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Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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264 projects found  

1 accessions found for Pseudomonas aeruginosa UCBPP-PA14  

Data for CP000438  

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: CP000438.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
-------- ----------- ----- ------- ---
CP000438_1088 CDS_1180642-1178774 77.6 2.1e-22 1
CP000438_0618 CDS_673136-675529 67.2 2.3e-19 1
CP000438_3105 CDS_3468979-3468329 40.0 2.4e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000438_1088 1/1 411 481 .. 1 70 [] 77.6 2.1e-22
CP000438_0618 1/1 596 663 .. 1 70 [] 67.2 2.3e-19
CP000438_3105 1/1 22 85 .. 1 70 [] 40.0 2.4e-11

Alignments of top-scoring domains:
CP000438_1088: domain 1 of 1, from 411 to 481: score 77.6, E = 2.1e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs++QsLs +k+q++++ +ll +++++ ++++++ld
CP000438_1 411 ERGTIARELHDSLAQSLSYLKIQVSRLGTLL--KREAPaeKIEDTLD 455

eirelarealaevRrllgdLR.paal<-*
e+re ++ a++++R+ll+++R ++
CP000438_1 456 ELREGLNGAYRQLRELLTTFRlSLDE 481

CP000438_0618: domain 1 of 1, from 596 to 663: score 67.2, E = 2.3e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
E aRIARE HD++gQ L+++kl +++++ ++ +++ e +re+l ++
CP000438_0 596 EKARIAREVHDELGQVLTVLKLETSMCELAY--ADAQEGLRERLGNM 640

relarealaevRrllgdLRpaal<-*
++l+ + + vR+++++LRp++l
CP000438_0 641 KKLIAQLFQLVRDVATALRPPIL 663

CP000438_3105: domain 1 of 1, from 22 to 85: score 40.0, E = 2.4e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ +A+ HD +gQ L++i+ ql l+r + + + al+++
CP000438_3 22 ERRLLAQAVHDDIGQYLTGIRTQLLLLRCTA--G----AGQPALARL 62

relarealaevRrllgdLRpaal<-*
++ ++ + R+ll++L p+al
CP000438_3 63 ERYCQGLDDSFRALLRGLPPPAL 85


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 11 0|=
-13 55 0|====
-12 98 65|====*==
-11 175 540|============ *
-10 594 1253|======================================== *
-9 874 1422|==========================================================*
-8 848 1096|========================================================= *
-7 796 689|=============================================*========
-6 699 390|=========================*=====================
-5 692 209|=============*=================================
-4 381 109|=======*==================
-3 244 56|===*=============
-2 154 28|=*=========
-1 97 14|*======
0 58 7|*===
1 42 3|*==
2 30 1|*=
3 16 0|==
4 10 0|=
5 3 0|=
6 4 0|=
7 1 0|=
8 2 0|=
9 3 0|=
10 1 0|=
11 0 0|
12 0 0|
> 13 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 4910.3159
P(chi-square) = 0

Total sequences searched: 5892

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: