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Classification of phyla is from NCBI page
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264 projects found  

4 accessions found for Yersinia pestis Antiqua  

Data for CP000308  

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: CP000308.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
-------- ----------- ----- ------- ---
CP000308_2690 CDS_3000225-2998909 88.2 1.2e-24 1
CP000308_4020 CDS_4534343-4537162 86.8 3e-24 1
CP000308_2873 CDS_3203843-3206626 85.9 5.3e-24 1
CP000308_0930 CDS_1076316-1079189 79.3 3.9e-22 1
CP000308_3741 CDS_4203439-4205775 75.7 4.4e-21 1
CP000308_1380 CDS_1558756-1557371 69.5 2.4e-19 1
CP000308_2351 CDS_2642393-2640957 68.8 3.8e-19 1
CP000308_2193 CDS_2465906-2467450 67.1 1.2e-18 1
CP000308_2286 CDS_2571931-2573046 67.0 1.3e-18 1
CP000308_1300 CDS_1465114-1461263 65.8 2.7e-18 1
CP000308_3463 CDS_3875548-3876924 63.6 1.1e-17 1
CP000308_3512 CDS_3926963-3928042 62.4 2.5e-17 1
CP000308_2415 CDS_2705328-2702602 61.1 5.9e-17 1
CP000308_0373 CDS_437207-438625 58.1 4.2e-16 1
CP000308_2183 CDS_2453221-2451872 53.9 6.2e-15 1
CP000308_3325 CDS_3676767-3675415 53.2 1e-14 1
CP000308_1082 CDS_1236351-1238165 53.0 1.2e-14 1
CP000308_0058 CDS_74138-75205 46.9 6.3e-13 1
CP000308_3786 CDS_4263048-4265603 40.4 4.2e-11 1
CP000308_1654 CDS_1858107-1859384 36.2 6.4e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000308_2690 1/1 203 269 .. 1 87 [] 88.2 1.2e-24
CP000308_4020 1/1 397 462 .. 1 87 [] 86.8 3e-24
CP000308_2873 1/1 291 356 .. 1 87 [] 85.9 5.3e-24
CP000308_0930 1/1 479 544 .. 1 87 [] 79.3 3.9e-22
CP000308_3741 1/1 282 347 .. 1 87 [] 75.7 4.4e-21
CP000308_1380 1/1 238 304 .. 1 87 [] 69.5 2.4e-19
CP000308_2351 1/1 252 320 .. 1 87 [] 68.8 3.8e-19
CP000308_2193 1/1 280 350 .. 1 87 [] 67.1 1.2e-18
CP000308_2286 1/1 237 301 .. 1 87 [] 67.0 1.3e-18
CP000308_1300 1/1 733 797 .. 1 87 [] 65.8 2.7e-18
CP000308_3463 1/1 238 300 .. 1 87 [] 63.6 1.1e-17
CP000308_3512 1/1 139 204 .. 1 87 [] 62.4 2.5e-17
CP000308_2415 1/1 665 732 .. 1 87 [] 61.1 5.9e-17
CP000308_0373 1/1 255 320 .. 1 87 [] 58.1 4.2e-16
CP000308_2183 1/1 228 291 .. 1 87 [] 53.9 6.2e-15
CP000308_3325 1/1 233 293 .. 1 87 [] 53.2 1e-14
CP000308_1082 1/1 370 436 .. 1 87 [] 53.0 1.2e-14
CP000308_0058 1/1 136 196 .. 1 87 [] 46.9 6.3e-13
CP000308_3786 1/1 497 559 .. 1 87 [] 40.4 4.2e-11
CP000308_1654 1/1 202 262 .. 1 87 [] 36.2 6.4e-10

Alignments of top-scoring domains:
CP000308_2690: domain 1 of 1, from 203 to 269: score 88.2, E = 1.2e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ f+an+sHELRTPLt+++gy+e++ + +el + r
CP000308_2 203 ARRNFFANVSHELRTPLTVLQGYLEMMHD---------QELAGPLR- 239

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l t++++++r++ L+ +lL+lsriea
CP000308_2 240 ----------DKALGTMQEQTKRMDGLVKQLLTLSRIEAA 269

CP000308_4020: domain 1 of 1, from 397 to 462: score 86.8, E = 3e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+ l ++sHE+RTPL++ +g++elL++ t+l++ q
CP000308_4 397 RKSDHLTTISHEIRTPLNGALGAVELLQN---------TPLDAGQ-- 432

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ et+++++ +ll++in+lLd+srie+g
CP000308_4 433 ----------MRLAETAHQCSLSLLAIINNLLDFSRIESG 462

CP000308_2873: domain 1 of 1, from 291 to 356: score 85.9, E = 5.3e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++++g++ l+ t l++ q
CP000308_2 291 IKSEFLANMSHELRTPLNGVIGFTRQTLK---------TSLTPTQ-- 326

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+yl+ti+r+a+ ll +ind+Ld+s++ea
CP000308_2 327 ----------TDYLQTIQRSANNLLCIINDVLDFSKLEAD 356

CP000308_0930: domain 1 of 1, from 479 to 544: score 79.3, E = 3.9e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks fla++sHELRTPL +I+g+++lL++ el+
CP000308_0 479 SKSMFLATVSHELRTPLYGIIGNLDLLQT---------KELPQGV-- 514

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++ ll++i+d+Ld+s+ie++
CP000308_0 515 ----------DRLVTAMNNSSGLLLKIISDILDFSKIESE 544

CP000308_3741: domain 1 of 1, from 282 to 347: score 75.7, E = 4.4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ f++++sHELRTPL++I g++ +Ll+ tel++eq
CP000308_3 282 DKTTFISTISHELRTPLNGIVGLSRILLD---------TELDAEQ-- 317

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+yl+ti+ +a l ++ nd+ ++ ++e
CP000308_3 318 ----------LKYLKTIHVSAITLGNIFNDIIEMDKLERR 347

CP000308_1380: domain 1 of 1, from 238 to 304: score 69.5, E = 2.4e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f a+++HELRTPLt ++g ++l l ++ ++
CP000308_1 238 QLESFNADVAHELRTPLTNLMGQTQLGLS---------RKRETHEL- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++le+ l+e+er+ +++nd+L ls ++ag
CP000308_1 275 ----------EDLLESNLEELERMTSIVNDMLFLSHAQAG 304

CP000308_2351: domain 1 of 1, from 252 to 320: score 68.8, E = 3.8e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ efl+++sHEL+TPL+++r +elL +e+ ++l+ +q
CP000308_2 252 QRHEFLRHISHELKTPLASMREGTELLADEVA------GPLTQDQ-- 290

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e + ++++++++l++Li++lLd+ r a
CP000308_2 291 ----------QEVVAILDHSSRHLQQLIEQLLDYNRKLAD 320

CP000308_2193: domain 1 of 1, from 280 to 350: score 67.1, E = 1.2e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ f+ +sHEL+TPLt I +yae+L+e l+ ++ ++
CP000308_2 280 QQVSFVGQVSHELKTPLTNITLYAEMLQE-----LQPEQSVPPTAE- 320

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yle+il+e++rl+rLi+++L ++++
CP000308_2 321 ----------QRYLEVILNESQRLSRLIQNILSFTKAPKL 350

CP000308_2286: domain 1 of 1, from 237 to 301: score 67.0, E = 1.3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+a++sHELRTPL+++rg +e+L+++l ++e
CP000308_2 237 MRRDFMADVSHELRTPLAVLRGELEALQDGL-------RQPTPES-- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l++++ e+ l +L+ndl +ls+ + g
CP000308_2 275 -------------LSSLQAEVAILTKLVNDLHQLSQSDRG 301

CP000308_1300: domain 1 of 1, from 733 to 797: score 65.8, E = 2.7e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks fla++sHELRTP+ aI+g++el + ++++ e+
CP000308_1 733 TKSTFLATISHELRTPMYAIMGLLELEIR---------SNRPVEK-- 768

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l t+ ++a++l L++d+ d ++ieag
CP000308_1 769 -----------DTLVTVSKSAQSLMLLLDDIIDSAKIEAG 797

CP000308_3463: domain 1 of 1, from 238 to 300: score 63.6, E = 1.1e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++++++sHELRTPLt +++++ l+++ + ++
CP000308_3 238 AQQRLISDISHELRTPLTRLQLATALMRR---------RHGEGKE-- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le+i+ ea+rl+++indlL lsr ++
CP000308_3 274 -------------LERIEMEAQRLDSMINDLLVLSRSQHK 300

CP000308_3512: domain 1 of 1, from 139 to 204: score 62.4, E = 2.5e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++++l+HE+++PL ++rg+a+lL + +l+++ +
CP000308_3 139 AARDLVRGLAHEIKNPLGGLRGAAQLLAK----------ALPDPAL- 174

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
ey+++i+++a+rl++L+++lL r ++
CP000308_3 175 ----------LEYTQVIIEQADRLRNLVDRLLGPQRPGQH 204

CP000308_2415: domain 1 of 1, from 665 to 732: score 61.1, E = 5.9e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +la+lsH+LRTPLt++ g ae+L +l ++ ++ +
CP000308_2 665 LRNSLLAALSHDLRTPLTVLFGQAEILTLDL-------AAEGSRH-- 702

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + i++++ + rL+n+lLd++ri++g
CP000308_2 703 ----------APQANQIRQQVLSTTRLVNNLLDMARIQSG 732

CP000308_0373: domain 1 of 1, from 255 to 320: score 58.1, E = 4.2e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ + +l HEL+ PL+aI+g+aelL+e ++ +e
CP000308_0 255 YIEQYVHTLTHELKSPLAAISGAAELLRE---------SPPPETA-- 290

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l i++++ r+++L++ +L +r+e+
CP000308_0 291 ----------QRFLINIEQQSARIQQLVDKMLVQARLESR 320

CP000308_2183: domain 1 of 1, from 228 to 291: score 53.9, E = 6.2e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++l ++sHELR PL+ +++++ l ++++++ +
CP000308_2 228 AREQLLHDVSHELRSPLARLQLAIGL------------AHQNPDNV- 261

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l++i++e+erl+++i +lL lsr+e+
CP000308_2 262 ----------DNALQRIEHESERLDKMIGELLALSRAENH 291

CP000308_3325: domain 1 of 1, from 233 to 293: score 53.2, E = 1e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ ++a++sH+LRTPLt Ir+++e++ e ++
CP000308_3 233 DRTLLMAGVSHDLRTPLTRIRLATEMMSE--------------DD-- 263

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + e+i +++e ++++i+++ d+ r +++
CP000308_3 264 ----------AYLSESINKDIEECNAIIEQFIDYLRTGQE 293

CP000308_1082: domain 1 of 1, from 370 to 436: score 53.0, E = 1.2e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++a+++HE+R+PL++I+g+a+ + +++++e+
CP000308_1 370 AIGNLAAGVAHEIRNPLSSIKGFAKYFEG--------HSPQGSEE-- 406

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+ +++++e++rl+r + +lL l r
CP000308_1 407 ----------QELAKVMIKEVDRLNRAVTELLGLVRPSDL 436

CP000308_0058: domain 1 of 1, from 136 to 196: score 46.9, E = 6.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + f+a+++HELRTPL++Ir+++el+++ + e +
CP000308_0 136 QERLFTADAAHELRTPLAGIRLHLELMEK---------QGIAESK-- 171

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ ++ l + i++lL lsr++++
CP000308_0 172 ---------------SLINRIDLLMHTIEQLLMLSRAGQN 196

CP000308_3786: domain 1 of 1, from 497 to 559: score 40.4, E = 4.2e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +l+H++++ L++I+g +el + + s+ +r
CP000308_3 497 AVGQLTGGLAHDFNNLLAVIIGSLELTAT----------DSSDATR- 532

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++l++aer +L ++lL +sr ++
CP000308_3 533 -------------IHRALKAAERGAQLTQRLLAFSRKQSL 559

CP000308_1654: domain 1 of 1, from 202 to 262: score 36.2, E = 6.4e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k ++ +++HELRTPL +r + + + l+e ++
CP000308_1 202 SKKLLIDGIAHELRTPLVRLRYRLAMSDN-----------LTESEQ- 236

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++ +l++Li++lL+++r++ +
CP000308_1 237 --------------QALHHDIGQLEALIDELLTYARLDRP 262


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-15 2 0|=
-14 22 0|==
-13 58 3|*====
-12 215 95|=======*=========
-11 363 493|============================ *
-10 677 916|===================================================== *
-9 748 946|==========================================================*
-8 757 708|======================================================*====
-7 562 446|==================================*=========
-6 316 256|===================*=====
-5 193 140|==========*====
-4 108 75|=====*===
-3 52 39|==*=
-2 27 20|=*=
-1 25 10|*=
0 5 5|*
1 6 2|*
2 3 1|*
3 1 0|=
4 3 0|=
5 0 0|
6 1 0|=
> 7 23 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 393.0760
P(chi-square) = 0

Total sequences searched: 4167

Whole sequence top hits:
tophits_s report:
Total hits: 20
Satisfying E cutoff: 20
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 20
Satisfying E cutoff: 20
Total memory: 28K


Acknowledgements:

This research is funded by:

Developed by: