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Classification of phyla is from NCBI page
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132 projects found  

3 accessions found for Ruegeria sp. TM1040  

Data for CP000376  

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_1.hmm [HisKA]
Sequence database: CP000376.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000376_0574 CDS_665882-668194 99.7 1.2e-28 1
CP000376_0246 CDS_280044-277819 94.9 2.7e-27 1
CP000376_0398 CDS_454284-456554 87.5 3.4e-25 1
CP000376_0303 CDS_346296-347858 59.6 2.8e-17 1
CP000376_0338 CDS_383222-385885 59.5 2.8e-17 1
CP000376_0266 CDS_304724-306997 38.5 2.5e-11 1
CP000376_0200 CDS_233225-230751 30.4 5.2e-09 1
CP000376_0058 CDS_57652-59874 28.8 1.4e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000376_0574 1/1 247 312 .. 1 87 [] 99.7 1.2e-28
CP000376_0246 1/1 368 433 .. 1 87 [] 94.9 2.7e-27
CP000376_0398 1/1 378 443 .. 1 87 [] 87.5 3.4e-25
CP000376_0303 1/1 303 369 .. 1 87 [] 59.6 2.8e-17
CP000376_0338 1/1 652 717 .. 1 87 [] 59.5 2.8e-17
CP000376_0266 1/1 531 599 .. 1 87 [] 38.5 2.5e-11
CP000376_0200 1/1 486 550 .. 1 87 [] 30.4 5.2e-09
CP000376_0058 1/1 519 585 .. 1 87 [] 28.8 1.4e-08

Alignments of top-scoring domains:
CP000376_0574: domain 1 of 1, from 247 to 312: score 99.7, E = 1.2e-28
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
akseflan+sHE+RTP+++++g+ae+L+e tel+++q
CP000376_0 247 AKSEFLANMSHEIRTPMNGVIGMAEVLRE---------TELTPDQ-- 282

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ y+eti ++++ ll++ind+L +s+ieag
CP000376_0 283 ----------ELYTETIVKSGNALLSIINDILSFSKIEAG 312

CP000376_0246: domain 1 of 1, from 368 to 433: score 94.9, E = 2.7e-27
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ak++flan+sHE+RTPL++++g+a++L e t+l+eeq
CP000376_0 368 AKTQFLANVSHEIRTPLNGVLGMASVLGE---------TKLDEEQ-- 403

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l++i+++++ ll i d+Ldls+ eag
CP000376_0 404 ----------QEFLQVIEDSGQVLLTTIGDVLDLSKVEAG 433

CP000376_0398: domain 1 of 1, from 378 to 443: score 87.5, E = 3.4e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k+efla++sHE+RTP+++++g+a++L++ t+lse+q
CP000376_0 378 IKEEFLATMSHEFRTPMNGVIGMAQMLQA---------TDLSEDQ-- 413

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r y++til +++ ll+Lind+Ldls + a
CP000376_0 414 ----------RLYTDTILGSSRALLALINDVLDLSHMNAA 443

CP000376_0303: domain 1 of 1, from 303 to 369: score 59.6, E = 2.8e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+ +a++ HEL+ PLta++g+aelL++ ++ls qr
CP000376_0 303 ALKTYTAHVTHELKSPLTALKGAAELLRD---------DDLSQSQR- 339

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l+ti++ + r+++L+ ++ +s ++++
CP000376_0 340 ----------HRLLDTIEKGGTRIEDLLAHMRAFSLADQQ 369

CP000376_0338: domain 1 of 1, from 652 to 717: score 59.5, E = 2.8e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e+la+++HEL++PL+ I gya++L+ l ++ +
CP000376_0 652 ALGELLAGVAHELNNPLSIIVGYAQMLEG----------RLQDKVL- 687

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++i ++a+r r+++ +L ++r +
CP000376_0 688 ----------SKRVDRIAEAADRSARIVRAFLAMARQRPT 717

CP000376_0266: domain 1 of 1, from 531 to 599: score 38.5, E = 2.5e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ +sH+L+ PL +I +++ L+e+l +++l++++
CP000376_0 531 ELDQFAYIASHDLKAPLRVIENAVSWLEEDL------RPHLTDDT-- 569

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re + +++ a+r+++L++dlL sri+
CP000376_0 570 ----------RESMDLLRNRARRMEALLSDLLKHSRIGRV 599

CP000376_0200: domain 1 of 1, from 486 to 550: score 30.4, E = 5.2e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++ ++H++ + L++I+g+++lL+ + +eqr
CP000376_0 486 ALGKVSGEVAHDFGNILSSISGNLHLLEH-----------AEPEQR- 520

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ e++ +++ +L ++lL ++r ++
CP000376_0 521 ----------RDLHERLGAALDLGASLTERLLAFARKQHL 550

CP000376_0058: domain 1 of 1, from 519 to 585: score 28.8, E = 1.4e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ +++H+++ L +I++++ ++e ++ ++
CP000376_0 519 SLRKFAHTAAHDIKGSLRGISAALGWMEE---------DDFEKTTT- 555

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re e +l +a+ l++L + lL+++ ++++
CP000376_0 556 ----------REHQELALAQARKLQNLTESLLEMTLLREQ 585


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-14 1 0|=
-13 3 0|=
-12 27 16|=====*===
-11 54 86|================== *
-10 109 160|===================================== *
-9 158 165|===================================================== *
-8 137 123|========================================*=====
-7 82 78|=========================*==
-6 71 44|==============*=========
-5 39 24|=======*=====
-4 14 13|====*
-3 8 6|=*=
-2 3 3|*
-1 6 1|*=
0 1 0|=
1 3 0|=
2 1 0|=
3 1 0|=
> 4 10 -|====


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 60.5606
P(chi-square) = 1.045e-09

Total sequences searched: 728

Whole sequence top hits:
tophits_s report:
Total hits: 8
Satisfying E cutoff: 8
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 8
Satisfying E cutoff: 8
Total memory: 24K


Acknowledgements:

This research is funded by:

Developed by: