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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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132 projects found  

1 accessions found for Candidatus Pelagibacter ubique HTCC1062  

Data for CP000084  

Available Atlases
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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_1.hmm [HisKA]
Sequence database: CP000084.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
-------- ----------- ----- ------- ---
CP000084_1162 CDS_1135104-1134061 73.0 7.9e-21 1
CP000084_0088 CDS_102968-104287 45.7 4.5e-13 1
CP000084_0195 CDS_200071-198533 43.0 2.5e-12 1
CP000084_0934 CDS_930121-931902 39.8 2e-11 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000084_1162 1/1 122 190 .. 1 87 [] 73.0 7.9e-21
CP000084_0088 1/1 238 296 .. 1 87 [] 45.7 4.5e-13
CP000084_0195 1/1 287 352 .. 1 87 [] 43.0 2.5e-12
CP000084_0934 1/1 368 440 .. 1 87 [] 39.8 2e-11

Alignments of top-scoring domains:
CP000084_1162: domain 1 of 1, from 122 to 190: score 73.0, E = 7.9e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
ks+f+an+sHELRTPL +I++ +e++ + ++ ++ e q
CP000084_1 122 FKSDFVANVSHELRTPLQSIKLGLETIND------GHASNDFEMQ-- 160

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l ++ +++er+++LindlL ls+ie +
CP000084_1 161 ----------KKFLPIMMQQTERMENLINDLLSLSKIELQ 190

CP000084_0088: domain 1 of 1, from 238 to 296: score 45.7, E = 4.5e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++se+l+++sH+LRTPLt +++ ++ +++
CP000084_0 238 QRSEMLSGISHDLRTPLTRLKLQLSFMKD------------------ 266

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ +++ +++++n+ L+++
CP000084_0 267 ----------KDLSKKMSLDIDEMEKMLNEYLQFTSSSYL 296

CP000084_0195: domain 1 of 1, from 287 to 352: score 43.0, E = 2.5e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ f +l HE+R+PLt+++ ++e+L e t+ ++
CP000084_0 287 HAENFSTDLVHEIRNPLTSLKSASEILNE---------TDDQSQR-- 322

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++++ ++++r++rLi d ++ + e
CP000084_0 323 ----------SKLISILNHDVQRIERLITDYSQILKDEVA 352

CP000084_0934: domain 1 of 1, from 368 to 440: score 39.8, E = 2e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + +++ l+HE+++PLt I+++++ L++++ ++ ++ e+
CP000084_0 368 AWENLARKLAHEIKNPLTPIQLTIDKLKNKY-----SEKIADHEK-- 407

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + l +i ++++++++L+n++ d++r+ +
CP000084_0 408 -------EDFSKSLLIIGKQIKQIENLVNEFSDFARMPKP 440


Histogram of all scores:
score obs exp (one = represents 6 sequences)
----- --- ---
-14 10 0|==
-13 26 1|*====
-12 67 30|====*=======
-11 188 160|==========================*=====
-10 304 297|=================================================*=
-9 257 307|=========================================== *
-8 169 230|============================= *
-7 147 145|========================*
-6 78 83|=============*
-5 38 45|=======*
-4 31 24|===*==
-3 19 12|=*==
-2 4 6|*
-1 4 3|*
0 3 1|*
1 2 0|=
2 0 0|
> 3 7 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 77.6714
P(chi-square) = 4.682e-13

Total sequences searched: 1354

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: