Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
19 projects found  

1 accessions found for Brachyspira murdochii DSM 12563  

Data for CP001959  

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: CP001959.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
-------- ----------- ----- ------- ---
CP001959_2434 CDS_2793340-2795097 73.9 9.1e-21 1
CP001959_1097 CDS_1304573-1306132 35.8 5.9e-10 1
CP001959_0286 CDS_382183-381002 34.9 1.1e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001959_2434 1/1 356 421 .. 1 87 [] 73.9 9.1e-21
CP001959_1097 1/1 270 336 .. 1 87 [] 35.8 5.9e-10
CP001959_0286 1/1 156 230 .. 1 87 [] 34.9 1.1e-09

Alignments of top-scoring domains:
CP001959_2434: domain 1 of 1, from 356 to 421: score 73.9, E = 9.1e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k++f+ n+sHEL+TPLt+I+gy+elL + t + q
CP001959_2 356 EKQDFFINASHELKTPLTSIIGYSELLIA---------TGGGKNQ-- 391

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++++i +ea r+ +L+ d+L+lsriea+
CP001959_2 392 ----------ADFIKRINNEALRMKDLVIDMLTLSRIEAN 421

CP001959_1097: domain 1 of 1, from 270 to 336: score 35.8, E = 5.9e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ef a++sHELR P t I+gy+ lL++ +++ee+r
CP001959_1 270 LIREFKATVSHELRHPFTEIMGYINLLKK---------NNMPEEKR- 306

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+++++ r+++ l + n+l +++ + +
CP001959_1 307 ----------EEFFNIVSRSIKKLYDTNNNLIQIALKDDE 336

CP001959_0286: domain 1 of 1, from 156 to 230: score 34.9, E = 1.1e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ ++a+++HE+++PL +I+ y++l+ + + +++ + +
CP001959_0 156 SLTTLAAGVAHEIKNPLGSISIYVQLIDK------IIKKNMDNDCQ- 195

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ey ++i++e+ rl++ in +L r +
CP001959_0 196 -----CYKDFKEYSDIIKEEIGRLEDTINSFLFSVRKLEL 230


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 1 0|=
-14 10 0|=
-13 51 2|*=====
-12 149 64|======*========
-11 343 332|=================================*=
-10 517 617|==================================================== *
-9 551 637|======================================================== *
-8 438 477|============================================ *
-7 311 301|==============================*=
-6 176 173|=================*
-5 101 95|=========*=
-4 73 50|====*===
-3 37 26|==*=
-2 19 14|=*
-1 9 7|*
0 4 3|*
1 7 2|*
2 5 1|*
> 3 7 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 160.1426
P(chi-square) = 1.25e-28

Total sequences searched: 2809

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: