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Thermotogae
Classification of phyla is from NCBI page
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264 projects found  

1 accessions found for Shewanella amazonensis SB2B  

Data for CP000507  

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: CP000507.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
-------- ----------- ----- ------- ---
CP000507_0643 CDS_803628-801916 70.3 1.7e-20 1
CP000507_1865 CDS_2283634-2286774 53.8 1.3e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000507_0643 1/1 364 433 .. 1 70 [] 70.3 1.7e-20
CP000507_1865 1/1 847 910 .. 1 70 [] 53.8 1.3e-15

Alignments of top-scoring domains:
CP000507_0643: domain 1 of 1, from 364 to 433: score 70.3, E = 1.7e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q+ l+r+ l d+ ++e++++l
CP000507_0 364 ERGVIARELHDSLGQVLSFLKIQITLLRKGL--DDSCRnpEVEQQLN 408

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
CP000507_0 409 EINEGVSTAYVQLRELLSTFRLTIK 433

CP000507_1865: domain 1 of 1, from 847 to 910: score 53.8, E = 1.3e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ I+RELHD gQsL+a + l+l r + +p+ + +d++
CP000507_1 847 ERKSISRELHDQFGQSLTATQISLQLFR-----RQHPGDPK-LIDTC 887

relarealaevRrllgdLRpaal<-*
++++ +++vR++ dLRp+ l
CP000507_1 888 ITTIQAMIKQVRAISFDLRPSLL 910


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-14 7 0|=
-13 49 0|====
-12 108 40|===*=====
-11 216 334|================= *
-10 547 775|=========================================== *
-9 750 880|==========================================================*
-8 585 678|============================================= *
-7 467 426|================================*===
-6 332 241|==================*=======
-5 288 129|=========*=============
-4 115 67|=====*===
-3 67 34|==*===
-2 50 17|=*==
-1 30 9|*==
0 15 4|*=
1 8 2|*
2 3 1|*
3 3 0|=
4 2 0|=
> 5 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 654.4192
P(chi-square) = 0

Total sequences searched: 3645

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: