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Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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76 projects found  

1 accessions found for Neisseria meningitidis alpha14  

Data for AM889136  

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)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_1.hmm [HisKA]
Sequence database: AM889136.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
-------- ----------- ----- ------- ---
AM889136_0373 CDS_416336-417586 51.6 1.3e-14 1
AM889136_1382 CDS_1525936-1527528 49.0 7.1e-14 1
AM889136_0464 CDS_525367-523961 44.8 1.1e-12 1
AM889136_1863 CDS_2065991-2063874 36.9 1.9e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM889136_0373 1/1 193 258 .. 1 87 [] 51.6 1.3e-14
AM889136_1382 1/1 312 381 .. 1 87 [] 49.0 7.1e-14
AM889136_0464 1/1 236 299 .. 1 87 [] 44.8 1.1e-12
AM889136_1863 1/1 482 554 .. 1 87 [] 36.9 1.9e-10

Alignments of top-scoring domains:
AM889136_0373: domain 1 of 1, from 193 to 258: score 51.6, E = 1.3e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++f+a+++HELRTP+ta+++ ae L + l+++
AM889136_0 193 HRQRFVADAAHELRTPMTALSLQAERLNN---------MSLPPDA-- 228

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +++++++r +L+++lL l+r ++
AM889136_0 229 ----------ARQPAVLQQSIRRNKHLLEQLLALARSQSD 258

AM889136_1382: domain 1 of 1, from 312 to 381: score 49.0, E = 7.1e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++anl+HE+R+P++aIr + +lL+e+++ +e +++ +
AM889136_1 312 ALGQLTANLAHEIRNPMSAIRHANDLLRENAE------EEETDPFK- 351

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ e+i+ ++r++++++d+ l +
AM889136_1 352 ----------VKLCEIIDGNVRRIDKMLEDISSLNKRNKT 381

AM889136_0464: domain 1 of 1, from 236 to 299: score 44.8, E = 1.1e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +l ++sHE+R PL+ +++ + l+++ ++ +q
AM889136_0 236 KERHLLHHVSHEMRSPLARMQAIVGLIQA-----------QPQKQ-- 269

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++yl++++ e+ r++ L +lL+lsr+e+
AM889136_0 270 ----------EQYLKRLEGELTRMDTLAGELLTLSRLETS 299

AM889136_1863: domain 1 of 1, from 482 to 554: score 36.9, E = 1.9e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e + l+HE+R+PLt I++ ae L +l ++l+e++++
AM889136_1 482 AWGEVAKRLAHEIRNPLTPIQLSAERLAWKLG------GKLDEQDAQ 522

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ti +++ l ++++ ++ ++r +
AM889136_1 523 IL--------TRSTDTIVKQVAALKEMVEAFRNYARSPSL 554


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-15 2 0|=
-14 13 0|==
-13 35 1|*====
-12 123 42|=====*============
-11 203 221|============================= *
-10 341 411|================================================= *
-9 363 425|==================================================== *
-8 285 318|========================================= *
-7 203 200|============================*
-6 133 115|================*==
-5 62 63|========*
-4 42 33|====*=
-3 36 17|==*===
-2 9 9|=*
-1 8 4|*=
0 4 2|*
1 3 1|*
2 1 0|=
3 0 0|
4 1 0|=
5 0 0|
> 6 5 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 199.6668
P(chi-square) = 1.894e-37

Total sequences searched: 1924

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: