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Thermotogae
Classification of phyla is from NCBI page
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35 projects found  

3 accessions found for Desulfovibrio magneticus RS-1  

Data for AP010904  

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: AP010904.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
-------- ----------- ----- ------- ---
AP010904_2350 CDS_2635705-2634338 65.3 6.5e-19 1
AP010904_1419 CDS_1563815-1561701 59.9 2.6e-17 1
AP010904_1544 CDS_1706739-1708187 48.8 4.8e-14 1
AP010904_2935 CDS_3314986-3313025 41.6 6.4e-12 2

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP010904_2350 1/1 247 315 .. 1 70 [] 65.3 6.5e-19
AP010904_1419 1/1 485 552 .. 1 70 [] 59.9 2.6e-17
AP010904_1544 1/1 283 348 .. 1 70 [] 48.8 4.8e-14
AP010904_2935 2/2 446 512 .. 1 70 [] 40.7 1.2e-11

Alignments of top-scoring domains:
AP010904_2350: domain 1 of 1, from 247 to 315: score 65.3, E = 6.5e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIARELHD vgQ+Ls+++++le+++++ + p+ e l+
AP010904_2 247 ERQRIARELHDDVGQHLSLARMGLERLLAAK--EPLPDaDSGEVLRD 291

irelarealaevRrllgdLRpaal<-*
+ + a+a +R+l+gdL p++l
AP010904_2 292 SSARLGAAIASLRNLAGDLLPPVL 315

AP010904_1419: domain 1 of 1, from 485 to 552: score 59.9, E = 2.6e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IAR+LHD v+Q Ls++k+ e+++ l ++ ++++r++l+++
AP010904_1 485 ERASIARDLHDNVAQDLSSLKIAYETLLDGL--ADVDAALRQRLEAA 529

relarealaevRrllgdLRpaal<-*
+l+ +++a vR+l+ +LRp+ l
AP010904_1 530 SGLLARTIASVRELAYGLRPPNL 552

AP010904_1544: domain 1 of 1, from 283 to 348: score 48.8, E = 4.8e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RI+RELHD+ gQsL+++ l+l+ + + + rea+ +
AP010904_1 283 ERKRISRELHDEAGQSLASLLAYLQLLM-----AGEVTsSQREAIGQ 324

irelarealaevRrllgdLRpaal<-*
++ l+ e l +R ++ +LRp+al
AP010904_1 325 LKSLVVEILGGLRKMAVELRPPAL 348

AP010904_2935: domain 2 of 2, from 446 to 512: score 40.7, E = 1.2e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R++ +LHD++ Q+L +i++ +++r + + + ++e++++i
AP010904_2 446 ERRRLSHDLHDGLCQQLVGIRMRCAALARSA---IPEQGVAEEVTAI 489

relarealaevRrllgdLRpaal<-*
l++++ +++ +l ++L p +l
AP010904_2 490 FSLLKDSVSQAYDLSRGLWPVEL 512


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 20 0|==
-13 95 0|=======
-12 145 51|===*======
-11 229 424|================ *
-10 591 984|======================================== *
-9 831 1117|======================================================== *
-8 604 861|========================================= *
-7 562 541|====================================*=
-6 469 306|====================*===========
-5 427 164|==========*==================
-4 224 85|=====*=========
-3 150 44|==*=======
-2 110 22|=*======
-1 59 11|*===
0 40 5|*==
1 25 2|*=
2 14 1|*
3 11 0|=
4 3 0|=
5 6 0|=
6 2 0|=
7 3 0|=
8 2 0|=
9 0 0|
10 1 0|=
> 11 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2283.9187
P(chi-square) = 0

Total sequences searched: 4629

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: