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Classification of phyla is from NCBI page
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264 projects found  

3 accessions found for Shigella dysenteriae Sd197  

Data for CP000034  

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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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000034.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
-------- ----------- ----- ------- ---
CP000034_2790 CDS_2771032-2773788 100.1 5.2e-28 1
CP000034_4120 CDS_4192185-4195778 81.6 9.2e-23 1
CP000034_0797 CDS_802405-805206 80.6 1.8e-22 1
CP000034_3147 CDS_3144274-3141938 78.9 5.5e-22 1
CP000034_2553 CDS_2545032-2543542 75.4 5.4e-21 1
CP000034_2037 CDS_1986460-1985057 66.6 1.6e-18 1
CP000034_3544 CDS_3567271-3568644 66.6 1.6e-18 1
CP000034_3444 CDS_3455984-3454608 61.5 4.6e-17 1
CP000034_3580 CDS_3602798-3603847 59.7 1.5e-16 1
CP000034_2986 CDS_2976468-2975119 59.6 1.6e-16 1
CP000034_3402 CDS_3403519-3404871 55.0 3.2e-15 1
CP000034_3779 CDS_3838799-3839890 45.0 2.2e-12 1
CP000034_1700 CDS_1658939-1660240 42.4 1.2e-11 1
CP000034_3802 CDS_3862163-3859899 36.1 7.3e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000034_2790 1/1 292 357 .. 1 87 [] 100.1 5.2e-28
CP000034_4120 1/1 711 777 .. 1 87 [] 81.6 9.2e-23
CP000034_0797 1/1 453 518 .. 1 87 [] 80.6 1.8e-22
CP000034_3147 1/1 282 347 .. 1 87 [] 78.9 5.5e-22
CP000034_2553 1/1 270 338 .. 1 87 [] 75.4 5.4e-21
CP000034_2037 1/1 240 304 .. 1 87 [] 66.6 1.6e-18
CP000034_3544 1/1 238 300 .. 1 87 [] 66.6 1.6e-18
CP000034_3444 1/1 237 303 .. 1 87 [] 61.5 4.6e-17
CP000034_3580 1/1 129 186 .. 1 79 [. 59.7 1.5e-16
CP000034_2986 1/1 236 302 .. 1 87 [] 59.6 1.6e-16
CP000034_3402 1/1 233 293 .. 1 87 [] 55.0 3.2e-15
CP000034_3779 1/1 142 202 .. 1 87 [] 45.0 2.2e-12
CP000034_1700 1/1 211 271 .. 1 87 [] 42.4 1.2e-11
CP000034_3802 1/1 397 459 .. 1 87 [] 36.1 7.3e-10

Alignments of top-scoring domains:
CP000034_2790: domain 1 of 1, from 292 to 357: score 100.1, E = 5.2e-28
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++++g++ l l+ tel++ q
CP000034_2 292 IKSEFLANMSHELRTPLNGVIGFTRLTLK---------TELTPTQ-- 327

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l+ti+r+a+ ll++ind+Ld+s++eag
CP000034_2 328 ----------RDHLNTIERSANNLLAIINDVLDFSKLEAG 357

CP000034_4120: domain 1 of 1, from 711 to 777: score 81.6, E = 9.2e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fla++sHE+RTP+++I+g++elL + ls eqr
CP000034_4 711 AKSQFLATMSHEIRTPISSIMGFLELLSG---------SGLSKEQR- 747

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+++ ++ +++ll Li ++Ld +ie+g
CP000034_4 748 ----------VEAISLAYATGQSLLGLIGEILDVDKIESG 777

CP000034_0797: domain 1 of 1, from 453 to 518: score 80.6, E = 1.8e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks fla++sHELRTPL +I+g+++lL++ el+
CP000034_0 453 SKSMFLATVSHELRTPLYGIIGNLDLLQT---------KELPKGV-- 488

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++ ll++i+d+Ld+s+ie++
CP000034_0 489 ----------DRLVTAMNNSSSLLLKIISDILDFSKIESE 518

CP000034_3147: domain 1 of 1, from 282 to 347: score 78.9, E = 5.5e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ f++++sHELRTPL++I g++ +Ll+ tel++eq
CP000034_3 282 DKTTFISTISHELRTPLNGIVGLSRILLD---------TELTAEQ-- 317

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl+ti+ +a l ++ nd+ d+ ++e
CP000034_3 318 ----------EKYLKTIHVSAVTLGNIFNDIIDMDKMERR 347

CP000034_2553: domain 1 of 1, from 270 to 338: score 75.4, E = 5.4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +fl++lsHEL+TPL+++r +elL +++ ++l++eq
CP000034_2 270 QRHQFLRHLSHELKTPLASMREGTELLADQV------VGPLTPEQ-- 308

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e +++++++++ l++Li++lLd+ r +a
CP000034_2 309 ----------KEVVSILDSSSRNLQKLIEQLLDYNRKQAD 338

CP000034_2037: domain 1 of 1, from 240 to 304: score 66.6, E = 1.6e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+a++sHELRTPL+++rg +e++++++ + ++e++
CP000034_2 240 MRRDFMADISHELRTPLAVLRGELEAIQDGV-------RKFTPETM- 278

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ e+ l +L++dl +ls ++g
CP000034_2 279 --------------ASLQAEVGTLTKLVDDLHQLSMSDEG 304

CP000034_3544: domain 1 of 1, from 238 to 300: score 66.6, E = 1.6e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++l+++sHELRTPLt +++ + lL++ +++
CP000034_3 238 SQQRLLSDISHELRTPLTRLQLGTALLRR---------RSGESKE-- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le+i+ ea+rl+++indlL +sr ++
CP000034_3 274 -------------LERIETEAQRLDSMINDLLVMSRNQQK 300

CP000034_3444: domain 1 of 1, from 237 to 303: score 61.5, E = 4.6e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ ++a+++HE+R+PL++I+g+a+ e +++++ e
CP000034_3 237 ALGHLAAGVAHEIRNPLSSIKGLAKYFAE--------RAPAGGEA-- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ +ea+rl+r +++lL+l + +
CP000034_3 274 ----------HQLAQVMAKEADRLNRVVSELLELVKPTHL 303

CP000034_3580: domain 1 of 1, from 129 to 186: score 59.7, E = 1.5e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++++l+HE+++PL ++rg+a+lL + +l+++ +
CP000034_3 129 AARDLVRGLAHEIKNPLGGLRGAAQLLSK----------ALPDPSL- 164

peLRledpeyreyletilreaerllrLindlL<-*
ey+++i+++a+rl++L+++lL
CP000034_3 165 ----------LEYTKVIIEQADRLRNLVDRLL 186

CP000034_2986: domain 1 of 1, from 236 to 302: score 59.6, E = 1.6e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+++++HELR PLta++ +e+++ ++ +++ r
CP000034_2 236 RERRFTSDAAHELRSPLTALKVQTEVAQL---------SDDDPQAR- 272

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l ++ ++r rL+++lL+lsr+++
CP000034_2 273 ----------KKALLQLHYGIDRATRLVDQLLTLSRLDSL 302

CP000034_3402: domain 1 of 1, from 233 to 293: score 55.0, E = 3.2e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ ++a++sH+LRTPLt Ir+++e++ e ++
CP000034_3 233 DRTLLMAGVSHDLRTPLTRIRLATEMMSE---------QD------- 263

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e+i +++e ++++i+++ d+ r +++
CP000034_3 264 ----------GYLAESINKDIEECNAIIEQFIDYLRTGQE 293

CP000034_3779: domain 1 of 1, from 142 to 202: score 45.0, E = 2.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ f+a+++HELRTPL+++r+++elL + t+
CP000034_3 142 NERLFTADVAHELRTPLAGVRLHLELLAK---------TH------- 172

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + + ++++ + +++lL+l+r+++
CP000034_3 173 ----------HIDVAPLVARLDQMMESVSQLLQLARAGQS 202

CP000034_1700: domain 1 of 1, from 211 to 271: score 42.4, E = 1.2e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k +++ +++HELRTPL +r +e+ + ls+ +
CP000034_1 211 SKKQLIDGIAHELRTPLVRLRYRLEMSDN-----------LSAAE-- 244

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + r++ +l++Li++lL+++r++ +
CP000034_1 245 -------------SQALNRDISQLEALIEELLTYARLDRP 271

CP000034_3802: domain 1 of 1, from 397 to 459: score 36.1, E = 7.3e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +l+H++++ L++I+g +el + +++
CP000034_3 397 AVGQLTGGLAHDFNNLLAVIIGSLELVNP---------DSPDAPR-- 432

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++l++aer L ++lL +sr ++
CP000034_3 433 -------------IQRALQAAERGALLTQRLLAFSRKQSL 459


Histogram of all scores:
score obs exp (one = represents 19 sequences)
----- --- ---
-16 1 0|=
-15 2 0|=
-14 8 0|=
-13 71 3|*===
-12 227 97|=====*======
-11 536 506|==========================*==
-10 1105 939|=================================================*=========
-9 700 970|===================================== *
-8 566 726|============================== *
-7 422 458|======================= *
-6 260 263|=============*
-5 162 144|=======*=
-4 81 77|====*
-3 37 40|==*
-2 28 21|=*
-1 28 11|*=
0 12 5|*
1 4 3|*
2 5 1|*
3 1 0|=
4 1 0|=
5 1 0|=
6 0 0|
> 7 16 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 351.9929
P(chi-square) = 0

Total sequences searched: 4277

Whole sequence top hits:
tophits_s report:
Total hits: 14
Satisfying E cutoff: 14
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 14
Satisfying E cutoff: 14
Total memory: 26K


Acknowledgements:

This research is funded by:

Developed by: