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: CP000738.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
-------- ----------- ----- ------- ---
CP000738_0637 CDS_691791-689473 100.3 3.8e-28 1
CP000738_1581 CDS_1695735-1697270 94.8 1.3e-26 1
CP000738_0613 CDS_664192-665769 90.4 2.4e-25 1
CP000738_0027 CDS_22461-24680 85.6 5.6e-24 1
CP000738_0118 CDS_131391-132638 81.3 9.1e-23 1
CP000738_0316 CDS_347796-344380 72.7 2.5e-20 1
CP000738_3210 CDS_3428350-3425870 70.4 1.1e-19 1
CP000738_3215 CDS_3433285-3431549 69.4 2.2e-19 1
CP000738_1080 CDS_1156651-1157793 55.1 2.4e-15 1
CP000738_0635 CDS_685009-686406 50.8 4e-14 1
CP000738_0164 CDS_183860-180354 49.9 7.5e-14 1
CP000738_1082 CDS_1159461-1161734 48.5 1.8e-13 1
CP000738_3238 CDS_3456328-3455027 45.5 1.3e-12 1
CP000738_2218 CDS_2323543-2324961 36.7 4.1e-10 1
CP000738_1507 CDS_1613060-1610442 29.6 4.1e-08 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000738_0637 1/1 546 615 .. 1 87 [] 100.3 3.8e-28
CP000738_1581 1/1 261 330 .. 1 87 [] 94.8 1.3e-26
CP000738_0613 1/1 239 308 .. 1 87 [] 90.4 2.4e-25
CP000738_0027 1/1 229 294 .. 1 87 [] 85.6 5.6e-24
CP000738_0118 1/1 193 260 .. 1 87 [] 81.3 9.1e-23
CP000738_0316 1/1 906 975 .. 1 87 [] 72.7 2.5e-20
CP000738_3210 1/1 597 665 .. 1 87 [] 70.4 1.1e-19
CP000738_3215 1/1 341 406 .. 1 87 [] 69.4 2.2e-19
CP000738_1080 1/1 138 202 .. 1 87 [] 55.1 2.4e-15
CP000738_0635 1/1 240 305 .. 1 87 [] 50.8 4e-14
CP000738_0164 1/1 800 865 .. 1 87 [] 49.9 7.5e-14
CP000738_1082 1/1 507 579 .. 1 87 [] 48.5 1.8e-13
CP000738_3238 1/1 209 275 .. 1 87 [] 45.5 1.3e-12
CP000738_2218 1/1 269 327 .. 1 87 [] 36.7 4.1e-10
CP000738_1507 1/1 479 545 .. 1 87 [] 29.6 4.1e-08
Alignments of top-scoring domains:
CP000738_0637: domain 1 of 1, from 546 to 615: score 100.3, E = 3.8e-28
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
akseflan+sHELRTPL+aI+g++e+L+++++ ++l++e+
CP000738_0 546 AKSEFLANMSHELRTPLNAILGFSEILQDQMF------GPLGSEK-- 584
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+ey + i +++++ll+ ind+Ld+s+ieag
CP000738_0 585 ---------YHEYSRDIFESGKHLLNVINDILDMSKIEAG 615
CP000738_1581: domain 1 of 1, from 261 to 330: score 94.8, E = 1.3e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fla++sHELRTPL+aI+g++e++ +e+ ++ls ++
CP000738_1 261 AKSRFLASMSHELRTPLNAILGFSEVMSTEV------LGPLSNPT-- 299
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+ey+ i+r++e+ll+Lin++Ldlsrieag
CP000738_1 300 ---------YKEYTLDIHRSGEHLLNLINEILDLSRIEAG 330
CP000738_0613: domain 1 of 1, from 239 to 308: score 90.4, E = 2.4e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak++fla++sHELRTPL+aI+g++++L e++ ++l + +
CP000738_0 239 AKTRFLAAVSHELRTPLNAILGFSDVLAGEYF------GKLENDRQ- 278
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
rey++ i++++ +ll+ +n +Ld+s+ieag
CP000738_0 279 ----------REYVSLIHQSGTHLLSVVNTMLDMSKIEAG 308
CP000738_0027: domain 1 of 1, from 229 to 294: score 85.6, E = 5.6e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks++la++sHE+RTPL++I+g++ lL e t ls+eq
CP000738_0 229 AKSRLLATVSHEIRTPLSGILGMSRLLAE---------TRLSDEQ-- 264
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ yl ++++++ l +L++dl d+s + ag
CP000738_0 265 ----------KNYLVGMQQSGHTLVQLVEDLIDFSSLAAG 294
CP000738_0118: domain 1 of 1, from 193 to 260: score 81.3, E = 9.1e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++s+f+an+sHELRTPL+++rg++e+L+ +++ + +++
CP000738_0 193 MRSDFVANASHELRTPLASLRGFIETLQG---------PAREDRKAQ 230
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ ++++++ r++rL++dlL lsr+e
CP000738_0 231 ----------EKFFGIMHEQVTRMSRLVDDLLSLSRLELK 260
CP000738_0316: domain 1 of 1, from 906 to 975: score 72.7, E = 2.5e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+efla +sHE+RTPL+aI+g+++++ + ++ + +
CP000738_0 906 HKTEFLARVSHEIRTPLNAIIGFSDMMAS------EHFGPIGHPR-- 944
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y ey i r++++ l+++ndlLd+s+ieag
CP000738_0 945 ---------YIEYAGDIGRSGRHVLDIVNDLLDISKIEAG 975
CP000738_3210: domain 1 of 1, from 597 to 665: score 70.4, E = 1.1e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++f+ ++s ELR PLt I+g+a+lL++ ++ +el+e q
CP000738_3 597 LKNDFVHHVSYELRSPLTNIIGFADLLKTPVF------GELNERQ-- 635
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ey++ i ++ ll ++nd+Ldl+ +ag
CP000738_3 636 ----------AEYVDHIATSSSLLLTIVNDILDLATVDAG 665
CP000738_3215: domain 1 of 1, from 341 to 406: score 69.4, E = 2.2e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + f+a++sHEL++PLt++r ++e+L +++ee +
CP000738_3 341 AIENFAADVSHELKNPLTSLRSAVETLPL----------ARNEESK- 376
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++i+++++rl+rLi+d+ d sr++a+
CP000738_3 377 ----------KRLMDVIQHDVRRLDRLISDISDASRLDAE 406
CP000738_1080: domain 1 of 1, from 138 to 202: score 55.1, E = 2.4e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + ++++l+HE+++PL++Irg+a+lL++ ++e+
CP000738_1 138 SVTGLASMLAHEIKNPLSGIRGAAQLLET----------SVNDED-- 172
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +++ i +e++r+ +L++++ +s +
CP000738_1 173 ----------RALTRLICDETDRIVSLVDRMEVFSDERPV 202
CP000738_0635: domain 1 of 1, from 240 to 305: score 50.8, E = 4e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + n++H+L+TPLt +r ae++l+ + +e+ r
CP000738_0 240 GLKQVSDNIAHDLKTPLTRLRNKAEAALA----------DGGEDSR- 275
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+le i+ e+++l r n lL +sr eag
CP000738_0 276 ----------SGALEQIIAESDQLIRTFNALLMISRVEAG 305
CP000738_0164: domain 1 of 1, from 800 to 865: score 49.9, E = 7.5e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++f+a++ H++ +PL+a r+y++ L e l++ ++
CP000738_0 800 GKTRFFAAAGHDILQPLNAARLYSSSLVE----------RLGDSEN- 835
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +++ i++++e+ ++++ +Ld+sr+++g
CP000738_0 836 ----------RSLVQNIDSSLESVEAILGAVLDISRLDTG 865
CP000738_1082: domain 1 of 1, from 507 to 579: score 48.5, E = 1.8e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++ ++HE+++PLt I++ ae L++++ ++ ++++ +
CP000738_1 507 AWADVARRIAHEIKNPLTPIQLSAERLKRRY----GKQINQDDRAV- 548
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + +eti r++e + r+++++ ++r+ +
CP000738_1 549 ---------FDQCTETIVRQVEDIGRMVDEFSAFARMPKP 579
CP000738_3238: domain 1 of 1, from 209 to 275: score 45.5, E = 1.3e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ ++a+++HEL TPL++I+ a+ +++ el+++ r
CP000738_3 209 QLDGLAAAAAHELGTPLATISVVAKEMER----------ELGDDPR- 244
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e ++ +++++er+++++++l +ls ++
CP000738_3 245 ---------FGEDVHLLRSQSERCRDILRRLTTLSSESEE 275
CP000738_2218: domain 1 of 1, from 269 to 327: score 36.7, E = 4.1e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ +l ++sH+LRT Lt ++ + l +
CP000738_2 269 QRTAMLTGVSHDLRTILTRFKLQLALVGN------------------ 297
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
le++ +++e ++++++ L ++r ea+
CP000738_2 298 ----------NPDLESLNQDVEDMQNMLEGYLAFARGEAE 327
CP000738_1507: domain 1 of 1, from 479 to 545: score 29.6, E = 4.1e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++ +++H++++ LtaI++ a+ Ll ++++++ +
CP000738_1 479 AVGTLAGGIAHDFNNVLTAILLSADHLLL---------SARPADAT- 515
peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l i+r a+r L+++lL +sr ++
CP000738_1 516 ----------FADLMEIKRNANRAAVLVRQLLAFSRKQTM 545
Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-15 2 0|=
-14 9 0|=
-13 31 2|*==
-12 150 80|======*======
-11 327 418|============================ *
-10 629 776|===================================================== *
-9 680 801|========================================================= *
-8 577 600|=================================================*
-7 488 378|===============================*=========
-6 290 217|==================*======
-5 150 119|=========*===
-4 79 63|=====*=
-3 49 33|==*==
-2 20 17|=*
-1 16 9|*=
0 9 4|*
1 1 2|*
2 1 1|*
3 2 0|=
> 4 19 -|==
% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 206.2016
P(chi-square) = 3.836e-38
Total sequences searched: 3529
Whole sequence top hits:
tophits_s report:
Total hits: 15
Satisfying E cutoff: 15
Total memory: 21K
Domain top hits:
tophits_s report:
Total hits: 15
Satisfying E cutoff: 15
Total memory: 26K
