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Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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Data for CP001854  

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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_1.hmm [HisKA]
Sequence database: CP001854.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
-------- ----------- ----- ------- ---
CP001854_3221 CDS_3444894-3443419 84.6 1.8e-23 1
CP001854_5483 CDS_5905470-5908502 83.1 4.7e-23 1
CP001854_5870 CDS_6318468-6319862 79.8 4e-22 1
CP001854_5349 CDS_5753507-5755384 78.1 1.2e-21 1
CP001854_4484 CDS_4808609-4807104 77.6 1.7e-21 1
CP001854_4686 CDS_5025975-5024461 76.7 3e-21 1
CP001854_5424 CDS_5837912-5836458 73.6 2.4e-20 1
CP001854_0292 CDS_299745-301106 70.0 2.5e-19 1
CP001854_0227 CDS_232152-230704 67.0 1.7e-18 1
CP001854_1557 CDS_1654734-1656365 66.9 1.8e-18 1
CP001854_0716 CDS_762816-764207 66.6 2.3e-18 1
CP001854_5705 CDS_6145588-6146991 61.2 7.9e-17 1
CP001854_0296 CDS_303124-304527 60.7 1e-16 1
CP001854_5116 CDS_5501771-5503003 57.3 9.8e-16 1
CP001854_3346 CDS_3581572-3582879 55.2 4e-15 1
CP001854_4363 CDS_4669036-4670532 53.6 1.1e-14 1
CP001854_5329 CDS_5737783-5736236 50.7 7.1e-14 1
CP001854_1403 CDS_1481296-1480139 39.8 9.1e-11 1
CP001854_0518 CDS_541390-540254 36.2 9.6e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001854_3221 1/1 265 329 .. 1 87 [] 84.6 1.8e-23
CP001854_5483 1/1 759 827 .. 1 87 [] 83.1 4.7e-23
CP001854_5870 1/1 248 314 .. 1 87 [] 79.8 4e-22
CP001854_5349 1/1 372 440 .. 1 87 [] 78.1 1.2e-21
CP001854_4484 1/1 279 346 .. 1 87 [] 77.6 1.7e-21
CP001854_4686 1/1 270 337 .. 1 87 [] 76.7 3e-21
CP001854_5424 1/1 248 318 .. 1 87 [] 73.6 2.4e-20
CP001854_0292 1/1 233 299 .. 1 87 [] 70.0 2.5e-19
CP001854_0227 1/1 271 338 .. 1 87 [] 67.0 1.7e-18
CP001854_1557 1/1 278 345 .. 1 87 [] 66.9 1.8e-18
CP001854_0716 1/1 235 301 .. 1 87 [] 66.6 2.3e-18
CP001854_5705 1/1 243 305 .. 1 87 [] 61.2 7.9e-17
CP001854_0296 1/1 255 316 .. 1 87 [] 60.7 1e-16
CP001854_5116 1/1 209 267 .. 1 87 [] 57.3 9.8e-16
CP001854_3346 1/1 189 256 .. 1 87 [] 55.2 4e-15
CP001854_4363 1/1 133 198 .. 1 87 [] 53.6 1.1e-14
CP001854_5329 1/1 291 359 .. 1 87 [] 50.7 7.1e-14
CP001854_1403 1/1 146 210 .. 1 87 [] 39.8 9.1e-11
CP001854_0518 1/1 152 217 .. 1 87 [] 36.2 9.6e-10

Alignments of top-scoring domains:
CP001854_3221: domain 1 of 1, from 265 to 329: score 84.6, E = 1.8e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ef+a++sHELRTPLt++++++elL+e +l +q
CP001854_3 265 RQREFVADASHELRTPLTSVLANLELLEE----------TLQGDQ-- 299

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ ++lr+++r++rL+ dlL l+r++ag
CP001854_3 300 ----------RDAAASALRSSRRMRRLVADLLLLARADAG 329

CP001854_5483: domain 1 of 1, from 759 to 827: score 83.1, E = 4.7e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ef+a +sHELRTPLt+I gy+el le ++ +e ++eq
CP001854_5 759 LKNEFFALVSHELRTPLTSIVGYVELVLE------GEVGEVNDEQ-- 797

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l +++r ++rl+rL+ dlL ++ eag
CP001854_5 798 ----------ARFLGIVERNGKRLQRLVGDLLFVAQVEAG 827

CP001854_5870: domain 1 of 1, from 248 to 314: score 79.8, E = 4e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+ +f+a++sHELRTPL ++ g++elL++ +el+ee+r
CP001854_5 248 ARKQFIATASHELRTPLFSLGGFVELLED---------EELDEETR- 284

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l ++ ++erl++L dlLdlsr+eag
CP001854_5 285 ----------RRFLAQVRMQVERLRKLSVDLLDLSRLEAG 314

CP001854_5349: domain 1 of 1, from 372 to 440: score 78.1, E = 1.2e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ef+a +sHELRTPLtaI+gy+el l ++ +eeq
CP001854_5 372 VKEEFFALVSHELRTPLTAILGYVELVLG------EDGATIDEEQ-- 410

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl++++r a+rllrL+ dlL ++ e+g
CP001854_5 411 ----------HRYLQIVERNAQRLLRLVGDLLFAAQVESG 440

CP001854_4484: domain 1 of 1, from 279 to 346: score 77.6, E = 1.7e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++fla++sHELRTPL++Irgyael + ++ ++s+e++
CP001854_4 279 RLRQFLADASHELRTPLSSIRGYAELFRIGA--------ARSPEEV- 316

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++i++ea r+ L++dlL l+r+++
CP001854_4 317 ----------EKAMRRIEEEATRMGVLVEDLLALARLDEV 346

CP001854_4686: domain 1 of 1, from 270 to 337: score 76.7, E = 3e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f+a++sHELRTPLt+Irg +e+L + t+ ++ ++
CP001854_4 270 RQRGFVADASHELRTPLTVIRGQLEVLAR--------QTAVTPADV- 307

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r e+++ e+ r++rL++dlL l+r+++g
CP001854_4 308 ----------RHVDEVVRTEVLRMERLVDDLLLLARADEG 337

CP001854_5424: domain 1 of 1, from 248 to 318: score 73.6, E = 2.4e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ f++++sHELRTP++++rg++elL +el ++ +q+
CP001854_5 248 ARRAFVSTASHELRTPVASLRGMLELLDDEL-------AHGEVDQA- 286

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e re + ++l +a+rl rL dlLdlsri+a+
CP001854_5 287 --------EAREQVARALAQARRLGRLAADLLDLSRIDAE 318

CP001854_0292: domain 1 of 1, from 233 to 299: score 70.0, E = 2.5e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+a++sHELRTPL+ +++ +el+ + + +++ ++
CP001854_0 233 RERRFVADASHELRTPLSILKAELELAAR---------PGRTPGEL- 269

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re + ++ +e++rl rL +dlL l+r++ g
CP001854_0 270 ----------RETVASAAEETDRLGRLAEDLLVLARADRG 299

CP001854_0227: domain 1 of 1, from 271 to 338: score 67.0, E = 1.7e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++++++sHELRTPLta+r+ +e+L ++l++ +r
CP001854_0 271 AQRQLVSDASHELRTPLTAVRTSIEALAG--------APDLPAAER- 308

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ l+ ++ ++e l+ L+ dl dl+r a+
CP001854_0 309 ----------ARVLDAARVQLEDLSVLVGDLVDLARPAAP 338

CP001854_1557: domain 1 of 1, from 278 to 345: score 66.9, E = 1.8e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++a++sHELRTPLt++r+++e+L ++l+ee+r
CP001854_1 278 RQRQLVADASHELRTPLTSLRTNIEVLAL--------PATLPEEER- 315

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l + ++++ l L+ dl +l+r e++
CP001854_1 316 ----------RRLLADVVEQLDELAGLVGDLVELAREEEP 345

CP001854_0716: domain 1 of 1, from 235 to 301: score 66.6, E = 2.3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ +l+++sH+LR PLtaI ++ e+L ++l++ +r
CP001854_0 235 IKTSLLRAVSHDLRSPLTAIATAGEALTS---------PNLTDAER- 271

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+ + e++rl+rL++ lLdlsr++ g
CP001854_0 272 ----------AELAAAVTGESQRLSRLVDKLLDLSRLQGG 301

CP001854_5705: domain 1 of 1, from 243 to 305: score 61.2, E = 7.9e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+ ++sHELRTPLta+rg+a + + ++++
CP001854_5 243 RERRFVDDASHELRTPLTALRGNAAFVAR---------HGADADA-- 278

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l i+ +aerl +L++dlL l+r +a
CP001854_5 279 -------------LADIETDAERLAQLLDDLLALAREDAA 305

CP001854_0296: domain 1 of 1, from 255 to 316: score 60.7, E = 1e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+a++sHELRTP++a+++++e+L e+
CP001854_0 255 SARRFVADVSHELRTPVSAMLAATEALDG-------------EDA-- 286

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + + + +e+ rl +L+ndl + sr +a
CP001854_0 287 ----------AAAAQLVSNETARLAQLVNDLIEVSRFDAR 316

CP001854_5116: domain 1 of 1, from 209 to 267: score 57.3, E = 9.8e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+a+++HELRTPLta+ ++aelL +
CP001854_5 209 REQRFAADAAHELRTPLTALTTAAELLDD------------------ 237

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++ + l+ L+ dlL+l+ ++ag
CP001854_5 238 ----------GRPAQIVRERVAALRTLVADLLELAHLDAG 267

CP001854_3346: domain 1 of 1, from 189 to 256: score 55.2, E = 4e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f++++sHELRTPL++ r+ ael+l+ d+ ++++q+
CP001854_3 189 AQRRFVSSASHELRTPLAVARTEAELALA--------DDQATAPQL- 226

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l+ i+ r +L++ lL l+ +a
CP001854_3 227 ----------RDALNHIHTTMLRAGDLVEALLALALTDAV 256

CP001854_4363: domain 1 of 1, from 133 to 198: score 53.6, E = 1.1e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks ++a +sHELR PL +I+gy++lL+ + ++++
CP001854_4 133 TKSHLIAQVSHELRAPLQSILGYSQLLKS---------LTHDSDE-- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e+i +++e+ll+L ndlLd r +a+
CP001854_4 169 ----------VRISESIANAGEHLLSLANDLLDTMRPGAP 198

CP001854_5329: domain 1 of 1, from 291 to 359: score 50.7, E = 7.1e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ +sH+L PL + +++lL++++ + l+e
CP001854_5 291 ELEQFAYVASHDLQEPLRKVASFCQLLEKRYK------DQLDERG-- 329

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y+e + + a+r+++LindlL +sr +
CP001854_5 330 ----------EQYIEFAVDGAKRMQQLINDLLAFSRVGRF 359

CP001854_1403: domain 1 of 1, from 146 to 210: score 39.8, E = 9.1e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHELRTPL+ +++++++++ + + +
CP001854_1 146 EQQRFAANASHELRTPLAITQALLDVARN----------DPDHAD-- 180

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e++++++ r +L + lL lsr+++
CP001854_1 181 ----------GELVDRLHFVNTRAIDLTEALLVLSRADQR 210

CP001854_0518: domain 1 of 1, from 152 to 217: score 36.2, E = 9.6e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+an+sHELRTPLt+ +++++++ ++eqr
CP001854_0 152 TQERFAANASHELRTPLTVTATMLDVAQS------------DPEQRY 186

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e+le+++ r L + lL l+ + a
CP001854_0 187 D---------PELLERLQITNARAIGLTEALLRLADANAV 217


Histogram of all scores:
score obs exp (one = represents 22 sequences)
----- --- ---
-14 8 0|=
-13 42 4|*=
-12 142 135|======*
-11 457 701|===================== *
-10 936 1300|=========================================== *
-9 1261 1343|==========================================================*
-8 1102 1005|=============================================*=====
-7 792 633|============================*=======
-6 494 364|================*======
-5 314 200|=========*=====
-4 155 107|====*===
-3 92 56|==*==
-2 49 29|=*=
-1 25 15|*=
0 12 8|*
1 5 4|*
2 0 2|*
3 2 1|*
4 3 0|=
5 1 0|=
> 6 22 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 415.9543
P(chi-square) = 0

Total sequences searched: 5914

Whole sequence top hits:
tophits_s report:
Total hits: 19
Satisfying E cutoff: 19
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 19
Satisfying E cutoff: 19
Total memory: 28K


Acknowledgements:

This research is funded by:

Developed by: