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Classification of phyla is from NCBI page
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106 projects found  

3 accessions found for Clavibacter michiganensis subsp. sepedonicus  

Data for AM849034  

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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)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: AM849034.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
-------- ----------- ----- ------- ---
AM849034_0548 CDS_585515-587098 83.0 2.7e-23 1
AM849034_2470 CDS_2663921-2662659 76.0 2.5e-21 1
AM849034_2704 CDS_2903480-2901720 73.5 1.3e-20 1
AM849034_2103 CDS_2259126-2260592 72.5 2.5e-20 1
AM849034_0220 CDS_257781-259481 68.4 3.6e-19 1
AM849034_0665 CDS_714942-716561 64.4 5.1e-18 1
AM849034_1276 CDS_1351929-1350598 59.2 1.5e-16 1
AM849034_2687 CDS_2885835-2886983 58.4 2.4e-16 1
AM849034_0991 CDS_1041119-1042753 57.0 6.3e-16 1
AM849034_0453 CDS_495406-493010 54.4 3.4e-15 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM849034_0548 1/1 264 331 .. 1 87 [] 83.0 2.7e-23
AM849034_2470 1/1 151 215 .. 1 87 [] 76.0 2.5e-21
AM849034_2704 1/1 263 330 .. 1 87 [] 73.5 1.3e-20
AM849034_2103 1/1 263 329 .. 1 87 [] 72.5 2.5e-20
AM849034_0220 1/1 334 404 .. 1 87 [] 68.4 3.6e-19
AM849034_0665 1/1 284 351 .. 1 87 [] 64.4 5.1e-18
AM849034_1276 1/1 224 289 .. 1 87 [] 59.2 1.5e-16
AM849034_2687 1/1 145 211 .. 1 87 [] 58.4 2.4e-16
AM849034_0991 1/1 319 386 .. 1 87 [] 57.0 6.3e-16
AM849034_0453 1/1 553 621 .. 1 87 [] 54.4 3.4e-15

Alignments of top-scoring domains:
AM849034_0548: domain 1 of 1, from 264 to 331: score 83.0, E = 2.7e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++f++++sHELRTPL++Irgyael ++ g + l+e+
AM849034_0 264 KVRRFVSDASHELRTPLASIRGYAELTRR-------GPHQLPEDV-- 301

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l++i++e+ r+ +++dlL l+r+++g
AM849034_0 302 ----------THSLSRIESESVRMTTIVEDLLLLARLDEG 331

AM849034_2470: domain 1 of 1, from 151 to 215: score 76.0, E = 2.5e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e++a +sH+LRTPL++Ir++ae L++ + ++e+
AM849034_2 151 SRRELIAWMSHDLRTPLAGIRAMAESLED---------GMVDDEH-- 186

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+y++ i+ +a+rl+ +++dl +lsri +g
AM849034_2 187 -----------RYFRQIRVQANRLNGMVDDLFELSRINSG 215

AM849034_2704: domain 1 of 1, from 263 to 330: score 73.5, E = 1.3e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ ++sHELRTPL ++rgyael ++++ +++e++
AM849034_2 263 QMRRFVGDASHELRTPLVSVRGYAELYRMGA--------LQTPEDV- 300

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e+i++ea r+ L++dlL+l+r+++
AM849034_2 301 ----------SQAMERIEKEAIRMGGLVEDLLELARLDET 330

AM849034_2103: domain 1 of 1, from 263 to 329: score 72.5, E = 2.5e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ f+a+++HELRTP+++Ir+ a++L + t+ s+e+r
AM849034_2 263 RMRAFVADAAHELRTPVAGIRASADALVR---------TDPSAEER- 299

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ + rea r rL++d+L ++r+++g
AM849034_2 300 ----------ERLSVHVVREAIRAGRLVDDMLMMARLDEG 329

AM849034_0220: domain 1 of 1, from 334 to 404: score 68.4, E = 3.6e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ef+a++sHEL+TPLt+I+gy+el+ ++l +e + ++r+
AM849034_0 334 EREEFVASVSHELKTPLTSILGYVELIADDL-------EEDDLDDRI 373

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++R l +++r a+rll Li dlL+ ++ +
AM849034_0 374 TAAR---------LAIVERNAQRLLGLIGDLLTAAQHRLA 404

AM849034_0665: domain 1 of 1, from 284 to 351: score 64.4, E = 5.1e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHELRTPLt+Ir++ +L + +++ s++
AM849034_0 284 LQQRFVSDVSHELRTPLTTIRLAGGVLYD-------LREDFSPPA-- 321

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e ++ ++er + L+ dlL++sr +ag
AM849034_0 322 ----------ARSAELLHTQVERFETLLADLLEISRFDAG 351

AM849034_1276: domain 1 of 1, from 224 to 289: score 59.2, E = 1.5e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f++++sHELR PL+++r +ael+++ ++++++
AM849034_1 224 AQRRFVSDASHELRSPLATVRQHAELARM--------YPDRTSLA-- 260

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+ +++l e+ r ++L++ lL lsr++ g
AM849034_1 261 -----------ELADVVLAEGGRQQDLVDALLVLSRLDDG 289

AM849034_2687: domain 1 of 1, from 145 to 211: score 58.4, E = 2.4e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+an+sHEL+TP+ a+ ++ae+L + ++ q+
AM849034_2 145 VRRDFVANISHELKTPIGAVGLLAEALDS---------CADDAVQV- 181

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ ++ e+ rl r+ +++ +lsr+ea
AM849034_2 182 ----------RRFAARLTTESARLARITQEIIELSRLEAA 211

AM849034_0991: domain 1 of 1, from 319 to 386: score 57.0, E = 6.3e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++efla++sHELRTPLt+I gy++lL e + ++e
AM849034_0 319 VRDEFLATVSHELRTPLTSIVGYLDLLDE---------LHDPAEL-- 354

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++++ l +i+r + +l+++i lL+ +
AM849034_0 355 --------GIADELAVIQRNVAQLSSIIGSLLEGADHAPA 386

AM849034_0453: domain 1 of 1, from 553 to 621: score 54.4, E = 3.4e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +l+++sH+LR PL+a +++++L+ +g t ++ +
AM849034_0 553 VRTALLSAVSHDLRRPLSAATAAVSALRS------PGMTWADGDR-- 591

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l t+++++ l +L+ dlLd sr +ag
AM849034_0 592 ----------EELLATAEESLGTLADLVTDLLDVSRVQAG 621


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 8 0|=
-13 40 2|*===
-12 131 67|=====*=====
-11 239 348|==================== *
-10 466 647|======================================= *
-9 650 668|=======================================================*
-8 531 500|=========================================*===
-7 374 315|==========================*=====
-6 225 181|===============*===
-5 124 99|========*==
-4 70 53|====*=
-3 44 28|==*=
-2 13 14|=*
-1 10 7|*
0 3 4|*
1 2 2|*
> 2 13 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 190.4946
P(chi-square) = 6.941e-35

Total sequences searched: 3057

Whole sequence top hits:
tophits_s report:
Total hits: 10
Satisfying E cutoff: 10
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 10
Satisfying E cutoff: 10
Total memory: 24K


Acknowledgements:

This research is funded by:

Developed by: