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:
7 projects found  

1 accessions found for Hydrogenobaculum sp. Y04AAS1  

Data for CP001130  

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: CP001130.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
-------- ----------- ----- ------- ---
CP001130_0799 CDS_747040-746072 60.0 4.7e-17 1
CP001130_1005 CDS_946270-944948 46.8 2.6e-13 1
CP001130_0013 CDS_12459-14255 34.7 6.7e-10 1
CP001130_0380 CDS_335984-337147 34.4 8.5e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001130_0799 1/1 104 169 .. 1 87 [] 60.0 4.7e-17
CP001130_1005 1/1 238 304 .. 1 87 [] 46.8 2.6e-13
CP001130_0013 1/1 398 469 .. 1 87 [] 34.7 6.7e-10
CP001130_0380 1/1 178 239 .. 1 87 [] 34.4 8.5e-10

Alignments of top-scoring domains:
CP001130_0799: domain 1 of 1, from 104 to 169: score 60.0, E = 4.7e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak+ef+an+sHEL+TPL++I+ ++++ e + s+e +
CP001130_0 104 AKREFIANASHELKTPLSVIKSVLDIAIE----------KESDESM- 139

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l+++++++e++++Lind+L+ls e+
CP001130_0 140 ----------IKFLKKAKNATESMEELINDMLTLSFVESM 169

CP001130_1005: domain 1 of 1, from 238 to 304: score 46.8, E = 2.6e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ f+a++sHE++TP++ I++ +e +l+ + e+++
CP001130_1 238 IQKNFIADVSHEFKTPISYIKAQIEFILT---------GVYQEDEV- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l++++++++ l++ +dlL l+r+e++
CP001130_1 275 ----------FGVLKKVYKQTDVLSKFTEDLLALARLESN 304

CP001130_0013: domain 1 of 1, from 398 to 469: score 34.7, E = 6.7e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkv.lagdtelseeqr
e + ++HEL++PLt I++++e Ll+ + + ++l +
CP001130_0 398 VWKETAQRVAHELKNPLTPIKLNIERLLR----IsKNHPEKLQDTI- 439

lpeLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l+e++ +l+L++d+ d+s ie
CP001130_0 440 -----------NAVGDIVLKEIDKILKLLQDFKDFSNIEIL 469

CP001130_0380: domain 1 of 1, from 178 to 239: score 34.4, E = 8.5e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++ n sHE +TPL+ I+++++lL+ ++
CP001130_0 178 RIYTMALNFSHEVKTPLAIISTNLSLLEI-------------NPD-- 209

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y+e+i r++++l++L+n + ++++++
CP001130_0 210 ----------KAYIERISRALKQLNNLLNKVVFIAKADEY 239


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-15 2 0|=
-14 10 0|==
-13 35 1|*=====
-12 91 37|======*=========
-11 213 193|================================*===
-10 301 358|=================================================== *
-9 290 369|================================================= *
-8 236 276|======================================== *
-7 176 174|============================*=
-6 118 100|================*===
-5 64 55|=========*=
-4 35 29|====*=
-3 18 15|==*
-2 18 8|=*=
-1 3 4|*
0 3 2|*
1 6 1|*
2 3 0|=
3 0 0|
4 0 0|
5 1 0|=
6 0 0|
> 7 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 129.9083
P(chi-square) = 4.877e-23

Total sequences searched: 1629

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: