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Classification of phyla is from NCBI page
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106 projects found  

2 accessions found for Nocardioides sp. JS614  

Data for CP000508  

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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: CP000508.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
-------- ----------- ----- ------- ---
CP000508_0197 CDS_233319-234470 83.2 2e-25 1
CP000508_0201 CDS_237578-239068 57.9 5.7e-18 1
CP000508_0191 CDS_227340-228476 56.4 1.6e-17 1
CP000508_0194 CDS_231711-230236 45.3 3e-14 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000508_0197 1/1 181 248 .. 1 70 [] 83.2 2e-25
CP000508_0201 1/1 292 359 .. 1 70 [] 57.9 5.7e-18
CP000508_0191 1/1 178 244 .. 1 70 [] 56.4 1.6e-17
CP000508_0194 1/1 301 363 .. 1 70 [] 45.3 3e-14

Alignments of top-scoring domains:
CP000508_0197: domain 1 of 1, from 181 to 248: score 83.2, E = 2e-25
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERaRIARELHD+v++++s+i +q+ + rr+l ++d + ar a+d i
CP000508_0 181 ERARIARELHDVVAHAISVIVVQARGGRRVL--ADDTGGARSAFDVI 225

relarealaevRrllgdLRpaal<-*
++++++al+e+Rrll LR+++
CP000508_0 226 EHAGEQALTEMRRLLALLRETEP 248

CP000508_0201: domain 1 of 1, from 292 to 359: score 57.9, E = 5.7e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R R+LHD++g +L++++l++e++r l ++d++ ar a+d++
CP000508_0 292 ERHRVRRDLHDGIGPALAGMRLHIEVLRDGL--PEDAAIARSAADRL 336

relarealaevRrllgdLRpaal<-*
+e ++e+l+e+Rr++ +++p+ l
CP000508_0 337 EESVDETLNELRRIVDGMQPSSL 359

CP000508_0191: domain 1 of 1, from 178 to 244: score 56.4, E = 1.6e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIARELHD+v+++L ++ +q+++ r +++p++ a +al+
CP000508_0 178 ERTRIARELHDVVSHTLGVMVVQAGGERL----HAAPGsGAHTALAS 220

irelarealaevRrllgdLRpaal<-*
i+e +r a++++Rrll+ LR+ a+
CP000508_0 221 IEESGRLAMEQMRRLLSMLREEAD 244

CP000508_0194: domain 1 of 1, from 301 to 363: score 45.3, E = 3e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER + R+LHD++g sL+ai l+l +++ + + ++e+
CP000508_0 301 ERVALRRDLHDGLGPSLAAIGLGLRQLEQKT-------GGGDGVREM 340

relarealaevRrllgdLRpaal<-*
++ +++a aevRr+ +LRpaal
CP000508_0 341 ADEVQRAVAEVRRICDGLRPAAL 363


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-13 1 0|=
-12 6 2|=*====
-11 12 24|============ *
-10 23 56|======================= *
-9 38 63|====================================== *
-8 31 49|=============================== *
-7 32 30|=============================*==
-6 38 17|================*=====================
-5 27 9|========*==================
-4 20 4|===*================
-3 12 2|=*==========
-2 7 1|*======
-1 8 0|========
0 0 0|
1 2 0|==
2 2 0|==
3 0 0|
4 0 0|
> 5 5 -|=====


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 100.0433
P(chi-square) = 2.458e-19

Total sequences searched: 264

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: