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Thermotogae
Classification of phyla is from NCBI page
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3 accessions found for Shigella dysenteriae Sd197  

Data for CP000034  

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: CP000034.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
-------- ----------- ----- ------- ---
CP000034_1188 CDS_1180177-1178381 82.2 6.3e-24 1
CP000034_2468 CDS_2444574-2446274 76.1 4e-22 1
CP000034_0475 CDS_491307-492470 66.5 2.8e-19 1
CP000034_3823 CDS_3884219-3882714 63.7 1.9e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000034_1188 1/1 390 458 .. 1 70 [] 82.2 6.3e-24
CP000034_2468 1/1 361 428 .. 1 70 [] 76.1 4e-22
CP000034_0475 1/1 315 381 .. 1 70 [] 66.5 2.8e-19
CP000034_3823 1/1 305 371 .. 1 70 [] 63.7 1.9e-18

Alignments of top-scoring domains:
CP000034_1188: domain 1 of 1, from 390 to 458: score 82.2, E = 6.3e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d+ pe re l +i
CP000034_1 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DALPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
CP000034_1 435 RNELNASWAQLRELLTTFRlQLTE 458

CP000034_2468: domain 1 of 1, from 361 to 428: score 76.1, E = 4e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r + ++d++ a+ ++
CP000034_2 361 ERATIARELHDSLAQVLSYLRIQLTLLKRSI--PEDNATAQSIMADF 405

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
CP000034_2 406 SQALNDAYRQLRELLTTFRLTLQ 428

CP000034_0475: domain 1 of 1, from 315 to 381: score 66.5, E = 2.8e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ +ARELHD++gQ+++ai +q++l++r ++dp++++ a+ +i
CP000034_0 315 TRKNLARELHDEIGQNITAIQIQSQLVKR----ARDPAQIQSAASQI 357

relarealaevRrllgdLR.paal<-*
elar+ +R+ll++LR+p+al
CP000034_0 358 NELARRIHLSTRQLLRQLRpPSAL 381

CP000034_3823: domain 1 of 1, from 305 to 371: score 63.7, E = 1.9e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CP000034_3 305 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNASVKQSGQLI 348

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP000034_3 349 EQLSLGVYDAVRRLLGRLRPRQL 371


Histogram of all scores:
score obs exp (one = represents 18 sequences)
----- --- ---
-16 1 0|=
-15 0 0|
-14 22 0|==
-13 87 0|=====
-12 277 47|==*=============
-11 254 391|=============== *
-10 535 908|============================== *
-9 764 1032|=========================================== *
-8 1061 795|============================================*==============
-7 436 500|========================= *
-6 307 283|===============*==
-5 255 151|========*======
-4 123 79|====*==
-3 62 40|==*=
-2 42 20|=*=
-1 18 10|*
0 12 5|*
1 4 2|*
2 4 1|*
3 3 0|=
4 0 0|
5 0 0|
6 1 0|=
7 0 0|
8 1 0|=
> 9 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1611.9333
P(chi-square) = 0

Total sequences searched: 4277

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: