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:
39 projects found  

1 accessions found for Synechococcus sp. JA-3-3Ab  

Data for CP000239  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000239.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
-------- ----------- ----- ------- ---
CP000239_1570 CDS_1658044-1653665 96.1 4.6e-27 1
CP000239_2695 CDS_2856835-2852264 95.0 9.4e-27 1
CP000239_2527 CDS_2675506-2677509 93.1 3.3e-26 1
CP000239_0876 CDS_924902-926623 82.0 4.5e-23 1
CP000239_2638 CDS_2799542-2797035 76.2 2e-21 1
CP000239_2631 CDS_2793174-2795138 75.3 3.7e-21 1
CP000239_0243 CDS_260417-257307 70.1 1.1e-19 1
CP000239_2445 CDS_2597696-2594766 70.1 1.1e-19 1
CP000239_2081 CDS_2204712-2203378 69.0 2.3e-19 1
CP000239_2428 CDS_2573294-2576749 68.3 3.4e-19 1
CP000239_2235 CDS_2360345-2359086 65.5 2.1e-18 1
CP000239_1278 CDS_1359018-1361663 60.9 4.3e-17 1
CP000239_1569 CDS_1653678-1652449 56.2 9.5e-16 1
CP000239_0608 CDS_646673-647806 46.3 6e-13 1
CP000239_2656 CDS_2816491-2817261 43.1 4.7e-12 1
CP000239_0759 CDS_803159-804700 33.7 2.2e-09 1
CP000239_2450 CDS_2600963-2602072 31.3 1e-08 1
CP000239_0760 CDS_804796-805575 27.7 1.1e-07 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000239_1570 1/1 823 888 .. 1 87 [] 96.1 4.6e-27
CP000239_2695 1/1 848 913 .. 1 87 [] 95.0 9.4e-27
CP000239_2527 1/1 406 474 .. 1 87 [] 93.1 3.3e-26
CP000239_0876 1/1 313 380 .. 1 87 [] 82.0 4.5e-23
CP000239_2638 1/1 603 668 .. 1 87 [] 76.2 2e-21
CP000239_2631 1/1 409 476 .. 1 87 [] 75.3 3.7e-21
CP000239_0243 1/1 784 849 .. 1 87 [] 70.1 1.1e-19
CP000239_2445 1/1 740 806 .. 1 87 [] 70.1 1.1e-19
CP000239_2081 1/1 197 263 .. 1 87 [] 69.0 2.3e-19
CP000239_2428 1/1 929 994 .. 1 87 [] 68.3 3.4e-19
CP000239_2235 1/1 192 256 .. 1 87 [] 65.5 2.1e-18
CP000239_1278 1/1 643 708 .. 1 87 [] 60.9 4.3e-17
CP000239_1569 1/1 182 247 .. 1 87 [] 56.2 9.5e-16
CP000239_0608 1/1 147 216 .. 1 87 [] 46.3 6e-13
CP000239_2656 1/1 37 104 .. 1 87 [] 43.1 4.7e-12
CP000239_0759 1/1 282 328 .. 1 67 [. 33.7 2.2e-09
CP000239_2450 1/1 154 221 .. 1 87 [] 31.3 1e-08
CP000239_0760 1/1 31 94 .. 1 87 [] 27.7 1.1e-07

Alignments of top-scoring domains:
CP000239_1570: domain 1 of 1, from 823 to 888: score 96.1, E = 4.6e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aksefla++sHE+RTP++aI+g+a lLl+ t l+++q
CP000239_1 823 AKSEFLATISHEIRTPINAIMGMAGLLLD---------TSLDAQQ-- 858

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ ++ti+ +e ll+Lind+Ld+s+ie++
CP000239_1 859 ----------RDWVQTIRYGSEVLLSLINDILDFSKIESQ 888

CP000239_2695: domain 1 of 1, from 848 to 913: score 95.0, E = 9.4e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks fla++sHE+RTP++a++g++ lLle t+l++eq
CP000239_2 848 AKSSFLATMSHEIRTPMNAVLGMTGLLLE---------TPLNAEQ-- 883

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+++eti+ +++ ll Lind+Ld+s++e g
CP000239_2 884 ----------RDFVETIRVSGDALLTLINDILDFSKLEVG 913

CP000239_2527: domain 1 of 1, from 406 to 474: score 93.1, E = 3.3e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak +f++n+sHELRTPL +I+ ++e+L e++ + +s+e+r
CP000239_2 406 AKAQFISNISHELRTPLFSIKSFIETLYEYG-------EQMSPEER- 444

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+yle++ re++rl rL+nd+Ldlsr+e+g
CP000239_2 445 ----------LDYLEIANRETDRLTRLVNDVLDLSRLESG 474

CP000239_0876: domain 1 of 1, from 313 to 380: score 82.0, E = 4.5e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks+flan sHELRTPL++I+g++ l l+++ +e ee+
CP000239_0 313 LKSQFLANTSHELRTPLNGIIGFIRLVLDGM-------AESREEE-- 350

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l+ ++r+a +ll+Lind+Ld+++ieag
CP000239_0 351 ----------LDFLQEAYRSALHLLALINDVLDIAKIEAG 380

CP000239_2638: domain 1 of 1, from 603 to 668: score 76.2, E = 2e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++fl+++sHELRTP+t ++++++lL++ ++++++r
CP000239_2 603 LKDDFLSTVSHELRTPITNMKMAIQLLKM----------ARTPQKR- 638

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl+++++e er +LindlLdl r+e+g
CP000239_2 639 ----------EQYLQILEQECEREAELINDLLDLQRLEQG 668

CP000239_2631: domain 1 of 1, from 409 to 476: score 75.3, E = 3.7e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
akse++a + HELRTPL++I+ +e L d++++ e r
CP000239_2 409 AKSELIAVIGHELRTPLSTIQVCLESLAG--------DPDMPLERR- 446

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l+ +l++a rl++L++d+L+ls++e+g
CP000239_2 447 ----------QEMLNAALQDAGRLRELVQDFLTLSKLESG 476

CP000239_0243: domain 1 of 1, from 784 to 849: score 70.1, E = 1.1e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+efl+++sHELRTPLt++++++++L+ lse q+
CP000239_0 784 LKEEFLSMVSHELRTPLTSMKMALKMLEV---------RGLSEAQI- 820

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y++++++e + l+L+ndlLdl r+eag
CP000239_0 821 -----------PYFNILKQEWQKELDLVNDLLDLQRLEAG 849

CP000239_2445: domain 1 of 1, from 740 to 806: score 70.1, E = 1.1e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++fl+++sHELRTP++ +r+++++L+ ++ ++e++
CP000239_2 740 LKDDFLSTVSHELRTPMANVRMALQMLQI---------AHNNSEKQ- 776

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y+ ++l+e +r +LindlLd+ r+ a+
CP000239_2 777 ----------QHYFAIALKECNRQIELINDLLDMQRLAAE 806

CP000239_2081: domain 1 of 1, from 197 to 263: score 69.0, E = 2.3e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +f+a++sHELR PL++I+++++++l+ d++l++++
CP000239_2 197 QLKQFTADASHELRSPLASIQTTVQVALA--------DPHLDADT-- 233

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ + ++r rl rL++dlL l+r ++g
CP000239_2 234 ----------RQRWQMVERLCLRLGRLVDDLLFLARHDSG 263

CP000239_2428: domain 1 of 1, from 929 to 994: score 68.3, E = 3.4e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++f++++sHELRTPL+++++++++L+ ++see+r
CP000239_2 929 LKDDFISTVSHELRTPLASLKMALKMLQI----------ARSEEKR- 964

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y+ +++re +r +LindlLdl r++a+
CP000239_2 965 ----------AQYFLIAERECQREIELINDLLDLQRLQAE 994

CP000239_2235: domain 1 of 1, from 192 to 256: score 65.5, E = 2.1e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++++++HEL+TPLt+Ir++ae+L ++ q
CP000239_2 192 QRDRWASDVAHELKTPLTSIRLLAETLHS----------RVDAAQ-- 226

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +e++l+e+ rl++L++dlL+ls + g
CP000239_2 227 ----------AVWVERLLNETLRLSQLVQDLLELSALNLG 256

CP000239_1278: domain 1 of 1, from 643 to 708: score 60.9, E = 4.3e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+efl ++sHE+RTPLt +++++ L + ++l+e +
CP000239_1 643 LKDEFLHMVSHEMRTPLTNMKLAIGFLSR---------ANLTERE-- 678

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl++++ e++r l+Lin+lL+l ieag
CP000239_1 679 ----------QRYLQILEMETNRELDLINELLELQAIEAG 708

CP000239_1569: domain 1 of 1, from 182 to 247: score 56.2, E = 9.5e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ fla++sHEL TPLt I++++elL++ t+l+e+q
CP000239_1 182 LKDHFLATVSHELCTPLTKIKLALELLRR---------TPLNEKQ-- 217

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+y +++l+e e +Lin+lLdl +e
CP000239_1 218 ----------RQYHDIALQECEAEIQLINRLLDLQGLEGK 247

CP000239_0608: domain 1 of 1, from 147 to 216: score 46.3, E = 6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++ la+l H+LR PLta +++e+L+ + ++ +++
CP000239_0 147 FKDRVLAMLVHDLRSPLTATALAVETLQQ---------GREGSLDKA 184

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e r+++e ++++++ ++++i d+L+ +r a
CP000239_0 185 VE--------RQLFEHARQQLRKMDSMITDILESARGSAS 216

CP000239_2656: domain 1 of 1, from 37 to 104: score 43.1, E = 4.7e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++e+l ++ HELR+PL++ +g ++l l +l s e+
CP000239_2 37 FQQELLVSIGHELRNPLSSQMGSLQLVLSDL--------CDSREEE- 74

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
reyl+++++++erl +L+++ l+r + +
CP000239_2 75 ----------REYLQSAKEAVERLIQLLEEYSRLARHDLP 104

CP000239_0759: domain 1 of 1, from 282 to 328: score 33.7, E = 2.2e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ e+l++l HE+ TPL++Ir++++l+l+ + +l++
CP000239_0 282 SEAELLRALIHEIQTPLSTIRTLVSLILK--------RRDLPPRV-- 318

peLRledpeyreyletilre<-*
rey+e+i+re
CP000239_0 319 ----------REYVEKIDRE 328

CP000239_2450: domain 1 of 1, from 154 to 221: score 31.3, E = 1e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f+a+l H+L+TPL a ++++L+ ++ l +e+r
CP000239_2 154 RREAFTATLVHDLKTPLIAFGHLLSALKQ--------EQQLQPEER- 191

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l++il+e +r l+L++++ + r+e g
CP000239_2 192 ----------LALLDRILQENQRNLSLVQRMVEAHRLERG 221

CP000239_0760: domain 1 of 1, from 31 to 94: score 27.7, E = 1.1e-07
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ l++l HE+R+PLta++++a+lL++ l++++r
CP000239_0 31 LSAQQLSTLLHEMRNPLTALSTLAKLLQK----------RLPPDDR- 66

peLRledpeyreylet.ilreaerllrLindlLdlsrieag<-*
+ +i++e ++l++L+ +l +r++
CP000239_0 67 ----------NHWIGLsIEQECKHLQDLLAEL---ERLDGI 94


Histogram of all scores:
score obs exp (one = represents 9 sequences)
----- --- ---
-15 2 0|=
-14 18 0|==
-13 63 2|*======
-12 125 63|======*=======
-11 254 327|============================= *
-10 450 606|================================================== *
-9 493 626|======================================================= *
-8 479 469|====================================================*=
-7 327 295|================================*====
-6 193 170|==================*===
-5 143 93|==========*=====
-4 76 49|=====*===
-3 43 26|==*==
-2 30 13|=*==
-1 17 7|*=
0 14 3|*=
1 5 1|*
2 6 1|*
3 1 0|=
> 4 21 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 235.2348
P(chi-square) = 6.366e-314

Total sequences searched: 2760

Whole sequence top hits:
tophits_s report:
Total hits: 18
Satisfying E cutoff: 18
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 18
Satisfying E cutoff: 18
Total memory: 28K


Acknowledgements:

This research is funded by:

Developed by: