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Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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264 projects found  

6 accessions found for Shigella flexneri 2002017  

Data for CP001383  

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: CP001383.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
-------- ----------- ----- ------- ---
CP001383_1281 CDS_1327248-1325452 82.2 6.5e-24 1
CP001383_3736 CDS_3926950-3928455 63.7 1.9e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001383_1281 1/1 390 458 .. 1 70 [] 82.2 6.5e-24
CP001383_3736 1/1 305 371 .. 1 70 [] 63.7 1.9e-18

Alignments of top-scoring domains:
CP001383_1281: domain 1 of 1, from 390 to 458: score 82.2, E = 6.5e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
CP001383_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
CP001383_1 435 RNELNASWAQLRELLTTFRlQLTE 458

CP001383_3736: domain 1 of 1, from 305 to 371: score 63.7, E = 1.9e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CP001383_3 305 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 348

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP001383_3 349 EQLSLGVYDAVRRLLGRLRPRQL 371


Histogram of all scores:
score obs exp (one = represents 14 sequences)
----- --- ---
-15 1 0|=
-14 35 0|===
-13 138 0|==========
-12 207 48|===*===========
-11 304 400|====================== *
-10 666 930|================================================ *
-9 773 1056|======================================================== *
-8 768 814|======================================================= *
-7 541 511|====================================*==
-6 331 289|====================*===
-5 288 155|===========*=========
-4 150 81|=====*=====
-3 72 41|==*===
-2 46 21|=*==
-1 25 10|*=
0 14 5|*
1 5 2|*
2 5 1|*
> 3 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 950.2275
P(chi-square) = 0

Total sequences searched: 4375

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: