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Classification of phyla is from NCBI page
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4 accessions found for Sinorhizobium medicae WSM419  

Data for CP000740  

Available Atlases
Other Plots
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: CP000740.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
-------- ----------- ----- ------- ---
CP000740_0302 CDS_326504-329197 65.2 1.1e-18 1
CP000740_0862 CDS_981034-979682 53.8 1.8e-15 1
CP000740_1089 CDS_1236630-1237460 39.8 1.7e-11 1
CP000740_1042 CDS_1194167-1192563 38.6 3.7e-11 1
CP000740_0492 CDS_542774-541185 34.7 4.5e-10 1
CP000740_0444 CDS_488762-486135 32.5 1.9e-09 1
CP000740_0545 CDS_601697-599823 27.6 4.9e-08 2

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000740_0302 1/1 664 732 .. 1 87 [] 65.2 1.1e-18
CP000740_0862 1/1 230 295 .. 1 87 [] 53.8 1.8e-15
CP000740_1089 1/1 68 126 .. 1 87 [] 39.8 1.7e-11
CP000740_1042 1/1 304 375 .. 1 87 [] 38.6 3.7e-11
CP000740_0492 1/1 166 232 .. 1 87 [] 34.7 4.5e-10
CP000740_0444 1/1 637 707 .. 1 87 [] 32.5 1.9e-09

Alignments of top-scoring domains:
CP000740_0302: domain 1 of 1, from 664 to 732: score 65.2, E = 1.1e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +l+++sH+LRTPL++I g++ L+ + + +++e r
CP000740_0 664 FRQALLSSISHDLRTPLATITGAVTSLRQLG-------ERMPPESR- 702

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l++i++e+ rl r + +lLd++r eag
CP000740_0 703 ----------DDLLKSIEEESGRLTRFVANLLDMTRVEAG 732

CP000740_0862: domain 1 of 1, from 230 to 295: score 53.8, E = 1.8e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++an +HELRTPL++ ++ elL ++l t+ ++ r
CP000740_0 230 AERDLAANSAHELRTPLAGALAQMELLADQL-------TAPDDRSR- 268

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l++++rl+ +++ lL+lsr++ag
CP000740_0 269 -------------SDRVLEALRRLSLMLEKLLQLSRADAG 295

CP000740_1089: domain 1 of 1, from 68 to 126: score 39.8, E = 1.7e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++la++sH+LRTPLt++r+ ae +
CP000740_1 68 DRTRMLAAISHDLRTPLTSLRLRAEFVTD------------------ 96

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ ++ ++ + + L ++r e+
CP000740_1 97 ----------ADAQQRMMATIDEIQTMTEAALAFAREESV 126

CP000740_1042: domain 1 of 1, from 304 to 375: score 38.6, E = 3.7e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e++++l+HEL++PL+aI y++ + + l ++++ +
CP000740_1 304 EMGEMASTLAHELNQPLSAIANYSHGCTRLL-------RDMDDAVAT 343

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ re+le + +++ r ++i l+++ ++
CP000740_1 344 RM--------REALEEVASQSLRAGQIIKHLREFVTNGET 375

CP000740_0492: domain 1 of 1, from 166 to 232: score 34.7, E = 4.5e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ L a++g++ lL +++ ++
CP000740_0 166 AIGQLTGGVAHDFNNLLMAVLGNLGLLSKYV--------SHDPNA-- 202

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++le + r a+r +L ++lL + r +
CP000740_0 203 ----------ARLLEGATRGAQRGAALTQRLLAFGRRQDL 232

CP000740_0444: domain 1 of 1, from 637 to 707: score 32.5, E = 1.9e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ ++a+++HE ++PL++I ++a+++l+ ld te + +++
CP000740_0 637 SLGLLTASIAHEVNQPLAGIVTNASTCLRVLD------TEPPNLEVA 677

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+ ++++r+a+r + i +l+ l +
CP000740_0 678 ----------RDTARRMIRDANRAADVIVRLRALFSRKPP 707


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 3 0|=
-13 18 0|=====
-12 45 25|======*=====
-11 116 129|============================= *
-10 179 240|============================================= *
-9 233 248|==========================================================*
-8 172 186|=========================================== *
-7 149 117|=============================*========
-6 71 67|================*=
-5 50 37|=========*===
-4 20 19|====*
-3 13 10|==*=
-2 6 5|=*
-1 5 2|*=
0 2 1|*
> 1 12 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 49.2287
P(chi-square) = 3.698e-07

Total sequences searched: 1094

Whole sequence top hits:
tophits_s report:
Total hits: 7
Satisfying E cutoff: 7
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 6
Satisfying E cutoff: 6
Total memory: 23K


Acknowledgements:

This research is funded by:

Developed by: