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Classification of phyla is from NCBI page
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2 accessions found for Variovorax paradoxus S110  

Data for CP001636  

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: CP001636.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
-------- ----------- ----- ------- ---
CP001636_0948 CDS_1027506-1028897 66.3 4.8e-19 1
CP001636_0141 CDS_154338-152710 58.1 1e-16 1
CP001636_0780 CDS_842901-841081 54.3 1.2e-15 1
CP001636_0042 CDS_47640-49475 38.2 4.6e-11 1
CP001636_0268 CDS_286566-288665 35.9 2e-10 1
CP001636_0829 CDS_904624-899378 30.7 6e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001636_0948 1/1 239 304 .. 1 87 [] 66.3 4.8e-19
CP001636_0141 1/1 306 373 .. 1 87 [] 58.1 1e-16
CP001636_0780 1/1 224 289 .. 1 87 [] 54.3 1.2e-15
CP001636_0042 1/1 377 445 .. 1 87 [] 38.2 4.6e-11
CP001636_0268 1/1 322 390 .. 1 87 [] 35.9 2e-10
CP001636_0829 1/1 1519 1589 .. 1 87 [] 30.7 6e-09

Alignments of top-scoring domains:
CP001636_0948: domain 1 of 1, from 239 to 304: score 66.3, E = 4.8e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+a+++H+L+TP++++++ +el+l+ e ++e +
CP001636_0 239 FQNRFVADAAHQLKTPVSGLKAQIELALR----------ESDPERV- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r l ++ +a+rl+rL+++lL l+r e g
CP001636_0 275 ----------RHSLAQLYISADRLSRLVRQLLSLARNEPG 304

CP001636_0141: domain 1 of 1, from 306 to 373: score 58.1, E = 1e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++ +lsHELRTP taIrg ae+ l++ +++++e+
CP001636_0 306 RRRQLFVDLSHELRTPATAIRGEAEITLRG--------GDKPAEE-- 342

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
yr +l++i +++l + i dlL ++r+ea
CP001636_0 343 ---------YRHALKRIVGTVQQLTKVIGDLLLIARAEAD 373

CP001636_0780: domain 1 of 1, from 224 to 289: score 54.3, E = 1.2e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k++fla++sH+LR+P++aI ++ +L++ +l
CP001636_0 224 EKTRFLATASHDLRQPMHAIALFGAALEN----------ALEGRPE- 259

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e++ r+++ l + +n +Ld+sr++ag
CP001636_0 260 ----------VKNAERLMRAVDTLGASLNTMLDISRLDAG 289

CP001636_0042: domain 1 of 1, from 377 to 445: score 38.2, E = 4.6e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++++ a++ HEL++PLta+r+++e + ld ++ ++
CP001636_0 377 ALGQMSAGVVHELNQPLTAMRTLSESAAILLD------KNRLDDV-- 415

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r l++i+ ++rl rL ++l +++ +
CP001636_0 416 ----------RGNLQRIRGMVDRLARLTSQLKTFAHKNEL 445

CP001636_0268: domain 1 of 1, from 322 to 390: score 35.9, E = 2e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++++ +++H++++ Lt I+g++++L+e l++ +
CP001636_0 322 SVGQLTGGIAHDFNNLLTIIQGNLQVLEE-----------LPAIAQD 357

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++++ + r+++r +L lL +sr +
CP001636_0 358 GYA-------QQLVGAAARASRRGAELTGKLLAFSRRQML 390

CP001636_0829: domain 1 of 1, from 1519 to 1589: score 30.7, E = 6e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e++a++ HE+ +P++a+ + a+++l++ld +++ + ++
CP001636_0 1519 AMGELVASIVHEIGQPIAAVDTSASAALRWLD-----RSTPDISEA- 1559

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re+l i ++a r + +i+ l+ +r ++
CP001636_0 1560 ----------REMLIHISKSALRARTIIQGLRAKARKAEP 1589


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 2 0|=
-13 9 0|===
-12 34 23|=====*===
-11 70 123|================== *
-10 174 228|============================================ *
-9 210 235|===================================================== *
-8 186 176|===========================================*===
-7 145 111|===========================*=========
-6 95 64|===============*========
-5 56 35|========*=====
-4 16 18|====*
-3 20 9|==*==
-2 7 5|=*
> -1 14 -|====


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 92.4708
P(chi-square) = 1.731e-15

Total sequences searched: 1038

Whole sequence top hits:
tophits_s report:
Total hits: 6
Satisfying E cutoff: 6
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 6
Satisfying E cutoff: 6
Total memory: 23K


Acknowledgements:

This research is funded by:

Developed by: