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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
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264 projects found  

1 accessions found for Escherichia coli ED1a  

Data for CU928162  

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: CU928162.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CU928162_1344 CDS_1358949-1357153 79.6 4.5e-23 1
CU928162_2841 CDS_2849981-2851681 76.1 4.8e-22 1
CU928162_4248 CDS_4290704-4289202 63.7 2.2e-18 1
CU928162_4893 CDS_4977733-4976192 60.9 1.5e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CU928162_1344 1/1 390 458 .. 1 70 [] 79.6 4.5e-23
CU928162_2841 1/1 361 428 .. 1 70 [] 76.1 4.8e-22
CU928162_4248 1/1 304 370 .. 1 70 [] 63.7 2.2e-18
CU928162_4893 1/1 315 380 .. 1 70 [] 60.9 1.5e-17

Alignments of top-scoring domains:
CU928162_1344: domain 1 of 1, from 390 to 458: score 79.6, E = 4.5e-23
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
CU928162_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + ++R+ll+++R ++
CU928162_1 435 RNELNASWVQLRELLTTFRlQLTE 458

CU928162_2841: domain 1 of 1, from 361 to 428: score 76.1, E = 4.8e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r + ++d++ a+ ++
CU928162_2 361 ERATIARELHDSLAQVLSYLRIQLTLLKRSI--PEDNATAQSIMADF 405

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
CU928162_2 406 SQALNDAYRQLRELLTTFRLTLQ 428

CU928162_4248: domain 1 of 1, from 304 to 370: score 63.7, E = 2.2e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CU928162_4 304 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 347

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CU928162_4 348 EQLSLGVYDAVRRLLGRLRPRQL 370

CU928162_4893: domain 1 of 1, from 315 to 380: score 60.9, E = 1.5e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ +ARELHD++gQ+++ai +q++l+ r ++dp+++ a+ +i
CU928162_4 315 TRKSLARELHDEIGQNITAIQIQSQLVTR----ARDPAQVHSAASQI 357

relarealaevRrllgdLRpaal<-*
elar+ +R+ll++LRp+al
CU928162_4 358 NELARRIHLSTRQLLRQLRPPAL 380


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-16 2 0|=
-15 1 0|=
-14 29 0|==
-13 131 0|=========
-12 233 54|===*===========
-11 308 450|==================== *
-10 826 1045|==================================================== *
-9 944 1186|==========================================================*
-8 762 914|================================================ *
-7 588 575|===================================*=
-6 411 325|====================*=====
-5 302 174|==========*========
-4 162 91|=====*=====
-3 79 46|==*==
-2 67 23|=*===
-1 27 12|*=
0 20 6|*=
1 5 3|*
2 5 1|*
3 5 0|=
4 1 0|=
5 0 0|
6 0 0|
7 1 0|=
8 0 0|
9 1 0|=
> 10 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1063.0396
P(chi-square) = 0

Total sequences searched: 5123

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: