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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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132 projects found  

3 accessions found for Methylobacterium chloromethanicum CM4  

Data for CP001298  

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_3.hmm [HisKA_3]
Sequence database: CP001298.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP001298_4517 CDS_4998445-4997231 50.3 1.9e-14 1
CP001298_4711 CDS_5239181-5240710 40.1 2e-11 1
CP001298_1864 CDS_2068480-2069601 31.3 8.1e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001298_4517 1/1 205 266 .. 1 70 [] 50.3 1.9e-14
CP001298_4711 1/1 282 353 .. 1 70 [] 40.1 2e-11
CP001298_1864 1/1 164 229 .. 1 70 [] 31.3 8.1e-09

Alignments of top-scoring domains:
CP001298_4517: domain 1 of 1, from 205 to 266: score 50.3, E = 1.9e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+ARELHD+ gQ+L+ +klql+++rr + p ++++ l+++
CP001298_4 205 ERERLARELHDEAGQQLAWLKLQLDRLRR----APSPTQVEAMLKQV 247

relarealaevRrllgdLRpaal<-*
+++ a +R+++++LRp +l
CP001298_4 248 DAIS----ASLRQVVRELRPVTL 266

CP001298_4711: domain 1 of 1, from 282 to 353: score 40.1, E = 2e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe....earea
ERaRIA ELHD+ g L+a+ + ++rl+ +++ e ++++++ +
CP001298_4 282 ERARIALELHDEFGPCLFALEANAASVARLA--ASPGEidrgRLASR 326

ldeirelarealaevRrllgdLRpaal<-*
+ i ++ + + R+ll +LRp +l
CP001298_4 327 AGDIGSIVGQVQVLNRDLLNRLRPHGL 353

CP001298_1864: domain 1 of 1, from 164 to 229: score 31.3, E = 8.1e-09
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+AR+LHD gQ+L ++ +l ++ +l + a +++++
CP001298_1 164 ERRRLARDLHDHAGQQLVTLTFGLRKIASRL----SCPTAIHEVEQL 206

relarealaevRrllgdLRpaal<-*
++ ++ + +Rr+ +LRpaal
CP001298_1 207 LRHTQDIGQSLRRVTLELRPAAL 229


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 8 0|=
-13 52 0|====
-12 105 57|===*===
-11 178 474|============ *
-10 527 1100|==================================== *
-9 877 1249|==========================================================*
-8 740 962|================================================== *
-7 675 605|========================================*====
-6 617 342|======================*===================
-5 588 183|============*===========================
-4 274 95|======*============
-3 182 49|===*=========
-2 134 25|=*=======
-1 79 12|*=====
0 61 6|*====
1 20 3|*=
2 19 1|*=
3 14 0|=
4 5 0|=
5 7 0|=
6 2 0|=
> 7 9 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 3754.7034
P(chi-square) = 0

Total sequences searched: 5173

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: