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Classification of phyla is from NCBI page
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132 projects found  

7 accessions found for Agrobacterium vitis S4  

Data for CP000634  

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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: CP000634.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
-------- ----------- ----- ------- ---
CP000634_0316 CDS_387261-384907 82.9 9.7e-24 1
CP000634_0876 CDS_1091814-1089106 75.6 1.2e-21 1
CP000634_0086 CDS_96470-98164 68.9 9.1e-20 1
CP000634_0157 CDS_187477-185858 62.6 5.3e-18 1
CP000634_0939 CDS_1165798-1164497 52.3 4.5e-15 1
CP000634_0409 CDS_496749-497819 50.1 2e-14 1
CP000634_1027 CDS_1252391-1251069 48.6 5e-14 1
CP000634_1001 CDS_1221724-1223526 44.4 8.1e-13 1
CP000634_0910 CDS_1132157-1130754 38.7 3.3e-11 1
CP000634_0428 CDS_518651-520033 36.6 1.2e-10 1
CP000634_0170 CDS_206522-205200 30.5 6.6e-09 1
CP000634_0446 CDS_541988-545098 26.8 7.6e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000634_0316 1/1 416 481 .. 1 87 [] 82.9 9.7e-24
CP000634_0876 1/1 669 737 .. 1 87 [] 75.6 1.2e-21
CP000634_0086 1/1 200 265 .. 1 87 [] 68.9 9.1e-20
CP000634_0157 1/1 180 245 .. 1 87 [] 62.6 5.3e-18
CP000634_0939 1/1 201 264 .. 1 87 [] 52.3 4.5e-15
CP000634_0409 1/1 129 199 .. 1 87 [] 50.1 2e-14
CP000634_1027 1/1 228 293 .. 1 87 [] 48.6 5e-14
CP000634_1001 1/1 381 449 .. 1 87 [] 44.4 8.1e-13
CP000634_0910 1/1 239 304 .. 1 87 [] 38.7 3.3e-11
CP000634_0428 1/1 238 303 .. 1 87 [] 36.6 1.2e-10
CP000634_0170 1/1 234 292 .. 1 87 [] 30.5 6.6e-09
CP000634_0446 1/1 525 591 .. 1 87 [] 26.8 7.6e-08

Alignments of top-scoring domains:
CP000634_0316: domain 1 of 1, from 416 to 481: score 82.9, E = 9.7e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aksefl+ +sHELRTPL++++g+a++L + + + ++
CP000634_0 416 AKSEFLSRMSHELRTPLNSVLGFAQILDM----------DIEDRDM- 451

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re l ilr++++ll+Li+++Ld++rieag
CP000634_0 452 ----------RESLAQILRAGRHLLSLIDEVLDIARIEAG 481

CP000634_0876: domain 1 of 1, from 669 to 737: score 75.6, E = 1.2e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s +l+++sH+LRTPL++I g++ L+e++ + ++ e r
CP000634_0 669 FQSTLLSSISHDLRTPLATITGAVTSLKEFG-------ERMPVESR- 707

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++l++i++e+erl+r + +lLd++rieag
CP000634_0 708 ----------RDLLQSIEEEGERLSRFVGNLLDMTRIEAG 737

CP000634_0086: domain 1 of 1, from 200 to 265: score 68.9, E = 9.1e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+fla +sH+LR+P++aI++++ L++ ++l +++
CP000634_0 200 SKSRFLAQASHDLRQPIHAISLFTACLRD---------ANLQPKE-- 235

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++e i+r++++ +rL lLd+s +++g
CP000634_0 236 ----------LQMVENIDRSLQSVSRLFKSLLDISTLDSG 265

CP000634_0157: domain 1 of 1, from 180 to 245: score 62.6, E = 5.3e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ks+fla++sH+LR+P++aI++++ L++ + l e+
CP000634_0 180 SKSRFLAHASHDLRQPIHAISLFTACLRD---------AGLKQEE-- 215

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ i+r++++ +rL lLd+s +++g
CP000634_0 216 ----------LAMVDNIDRSLQSVSRLFKSLLDISTLDSG 245

CP000634_0939: domain 1 of 1, from 201 to 264: score 52.3, E = 4.5e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++ ++sHELR PL+ +++ + +L++ ++ +
CP000634_0 201 SRERLFHDISHELRSPLSRLQAVTGILRK------------NPGRL- 234

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l+++++e+erl+rL+ ++L+++r+ +
CP000634_0 235 ----------PGLLDRMDHEIERLDRLVGEILTMARLSSK 264

CP000634_0409: domain 1 of 1, from 129 to 199: score 50.1, E = 2e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e++a+++HE ++PL+a+ + a++++++ld ++ + +r+
CP000634_0 129 RLGELTASIAHEVNQPLAAVATSADACRRWLD------HTPPNLDRA 169

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ e+i ++++r ++ i +++ l+r e +
CP000634_0 170 ----------RQAAERIASDVKRASDVIVRVRRLARSEPP 199

CP000634_1027: domain 1 of 1, from 228 to 293: score 48.6, E = 5e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +ef+an +HELRTP+++ ++ ++l+l + + +e
CP000634_1 228 AEREFTANSAHELRTPIAGALAQTQLMLS---------QLKEPEA-- 263

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r + ++ +++ l L + lL+lsr+eag
CP000634_1 264 ----------RARASQVETSLQKLAGLAEKLLQLSRAEAG 293

CP000634_1001: domain 1 of 1, from 381 to 449: score 44.4, E = 8.1e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ +a+++HE+++P+++Ir+yae ++ +l + + +eq+
CP000634_1 381 ILGQVAAGVAHEINQPVATIRAYAENARVFL-------ERAQPEQA- 419

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l i + +er+ + ++l ++r +
CP000634_1 420 ----------NSNLGAIASLTERIGTITDELKAFARKGRT 449

CP000634_0910: domain 1 of 1, from 239 to 304: score 38.7, E = 3.3e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ f+ n+sH+LRTPL+ Ir+ + l + ++ +
CP000634_0 239 ALRHFTGNASHQLRTPLAIIRTQLALSAR---------ATSLGDA-- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + ++ ++++ + ++++ +lL ++ri+a
CP000634_0 275 ----------QSAARKGDEALAHAEHILAQLLLMARIDAA 304

CP000634_0428: domain 1 of 1, from 238 to 303: score 36.6, E = 1.2e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++f+ ++H+LRTP ++I+++++l+++ see+r
CP000634_0 238 LERRFADLAAHQLRTPQAGIKLLLQLIER----------SDSEEER- 273

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + + + + er +Li+++L l+r ++
CP000634_0 274 ----------QALMKDLTASNERAMHLIEQMLNLARVSHQ 303

CP000634_0170: domain 1 of 1, from 234 to 292: score 30.5, E = 6.6e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++l+++sH+ RTPLt +r+ +e +++
CP000634_0 234 GRTRMLRGISHDVRTPLTRLRLRSERMEA------------------ 262

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ e +l +++++++L+ + L + r +
CP000634_0 263 ----------GALREALLTDIDHIDDLLTESLNYLRDDFA 292

CP000634_0446: domain 1 of 1, from 525 to 591: score 26.8, E = 7.6e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ +++H++++ L +I+g+++lL + + ++ e +
CP000634_0 525 TVGKLTGGVAHDFNNLLQVISGNLQLLSK---------DVAGNERA- 561

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ + + r ++L ++lL + r +a
CP000634_0 562 ----------ETRVSNAMAGVSRGSKLASQLLAFGRRQAL 591


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 1 0|=
-13 1 0|=
-12 32 24|=====*==
-11 81 124|===================== *
-10 177 231|============================================= *
-9 223 239|======================================================== *
-8 185 179|============================================*==
-7 145 112|===========================*=========
-6 90 64|===============*=======
-5 48 35|========*===
-4 29 19|====*===
-3 11 10|==*
-2 6 5|=*
-1 8 2|*=
0 2 1|*
1 1 0|=
2 0 0|
3 0 0|
> 4 14 -|====


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 60.6291
P(chi-square) = 2.755e-09

Total sequences searched: 1054

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: