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Classification of phyla is from NCBI page
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Data for CP000116  

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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)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000116.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
-------- ----------- ----- ------- ---
CP000116_0987 CDS_1053514-1050974 103.4 4.1e-29 1
CP000116_2671 CDS_2744919-2747444 98.6 9.1e-28 1
CP000116_1268 CDS_1331609-1333954 89.0 5e-25 1
CP000116_0217 CDS_237503-238852 87.1 1.6e-24 1
CP000116_1806 CDS_1908016-1909875 70.5 8.3e-20 1
CP000116_2571 CDS_2644400-2646304 65.6 2.1e-18 1
CP000116_0135 CDS_145615-144248 64.9 3.3e-18 1
CP000116_2501 CDS_2574394-2573303 63.6 7.9e-18 1
CP000116_1750 CDS_1840872-1842263 60.5 6e-17 1
CP000116_2610 CDS_2685777-2684512 59.5 1.1e-16 1
CP000116_2279 CDS_2352009-2353352 55.7 1.3e-15 1
CP000116_0903 CDS_957431-960127 55.5 1.5e-15 1
CP000116_1193 CDS_1257483-1254910 53.6 5.1e-15 1
CP000116_2769 CDS_2851281-2852735 50.6 3.7e-14 1
CP000116_2792 CDS_2872496-2873830 49.8 6.3e-14 1
CP000116_2353 CDS_2428751-2427465 47.6 2.6e-13 1
CP000116_1744 CDS_1833371-1831479 43.5 3.7e-12 1
CP000116_0018 CDS_17837-19969 31.8 7.9e-09 1
CP000116_1288 CDS_1355978-1357276 31.0 1.3e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000116_0987 1/1 364 429 .. 1 87 [] 103.4 4.1e-29
CP000116_2671 1/1 196 261 .. 1 87 [] 98.6 9.1e-28
CP000116_1268 1/1 264 329 .. 1 87 [] 89.0 5e-25
CP000116_0217 1/1 205 272 .. 1 87 [] 87.1 1.6e-24
CP000116_1806 1/1 408 473 .. 1 87 [] 70.5 8.3e-20
CP000116_2571 1/1 268 333 .. 1 87 [] 65.6 2.1e-18
CP000116_0135 1/1 232 297 .. 1 87 [] 64.9 3.3e-18
CP000116_2501 1/1 133 198 .. 1 87 [] 63.6 7.9e-18
CP000116_1750 1/1 243 309 .. 1 87 [] 60.5 6e-17
CP000116_2610 1/1 212 278 .. 1 87 [] 59.5 1.1e-16
CP000116_2279 1/1 184 250 .. 1 87 [] 55.7 1.3e-15
CP000116_0903 1/1 672 738 .. 1 87 [] 55.5 1.5e-15
CP000116_1193 1/1 634 702 .. 1 87 [] 53.6 5.1e-15
CP000116_2769 1/1 262 330 .. 1 87 [] 50.6 3.7e-14
CP000116_2792 1/1 225 289 .. 1 87 [] 49.8 6.3e-14
CP000116_2353 1/1 225 286 .. 1 87 [] 47.6 2.6e-13
CP000116_1744 1/1 404 474 .. 1 87 [] 43.5 3.7e-12
CP000116_0018 1/1 485 557 .. 1 87 [] 31.8 7.9e-09
CP000116_1288 1/1 224 280 .. 1 82 [. 31.0 1.3e-08

Alignments of top-scoring domains:
CP000116_0987: domain 1 of 1, from 364 to 429: score 103.4, E = 4.1e-29
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aksef+an+sHE+RTP+++I+g+++lLl+ t+l+ q
CP000116_0 364 AKSEFVANVSHEIRTPMHGILGMSSLLLK---------TPLDGRQ-- 399

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
rey++t++++ae+ll++ind+Ld+s+ieag
CP000116_0 400 ----------REYVSTLKSSAESLLKIINDILDFSKIEAG 429

CP000116_2671: domain 1 of 1, from 196 to 261: score 98.6, E = 9.1e-28
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks flan+sHELRTPL++++g a+lL e t+l+ eq
CP000116_2 196 AKSSFLANMSHELRTPLNGVIGVADLLAE---------TKLNKEQ-- 231

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+ ++i+ +a+ ll+Li+++Ld+srieag
CP000116_2 232 ----------KEFAQIIRTSADTLLELIDNVLDISRIEAG 261

CP000116_1268: domain 1 of 1, from 264 to 329: score 89.0, E = 5e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fla++sHE+RTP+++++g+ elLl + l+++q
CP000116_1 264 AKSDFLATMSHEIRTPMNGVLGMNELLLG---------SSLDPQQ-- 299

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r e++++++++ll ind+Ld+s+ie+g
CP000116_1 300 ----------RMWAESVQHSGQHLLGVINDILDFSKIESG 329

CP000116_0217: domain 1 of 1, from 205 to 272: score 87.1, E = 1.6e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHELRTPLt++ g++e+L e ++l++ +
CP000116_0 205 MRRDFIANVSHELRTPLTVVGGFVETLAE--------TDDLPPAES- 242

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+y++ +l+ ++r++rL++dlL lsr+e+
CP000116_0 243 ----------RRYFDLMLDHTRRMQRLLDDLLILSRLESA 272

CP000116_1806: domain 1 of 1, from 408 to 473: score 70.5, E = 8.3e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++an++HE+R+PL+aI +a+lL+e +++++ q
CP000116_1 408 ALGRLTANIAHEIRNPLSAITQAAQLLQE---------DAQGPTQ-- 443

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +i++ a+rl+rL++++L+l r +
CP000116_1 444 ----------TRLVAIIENNARRLDRLVEEVLTLNRRDRL 473

CP000116_2571: domain 1 of 1, from 268 to 333: score 65.6, E = 2.1e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+f+a++sH+LR+PL+a+++++ +L++ + +e+
CP000116_2 268 AKSRFFAAASHDLRQPLHALSLFVAALKA---------RNEQAET-- 303

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++ i+ ++ ++ L n lLd+sr++ag
CP000116_2 304 ----------QTLIDNIEASTAAMELLFNALLDISRLDAG 333

CP000116_0135: domain 1 of 1, from 232 to 297: score 64.9, E = 3.3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++f+a+++HELRTPL+a++ a+++++ ++ +e r
CP000116_0 232 NERRFTADAAHELRTPLAALKVQAQVAQR----------AQADEAR- 267

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +l + ++r+ +L+++lL+l+r +
CP000116_0 268 ----------RHALGQVVAGVDRMTHLVEQLLTLARVDPA 297

CP000116_2501: domain 1 of 1, from 133 to 198: score 63.6, E = 7.9e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e+l+nl+HE+++PL +Irg+a+lL+ el+ e +
CP000116_2 133 ANRELLRNLAHEIKNPLGGIRGAAQLLEH----------ELPRESL- 168

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
rey+++i++e++rl++L ++lL+ r +
CP000116_2 169 ----------REYTQVIIKESDRLQSLMERLLTPHRVPHF 198

CP000116_1750: domain 1 of 1, from 243 to 309: score 60.5, E = 6e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++s f ++++HELRTP++ +++ ++++l +++ e+
CP000116_1 243 RLSAFSSDIAHELRTPISNLMTQTQVALS---------NARGNEE-- 278

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
y+e+l + l+e er+ +++ d+L l+++++g
CP000116_1 279 ---------YKEILYSNLEEYERMAQMVGDMLYLAQADHG 309

CP000116_2610: domain 1 of 1, from 212 to 278: score 59.5, E = 1.1e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + f+a++sHELRTP+++Irg+ae+Ll+ d+ ++e++
CP000116_2 212 RERAFTADVSHELRTPIAVIRGAAEVLLA--------DASRPEKE-- 248

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ le+i+r a + +L lL ++r +
CP000116_2 249 ----------RQRLERIERGAADMADLSTALLAMARERDD 278

CP000116_2279: domain 1 of 1, from 184 to 250: score 55.7, E = 1.3e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ fla lsH+LR+PLt Ir++a ++ + ++e +++
CP000116_2 184 SRRMFLAVLSHDLRNPLTCIRMAALVISR--------SAEGNAKA-- 220

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l+ i+ a+ ++rLi+dl d++ + g
CP000116_2 221 ----------SRLLSQIETNADAIRRLIDDLIDFASTGLG 250

CP000116_0903: domain 1 of 1, from 672 to 738: score 55.5, E = 1.5e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++a+++HE R+PL+aI + +L+ +++ +
CP000116_0 672 VMGQMAASVAHEVRNPLSAINNCLAVLRP--------EAATQPRS-- 708

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +le+i++e+erl +L +++L + + +a+
CP000116_0 709 ----------QAALEIIQDEVERLTNLTSNFLSFGKPRAP 738

CP000116_1193: domain 1 of 1, from 634 to 702: score 53.6, E = 5.1e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f ++sH+LR PL aI g++ +Ll+++ te+ +e+
CP000116_1 634 ELEAFSYSVSHDLRAPLRAIDGFSRILLTDY-------TERLDETG- 672

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l +i+r+a+++ Li+dlL lsr
CP000116_1 673 ----------RDRLGRIRRAAQHMGTLIDDLLKLSRVTRT 702

CP000116_2769: domain 1 of 1, from 262 to 330: score 50.6, E = 3.7e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k +fl+ +sHEL+TPL+++r + lL +el + l++ q
CP000116_2 262 QKLQFLRQVSHELKTPLASLREGVALLGDELA------GSLNPRQ-- 300

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r ++ +++ ++ l++ i+dlL + ++
CP000116_2 301 ----------RAIVTIMDTGSRDLQQRIEDLLRYGNLQDA 330

CP000116_2792: domain 1 of 1, from 225 to 289: score 49.8, E = 6.3e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+++++HELRTPLta+++++++++ + ++
CP000116_2 225 RERRFTSDVAHELRTPLTAVKTHLQVARI----------THGAAA-- 259

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l+ +++ a rl++ +++lL+l++ e +
CP000116_2 260 ----------ETALDFAEEGASRLQHTLQQLLTLAQVEGP 289

CP000116_2353: domain 1 of 1, from 225 to 286: score 47.6, E = 2.6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +la++sH+LRTP+t +++++e+L++ + s+
CP000116_2 225 NRTTLLAGISHDLRTPMTRLQLHLEMLRD----------APSPAR-- 259

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ ++ +++Li L+l+r +
CP000116_2 260 -------------IDRAVADLADMNKLITGYLELARTTQA 286

CP000116_1744: domain 1 of 1, from 404 to 474: score 43.5, E = 3.7e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++e+ +l+HEL++PL+aI ya+ Ll++l+ ++ ++ +
CP000116_1 404 VLGELSGTLAHELNQPLAAIGNYAQSLLRRLE-----SGRYTPAIL- 444

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+ e i +aer ++++++ ++ +a
CP000116_1 445 ----------AEASEEIAVQAERAGGIVRRIRAFASKRAA 474

CP000116_0018: domain 1 of 1, from 485 to 557: score 31.8, E = 7.9e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a se ++ l+HE+++PLt I++ ae + ++l + + e q +
CP000116_0 485 AWSEVARRLAHEIKNPLTPIQLSAERIARKL-------GGRLEAQDA 524

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ L +++++ti +++ + ++++ + ++r+
CP000116_0 525 DFL-------ARATQTIVNQVAAMKNMVDAFAGYARMPRA 557

CP000116_1288: domain 1 of 1, from 224 to 280: score 31.0, E = 1.3e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ s +la++sH+LR P+t r+++el+++ +d
CP000116_1 224 SSSIMLAGISHDLRAPITRARMALELARASMD--------------- 255

peLRledpeyreyletilreaerllrLindlLdls<-*
+ + +i+r++ +++ Li + Ld++
CP000116_1 256 ----------ESLALRIERALIQMETLIAQYLDFT 280


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 1 0|=
-14 5 0|=
-13 25 2|*==
-12 97 64|======*===
-11 263 335|=========================== *
-10 422 621|=========================================== *
-9 552 641|======================================================== *
-8 529 480|===============================================*=====
-7 362 302|==============================*======
-6 214 174|=================*====
-5 147 95|=========*=====
-4 79 51|=====*==
-3 50 27|==*==
-2 26 14|=*=
-1 20 7|*=
0 7 3|*
1 0 2|*
2 2 1|*
3 1 0|=
4 1 0|=
5 0 0|
6 0 0|
> 7 24 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 227.3367
P(chi-square) = 2.889e-312

Total sequences searched: 2827

Whole sequence top hits:
tophits_s report:
Total hits: 19
Satisfying E cutoff: 19
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 19
Satisfying E cutoff: 19
Total memory: 28K


Acknowledgements:

This research is funded by:

Developed by: