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Thermotogae
Classification of phyla is from NCBI page
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264 projects found  

1 accessions found for Shewanella sp. MR-4  

Data for CP000446  

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: CP000446.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
-------- ----------- ----- ------- ---
CP000446_3602 CDS_4327934-4329013 83.2 3.1e-24 1
CP000446_0656 CDS_767583-765787 71.7 7.3e-21 1
CP000446_1150 CDS_1355626-1354466 61.0 1.1e-17 1
CP000446_2215 CDS_2657854-2656085 59.6 2.7e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000446_3602 1/1 171 239 .. 1 70 [] 83.2 3.1e-24
CP000446_0656 1/1 364 433 .. 1 70 [] 71.7 7.3e-21
CP000446_1150 1/1 191 249 .. 1 64 [. 61.0 1.1e-17
CP000446_2215 1/1 379 446 .. 1 70 [] 59.6 2.7e-17

Alignments of top-scoring domains:
CP000446_3602: domain 1 of 1, from 171 to 239: score 83.2, E = 3.1e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD g+sLs+i+l++ela++ll +k + a ++l+e
CP000446_3 171 ERERIARDLHDIMGHSLSSIALKAELAEKLL--AKQEYqLATTQLQE 215

irelarealaevRrllgdLRpaal<-*
+ ++are+l+++R++++d+++ +l
CP000446_3 216 LGQIARESLSQIRHTVSDYKHKGL 239

CP000446_0656: domain 1 of 1, from 364 to 433: score 71.7, E = 7.3e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q++l+r+ l d +++++ +l+
CP000446_0 364 ERGVIARELHDSLGQVLSFLKIQISLLRKNL--DHSCRspAVENQLT 408

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
CP000446_0 409 EINEGVSTAYVQLRELLSTFRLTIK 433

CP000446_1150: domain 1 of 1, from 191 to 249: score 61.0, E = 1.1e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RI+R+LHD +g++L+a++lqlel+ + +p e++ ++ +
CP000446_1 191 ERLRISRDLHDILGHQLTALSLQLELLS-----HQAPTELKPTVNQS 232

relarealaevRrllgd<-*
+ la+e l+ +R+++++
CP000446_1 233 KSLAKELLESIRAVVRA 249

CP000446_2215: domain 1 of 1, from 379 to 446: score 59.6, E = 2.7e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k++++ ++++ + +e ++e+
CP000446_2 379 ERAVIARELHDSIAQSLSCLKIKVSCLQMQS--KNLGAEQLVLIQEM 423

relarealaevRrllgdLRpaal<-*
r+ ++ a++ +R+ll+++R
CP000446_2 424 RTELNSAYSHLRELLTTFRLKLN 446


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 19 0|==
-13 84 0|======
-12 151 43|==*========
-11 254 359|================= *
-10 693 834|=============================================== *
-9 827 947|======================================================== *
-8 605 730|========================================= *
-7 478 459|==============================*=
-6 307 259|=================*===
-5 234 139|=========*======
-4 94 72|====*==
-3 66 37|==*==
-2 39 19|=*=
-1 34 9|*==
0 17 4|*=
1 5 2|*
2 7 1|*
3 4 0|=
4 1 0|=
5 0 0|
> 6 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 536.6213
P(chi-square) = 0

Total sequences searched: 3924

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: