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:
35 projects found  

1 accessions found for Syntrophus aciditrophicus SB  

Data for CP000252  

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: CP000252.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
-------- ----------- ----- ------- ---
CP000252_0788 CDS_804483-806042 67.7 9.1e-20 1
CP000252_2318 CDS_2369464-2371212 47.4 8.4e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000252_0788 1/1 317 383 .. 1 70 [] 67.7 9.1e-20
CP000252_2318 1/1 377 442 .. 1 70 [] 47.4 8.4e-14

Alignments of top-scoring domains:
CP000252_0788: domain 1 of 1, from 317 to 383: score 67.7, E = 9.1e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARE+HD++gQsL+a k+ l+++ +++ +++ + + ++++
CP000252_0 317 ERTRIAREIHDELGQSLTAFKMDLSWLGKRM--TSEK-LLHDKIKAM 360

relarealaevRrllgdLRpaal<-*
+l++++++ v r+ dLRp+ l
CP000252_0 361 SGLVDRTIESVHRISADLRPGLL 383

CP000252_2318: domain 1 of 1, from 377 to 442: score 47.4, E = 8.4e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ IA ELHD +gQ+L++ +++le++++l+ +eal+ei
CP000252_2 377 ERRLIATELHDHIGQTLAVTRIKLEMLHALA--SYS--GFAEALEEI 419

relarealaevRrllgdLRpaal<-*
++ +++a++e+R l + L p+++
CP000252_2 420 QGFVKQAIQETRSLMTKLSPPVF 442


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-14 29 0|===
-13 111 0|============
-12 171 35|===*==============
-11 203 290|===================== *
-10 538 673|====================================================== *
-9 530 765|===================================================== *
-8 444 589|============================================= *
-7 376 370|====================================*=
-6 249 209|====================*====
-5 228 112|===========*===========
-4 118 58|=====*======
-3 65 30|==*====
-2 45 15|=*===
-1 29 7|*==
0 9 3|*
1 6 2|*
2 6 1|*
3 3 0|=
4 3 0|=
5 1 0|=
> 6 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1020.7460
P(chi-square) = 0

Total sequences searched: 3168

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: