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: AE009952.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]
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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
-------- ----------- ----- ------- ---
AE009952_0964 CDS_1107935-1109251 88.2 1.2e-24 1
AE009952_0506 CDS_585306-582517 86.8 3e-24 1
AE009952_0799 CDS_907164-904363 85.9 5.2e-24 1
AE009952_2926 CDS_3274150-3271277 79.3 3.8e-22 1
AE009952_0124 CDS_134897-132561 75.7 4.3e-21 1
AE009952_2271 CDS_2543087-2544478 69.5 2.4e-19 1
AE009952_1291 CDS_1459400-1460851 68.8 3.7e-19 1
AE009952_1448 CDS_1633769-1632225 67.1 1.2e-18 1
AE009952_2349 CDS_2634761-2638612 65.8 2.7e-18 1
AE009952_0067 CDS_77767-79143 63.6 1.1e-17 1
AE009952_3754 CDS_4225904-4226983 62.4 2.4e-17 1
AE009952_1240 CDS_1411211-1408485 61.1 5.8e-17 1
AE009952_3233 CDS_3611677-3610259 58.1 4.2e-16 1
AE009952_1458 CDS_1646462-1647811 53.9 6.1e-15 1
AE009952_3865 CDS_4372492-4373844 53.2 9.9e-15 1
AE009952_0668 CDS_760528-759461 46.9 6.2e-13 1
AE009952_3813 CDS_4306515-4303960 40.4 4.2e-11 1
AE009952_2106 CDS_2364630-2365934 36.2 6.3e-10 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE009952_0964 1/1 203 269 .. 1 87 [] 88.2 1.2e-24
AE009952_0506 1/1 387 452 .. 1 87 [] 86.8 3e-24
AE009952_0799 1/1 291 356 .. 1 87 [] 85.9 5.2e-24
AE009952_2926 1/1 479 544 .. 1 87 [] 79.3 3.8e-22
AE009952_0124 1/1 282 347 .. 1 87 [] 75.7 4.3e-21
AE009952_2271 1/1 240 306 .. 1 87 [] 69.5 2.4e-19
AE009952_1291 1/1 257 325 .. 1 87 [] 68.8 3.7e-19
AE009952_1448 1/1 280 350 .. 1 87 [] 67.1 1.2e-18
AE009952_2349 1/1 733 797 .. 1 87 [] 65.8 2.7e-18
AE009952_0067 1/1 238 300 .. 1 87 [] 63.6 1.1e-17
AE009952_3754 1/1 139 204 .. 1 87 [] 62.4 2.4e-17
AE009952_1240 1/1 665 732 .. 1 87 [] 61.1 5.8e-17
AE009952_3233 1/1 255 320 .. 1 87 [] 58.1 4.2e-16
AE009952_1458 1/1 228 291 .. 1 87 [] 53.9 6.1e-15
AE009952_3865 1/1 233 293 .. 1 87 [] 53.2 9.9e-15
AE009952_0668 1/1 136 196 .. 1 87 [] 46.9 6.2e-13
AE009952_3813 1/1 497 559 .. 1 87 [] 40.4 4.2e-11
AE009952_2106 1/1 211 271 .. 1 87 [] 36.2 6.3e-10
Alignments of top-scoring domains:
AE009952_0964: domain 1 of 1, from 203 to 269: score 88.2, E = 1.2e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ f+an+sHELRTPLt+++gy+e++ + +el + r
AE009952_0 203 ARRNFFANVSHELRTPLTVLQGYLEMMHD---------QELAGPLR- 239
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l t++++++r++ L+ +lL+lsriea
AE009952_0 240 ----------DKALGTMQEQTKRMDGLVKQLLTLSRIEAA 269
AE009952_0506: domain 1 of 1, from 387 to 452: score 86.8, E = 3e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+ l ++sHE+RTPL++ +g++elL++ t+l++ q
AE009952_0 387 RKSDHLTTISHEIRTPLNGALGAVELLQN---------TPLDAGQ-- 422
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ et+++++ +ll++in+lLd+srie+g
AE009952_0 423 ----------MRLAETAHQCSLSLLAIINNLLDFSRIESG 452
AE009952_0799: domain 1 of 1, from 291 to 356: score 85.9, E = 5.2e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++++g++ l+ t l++ q
AE009952_0 291 IKSEFLANMSHELRTPLNGVIGFTRQTLK---------TSLTPTQ-- 326
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+yl+ti+r+a+ ll +ind+Ld+s++ea
AE009952_0 327 ----------TDYLQTIQRSANNLLCIINDVLDFSKLEAD 356
AE009952_2926: domain 1 of 1, from 479 to 544: score 79.3, E = 3.8e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks fla++sHELRTPL +I+g+++lL++ el+
AE009952_2 479 SKSMFLATVSHELRTPLYGIIGNLDLLQT---------KELPQGV-- 514
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++ ll++i+d+Ld+s+ie++
AE009952_2 515 ----------DRLVTAMNNSSGLLLKIISDILDFSKIESE 544
AE009952_0124: domain 1 of 1, from 282 to 347: score 75.7, E = 4.3e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ f++++sHELRTPL++I g++ +Ll+ tel++eq
AE009952_0 282 DKTTFISTISHELRTPLNGIVGLSRILLD---------TELDAEQ-- 317
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+yl+ti+ +a l ++ nd+ ++ ++e
AE009952_0 318 ----------LKYLKTIHVSAITLGNIFNDIIEMDKLERR 347
AE009952_2271: domain 1 of 1, from 240 to 306: score 69.5, E = 2.4e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f a+++HELRTPLt ++g ++l l ++ ++
AE009952_2 240 QLESFNADVAHELRTPLTNLMGQTQLGLS---------RKRETHEL- 276
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++le+ l+e+er+ +++nd+L ls ++ag
AE009952_2 277 ----------EDLLESNLEELERMTSIVNDMLFLSHAQAG 306
AE009952_1291: domain 1 of 1, from 257 to 325: score 68.8, E = 3.7e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ efl+++sHEL+TPL+++r +elL +e+ ++l+ +q
AE009952_1 257 QRHEFLRHISHELKTPLASMREGTELLADEVA------GPLTQDQ-- 295
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e + ++++++++l++Li++lLd+ r a
AE009952_1 296 ----------QEVVAILDHSSRHLQQLIEQLLDYNRKLAD 325
AE009952_1448: domain 1 of 1, from 280 to 350: score 67.1, E = 1.2e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ f+ +sHEL+TPLt I +yae+L+e l+ ++ ++
AE009952_1 280 QQVSFVGQVSHELKTPLTNITLYAEMLQE-----LQPEQSVPPTAE- 320
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yle+il+e++rl+rLi+++L ++++
AE009952_1 321 ----------QRYLEVILNESQRLSRLIQNILSFTKAPKL 350
AE009952_2349: domain 1 of 1, from 733 to 797: score 65.8, E = 2.7e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks fla++sHELRTP+ aI+g++el + ++++ e+
AE009952_2 733 TKSTFLATISHELRTPMYAIMGLLELEIR---------SNRPVEK-- 768
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l t+ ++a++l L++d+ d ++ieag
AE009952_2 769 -----------DTLVTVSKSAQSLMLLLDDIIDSAKIEAG 797
AE009952_0067: domain 1 of 1, from 238 to 300: score 63.6, E = 1.1e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++++++sHELRTPLt +++++ l+++ + ++
AE009952_0 238 AQQRLISDISHELRTPLTRLQLATALMRR---------RHGEGKE-- 273
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le+i+ ea+rl+++indlL lsr ++
AE009952_0 274 -------------LERIEMEAQRLDSMINDLLVLSRSQHK 300
AE009952_3754: domain 1 of 1, from 139 to 204: score 62.4, E = 2.4e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++++l+HE+++PL ++rg+a+lL + +l+++ +
AE009952_3 139 AARDLVRGLAHEIKNPLGGLRGAAQLLAK----------ALPDPAL- 174
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
ey+++i+++a+rl++L+++lL r ++
AE009952_3 175 ----------LEYTQVIIEQADRLRNLVDRLLGPQRPGQH 204
AE009952_1240: domain 1 of 1, from 665 to 732: score 61.1, E = 5.8e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +la+lsH+LRTPLt++ g ae+L +l ++ ++ +
AE009952_1 665 LRNSLLAALSHDLRTPLTVLFGQAEILTLDL-------AAEGSRH-- 702
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + i++++ + rL+n+lLd++ri++g
AE009952_1 703 ----------APQANQIRQQVLSTTRLVNNLLDMARIQSG 732
AE009952_3233: domain 1 of 1, from 255 to 320: score 58.1, E = 4.2e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ + +l HEL+ PL+aI+g+aelL+e ++ +e
AE009952_3 255 YIEQYVHTLTHELKSPLAAISGAAELLRE---------SPPPETA-- 290
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l i++++ r+++L++ +L +r+e+
AE009952_3 291 ----------QRFLINIEQQSARIQQLVDKMLVQARLESR 320
AE009952_1458: domain 1 of 1, from 228 to 291: score 53.9, E = 6.1e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++l ++sHELR PL+ +++++ l ++++++ +
AE009952_1 228 AREQLLHDVSHELRSPLARLQLAIGL------------AHQNPDNV- 261
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l++i++e+erl+++i +lL lsr+e+
AE009952_1 262 ----------DNALQRIEHESERLDKMIGELLALSRAENH 291
AE009952_3865: domain 1 of 1, from 233 to 293: score 53.2, E = 9.9e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ ++a++sH+LRTPLt Ir+++e++ e ++
AE009952_3 233 DRTLLMAGVSHDLRTPLTRIRLATEMMSE--------------DD-- 263
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + e+i +++e ++++i+++ d+ r +++
AE009952_3 264 ----------AYLSESINKDIEECNAIIEQFIDYLRTGQE 293
AE009952_0668: domain 1 of 1, from 136 to 196: score 46.9, E = 6.2e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + f+a+++HELRTPL++Ir+++el+++ + e +
AE009952_0 136 QERLFTADAAHELRTPLAGIRLHLELMEK---------QGIAESK-- 171
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ ++ l + i++lL lsr++++
AE009952_0 172 ---------------SLINRIDLLMHTIEQLLMLSRAGQN 196
AE009952_3813: 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
AE009952_3 497 AVGQLTGGLAHDFNNLLAVIIGSLELTAT----------DSSDATR- 532
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++l++aer +L ++lL +sr ++
AE009952_3 533 -------------IHRALKAAERGAQLTQRLLAFSRKQSL 559
AE009952_2106: domain 1 of 1, from 211 to 271: score 36.2, E = 6.3e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k ++ +++HELRTPL +r + + + l+e ++
AE009952_2 211 SKKLLIDGIAHELRTPLVRLRYRLAMSDN-----------LTESEQ- 245
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++ +l++Li++lL+++r++ +
AE009952_2 246 --------------QALHHDIGQLEALIDELLTYARLDRP 271
Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-17 1 0|=
-16 0 0|
-15 10 0|=
-14 37 0|===
-13 87 3|*======
-12 239 93|=======*===========
-11 382 484|============================== *
-10 668 899|==================================================== *
-9 722 928|======================================================== *
-8 708 695|=====================================================*=
-7 506 438|=================================*=====
-6 301 252|===================*====
-5 191 138|==========*====
-4 99 74|=====*==
-3 50 39|==*=
-2 26 20|=*
-1 24 10|*=
0 5 5|*
1 6 2|*
2 3 1|*
3 1 0|=
4 3 0|=
5 0 0|
> 6 21 -|==
% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 423.4789
P(chi-square) = 0
Total sequences searched: 4090
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
