 1|*
> 2 13 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 473.9901
P(chi-square) = 0

Total sequences searched: 3877

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: