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Classification of phyla is from NCBI page
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41 projects found  

1 accessions found for Flavobacterium johnsoniae UW101  

Data for CP000685  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: CP000685.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000685_0557 CDS_597588-595576 56.4 3e-16 1
CP000685_1982 CDS_2320901-2318709 47.5 1.3e-13 1
CP000685_4699 CDS_5727466-5728260 39.8 2.3e-11 1
CP000685_4588 CDS_5592380-5594191 38.5 5.7e-11 1
CP000685_0038 CDS_45385-44795 34.9 6.4e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000685_0557 1/1 473 533 .. 1 70 [] 56.4 3e-16
CP000685_1982 1/1 516 576 .. 1 70 [] 47.5 1.3e-13
CP000685_4699 1/1 69 134 .. 1 70 [] 39.8 2.3e-11
CP000685_4588 1/1 402 466 .. 1 70 [] 38.5 5.7e-11
CP000685_0038 1/1 69 135 .. 1 70 [] 34.9 6.4e-10

Alignments of top-scoring domains:
CP000685_0557: domain 1 of 1, from 473 to 533: score 56.4, E = 3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIAR+LHD++g +Ls++k++l la++ ea+ ++
CP000685_0 473 ERKRIARDLHDGLGSMLSGVKIHLNLAKK---------DNGEAVNNV 510

relarealaevRrllgdLRpaal<-*
+l++ +++e+R++ ++L p l
CP000685_0 511 DTLLDNSIKELRNISQNLMPESL 533

CP000685_1982: domain 1 of 1, from 516 to 576: score 47.5, E = 1.3e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIA+ELHDs+g +L+aiklq+ + ++d ++ i
CP000685_1 516 ERQRIAQELHDSIGGNLAAIKLQVNHLN-----ASD----FSNIQKI 553

relarealaevRrllgdLRpaal<-*
++e++++vR+l ++L p +
CP000685_1 554 SLQLDETYQQVRNLSHTLLPKKF 576

CP000685_4699: domain 1 of 1, from 69 to 134: score 39.8, E = 2.3e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI++++HD +g ++saiklq+e +++ + + + e l++i
CP000685_4 69 ERERISQDMHDDLGAGISAIKLQAEFLKYKM--PQE--SFSEDLEAI 111

relarealaevRrllgdLRpaal<-*
++++ +R++l+ L + +
CP000685_4 112 INTSEDMNLAMREILWSLNSQND 134

CP000685_4588: domain 1 of 1, from 402 to 466: score 38.5, E = 5.7e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
E +RIA E+HD++gQ+L+++k le + +d ++ ++ ++ +
CP000685_4 402 EQNRIAKEIHDGIGQMLTGLKFSLESIN-----LDDRGKSEQKIEYL 443

relarealaevRrllgdLRpaal<-*
++l+ + ++ vR + +L p++l
CP000685_4 444 KKLSLDIIKGVRTATFNLMPPEL 466

CP000685_0038: domain 1 of 1, from 69 to 135: score 34.9, E = 6.4e-10
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIA++LHD ++ L ++l ++l+ + + e e e ++
CP000685_0 69 ERKRIAQDLHDDISSKLNIVSLNTHLLSA----PNLTEaETTEITEN 111

irelarealaevRrllgdLRpaal<-*
i l +al+ R ++++L p+++
CP000685_0 112 IINLTAKALENSRKIAHNLLPPVF 135


Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-16 1 0|=
-15 0 0|
-14 51 0|===
-13 262 0|==============
-12 399 56|==*=================
-11 542 459|======================*=====
-10 1166 1066|=====================================================*=====
-9 1039 1211|==================================================== *
-8 680 933|================================== *
-7 389 587|==================== *
-6 209 332|=========== *
-5 144 178|========*
-4 58 92|=== *
-3 34 47|==*
-2 16 24|=*
-1 8 12|*
0 7 6|*
1 0 3|*
2 2 1|*
3 0 0|
4 1 0|=
5 1 0|=
6 0 0|
7 0 0|
> 8 8 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2357.2100
P(chi-square) = 0

Total sequences searched: 5017

Whole sequence top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: