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Classification of phyla is from NCBI page
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132 projects found  

7 accessions found for Rhizobium etli CFN 42  

Data for CP000138  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000138.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
-------- ----------- ----- ------- ---
CP000138_0265 CDS_290982-284683 79.7 4.2e-23 2
CP000138_0324 CDS_366963-364570 62.5 3.3e-18 1
CP000138_0310 CDS_350011-348647 57.8 6.8e-17 1
CP000138_0509 CDS_573231-575102 42.8 1.2e-12 1
CP000138_0222 CDS_234602-238237 40.6 5.1e-12 1
CP000138_0264 CDS_284672-282999 35.4 1.6e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000138_0265 1/2 1424 1492 .. 1 87 [] 79.5 5e-23
CP000138_0324 1/1 563 631 .. 1 87 [] 62.5 3.3e-18
CP000138_0310 1/1 236 301 .. 1 87 [] 57.8 6.8e-17
CP000138_0509 1/1 252 317 .. 1 87 [] 42.8 1.2e-12
CP000138_0222 1/1 988 1058 .. 1 87 [] 40.6 5.1e-12
CP000138_0264 1/1 189 255 .. 1 87 [] 35.4 1.6e-10

Alignments of top-scoring domains:
CP000138_0265: domain 1 of 2, from 1424 to 1492: score 79.5, E = 5e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
kseflan+sHELRTPL++I+ + + L e d++ls++q
CP000138_0 1424 YKSEFLANMSHELRTPLNSILILGQQLGE------NPDGNLSAKQ-- 1462

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+ +ti+ ++ ll+Li+d+Ldls+ie+g
CP000138_0 1463 ----------VEFAKTIHGAGTDLLNLISDILDLSKIESG 1492

CP000138_0324: domain 1 of 1, from 563 to 631: score 62.5, E = 3.3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHE+RTPL++I g+a+ L + + +++++e +
CP000138_0 563 LQRQFVSMASHEFRTPLAVIDGAAQRLIR-------RKEAATPEFL- 601

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e + i++++ r+l+L + +L r+++g
CP000138_0 602 ----------CEKADQIRSSVSRMLELMESILAAGRLDHG 631

CP000138_0310: domain 1 of 1, from 236 to 301: score 57.8, E = 6.8e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f++n++H+LRTPL+ I++ a+++ + e ++ r
CP000138_0 236 AQRRFVSNAAHQLRTPLALISTQASVASR----------EDDAARR- 271

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+l ++ ++++++rL ++lL+lsr+e g
CP000138_0 272 ----------DEALAALRASTRQISRLASQLLTLSRAEPG 301

CP000138_0509: domain 1 of 1, from 252 to 317: score 42.8, E = 1.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +l+H++++ Lt+I+g++e++++ +l++ +
CP000138_0 252 AIGQLTGGLAHDFNNLLTVISGNLEMIED----------KLPPGSL- 287

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l+ ++ +a+ L +lL + r +
CP000138_0 288 ----------RDILREAQAAAQDGAILTGQLLAFGRRQPL 317

CP000138_0222: domain 1 of 1, from 988 to 1058: score 40.6, E = 5.1e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ e+ a+++HE ++PL+a+ +++++++++l ++ + +r+
CP000138_0 988 SLAELSASIAHEVNQPLAAVVANSHACQRWLT------ADPPNMERA 1028

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +e+i+r+a++ + + +++ l + a
CP000138_0 1029 ----------QRTVERIIRDANSAAEVVGRIRALFKQSAD 1058

CP000138_0264: domain 1 of 1, from 189 to 255: score 35.4, E = 1.6e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++ +++H++++ L a++g ++lL++ + +++e
CP000138_0 189 TIGHLTGGVAHDFNNLLMAVLGSLSLLKK--------RLPADERS-- 225

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ ++++aer +L ++lL ++r ++
CP000138_0 226 ----------ERLVTNAIQAAERGTALTQRLLAFARRQEL 255


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-13 3 0|=
-12 15 12|===*=
-11 51 67|================= *
-10 87 124|============================= *
-9 120 128|======================================== *
-8 103 96|===============================*===
-7 80 60|===================*=======
-6 44 34|===========*===
-5 28 19|======*===
-4 10 10|===*
-3 8 5|=*=
-2 4 2|*=
-1 3 1|*
0 3 0|=
1 0 0|
> 2 8 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 30.3853
P(chi-square) = 0.0003772

Total sequences searched: 573

Whole sequence top hits:
tophits_s report:
Total hits: 6
Satisfying E cutoff: 6
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: