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Classification of phyla is from NCBI page
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264 projects found  

6 accessions found for Shigella boydii CDC 3083-94  

Data for CP001063  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP001063.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
-------- ----------- ----- ------- ---
CP001063_2652 CDS_2885080-2882324 100.1 5.1e-28 1
CP001063_0287 CDS_311382-312677 91.0 2e-25 1
CP001063_2358 CDS_2539071-2542664 81.6 9.1e-23 1
CP001063_1988 CDS_2109492-2112236 80.7 1.6e-22 1
CP001063_0614 CDS_676944-679793 80.6 1.8e-22 1
CP001063_3055 CDS_3315678-3318014 78.9 5.5e-22 1
CP001063_2514 CDS_2726213-2724786 75.4 5.3e-21 1
CP001063_0981 CDS_1047601-1046198 69.8 2.1e-19 1
CP001063_3784 CDS_4099803-4098430 66.6 1.6e-18 1
CP001063_4242 CDS_4611041-4612465 62.4 2.5e-17 1
CP001063_3868 CDS_4202783-4204159 61.5 4.6e-17 1
CP001063_2973 CDS_3215883-3217232 60.7 7.9e-17 1
CP001063_0485 CDS_531956-534640 59.6 1.6e-16 1
CP001063_3260 CDS_3510202-3508850 55.0 3.2e-15 1
CP001063_3746 CDS_4060720-4059671 53.2 1e-14 1
CP001063_0782 CDS_853900-855258 52.3 1.8e-14 1
CP001063_1542 CDS_1638977-1640278 35.9 8.1e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001063_2652 1/1 292 357 .. 1 87 [] 100.1 5.1e-28
CP001063_0287 1/1 203 269 .. 1 87 [] 91.0 2e-25
CP001063_2358 1/1 711 777 .. 1 87 [] 81.6 9.1e-23
CP001063_1988 1/1 443 508 .. 1 87 [] 80.7 1.6e-22
CP001063_0614 1/1 469 534 .. 1 87 [] 80.6 1.8e-22
CP001063_3055 1/1 282 347 .. 1 87 [] 78.9 5.5e-22
CP001063_2514 1/1 249 317 .. 1 87 [] 75.4 5.3e-21
CP001063_0981 1/1 240 304 .. 1 87 [] 69.8 2.1e-19
CP001063_3784 1/1 238 300 .. 1 87 [] 66.6 1.6e-18
CP001063_4242 1/1 255 320 .. 1 87 [] 62.4 2.5e-17
CP001063_3868 1/1 237 303 .. 1 87 [] 61.5 4.6e-17
CP001063_2973 1/1 236 302 .. 1 87 [] 60.7 7.9e-17
CP001063_0485 1/1 663 730 .. 1 87 [] 59.6 1.6e-16
CP001063_3260 1/1 233 293 .. 1 87 [] 55.0 3.2e-15
CP001063_3746 1/1 129 186 .. 1 79 [. 53.2 1e-14
CP001063_0782 1/1 235 301 .. 1 87 [] 52.3 1.8e-14
CP001063_1542 1/1 211 271 .. 1 87 [] 35.9 8.1e-10

Alignments of top-scoring domains:
CP001063_2652: domain 1 of 1, from 292 to 357: score 100.1, E = 5.1e-28
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++++g++ l l+ tel++ q
CP001063_2 292 IKSEFLANMSHELRTPLNGVIGFTRLTLK---------TELTPTQ-- 327

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l+ti+r+a+ ll++ind+Ld+s++eag
CP001063_2 328 ----------RDHLNTIERSANNLLAIINDVLDFSKLEAG 357

CP001063_0287: domain 1 of 1, from 203 to 269: score 91.0, E = 2e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ f+an+sHELRTPLt+++gy+e++ e ++l r
CP001063_0 203 ARRNFFANVSHELRTPLTVLQGYLEMMDE---------QPLEGAVR- 239

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l+t++++++r++ L+ +lL+ls+iea
CP001063_0 240 ----------EKALHTMREQTQRMEGLVKQLLTLSKIEAA 269

CP001063_2358: domain 1 of 1, from 711 to 777: score 81.6, E = 9.1e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fla++sHE+RTP+++I+g++elL + ls eqr
CP001063_2 711 AKSQFLATMSHEIRTPISSIMGFLELLSG---------SGLSKEQR- 747

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+++ ++ +++ll Li ++Ld +ie+g
CP001063_2 748 ----------VEAISLAYATGQSLLGLIGEILDVDKIESG 777

CP001063_1988: domain 1 of 1, from 443 to 508: score 80.7, E = 1.6e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks fla++sHE+RTPL +I+g+a+lL + ++ q
CP001063_1 443 AKSAFLAAMSHEIRTPLYGILGTAQLLAD---------NPALNAQ-- 478

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l+ i +++e+ll ++nd+Ld+s ieag
CP001063_1 479 ----------RDDLRAITDSGESLLTILNDILDYSAIEAG 508

CP001063_0614: domain 1 of 1, from 469 to 534: score 80.6, E = 1.8e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks fla++sHELRTPL +I+g+++lL++ el+
CP001063_0 469 SKSMFLATVSHELRTPLYGIIGNLDLLQT---------KELPKGV-- 504

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++ ll++i+d+Ld+s+ie++
CP001063_0 505 ----------DRLVTAMNNSSSLLLKIISDILDFSKIESE 534

CP001063_3055: domain 1 of 1, from 282 to 347: score 78.9, E = 5.5e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ f++++sHELRTPL++I g++ +Ll+ tel++eq
CP001063_3 282 DKTTFISTISHELRTPLNGIVGLSRILLD---------TELTAEQ-- 317

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl+ti+ +a l ++ nd+ d+ ++e
CP001063_3 318 ----------EKYLKTIHVSAVTLGNIFNDIIDMDKMERR 347

CP001063_2514: domain 1 of 1, from 249 to 317: score 75.4, E = 5.3e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +fl++lsHEL+TPL+++r +elL +++ ++l++eq
CP001063_2 249 QRHQFLRHLSHELKTPLASMREGTELLADQV------VGPLTPEQ-- 287

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e +++++++++ l++Li++lLd+ r +a
CP001063_2 288 ----------KEVVSILDSSSRNLQKLIEQLLDYNRKQAD 317

CP001063_0981: domain 1 of 1, from 240 to 304: score 69.8, E = 2.1e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+a++sHELRTPL+++rg +e++++++ + ++e+
CP001063_0 240 MRRDFMADISHELRTPLAVLRGELEAIQDGV-------RKFTPET-- 277

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++ e+ l +L++dl +ls ++g
CP001063_0 278 -------------VASLQAEVGTLTKLVDDLHQLSMSDEG 304

CP001063_3784: domain 1 of 1, from 238 to 300: score 66.6, E = 1.6e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++l+++sHELRTPLt +++ + lL++ +++
CP001063_3 238 SQQRLLSDISHELRTPLTRLQLGTALLRR---------RSGESKE-- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le+i+ ea+rl+++indlL +sr ++
CP001063_3 274 -------------LERIETEAQRLDSMINDLLVMSRNQQK 300

CP001063_4242: domain 1 of 1, from 255 to 320: score 62.4, E = 2.5e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ + +l HEL+ PL+aIrg+ae+L+e ++ +e
CP001063_4 255 YIEQYVYALTHELKSPLAAIRGAAEILRE---------GPPPEVV-- 290

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++++ il + r+++L++ lL +r+e+
CP001063_4 291 ----------ARFTDNILTQNARMQALVETLLRQARLENR 320

CP001063_3868: 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
CP001063_3 237 ALGHLAAGVAHEIRNPLSSIKGLAKYFAE--------RAPAGGEA-- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ +ea+rl+r +++lL+l + +
CP001063_3 274 ----------HQLAQVMAKEADRLNRVVSELLELVKPTHL 303

CP001063_2973: domain 1 of 1, from 236 to 302: score 60.7, E = 7.9e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+++++HELR PLta++ +e+++ ++ +++ r
CP001063_2 236 RERRFTSDAAHELRSPLTALKVQTEVAQL---------SDDDPQAR- 272

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l +++ ++r rL+++lL+lsr+++
CP001063_2 273 ----------KKALLQLHSGIDRATRLVDQLLTLSRLDSL 302

CP001063_0485: domain 1 of 1, from 663 to 730: score 59.6, E = 1.6e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +la+lsH+LRTPLt++ g ae+L +l + ++++
CP001063_0 663 IRNALLAALSHDLRTPLTVLFGQAEILTLDL-------ASEGSPH-- 700

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ + i++ + rL+n+lLd++ri++g
CP001063_0 701 ----------ARQASEIRQHVLNTTRLVNNLLDMARIQSG 730

CP001063_3260: domain 1 of 1, from 233 to 293: score 55.0, E = 3.2e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ ++a++sH+LRTPLt Ir+++e++ e ++
CP001063_3 233 DRTLLMAGVSHDLRTPLTRIRLATEMMSE---------QD------- 263

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e+i +++e ++++i+++ d+ r +++
CP001063_3 264 ----------GYLAESINKDIEECNAIIEQFIDYLRTGQE 293

CP001063_3746: domain 1 of 1, from 129 to 186: score 53.2, E = 1e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++++l+HE+++PL +rg+a+lL + +l+++ +
CP001063_3 129 AARDLVRGLAHEIKNPLGCLRGAAQLLSK----------ALPDPSL- 164

peLRledpeyreyletilreaerllrLindlL<-*
ey+++i+++a+rl++L+++lL
CP001063_3 165 ----------LEYTKVIIEQADRLRNLVDRLL 186

CP001063_0782: domain 1 of 1, from 235 to 301: score 52.3, E = 1.8e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++s+f+ +l+HELRTP++a++g ++ l +++s +
CP001063_0 235 RLSQFADDLAHELRTPINALLGQNQVTLS---------QTRSIAE-- 270

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y++ + ++e+e ++rL +++L l+r++ +
CP001063_0 271 ---------YQKTIAGNIEELENISRLTENILFLARADKN 301

CP001063_1542: domain 1 of 1, from 211 to 271: score 35.9, E = 8.1e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k +++ +++HELRTPL + +e+ + ls+ +
CP001063_1 211 SKKQLIDGIAHELRTPLVRLCYRLEMSDN-----------LSAAE-- 244

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + r++ +l++Li++lL+++r++ +
CP001063_1 245 -------------SQALNRDISQLEALIEELLTYARLDRP 271


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-15 2 0|=
-14 32 0|===
-13 73 3|*=====
-12 333 97|=======*==================
-11 421 503|================================= *
-10 738 933|========================================================= *
-9 712 964|======================================================= *
-8 684 721|===================================================== *
-7 456 455|==================================*=
-6 255 261|====================*
-5 283 143|==========*===========
-4 102 76|=====*==
-3 44 40|===*
-2 37 21|=*=
-1 26 11|*=
0 14 5|*=
1 8 3|*
2 5 1|*
3 2 0|=
4 0 0|
> 5 19 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 882.9742
P(chi-square) = 0

Total sequences searched: 4246

Whole sequence top hits:
tophits_s report:
Total hits: 17
Satisfying E cutoff: 17
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 17
Satisfying E cutoff: 17
Total memory: 27K


Acknowledgements:

This research is funded by:

Developed by: