Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
106 projects found  

1 accessions found for Mycobacterium avium 104  

Data for CP000479  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: CP000479.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
-------- ----------- ----- ------- ---
CP000479_1120 CDS_1123358-1121820 86.0 6.4e-24 1
CP000479_0291 CDS_298475-299965 83.4 3.3e-23 1
CP000479_4047 CDS_4338671-4337040 73.9 1.7e-20 1
CP000479_4487 CDS_4792555-4791332 72.3 4.7e-20 1
CP000479_0675 CDS_677539-678975 71.1 1.1e-19 1
CP000479_1115 CDS_1116737-1114173 63.3 1.7e-17 1
CP000479_1045 CDS_1038545-1040032 61.4 5.7e-17 1
CP000479_3161 CDS_3427536-3426082 58.0 5.3e-16 1
CP000479_3285 CDS_3553204-3551801 55.4 2.9e-15 1
CP000479_0139 CDS_140441-141769 54.5 5.3e-15 1
CP000479_4079 CDS_4372773-4371166 48.0 3.7e-13 1
CP000479_0976 CDS_958129-956792 47.3 5.9e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000479_1120 1/1 277 344 .. 1 87 [] 86.0 6.4e-24
CP000479_0291 1/1 269 335 .. 1 87 [] 83.4 3.3e-23
CP000479_4047 1/1 273 340 .. 1 87 [] 73.9 1.7e-20
CP000479_4487 1/1 154 220 .. 1 87 [] 72.3 4.7e-20
CP000479_0675 1/1 249 313 .. 1 87 [] 71.1 1.1e-19
CP000479_1115 1/1 624 692 .. 1 87 [] 63.3 1.7e-17
CP000479_1045 1/1 216 288 .. 1 87 [] 61.4 5.7e-17
CP000479_3161 1/1 261 329 .. 1 87 [] 58.0 5.3e-16
CP000479_3285 1/1 245 310 .. 1 87 [] 55.4 2.9e-15
CP000479_0139 1/1 222 288 .. 1 87 [] 54.5 5.3e-15
CP000479_4079 1/1 294 362 .. 1 87 [] 48.0 3.7e-13
CP000479_0976 1/1 229 295 .. 1 87 [] 47.3 5.9e-13

Alignments of top-scoring domains:
CP000479_1120: domain 1 of 1, from 277 to 344: score 86.0, E = 6.4e-24
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ ++sHELRTPL+aI+gyael + ++ ++l++ +
CP000479_1 277 RMRQFITDASHELRTPLAAIQGYAELTRQDS-------SALPPTT-- 314

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l +i++ea+r+ L+++lL lsr+++g
CP000479_1 315 ----------EYALARIESEARRMALLVDELLLLSRLGEG 344

CP000479_0291: domain 1 of 1, from 269 to 335: score 83.4, E = 3.3e-23
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+a++sHELRTPL+aIrgy+el ++ + e +
CP000479_0 269 RVRQFVADASHELRTPLAAIRGYTELTQR---------MGDDREAV- 305

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ +e+er+ rL++dlL l+r+++g
CP000479_0 306 ----------AQAMSRVASETERMTRLVEDLLLLARLDSG 335

CP000479_4047: domain 1 of 1, from 273 to 340: score 73.9, E = 1.7e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHELRTPLt++r++a+l+ + ++++l++
CP000479_4 273 LQRRFTSDVSHELRTPLTTVRMAADLIYD-------HSADLDPTL-- 310

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +e + +e++r ++L+ndlL++sr +ag
CP000479_4 311 ----------ARSTELMVNELDRFESLLNDLLEISRHDAG 340

CP000479_4487: domain 1 of 1, from 154 to 220: score 72.3, E = 4.7e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+an+sHEL+TP+ a+ ++ae+Ll+ ++ ++e++
CP000479_4 154 TRRDFVANVSHELKTPVGAMALLAEALLA---------SADDSETV- 190

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r++ e++l ea+rl +++ +l +lsr++
CP000479_4 191 ----------RRFAEKVLVEANRLGDMVAELIELSRLQGA 220

CP000479_0675: domain 1 of 1, from 249 to 313: score 71.1, E = 1.1e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ ++sHELRTPLt+Irg+ael + ++ + ++
CP000479_0 249 RMRRFITDASHELRTPLTTIRGFAELYRQGA-----------ARDV- 283

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l++i++ea r+ L++dlL l+r++ +
CP000479_0 284 ----------AMLLSRIESEASRMGLLVDDLLLLARLDVQ 313

CP000479_1115: domain 1 of 1, from 624 to 692: score 63.3, E = 1.7e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +l+++sH+LRTPL+a + +++ L++ +d + s+ ++
CP000479_1 624 LRRSLLSAVSHDLRTPLAAAKVAVSSLRA-------EDVAFSPTDT- 662

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l ti++++++l +L+ +lLd sr+ ag
CP000479_1 663 ----------AELLATIEESIDQLTALVGNLLDSSRLAAG 692

CP000479_1045: domain 1 of 1, from 216 to 288: score 61.4, E = 5.7e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +++ ++ HELRTPLt++r+++elL + ++ +g + l+e+++
CP000479_1 216 RQARLVTDAGHELRTPLTSLRTNVELLMASME---PGAPRLPEQEM- 258

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+ +l ++e l+ L+ dl dl+r +ag
CP000479_1 259 ----------VELRADVLAQIEELSTLVGDLVDLTRDDAG 288

CP000479_3161: domain 1 of 1, from 261 to 329: score 58.0, E = 5.3e-16
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++fl +++HELRTP+++++ +ae L ++ +e +++ +
CP000479_3 261 ATRRFLVDAAHELRTPIAGMQVAAEQLAHGA-------SEHPDDGQ- 299

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +l++a+r rL+nd+Ldlsri+ag
CP000479_3 300 ----------YRRAGLLLSDARRAGRLVNDMLDLSRIDAG 329

CP000479_3285: domain 1 of 1, from 245 to 310: score 55.4, E = 2.9e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++f+ ++sHELR PLt+I+ +e++++ +++l
CP000479_3 245 AQQRFVGDASHELRSPLTTIISGLEVAEA-------------HPELL 278

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ + +++t+l ea+r+++Li+dlL l+r+++
CP000479_3 279 DA--------ELAVNTLLPEAHRMRALIDDLLLLARADER 310

CP000479_0139: domain 1 of 1, from 222 to 288: score 54.5, E = 5.3e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f+a +sHELRTPLta+r+++e+L + +l+ eqr
CP000479_0 222 SARDFAAVASHELRTPLTAMRTNLEVLST---------LDLPHEQR- 258

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e + ++r r+++ + l l++ e
CP000479_0 259 ----------QEVIGDVIRTQSRIEATLTALERLAQGELT 288

CP000479_4079: domain 1 of 1, from 294 to 362: score 48.0, E = 3.7e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ +sH+L PL + +++lL++++ +++ +e
CP000479_4 294 ELEQFAYVASHDLQEPLRKVASFCQLLERRY-------GDQLDERG- 332

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
ey+ + + a+r+++LindlL++sr +
CP000479_4 333 ----------LEYIGFAVDGAKRMQALINDLLTFSRVGRL 362

CP000479_0976: domain 1 of 1, from 229 to 295: score 47.3, E = 5.9e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ ++f a +HELR PLta+r+++e+L + ++++eqr
CP000479_0 229 SARDFSAVTAHELRSPLTAMRTNLEVLST---------LDMPDEQR- 265

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e l ++r r+++ + l l++ e
CP000479_0 266 ----------KEVLGDVIRTQSRIEATLTALERLAQGELS 295


Histogram of all scores:
score obs exp (one = represents 17 sequences)
----- --- ---
-15 6 0|=
-14 22 0|==
-13 80 3|*====
-12 240 117|======*========
-11 471 606|============================ *
-10 890 1125|===================================================== *
-9 989 1162|==========================================================*
-8 935 870|===================================================*===
-7 620 548|================================*====
-6 377 315|==================*====
-5 213 173|==========*==
-4 112 92|=====*=
-3 79 48|==*==
-2 31 25|=*
-1 22 13|*=
0 10 7|*
1 4 3|*
2 3 1|*
3 0 0|
4 2 0|=
> 5 14 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 300.4612
P(chi-square) = 0

Total sequences searched: 5120

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: