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:
39 projects found  

1 accessions found for cyanobacterium UCYN-A  

Data for CP001842  

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: CP001842.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
-------- ----------- ----- ------- ---
CP001842_0781 CDS_952130-950172 92.8 1.8e-26 1
CP001842_0944 CDS_1157914-1155641 71.9 1.4e-20 1
CP001842_0798 CDS_970434-972422 61.7 1.1e-17 1
CP001842_0621 CDS_748960-747854 30.0 1.1e-08 1
CP001842_0434 CDS_515170-513668 28.7 2.6e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001842_0781 1/1 395 463 .. 1 87 [] 92.8 1.8e-26
CP001842_0944 1/1 380 451 .. 1 87 [] 71.9 1.4e-20
CP001842_0798 1/1 431 498 .. 1 87 [] 61.7 1.1e-17
CP001842_0621 1/1 139 211 .. 1 87 [] 30.0 1.1e-08
CP001842_0434 1/1 280 326 .. 1 67 [. 28.7 2.6e-08

Alignments of top-scoring domains:
CP001842_0781: domain 1 of 1, from 395 to 463: score 92.8, E = 1.8e-26
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+f++n+sHELRTPL I+ ++e+L e++ ++l++ +r
CP001842_0 395 AKSQFISNVSHELRTPLFNIKSFIETLAEFG-------QDLTDAER- 433

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+let+ +e++rl rL+nd+Ldlsr+e+
CP001842_0 434 ----------KEFLETANHETDRLTRLVNDVLDLSRLESF 463

CP001842_0944: domain 1 of 1, from 380 to 451: score 71.9, E = 1.4e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ksefl n+sHELRTPLt I+g++ +Ll ++ + ++ls e+r
CP001842_0 380 SKSEFLGNMSHELRTPLTCIIGLSGTLLYWS----KENSTLSLEKR- 421

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ yl ti++++e ll++in++L++s +++g
CP001842_0 422 ----------KHYLATIQNSGENLLQIINEILEYSNLQTG 451

CP001842_0798: domain 1 of 1, from 431 to 498: score 61.7, E = 1.1e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s ++a HELRTPL++I+ +e L ++++s + r
CP001842_0 431 TRSNLVAITGHELRTPLSTIQVCLESLTL--------EPDMSLDLR- 468

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l+t+l++aer+++Li+d+L lsr+e+g
CP001842_0 469 ----------QVMLNTALQDAERMRKLIQDFLILSRLESG 498

CP001842_0621: domain 1 of 1, from 139 to 211: score 30.0, E = 1.1e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++ la+l+H+LR PLta + ++++L v+ ++ + s ++
CP001842_0 139 FKDQVLAMLAHDLRSPLTATSIAIDTLAI----VQDKEVNESCTKLK 181

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ +++++ ++rLi d+L+ s+ +g
CP001842_0 182 ----------KQLFFQTYNQLQIMNRLITDILQASKSMNG 211

CP001842_0434: domain 1 of 1, from 280 to 326: score 28.7, E = 2.6e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++l++lsHE TPLt+Ir+++ lLl+ +++l ++
CP001842_0 280 NDLDLLRALSHEVLTPLTSIRTMTRLLLK--------YQDLEPKI-- 316

peLRledpeyreyletilre<-*
++le i++e
CP001842_0 317 ----------TQLLENIDQE 326


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 10 0|===
-13 22 0|======
-12 72 27|======*===========
-11 133 142|================================== *
-10 216 263|====================================================== *
-9 219 272|======================================================= *
-8 185 203|=============================================== *
-7 121 128|===============================*
-6 89 73|==================*====
-5 52 40|=========*===
-4 29 21|=====*==
-3 22 11|==*===
-2 10 6|=*=
-1 8 3|*=
0 3 1|*
1 0 0|
2 0 0|
3 1 0|=
> 4 7 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 115.4487
P(chi-square) = 4.231e-20

Total sequences searched: 1199

Whole sequence top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: