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3 accessions found for Paracoccus denitrificans PD1222  

Data for CP000490  

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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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000490.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
-------- ----------- ----- ------- ---
CP000490_1088 CDS_1074472-1075524 88.5 3.9e-25 1
CP000490_1496 CDS_1533474-1535159 67.3 4.1e-19 1
CP000490_0720 CDS_720604-717980 65.5 1.3e-18 1
CP000490_1157 CDS_1150926-1148956 61.8 1.5e-17 1
CP000490_1276 CDS_1284679-1282421 58.5 1.3e-16 1
CP000490_0258 CDS_276953-278287 53.0 4.6e-15 1
CP000490_0445 CDS_451183-449813 50.9 1.8e-14 1
CP000490_0131 CDS_131915-133708 47.2 2e-13 1
CP000490_1278 CDS_1287388-1286231 47.0 2.3e-13 1
CP000490_0397 CDS_399803-398991 38.3 6.6e-11 1
CP000490_0472 CDS_476507-475170 31.5 5.5e-09 1
CP000490_0557 CDS_547575-546172 27.0 1.1e-07 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000490_1088 1/1 115 182 .. 1 87 [] 88.5 3.9e-25
CP000490_1496 1/1 197 262 .. 1 87 [] 67.3 4.1e-19
CP000490_0720 1/1 662 728 .. 1 87 [] 65.5 1.3e-18
CP000490_1157 1/1 436 503 .. 1 87 [] 61.8 1.5e-17
CP000490_1276 1/1 509 580 .. 1 87 [] 58.5 1.3e-16
CP000490_0258 1/1 196 291 .. 1 87 [] 53.0 4.6e-15
CP000490_0445 1/1 227 292 .. 1 87 [] 50.9 1.8e-14
CP000490_0131 1/1 365 433 .. 1 87 [] 47.2 2e-13
CP000490_1278 1/1 158 222 .. 1 87 [] 47.0 2.3e-13
CP000490_0397 1/1 65 123 .. 1 87 [] 38.3 6.6e-11
CP000490_0472 1/1 217 286 .. 1 87 [] 31.5 5.5e-09
CP000490_0557 1/1 242 300 .. 1 87 [] 27.0 1.1e-07

Alignments of top-scoring domains:
CP000490_1088: domain 1 of 1, from 115 to 182: score 88.5, E = 3.9e-25
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHELRTPLta++g++e+L+ ++++++ ++
CP000490_1 115 MRRDFVANVSHELRTPLTALMGFIETLRG---------PARNDPAAR 152

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l++++rea r++rL+ dlL lsr e+
CP000490_1 153 ----------ARFLDIMEREAGRMNRLVADLLSLSRVEQD 182

CP000490_1496: domain 1 of 1, from 197 to 262: score 67.3, E = 4.1e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+fla +sH+LR+P++aI++++ L+e + l + +
CP000490_1 197 AKSRFLAQASHDLRQPIHAISLFTNCLRE---------AGLAPSE-- 232

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+++e i++++++ +r+ + lLd++ +++g
CP000490_1 233 ----------RQMVENIEHSLQSVRRMFRSLLDIATLDSG 262

CP000490_0720: domain 1 of 1, from 662 to 728: score 65.5, E = 1.3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e +a++sHELR+PL +I +e+L + ++ l+++
CP000490_0 662 AVGEVAATISHELRNPLGTITSSVEVLSR--------SPGLGPDA-- 698

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e +++i+r + r++r+i+ lLd++r +a
CP000490_0 699 ----------EEDVQRIRRNIARCSRIIDILLDFARQGAH 728

CP000490_1157: domain 1 of 1, from 436 to 503: score 61.8, E = 1.5e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e a+++HE+++PL++I+g++++L+e +gd++ ++++
CP000490_1 436 ALGEISAGIAHEINNPLAVIQGNLDVLRE-----VLGDAATPADTE- 476

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l+ i+++++r++ ++ +lLd++r+++
CP000490_1 477 -------------LRLIDDQIRRISLIVTQLLDFARADQA 503

CP000490_1276: domain 1 of 1, from 509 to 580: score 58.5, E = 1.3e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++ ++ ++HE+++PLt I++ ae L++++ ++ e+r
CP000490_1 509 AWGDVARRVAHEIKNPLTPIQLSAERLKRKF-------GPIAGEER- 547

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+L ++y+e+i+r+++ l+r+++++ ++r+ ++
CP000490_1 548 EAL-------EQYTEVIIRQTNDLRRIVDEFSRFARMPEP 580

CP000490_0258: domain 1 of 1, from 196 to 291: score 53.0, E = 4.6e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldk..v.lagdtelsee
+++++la+++HEL++P++ + ++a++L++++ k ++ + + ++ +
CP000490_0 196 SLGRLLAGVAHELNNPISFVYANAHALERYAAKfeTyFERVQAGADR 242

qrlpeLR.l.....edpeyreyletilreaerllrLindlLdlsrieag<
+ l +LR++ + ++e ++ re+++ +++ aer +++++dl+ ls + g
CP000490_0 243 DELVRLReElrldrELRNLREAVQGAREGAERVRDIVEDLRRLSSDGGG 291

-*

CP000490_0 - -

CP000490_0445: domain 1 of 1, from 227 to 292: score 50.9, E = 1.8e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + f+an++HELRTPL++ ++ a+ ++ ++++
CP000490_0 227 AERTFAANAAHELRTPLAGAIAQAQRIQV---------ETKDTGA-- 262

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
i+ +++rl r+ ++lL+l+r+e g
CP000490_0 263 ----------GHRAAEIEASLKRLARIAERLLQLARAEGG 292

CP000490_0131: domain 1 of 1, from 365 to 433: score 47.2, E = 2e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++e+ a++sHEL++PL+a+++y+ ++ l++++ + e q
CP000490_0 365 ALGEMSAGVSHELNQPLAAMKTYLAGARL-----LLQRGRAEEAQ-- 404

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++i++ +er+ ++ ++l ++r + +
CP000490_0 405 -----------SSFQRIDDLVERMGAITRQLKSYARKGGE 433

CP000490_1278: domain 1 of 1, from 158 to 222: score 47.0, E = 2.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++ +l+HE+++PL++Irg+a+l+ + +l +e+
CP000490_1 158 SAIGMAEMLAHEIKNPLAGIRGAAQLIGM----------NLKAED-- 192

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ + i e++r+ +L++++ + a+
CP000490_1 193 ----------RDLADLIVAESRRIVELLDQVERFGDTSAP 222

CP000490_0397: domain 1 of 1, from 65 to 123: score 38.3, E = 6.6e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++la++ H+LRTPLt++r+ ae +
CP000490_0 65 DRTRMLAAIGHDLRTPLTSLRLRAEFVTD------------------ 93

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+ +++l ++ ++++ + ++r ea
CP000490_0 94 ----------PEIQQRMLATIDEIQAMTEATIAFARGEAT 123

CP000490_0472: domain 1 of 1, from 217 to 286: score 31.5, E = 5.5e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++f+ ++H++RTPL++I + + L +++ ++ ++e +
CP000490_0 217 NHRRFADLIAHQFRTPLAVIDSAMHRLTRRSG------GPVPPELI- 256

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e + ++++ rl +L + L +sr+e
CP000490_0 257 ----------SEKAAVSREAVARLVKLTDTALMMSRLERD 286

CP000490_0557: domain 1 of 1, from 242 to 300: score 27.0, E = 1.1e-07
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ l+++sH+L TP t +r+ + l+++
CP000490_0 242 NRALVLSGVSHDLGTPATRLRLRSTLIED------------------ 270

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++++++++ + +i+ +L+++r+e g
CP000490_0 271 ----------DTLRSKLEHDIDEMTTMIEGVLTYTRAEIG 300


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 1 0|=
-13 10 1|*=
-12 52 37|=====*==
-11 121 197|================== *
-10 274 365|======================================== *
-9 369 377|=====================================================*
-8 280 282|========================================*
-7 209 178|=========================*====
-6 147 102|==============*======
-5 75 56|=======*===
-4 44 30|====*==
-3 28 15|==*=
-2 16 8|=*=
-1 11 4|*=
0 7 2|*
1 2 1|*
> 2 16 -|===


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 111.2695
P(chi-square) = 2.959e-19

Total sequences searched: 1662

Whole sequence top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 25K


Acknowledgements:

This research is funded by:

Developed by: