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Classification of phyla is from NCBI page
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2 accessions found for Variovorax paradoxus S110  

Data for CP001635  

Available Atlases
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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: CP001635.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
-------- ----------- ----- ------- ---
CP001635_3944 CDS_4236631-4235261 59.8 3.1e-17 1
CP001635_3015 CDS_3215737-3217116 45.1 6.6e-13 1
CP001635_4059 CDS_4351726-4353045 44.0 1.4e-12 1
CP001635_1520 CDS_1651562-1649871 30.9 1.1e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001635_3944 1/1 249 316 .. 1 70 [] 59.8 3.1e-17
CP001635_3015 1/1 248 315 .. 1 70 [] 45.1 6.6e-13
CP001635_4059 1/1 242 308 .. 1 70 [] 44.0 1.4e-12
CP001635_1520 1/1 373 439 .. 1 70 [] 30.9 1.1e-08

Alignments of top-scoring domains:
CP001635_3944: domain 1 of 1, from 249 to 316: score 59.8, E = 3.1e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER ++ARELHD+ +Q+L ++kl +e a +l d++ ++a al +
CP001635_3 249 ERGHLARELHDGTSQTLVSAKLLIESAVDAL--DRERQPAPPALSKA 293

relarealaevRrllgdLRpaal<-*
+ ++++l evRr+ ++LRpa l
CP001635_3 294 LQRLNDSLIEVRRISHRLRPALL 316

CP001635_3015: domain 1 of 1, from 248 to 315: score 45.1, E = 6.6e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ IARELHD++gQs +a++ ++ +++++ ++ +++ ++a++ i
CP001635_3 248 ERRLIARELHDELGQSVTAMRSMALSIAQRV--QALDPQSEQAARLI 292

relarealaevRrllgdLRpaal<-*
+e + + ++ + ++ +L p +l
CP001635_3 293 AEESGRLYTAMHGMIPRLTPLVL 315

CP001635_4059: domain 1 of 1, from 242 to 308: score 44.0, E = 1.4e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER +ARELHD++g L+a+kl + +++ +l ++p a ++l+ +
CP001635_4 242 ERGYLARELHDELGSLLTAAKLDVARLKSRL--LEAP-DATQRLQHL 285

relarealaevRrllgdLRpaal<-*
el++ ++a Rr++ dLRp+ l
CP001635_4 286 TELLNSGIALKRRIIEDLRPSSL 308

CP001635_1520: domain 1 of 1, from 373 to 439: score 30.9, E = 1.1e-08
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER I+ +LHD+ Q ++kl+l+++r+ + +d+ ++ e ld +
CP001635_1 373 ERLKISLDLHDTAIQPYIGLKLGLSALRKKA--GADN-PLVEDLDKL 416

relarealaevRrllgdLRpaal<-*
+ +a+ a++R+ +g +++++
CP001635_1 417 ASMADGVVADLRHYAGIVKHGGE 439


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-14 9 0|=
-13 49 0|====
-12 100 58|===*===
-11 179 480|============ *
-10 585 1114|===================================== *
-9 891 1265|======================================================== *
-8 798 975|================================================== *
-7 716 613|======================================*======
-6 598 347|=====================*================
-5 580 186|===========*=========================
-4 267 97|======*==========
-3 183 49|===*========
-2 119 25|=*======
-1 68 13|*====
0 31 6|*=
1 26 3|*=
2 20 1|*=
3 5 0|=
4 4 0|=
5 1 0|=
6 0 0|
7 0 0|
8 1 0|=
9 2 0|=
10 0 0|
> 11 9 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2960.4280
P(chi-square) = 0

Total sequences searched: 5241

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: