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Classification of phyla is from NCBI page
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2 accessions found for Verminephrobacter eiseniae EF01-2  

Data for CP000542  

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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: CP000542.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
-------- ----------- ----- ------- ---
CP000542_1262 CDS_1424916-1423510 90.3 3.6e-25 1
CP000542_1691 CDS_1926570-1930157 86.6 4e-24 1
CP000542_0340 CDS_387741-386365 67.8 8.7e-19 1
CP000542_3090 CDS_3509239-3508148 65.0 5.4e-18 1
CP000542_2223 CDS_2573558-2575852 60.8 8.2e-17 1
CP000542_1466 CDS_1677455-1675758 58.9 3e-16 1
CP000542_0355 CDS_407459-408907 58.0 5.2e-16 1
CP000542_2584 CDS_2979499-2978204 46.8 7.6e-13 1
CP000542_4389 CDS_4955735-4953522 45.8 1.5e-12 1
CP000542_1880 CDS_2153594-2156140 38.4 1.8e-10 1
CP000542_4272 CDS_4810108-4808579 38.2 2.1e-10 1
CP000542_4728 CDS_5335759-5333213 29.9 4.8e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000542_1262 1/1 228 294 .. 1 87 [] 90.3 3.6e-25
CP000542_1691 1/1 724 790 .. 1 87 [] 86.6 4e-24
CP000542_0340 1/1 235 301 .. 1 87 [] 67.8 8.7e-19
CP000542_3090 1/1 139 204 .. 1 87 [] 65.0 5.4e-18
CP000542_2223 1/1 528 600 .. 1 87 [] 60.8 8.2e-17
CP000542_1466 1/1 326 391 .. 1 87 [] 58.9 3e-16
CP000542_0355 1/1 244 310 .. 1 87 [] 58.0 5.2e-16
CP000542_2584 1/1 219 281 .. 1 87 [] 46.8 7.6e-13
CP000542_4389 1/1 326 392 .. 1 87 [] 45.8 1.5e-12
CP000542_1880 1/1 597 667 .. 1 87 [] 38.4 1.8e-10
CP000542_4272 1/1 259 318 .. 1 87 [] 38.2 2.1e-10
CP000542_4728 1/1 601 678 .. 1 87 [] 29.9 4.8e-08

Alignments of top-scoring domains:
CP000542_1262: domain 1 of 1, from 228 to 294: score 90.3, E = 3.6e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHE+RTPLt+++g++e+L++ +ls+e+r
CP000542_1 228 MRRDFVANVSHEIRTPLTVLIGFVETLQT---------LPLSAEER- 264

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+yl + ++a r+++ ++dlL+lsr+e
CP000542_1 265 ----------SRYLGLMAQQALRMQNVVQDLLTLSRLEGS 294

CP000542_1691: domain 1 of 1, from 724 to 790: score 86.6, E = 4e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+ ++++sHELRTPL++I+gya+l+ e ++ ++qr
CP000542_1 724 AKSRYISAISHELRTPLNSILGYAQLMSE---------DPGLPPQR- 760

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++++i+r +e+ll+Li+ Ld++rie+g
CP000542_1 761 ----------QQAVHVIRRGGEHLLSLIEGTLDIARIESG 790

CP000542_0340: domain 1 of 1, from 235 to 301: score 67.8, E = 8.7e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f a+++HELRTPL+ ++g ++++l e+s+++
CP000542_0 235 QLEAFNADVAHELRTPLANLIGETQVALS---------RERSAPE-- 270

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ l++ l+e +rl+++ind+L l+r ++g
CP000542_0 271 ---------FESVLQSNLEEMDRLRSIINDMLFLARCDQG 301

CP000542_3090: domain 1 of 1, from 139 to 204: score 65.0, E = 5.4e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a e+++nl+HE+++PL +Irg+a+lL++ el + ++
CP000542_3 139 AHKELIRNLAHEIKNPLGGIRGAAQLLEM----------ELESREL- 174

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ey ++i++ea+rl++L+++lL r +
CP000542_3 175 ----------AEYAQVIIHEADRLQSLVDRLLAPHRHPHL 204

CP000542_2223: domain 1 of 1, from 528 to 600: score 60.8, E = 8.2e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e ++ l+HE+++PLt I++ ae L ++l +++l++++++
CP000542_2 528 AWGEVARRLAHEIKNPLTPIQLSAERLAMKL------SGKLPDPEQA 568

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
L + ++ti ++++ + rL+n+++d++r+ a
CP000542_2 569 ILL--------KSVKTIVDQVDAMKRLVNEFRDYARLPAA 600

CP000542_1466: domain 1 of 1, from 326 to 391: score 58.9, E = 3e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++ a+++HE+R+PL+aI + lL+e + ++ q
CP000542_1 326 AMGRMSAAVAHEIRNPLAAIVQANALLEE---------DLHDPAQ-- 361

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + +++ a+rl r+ +++Ld++r +++
CP000542_1 362 ----------KRLARMVQQNADRLARIAEEVLDIARVQHQ 391

CP000542_0355: domain 1 of 1, from 244 to 310: score 58.0, E = 5.2e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +fla+++H+L+TPL+++r+ a+l+++ + s e++
CP000542_0 244 TQKRFLADAAHQLKTPLAGLRMQADLAQR---------EGTSTEEI- 280

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ l+ i r++ r + +n+lL l+ +e
CP000542_0 281 ----------RRSLQQIGRSSIRATHTVNQLLALAHAEGS 310

CP000542_2584: domain 1 of 1, from 219 to 281: score 46.8, E = 7.6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +lan+sHELR PLt Ir+ +el+ +++++
CP000542_2 219 SHKSLLANASHELRSPLTRIRMGLELMSG----------DQPSPA-- 253

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e il+ + l++L++++L sr++a
CP000542_2 254 ------------FREEILHNIAELDQLVDEILLASRLDAR 281

CP000542_4389: domain 1 of 1, from 326 to 392: score 45.8, E = 1.5e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++ +++H++++ L aI+g++ l+++ + +++ +
CP000542_4 326 AVGTMAGGIAHDFNNILGAILGNVALAQA---------DCAPDSPV- 362

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l i+++++r ++L++++L++sr + +
CP000542_4 363 ----------LQSLLEIDKAGRRARDLVRQILTFSRNQPP 392

CP000542_1880: domain 1 of 1, from 597 to 667: score 38.4, E = 1.8e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++e++++l+HEL++PLtaI y++ Ll + + + l+ee +
CP000542_1 597 TMGEMASSLAHELNQPLTAINNYCSGLLLRI-----QNGQLGEEAL- 637

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e l++ ++a+r ++i+ ++ + + ++
CP000542_1 638 ----------LETLQKTAHQAQRAGQIIQHIRSFVQKSEP 667

CP000542_4272: domain 1 of 1, from 259 to 318: score 38.2, E = 2.1e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +la++sH+LRTPL+ +r+ +e+ ++
CP000542_4 259 DRAVMLAGISHDLRTPLARLRLETEMSVAD----------------- 288

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + e + ++ +l++ i+ +Ld++r ++
CP000542_4 289 ----------EVAREHMVADIVQLDATIDKFLDYARPDHV 318

CP000542_4728: domain 1 of 1, from 601 to 678: score 29.9, E = 4.8e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+e+++ lsHEL++PL+aI ya l+ l+g + ++ +
CP000542_4 601 TVGEMASLLSHELNQPLAAIASYANGSLN-----LLGPARPGASVGP 642

peLR.ledpeyreyletilreaerllrLindlLdlsrieag<-*
++L +l r + + i r+aer r i + d+ r + +
CP000542_4 643 DALQdL-----RMAMQQIARQAERAGRVIKSVHDFVRRRDQ 678


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-15 1 0|=
-14 4 0|=
-13 39 3|*==
-12 160 112|======*===
-11 398 581|======================== *
-10 765 1079|============================================= *
-9 986 1114|==========================================================*
-8 952 834|=================================================*======
-7 681 525|==============================*==========
-6 395 302|=================*======
-5 237 166|=========*====
-4 120 88|=====*==
-3 72 46|==*==
-2 43 24|=*=
-1 20 12|*=
0 11 6|*
1 4 3|*
2 1 1|*
> 3 19 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 350.2881
P(chi-square) = 0

Total sequences searched: 4908

Whole sequence top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 25K


Acknowledgements:

This research is funded by:

Developed by: