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:
35 projects found  

1 accessions found for Anaeromyxobacter dehalogenans 2CP-C  

Data for CP000251  

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_3.hmm [HisKA_3]
Sequence database: CP000251.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000251_1990 CDS_2240310-2238334 68.3 8.3e-20 1
CP000251_1758 CDS_2021088-2019304 59.4 3.4e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000251_1990 1/1 445 509 .. 1 70 [] 68.3 8.3e-20
CP000251_1758 1/1 382 451 .. 1 70 [] 59.4 3.4e-17

Alignments of top-scoring domains:
CP000251_1990: domain 1 of 1, from 445 to 509: score 68.3, E = 8.3e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARELHD+ +QsL++++++le+a+ d+ + + +lde+
CP000251_1 445 ERKRIARELHDETSQSLAVLAMGLEAAQ-----DALRGGKAPRLDEV 486

relarealaevRrllgdLRpaal<-*
++ a ++l++v r++ dLRp++l
CP000251_1 487 KAVAVRTLEDVHRIILDLRPSVL 509

CP000251_1758: domain 1 of 1, from 382 to 451: score 59.4, E = 3.4e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
E a IAR+LHD++gQ ++++k+ l +++r+ ++ ++++ r++++
CP000251_1 382 EAAAIARDLHDELGQVITSVKVDLAALQRAG--ADGEDpgARRARFA 426

eirelarealaevRrllgdLRpaal<-*
e+++ ++ea a vRr+ +dLRp++l
CP000251_1 427 ELAQRLDEAVAFVRRVSSDLRPPVL 451


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-14 3 0|=
-13 11 0|=
-12 28 48|=== *
-11 95 398|========= *
-10 334 924|=============================== *
-9 517 1049|=============================================== *
-8 501 808|============================================== *
-7 580 508|==============================================*======
-6 523 287|==========================*=====================
-5 621 154|=============*===========================================
-4 368 80|=======*==========================
-3 232 41|===*==================
-2 180 21|=*===============
-1 129 10|*===========
0 76 5|*======
1 47 2|*====
2 43 1|*===
3 17 0|==
4 16 0|==
5 13 0|==
6 3 0|=
7 2 0|=
8 1 0|=
9 0 0|
10 0 0|
11 1 0|=
12 0 0|
13 1 0|=
14 0 0|
> 15 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 7912.3950
P(chi-square) = 0

Total sequences searched: 4346

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: