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:
76 projects found  

1 accessions found for Acidovorax citrulli AAC00-1  

Data for CP000512  

Available Atlases
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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: CP000512.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
-------- ----------- ----- ------- ---
CP000512_4152 CDS_4688086-4686650 60.6 1.7e-17 1
CP000512_1099 CDS_1230763-1229360 58.6 6.4e-17 1
CP000512_3790 CDS_4289070-4290410 57.6 1.3e-16 1
CP000512_4303 CDS_4873798-4874916 49.3 3.6e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000512_4152 1/1 275 341 .. 1 70 [] 60.6 1.7e-17
CP000512_1099 1/1 249 317 .. 1 70 [] 58.6 6.4e-17
CP000512_3790 1/1 250 317 .. 1 70 [] 57.6 1.3e-16
CP000512_4303 1/1 163 228 .. 1 70 [] 49.3 3.6e-14

Alignments of top-scoring domains:
CP000512_4152: domain 1 of 1, from 275 to 341: score 60.6, E = 1.7e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER ++ARELHD+ +Q+L ++kl +e a ++ ++ +a ++l ++
CP000512_4 275 ERGHLARELHDGTSQTLVSAKLLIESAVEEIE-RER--PAPATLGTA 318

relarealaevRrllgdLRpaal<-*
++++eal evRrl ++LRpa l
CP000512_4 319 LQHLNEALGEVRRLSHELRPALL 341

CP000512_1099: domain 1 of 1, from 249 to 317: score 58.6, E = 6.4e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER R ARELHD+v Q L + k le+a+ + ++ ++++ r+ ld
CP000512_1 249 ERVRVARELHDGVVQVLVSSKFLLETAQVQW--AARAAhAPRDMLDH 293

irelarealaevRrllgdLRpaal<-*
e +++al e+Rr+ ++LRpa l
CP000512_1 294 GLERLNDALLEIRRVSHGLRPALL 317

CP000512_3790: domain 1 of 1, from 250 to 317: score 57.6, E = 1.3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER ++ARELHD++g L+a+kl + +++ + d+ +e++e+l+ +
CP000512_3 250 ERGHLARELHDELGALLTAAKLDVARLKSKI--DAQSPEIAERLKHL 294

relarealaevRrllgdLRpaal<-*
e+++ ++a Rr++ dLRp+ l
CP000512_3 295 TETLNSGIALKRRIIEDLRPSSL 317

CP000512_4303: domain 1 of 1, from 163 to 228: score 49.3, E = 3.6e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARE+HD +g +L+a++ +++++r+ +++ ++ ++ +
CP000512_4 163 ERAAIAREIHDDIGGALTAVRFDVGWIARHS--TEP--AVLGHAGSA 205

relarealaevRrllgdLRpaal<-*
e++++a++ r+ +LRp++l
CP000512_4 206 TEMLQHAIEASQRIMMNLRPPIL 228


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-14 2 0|=
-13 36 0|===
-12 80 52|===*===
-11 129 431|========== *
-10 453 1001|=================================== *
-9 728 1137|======================================================== *
-8 637 876|================================================= *
-7 658 551|==========================================*========
-6 628 311|=======================*=========================
-5 513 167|============*===========================
-4 308 87|======*=================
-3 167 44|===*=========
-2 118 22|=*========
-1 106 11|*========
0 52 5|*===
1 41 3|*===
2 12 1|*
3 15 0|==
4 11 0|=
5 4 0|=
6 3 0|=
7 0 0|
8 1 0|=
9 0 0|
10 2 0|=
11 0 0|
> 12 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 4197.4746
P(chi-square) = 0

Total sequences searched: 4709

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: