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-1  

Data for CP001359  

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_3.hmm [HisKA_3]
Sequence database: CP001359.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]
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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
-------- ----------- ----- ------- ---
CP001359_1946 CDS_2218378-2220366 67.1 1.9e-19 1
CP001359_2149 CDS_2411623-2413407 58.1 8.7e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001359_1946 1/1 442 506 .. 1 70 [] 67.1 1.9e-19
CP001359_2149 1/1 382 451 .. 1 70 [] 58.1 8.7e-17

Alignments of top-scoring domains:
CP001359_1946: domain 1 of 1, from 442 to 506: score 67.1, E = 1.9e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARELHD+ +QsL++++++le+a+ d+ + + +l+e+
CP001359_1 442 ERKRIARELHDETSQSLAVLAMGLEAAQ-----DAMRGGKAPRLEEV 483

relarealaevRrllgdLRpaal<-*
++ a ++l++v r++ dLRp++l
CP001359_1 484 KAVAVRTLEDVHRIILDLRPSVL 506

CP001359_2149: domain 1 of 1, from 382 to 451: score 58.1, E = 8.7e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrllds.dkdpeearealde
E a IAR+LHD++gQ L+++k+ l +++r+ + +dp++ r++++e
CP001359_2 382 EAAAIARDLHDELGQVLTSVKVELAALQRAG-AeGEDPAARRARVAE 427

irelarealaevRrllgdLRpaal<-*
+ + ++ea a vRr+ +dLRp++l
CP001359_2 428 LGQRLDEAVAFVRRVSSDLRPPVL 451


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-14 6 0|=
-13 16 0|==
-12 41 49|====*
-11 119 409|=========== *
-10 343 951|================================ *
-9 527 1080|================================================ *
-8 530 832|================================================= *
-7 604 523|===============================================*=======
-6 539 296|==========================*======================
-5 637 158|==============*===========================================
-4 360 82|=======*=========================
-3 210 42|===*================
-2 192 21|=*================
-1 121 11|*==========
0 67 5|*======
1 51 2|*====
2 49 1|*====
3 22 0|==
4 10 0|=
5 14 0|==
6 2 0|=
7 2 0|=
8 5 0|=
9 0 0|
10 1 0|=
11 0 0|
12 1 0|=
13 1 0|=
> 14 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 7307.2451
P(chi-square) = 0

Total sequences searched: 4473

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: