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: AE003852.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
-------- ----------- ----- ------- ---
AE003852_1329 CDS_1436615-1440610 97.7 1.6e-27 1
AE003852_2417 CDS_2634597-2637380 94.5 1.3e-26 1
AE003852_1801 CDS_1973701-1971491 90.9 1.3e-25 1
AE003852_0707 CDS_772978-774279 80.1 1.6e-22 1
AE003852_1424 CDS_1541452-1543170 79.8 2e-22 1
AE003852_2334 CDS_2527682-2525325 75.1 4e-21 1
AE003852_0610 CDS_661767-658234 74.7 5.4e-21 1
AE003852_1626 CDS_1786180-1782740 71.4 4.7e-20 1
AE003852_2709 CDS_2921393-2922457 60.6 5.4e-17 1
AE003852_1299 CDS_1403647-1402325 58.5 2.1e-16 1
AE003852_0299 CDS_311277-314720 56.5 7.5e-16 1
AE003852_2103 CDS_2291200-2290145 56.4 8.4e-16 1
AE003852_1895 CDS_2075741-2077534 52.4 1.1e-14 1
AE003852_2675 CDS_2888382-2887066 51.0 2.8e-14 2
AE003852_2656 CDS_2860491-2861885 50.2 4.7e-14 1
AE003852_1497 CDS_1636725-1634692 39.9 4e-11 1
AE003852_1137 CDS_1228207-1226912 29.3 3.9e-08 2
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AE003852_1329 1/1 606 671 .. 1 87 [] 97.7 1.6e-27
AE003852_2417 1/1 290 355 .. 1 87 [] 94.5 1.3e-26
AE003852_1801 1/1 356 421 .. 1 87 [] 90.9 1.3e-25
AE003852_0707 1/1 205 272 .. 1 87 [] 80.1 1.6e-22
AE003852_1424 1/1 211 275 .. 1 87 [] 79.8 2e-22
AE003852_2334 1/1 282 347 .. 1 87 [] 75.1 4e-21
AE003852_0610 1/1 507 575 .. 1 87 [] 74.7 5.4e-21
AE003852_1626 1/1 621 686 .. 1 87 [] 71.4 4.7e-20
AE003852_2709 1/1 131 196 .. 1 87 [] 60.6 5.4e-17
AE003852_1299 1/1 212 277 .. 1 87 [] 58.5 2.1e-16
AE003852_0299 1/1 788 853 .. 1 87 [] 56.5 7.5e-16
AE003852_2103 1/1 125 191 .. 1 87 [] 56.4 8.4e-16
AE003852_1895 1/1 373 441 .. 1 87 [] 52.4 1.1e-14
AE003852_2656 1/1 247 309 .. 1 87 [] 50.2 4.7e-14
AE003852_2675 2/2 226 286 .. 1 87 [] 49.3 8.5e-14
AE003852_1497 1/1 445 512 .. 1 87 [] 39.9 4e-11
Alignments of top-scoring domains:
AE003852_1329: domain 1 of 1, from 606 to 671: score 97.7, E = 1.6e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak++flan+sHE+RTP++aI+g+a+l+l+ t+l+ q
AE003852_1 606 AKGDFLANMSHEIRTPMNAILGMAHLALN---------TPLDTTQ-- 641
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+y+ +i ++a+ ll +ind+Ld+s++eag
AE003852_1 642 ----------RKYVTRINESAKNLLGIINDILDFSKMEAG 671
AE003852_2417: domain 1 of 1, from 290 to 355: score 94.5, E = 1.3e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++++g++ +l+ t l+ q
AE003852_2 290 VKSEFLANMSHELRTPLNGVIGFTRQMLK---------TQLTNSQ-- 325
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl+ti+++a+ ll +ind+Ld+s++eag
AE003852_2 326 ----------ADYLQTIEKSANNLLTIINDILDFSKLEAG 355
AE003852_1801: domain 1 of 1, from 356 to 421: score 90.9, E = 1.3e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks fla+lsHE+RTP+++++g+a++Ll+ +el+++q
AE003852_1 356 AKSAFLATLSHEIRTPMNGVLGTAQILLK---------DELTSKQ-- 391
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l ++++++e++ +L+n++Ld+s+ie+g
AE003852_1 392 ----------RQHLTSLYESGEHMMSLLNEILDYSKIEQG 421
AE003852_0707: domain 1 of 1, from 205 to 272: score 80.1, E = 1.6e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f+an+sHELRTP+t+++gy+e+ ++ ++ +
AE003852_0 205 MRRNFFANVSHELRTPMTVLQGYLEMTED---------PDVLAGP-- 240
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ ++ ++ ++++r++ L+n+lL+ls+iea
AE003852_0 241 --------MWSKAHGVMTEQLNRMNGLVNQLLTLSKIEAS 272
AE003852_1424: domain 1 of 1, from 211 to 275: score 79.8, E = 2e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks fla++sHELRTPL+a++g++++L+ e ++ q
AE003852_1 211 SKSNFLAMMSHELRTPLNAVLGLIDILRG----------ESTSYQ-- 245
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+le ++++ae ll +ind+Ldlsrie+g
AE003852_1 246 ----------VELLEQMENSAELLLIIINDILDLSRIESG 275
AE003852_2334: domain 1 of 1, from 282 to 347: score 75.1, E = 4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ f++++sHELRTPL++I g++ +Ll+ t+ls eq
AE003852_2 282 DKTTFISTISHELRTPLNGIVGLSRMLLD---------TPLSGEQ-- 317
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l+ti +a l ++ nd+ d+ + +
AE003852_2 318 ----------RKHLQTINVSAVTLGNIFNDIIDMDKFDRR 347
AE003852_0610: domain 1 of 1, from 507 to 575: score 74.7, E = 5.4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+efla+ sHELRTPL++++g ae+L +++ ++ s+ +
AE003852_0 507 LKDEFLATTSHELRTPLHGMIGIAEALISGAN------GPISAAH-- 545
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l++i+++++rl L++dlLd+ +++ g
AE003852_0 546 ----------KYQLDIIISSGQRLATLVDDLLDYHKMRYG 575
AE003852_1626: domain 1 of 1, from 621 to 686: score 71.4, E = 4.7e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ fla +sHELRTP++a++g+ e+L +s+e
AE003852_1 621 ARNHFLAVVSHELRTPIAAMLGLMEILAS---------RLKSSES-- 656
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l ++++aerl +nd+Ld+s+iea+
AE003852_1 657 ----------QLLLTNAISSAERLKLHVNDILDFSKIEAQ 686
AE003852_2709: domain 1 of 1, from 131 to 196: score 60.6, E = 5.4e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++l+HE+++PL ++rg+a+lL++ l+++ +
AE003852_2 131 AAKLLVRGLAHEIKNPLGGLRGAAQLLER----------MLPDPAL- 166
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
ey+++i+++a+rl+ L+++lL r ++
AE003852_2 167 ----------MEYTQIIIEQADRLRGLVDRLLGPQRPGEK 196
AE003852_1299: domain 1 of 1, from 212 to 277: score 58.5, E = 2.1e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++ +++H+LRTP+ I+ ae+L e + l+++q
AE003852_1 212 SNKALTNAIAHDLRTPIFRIQWQAEVLAE---------SQLNAKQ-- 247
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ + +i++++e ++ ++++lL ++++e++
AE003852_1 248 ----------QQQVASIIEDTEEMETMVDELLYYAKLEHP 277
AE003852_0299: domain 1 of 1, from 788 to 853: score 56.5, E = 7.5e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+fla++sH+L +PL+a r++a+ L e ++ +e
AE003852_0 788 SKSRFLAAVSHDLMQPLNAARLFASSLSE---------VAKEAEV-- 823
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + i++++ ++Li+dlLd+sr+e+g
AE003852_0 824 ----------QKLAHHIESALGAAEDLISDLLDISRLESG 853
AE003852_2103: domain 1 of 1, from 125 to 191: score 56.4, E = 8.4e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++a+l+H+ RTPL++ ++ya L + ++l++ +r
AE003852_2 125 SLGRMVASLAHQVRTPLSSAMLYAANLAA---------PNLPPATR- 161
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ + ++ l++++nd+L +++ + +
AE003852_2 162 ----------ERFQSKLVDRLHDLEKQVNDMLLFAKGGDN 191
AE003852_1895: domain 1 of 1, from 373 to 441: score 52.4, E = 1.1e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ a++sHEL++PL+aIr +a+ +++l t+++e
AE003852_1 373 VLGQMSASISHELNNPLAAIRSFADNGRRFLA------TNKPERA-- 411
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e l++i +er+ ++ ++l ++r +
AE003852_1 412 ----------EENLSRISALTERMAKISEQLKSFARKSTS 441
AE003852_2656: domain 1 of 1, from 247 to 309: score 50.2, E = 4.7e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++l+++sHELR PLt +r++ l+ + s+ +
AE003852_2 247 GQQRLLSDISHELRSPLTRLRMANALAMR---------KLGSSSE-- 282
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le+i+ ea+rl+++i dlL lsr++ +
AE003852_2 283 -------------LERIDTEAQRLEQMIGDLLALSRMQIN 309
AE003852_2675: domain 2 of 2, from 226 to 286: score 49.3, E = 8.5e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++a++sH++RTPLt Ir+++e++ e+
AE003852_2 226 DRALLMAGISHDIRTPLTRIRLATEMMSP--------------ED-- 256
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e+i++++e ++++i++++d+ + +
AE003852_2 257 ----------SYLAESIISDTEECNQIISQFMDYLKPVNR 286
AE003852_1497: domain 1 of 1, from 445 to 512: score 39.9, E = 4e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e++a+++HE+++P ++I+g++el++ el ++ +
AE003852_1 445 ALGELTAGIAHEINNPTAVILGNTELIRFEL-------GADASRV-- 482
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e ++ il ++er++++ + lL++sr +
AE003852_1 483 ----------EEEIDAILLQIERIRNITRSLLQYSRQGGV 512
Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 5 0|=
-14 31 0|====
-13 65 2|*========
-12 143 62|=======*==========
-11 241 324|=============================== *
-10 437 601|======================================================= *
-9 468 621|==========================================================*
-8 459 465|==========================================================*
-7 323 293|====================================*====
-6 210 168|====================*======
-5 120 92|===========*===
-4 76 49|======*===
-3 57 26|===*====
-2 36 13|=*===
-1 18 7|*==
0 13 3|*=
1 2 1|*
2 3 1|*
3 5 0|=
4 1 0|=
5 0 0|
6 1 0|=
7 1 0|=
8 0 0|
> 9 21 -|===
% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 332.1727
P(chi-square) = 0
Total sequences searched: 2736
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: 16
Satisfying E cutoff: 16
Total memory: 27K
