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Classification of phyla is from NCBI page
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3 accessions found for Paracoccus denitrificans PD1222  

Data for CP000489  

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: CP000489.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
-------- ----------- ----- ------- ---
CP000489_1768 CDS_1780710-1783367 81.1 8.2e-23 1
CP000489_0080 CDS_72869-75208 79.1 3.2e-22 1
CP000489_2325 CDS_2349858-2348533 57.1 5.2e-16 1
CP000489_0590 CDS_569558-571600 47.3 3.3e-13 1
CP000489_1751 CDS_1760772-1759435 40.2 3.3e-11 1
CP000489_0865 CDS_859314-857878 39.8 4.3e-11 1
CP000489_1115 CDS_1101599-1100148 38.5 9.6e-11 1
CP000489_0308 CDS_291488-292918 37.0 2.7e-10 1
CP000489_2746 CDS_2802070-2800682 29.2 4.4e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000489_1768 1/1 650 716 .. 1 87 [] 81.1 8.2e-23
CP000489_0080 1/1 273 338 .. 1 87 [] 79.1 3.2e-22
CP000489_2325 1/1 85 150 .. 1 87 [] 57.1 5.2e-16
CP000489_0590 1/1 305 371 .. 1 87 [] 47.3 3.3e-13
CP000489_1751 1/1 231 294 .. 1 87 [] 40.2 3.3e-11
CP000489_0865 1/1 243 307 .. 1 87 [] 39.8 4.3e-11
CP000489_1115 1/1 258 326 .. 1 87 [] 38.5 9.6e-11
CP000489_0308 1/1 239 304 .. 1 87 [] 37.0 2.7e-10
CP000489_2746 1/1 227 297 .. 1 87 [] 29.2 4.4e-08

Alignments of top-scoring domains:
CP000489_1768: domain 1 of 1, from 650 to 716: score 81.1, E = 8.2e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k+ fl +sHELRTP+t+Ir+++e+L e ++l+ +r
CP000489_1 650 QKDAFLGQISHELRTPMTSIRAFSEILME---------PDLPTGDR- 686

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +i++ea r+ rL++dlLdls +eag
CP000489_1 687 ----------ARFAGIIQDEACRMTRLLDDLLDLSVLEAG 716

CP000489_0080: domain 1 of 1, from 273 to 338: score 79.1, E = 3.2e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fl+ +sHE+RTPL+a++ +aelL e + ++ +
CP000489_0 273 AKSQFLSVMSHEIRTPLNALLNMAELLIE----------DGNPAPA- 308

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l+ i ++a+ l ++++d+Ld+srie+g
CP000489_0 309 ----------AAHLSGIASSARALAAIVDDVLDFSRIESG 338

CP000489_2325: domain 1 of 1, from 85 to 150: score 57.1, E = 5.2e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+k++fl+++sH+L +PL+a ++++++L++ t l++ q
CP000489_2 85 SKTRFLRAASHDLLQPLSAAKLFLSALKD---------TSLDPLQ-- 120

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re+++++ + e+ ++L +Ld+sr++++
CP000489_2 121 ----------RELTDRLSGAFESVEELMHAVLDISRLDSQ 150

CP000489_0590: domain 1 of 1, from 305 to 371: score 47.3, E = 3.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ LtaI g+++lL ++++ +++
CP000489_0 305 AIGQLAGGIAHDFNNLLTAITGHCDLLML--------RHDKADPD-- 341

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l+ i + a+r +L+++lL +sr ++
CP000489_0 342 ----------YADLDQISQNANRAAALVRQLLAFSRKQTL 371

CP000489_1751: domain 1 of 1, from 231 to 294: score 40.2, E = 3.3e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ ++l+++sH+LRTPLt +r+ +++L ++ + +++
CP000489_1 231 QRKQMLSGVSHDLRTPLTRLRLGLSMLSPDY--------PPEPDE-- 267

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++++ + +++ +Ld +r a+
CP000489_1 268 -------------IAALESDVAAMGTMVDAFLDHARDAAQ 294

CP000489_0865: domain 1 of 1, from 243 to 307: score 39.8, E = 4.3e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ +a +sH+LR+ Lt+ + +a+ L++ +++
CP000489_0 243 QLGQAVARISHDLRNILTTAQIFADRLET----------SADPAV-- 277

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ ++ +++ r +L + L + ++e++
CP000489_0 278 ----------RRAAPKLVNSISRAVNLCETTLAFGKAEEP 307

CP000489_1115: domain 1 of 1, from 258 to 326: score 38.5, E = 9.6e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e++++l HEL +PLtaI++ a++ ++ l + ++ +
CP000489_1 258 ALGEMASGLTHELTQPLTAILAQAQAGRRLL-------ARGDAAAL- 296

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ l+ +a+r ++++++++ sr ++
CP000489_1 297 ----------APVLDDTVTQARRASAILERFRNWSRPQQA 326

CP000489_0308: domain 1 of 1, from 239 to 304: score 37.0, E = 2.7e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ f+ n+ H+LRTPL+++r+ + l+ + ++ +e
CP000489_0 239 GMRNFTGNAGHQLRTPLAVVRTQLALAAR---------AASLPEA-- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + + + ++ + +r++ +lL l+r ++
CP000489_0 275 ----------QAAAAKGDAAVAHAERILAQLLLLARVDTA 304

CP000489_2746: domain 1 of 1, from 227 to 297: score 29.2, E = 4.4e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +a+++HEL TPL++I++ L +el ++l+e + l
CP000489_2 227 HLGGVVAAAAHELGTPLATIKLVGAELADELA------EALPEREDL 267

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e + ++++a+r+++++ + r +
CP000489_2 268 ----------AEDVTLLRQSADRCRDILKSMGSAGRDDLL 297


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-14 5 0|=
-13 26 2|*==
-12 95 63|======*===
-11 261 331|=========================== *
-10 448 615|============================================= *
-9 573 635|==========================================================*
-8 512 475|===============================================*====
-7 336 299|=============================*====
-6 233 172|=================*======
-5 148 94|=========*=====
-4 78 50|====*===
-3 34 26|==*=
-2 12 14|=*
-1 10 7|*
0 7 3|*
1 3 1|*
2 2 1|*
3 2 0|=
> 4 14 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 158.0888
P(chi-square) = 3.297e-28

Total sequences searched: 2799

Whole sequence top hits:
tophits_s report:
Total hits: 9
Satisfying E cutoff: 9
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 9
Satisfying E cutoff: 9
Total memory: 24K


Acknowledgements:

This research is funded by:

Developed by: