Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
132 projects found  

5 accessions found for Sphingobium japonicum UT26S  

Data for AP010804  

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_1.hmm [HisKA]
Sequence database: AP010804.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
AP010804_0125 CDS_147506-149104 71.7 8.4e-21 1
AP010804_0579 CDS_671065-668858 50.7 7.1e-15 1
AP010804_0082 CDS_89002-86990 44.5 4e-13 1
AP010804_0562 CDS_650260-648551 41.3 3.3e-12 1
AP010804_0079 CDS_84347-82620 35.3 1.7e-10 1
AP010804_0047 CDS_46736-45591 33.4 5.8e-10 1
AP010804_0324 CDS_400360-398990 31.5 2e-09 1
AP010804_0218 CDS_254385-256337 28.7 1.2e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP010804_0125 1/1 318 386 .. 1 87 [] 71.7 8.4e-21
AP010804_0579 1/1 376 441 .. 1 87 [] 50.7 7.1e-15
AP010804_0082 1/1 313 379 .. 1 87 [] 44.5 4e-13
AP010804_0562 1/1 209 275 .. 1 87 [] 41.3 3.3e-12
AP010804_0079 1/1 214 279 .. 1 87 [] 35.3 1.7e-10
AP010804_0047 1/1 159 230 .. 1 87 [] 33.4 5.8e-10
AP010804_0324 1/1 252 310 .. 1 87 [] 31.5 2e-09
AP010804_0218 1/1 422 493 .. 1 87 [] 28.7 1.2e-08

Alignments of top-scoring domains:
AP010804_0125: domain 1 of 1, from 318 to 386: score 71.7, E = 8.4e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHE++TPL++I+g++elL++ +g + ++++
AP010804_0 318 YLRDFASSVSHEFKTPLAGISGAIELLQD------HGADMAPADR-- 356

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l + +a+rl+rL+++l++l+r++
AP010804_0 357 ----------RRFLANMAADAQRLSRLVRRLMELARADVL 386

AP010804_0579: domain 1 of 1, from 376 to 441: score 50.7, E = 7.1e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k+ fla++sH+L +PL+a r+++ +L + l ++
AP010804_0 376 SKTSFLAAASHDLLQPLNAARLFVAALGD---------RRLALPT-- 411

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r +++ ++++ ++L++ lL++sr++ag
AP010804_0 412 ----------RALVNQTSTALDSVEDLLEALLEISRLDAG 441

AP010804_0082: domain 1 of 1, from 313 to 379: score 44.5, E = 4e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++ +++H++++ Lt I g ++lL + ++ ++ +
AP010804_0 313 SMGQLTGGVAHDFNNLLTPIVGSLDLLHR--------RGLGTDRE-- 349

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+++e +l++a+r L+++lL ++r +
AP010804_0 350 ----------RRLIEGALQSADRAKMLVQRLLAFARRQPL 379

AP010804_0562: domain 1 of 1, from 209 to 275: score 41.3, E = 3.3e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++ +++H++++ L I g ++l+l +++++e +
AP010804_0 209 MLGQLTGHVAHDFNNLLMPIVGGLDLILS---------GKRTPESI- 245

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ ++ ++ae+ + L+++lL+++r +
AP010804_0 246 ----------ERHATIAMQAAESAQTLVQRLLTFARRQPL 275

AP010804_0079: domain 1 of 1, from 214 to 279: score 35.3, E = 1.7e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++ +++H++++ L + +g ++l+++ ++++ +
AP010804_0 214 AMGQLTGGVAHDFNNLLMVASGGLDLMER----------TQDAARL- 249

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ i+++++r +L ++lL +sr
AP010804_0 250 ----------EKLRAGIRQALDRGAKLTRQLLAFSRRTPL 279

AP010804_0047: domain 1 of 1, from 159 to 230: score 33.4, E = 5.8e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ ++++l+HEL++PLtaI y+e+ ++ l ++ + +r
AP010804_0 159 AMGTLASALAHELNQPLTAIANYLEAGRDML-------DAGEPVDRE 198

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re+ ++a r ++i+ l+++ + ++
AP010804_0 199 LL--------REAMAESANQALRAGEIIRSLREFIKRGET 230

AP010804_0324: domain 1 of 1, from 252 to 310: score 31.5, E = 2e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++++la++sH+L TPLt +r+ +el ++
AP010804_0 252 ERTQLLAAISHDLQTPLTRLRLRLELVEN------------------ 280

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+ ++l++ + + L+++ Ldl+ +
AP010804_0 281 ----------EELRARLLHDHQAMMTLVREGLDLAASTEA 310

AP010804_0218: domain 1 of 1, from 422 to 493: score 28.7, E = 1.2e-08
*->akseflanlsHELRTPLtaIrgyae...lLleeldkvlagdtelsee
a++ ++++l+HEL++PLta+ +y e++++Ll+++ +e++ +
AP010804_0 422 AMGAMASMLAHELNQPLTALAAYMEgssILLMRG-------QEADRQ 461

qrlpeLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ ++++++ +ea r ++ ++l+d++ ++
AP010804_0 462 KL-----------NRIFRSAAQEAVRAGAIMRRLRDFASDGEA 493


Histogram of all scores:
score obs exp (one = represents 3 sequences)
----- --- ---
-13 6 0|==
-12 19 13|====*==
-11 39 69|============= *
-10 78 129|========================== *
-9 115 133|======================================= *
-8 124 100|=================================*========
-7 97 63|====================*============
-6 53 36|===========*======
-5 17 19|======*
-4 16 10|===*==
-3 6 5|=*
-2 5 2|*=
-1 1 1|*
0 2 0|=
1 0 0|
2 1 0|=
> 3 10 -|====


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 73.6682
P(chi-square) = 2.894e-12

Total sequences searched: 589

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: