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:
264 projects found  

1 accessions found for Haemophilus somnus 2336  

Data for CP000947  

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: CP000947.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
-------- ----------- ----- ------- ---
CP000947_0710 CDS_835018-836874 80.9 6.7e-23 1
CP000947_1343 CDS_1572996-1574660 47.3 2.3e-13 1
CP000947_0805 CDS_943549-945978 35.2 6e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000947_0710 1/1 121 186 .. 1 87 [] 80.9 6.7e-23
CP000947_1343 1/1 342 407 .. 1 87 [] 47.3 2.3e-13
CP000947_0805 1/1 454 519 .. 1 87 [] 35.2 6e-10

Alignments of top-scoring domains:
CP000947_0710: domain 1 of 1, from 121 to 186: score 80.9, E = 6.7e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+ ++ ++sHELRTPL++I+g++++Ll+ ++l+e+q
CP000947_0 121 DKTALMTTISHELRTPLNGIIGLSQILLD---------DKLTEQQ-- 156

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r yl+ti +a +l ++ +d+ dl++i+a+
CP000947_0 157 ----------RNYLKTINVSAISLTHIFSDIIDLEKIDAN 186

CP000947_1343: domain 1 of 1, from 342 to 407: score 47.3, E = 2.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++e+ a+++HE+++PLtaIr+y+e ++ ++ eeqr
CP000947_1 342 ILGEMSAGIAHEINQPLTAIRMYVEGMKYQA-----------EEQRT 377

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l++il++++r ++i +l+ + +
CP000947_1 378 ----------QIVLDKILQQVDRSAEIIHNLMNWVKGKSS 407

CP000947_0805: domain 1 of 1, from 454 to 519: score 35.2, E = 6e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + ++ +++H++++ L++I+g+++l+ ++l ++q
CP000947_0 454 SIGHLTGGIAHDFNNLLAVIIGNLDLIDP---------ETLHDKQ-- 489

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ l+++l++ae L ++lL ++r +
CP000947_0 490 ----------AKRLQRALKAAENSATLTQRLLAYARKQPL 519


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-15 2 0|=
-14 6 0|=
-13 26 1|*===
-12 91 45|======*======
-11 221 234|================================ *
-10 349 435|================================================== *
-9 371 449|===================================================== *
-8 331 336|===============================================*
-7 228 212|==============================*==
-6 169 122|=================*=======
-5 81 66|=========*==
-4 39 35|====*=
-3 30 18|==*==
-2 11 9|=*
-1 10 5|*=
0 4 2|*
1 3 1|*
2 1 0|=
3 0 0|
> 4 7 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 111.4846
P(chi-square) = 9.252e-19

Total sequences searched: 1980

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: