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Thermotogae
Classification of phyla is from NCBI page
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132 projects found  

3 accessions found for Sphingomonas wittichii RW1  

Data for CP000700  

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_1.hmm [HisKA]
Sequence database: CP000700.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000700_0238 CDS_260749-264180 86.8 2.1e-25 1
CP000700_0241 CDS_265584-266717 54.1 3.7e-16 1
CP000700_0179 CDS_195734-194232 36.6 3.6e-11 1
CP000700_0136 CDS_141342-143057 35.7 6.3e-11 1
CP000700_0274 CDS_298189-295901 27.4 1.4e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000700_0238 1/1 474 542 .. 1 87 [] 86.8 2.1e-25
CP000700_0241 1/1 155 220 .. 1 87 [] 54.1 3.7e-16
CP000700_0179 1/1 269 339 .. 1 87 [] 36.6 3.6e-11
CP000700_0136 1/1 65 135 .. 1 87 [] 35.7 6.3e-11
CP000700_0274 1/1 376 444 .. 1 87 [] 27.4 1.4e-08

Alignments of top-scoring domains:
CP000700_0238: domain 1 of 1, from 474 to 542: score 86.8, E = 2.1e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks+flan+sHELRTPL++++ +++lL +++ ++ls+eq+
CP000700_0 474 YKSDFLANMSHELRTPLNSLLILSKLLGDNSQ------GNLSDEQI- 513

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+y +ti+++++ ll Lind+Ldls+ieag
CP000700_0 514 -----------KYANTIESSGNDLLTLINDILDLSKIEAG 542

CP000700_0241: domain 1 of 1, from 155 to 220: score 54.1, E = 3.7e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k+efla l+HELR+P+ a+ + ++l+++ + e++
CP000700_0 155 RKNEFLAVLAHELRNPIMAMGAGLHLMER----------RPDLETA- 190

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + +++l +L++dlLd++ri++g
CP000700_0 191 ----------TMVRGQMSKYVRHLGSLVEDLLDIARIDQG 220

CP000700_0179: domain 1 of 1, from 269 to 339: score 36.6, E = 3.6e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e++++l+HEL++PL+aI y++ ++ +l +++++++ +
CP000700_0 269 ALGEMASALAHELNQPLSAIANYLKGSKM----LLEREEDRNDRVI- 310

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++ ea r ++i++l+d+ ++
CP000700_0 311 -----------DAVGRAAAEALRAGKIIRRLRDFVARGET 339

CP000700_0136: domain 1 of 1, from 65 to 135: score 35.7, E = 6.3e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ Lt + g+++++ + +++ + +++ +
CP000700_0 65 AVGQLTGGIAHDFNNLLTIVTGNIDMASR-----ALEAAGVNDPRA- 105

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l+ + + +er +L +lL +sr +
CP000700_0 106 ----------RRALDNAMKGGERAAALTHRLLAFSRRQPL 135

CP000700_0274: domain 1 of 1, from 376 to 444: score 27.4, E = 1.4e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ L +I+g ++++++ + +++ +
CP000700_0 376 AVGQLTGGIAHDFNNLLQGISGSLDIMRR------RIAQNRLGDM-- 414

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++ r +L +lL +sr +
CP000700_0 415 ----------DRLITMASDASARAAALTHRLLAFSRRQPL 444


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 1 0|=
-12 5 6|=====*
-11 38 33|================================*=====
-10 54 62|====================================================== *
-9 46 64|============================================== *
-8 49 48|===============================================*=
-7 28 30|============================ *
-6 28 17|================*===========
-5 17 9|========*========
-4 7 5|====*==
-3 3 2|=*=
-2 2 1|*=
-1 0 0|
0 1 0|=
1 0 0|
> 2 6 -|======


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 20.1669
P(chi-square) = 0.009723

Total sequences searched: 285

Whole sequence top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: