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Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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106 projects found  

3 accessions found for Nocardia farcinica IFM 10152  

Data for AP006618  

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: AP006618.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
-------- ----------- ----- ------- ---
AP006618_0548 CDS_563031-561496 81.4 1.4e-22 1
AP006618_5197 CDS_5485370-5484126 70.3 1.9e-19 1
AP006618_1573 CDS_1720031-1722517 68.9 4.9e-19 1
AP006618_4619 CDS_4799619-4797754 66.9 1.7e-18 1
AP006618_4973 CDS_5180441-5178975 55.9 2.4e-15 1
AP006618_0153 CDS_143034-144659 46.8 9e-13 1
AP006618_0697 CDS_721235-722341 45.8 1.7e-12 1
AP006618_0666 CDS_685618-684215 40.5 5.4e-11 1
AP006618_2819 CDS_3005251-3003827 33.8 4.3e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP006618_0548 1/1 268 332 .. 1 87 [] 81.4 1.4e-22
AP006618_5197 1/1 153 219 .. 1 87 [] 70.3 1.9e-19
AP006618_1573 1/1 611 679 .. 1 87 [] 68.9 4.9e-19
AP006618_4619 1/1 314 381 .. 1 87 [] 66.9 1.7e-18
AP006618_4973 1/1 254 326 .. 1 87 [] 55.9 2.4e-15
AP006618_0153 1/1 297 365 .. 1 87 [] 46.8 9e-13
AP006618_0697 1/1 144 208 .. 1 87 [] 45.8 1.7e-12
AP006618_0666 1/1 235 301 .. 1 87 [] 40.5 5.4e-11
AP006618_2819 1/1 250 314 .. 1 87 [] 33.8 4.3e-09

Alignments of top-scoring domains:
AP006618_0548: domain 1 of 1, from 268 to 332: score 81.4, E = 1.4e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+a++sHELRTPLt+Irg+ael + ++ +
AP006618_0 268 RMRRFVADASHELRTPLTTIRGFAELYRQ----------GATTDP-- 302

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + ++i++ea+r+ L++dlL l+r++a+
AP006618_0 303 ----------AMFMDRIEHEARRMGLLVEDLLMLARLDAQ 332

AP006618_5197: domain 1 of 1, from 153 to 219: score 70.3, E = 1.9e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+an+sHEL+TP+ a++++ae+Lle ++ ++e +
AP006618_5 153 TRRDFVANVSHELKTPVGAMSLLAEALLE---------SADDPEAV- 189

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r + +++l e++rl +++ +l lsr++
AP006618_5 190 ----------RHFGQRVLGESRRLGKMVTELIALSRLQGA 219

AP006618_1573: domain 1 of 1, from 611 to 679: score 68.9, E = 4.9e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +l+++sH+LRTPL+a++++a L+ d e s+e++
AP006618_1 611 LRRLLLSAVSHDLRTPLAAVKAAAAGLRS-------TDVEFSPEDT- 649

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l ti++++++l rL+ +lLd sr+ ag
AP006618_1 650 ----------AELLATIEESTDQLTRLVTNLLDSSRLAAG 679

AP006618_4619: domain 1 of 1, from 314 to 381: score 66.9, E = 1.7e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f++++sHELRTPLt++r++a+l+ + ++l++
AP006618_4 314 LQRRFTSDVSHELRTPLTTVRMAADLIHGSS-------EDLDPAL-- 351

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e + e++r + L+ndlL++sr +ag
AP006618_4 352 ----------ARSAELLVTELDRFEGLLNDLLEISRHDAG 381

AP006618_4973: domain 1 of 1, from 254 to 326: score 55.9, E = 2.4e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++++a++ HELRTPLt++r++ elL + + +g + l+e+++
AP006618_4 254 RQRRLVADAGHELRTPLTSLRTNMELLIASSR---PGAPQLPEQDM- 296

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+ + ++e l+ L+ dl dl+r +a+
AP006618_4 297 ----------AELRADVVAQIEELSTLVGDLVDLAREDAP 326

AP006618_0153: domain 1 of 1, from 297 to 365: score 46.8, E = 9e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+ +sH+L PL + +++lL++++ + + +e
AP006618_0 297 ELEQFAYVASHDLQEPLRKVASFCQLLEKRY-------GSQLDERG- 335

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++y++ + + a+r++ LindlL++sr +
AP006618_0 336 ----------KQYIDFAVDGAKRMQVLINDLLTFSRVGRV 365

AP006618_0697: domain 1 of 1, from 144 to 208: score 45.8, E = 1.7e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++f+an+sHELRTPL+ +++++++++ + + ++
AP006618_0 144 EQRRFAANASHELRTPLAITQALLDVARN----------DPDVDT-- 178

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e++e+++ r +L + lL lsr+++
AP006618_0 179 ----------GELIERLRTVNTRAIDLTEALLLLSRADQR 208

AP006618_0666: domain 1 of 1, from 235 to 301: score 40.5, E = 5.4e-11
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++f+a +HELRTPLta+r+ +e+L++ +l+eeqr
AP006618_0 235 TARDFAAVSAHELRTPLTAMRTDLEVLRT---------LDLNEEQR- 271

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e+l ++r+ r ++ + l l+ +
AP006618_0 272 ----------AEILADLQRSQGRVESTLAALERLATGDLT 301

AP006618_2819: domain 1 of 1, from 250 to 314: score 33.8, E = 4.3e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++a+ +H +R+PL+a+ ++ L+ + +e
AP006618_2 250 AQRQLVADTAHAMRNPLAALTIRLDSLEP----------AVPESA-- 284

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++++ e+erl L++ lL+l+ +e++
AP006618_2 285 ----------APTFRKASAEVERLTTLLDGLLTLAVAETP 314


Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-15 2 0|=
-14 17 0|=
-13 67 4|*===
-12 257 129|======*======
-11 541 673|============================ *
-10 954 1249|================================================ *
-9 1136 1290|========================================================= *
-8 1023 966|================================================*===
-7 684 608|==============================*====
-6 447 350|=================*=====
-5 253 192|=========*===
-4 127 102|=====*=
-3 78 54|==*=
-2 31 28|=*
-1 31 14|*=
0 14 7|*
1 6 4|*
2 0 2|*
3 1 1|*
4 1 0|=
5 1 0|=
6 0 0|
7 0 0|
> 8 12 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 335.9094
P(chi-square) = 0

Total sequences searched: 5683

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: