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

9 accessions found for Spirosoma linguale DSM 74  

Data for CP001769  

Available Atlases
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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: CP001769.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
-------- ----------- ----- ------- ---
CP001769_0688 CDS_855570-857150 67.9 1.6e-19 1
CP001769_5301 CDS_6578282-6579766 53.0 4e-15 1
CP001769_6093 CDS_7520768-7522741 45.9 5e-13 1
CP001769_5735 CDS_7083730-7084542 42.1 6.5e-12 1
CP001769_6373 CDS_7874116-7872206 41.2 1.2e-11 1
CP001769_5921 CDS_7316449-7318629 40.4 2.1e-11 1
CP001769_6322 CDS_7809351-7811324 39.9 2.8e-11 1
CP001769_4728 CDS_5880953-5877879 37.7 1.3e-10 1
CP001769_6411 CDS_7920067-7921845 34.4 1.2e-09 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001769_0688 1/1 288 362 .. 1 70 [] 67.9 1.6e-19
CP001769_5301 1/1 288 354 .. 1 70 [] 53.0 4e-15
CP001769_6093 1/1 456 527 .. 1 70 [] 45.9 5e-13
CP001769_5735 1/1 63 129 .. 1 70 [] 42.1 6.5e-12
CP001769_6373 1/1 438 503 .. 1 70 [] 41.2 1.2e-11
CP001769_5921 1/1 528 593 .. 1 70 [] 40.4 2.1e-11
CP001769_6322 1/1 452 517 .. 1 70 [] 39.9 2.8e-11
CP001769_4728 1/1 837 896 .. 1 70 [] 37.7 1.3e-10
CP001769_6411 1/1 391 452 .. 1 70 [] 34.4 1.2e-09

Alignments of top-scoring domains:
CP001769_0688: domain 1 of 1, from 288 to 362: score 67.9, E = 1.6e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe......ear
ER+R++RELHD++gQ+L+aiklq+e++++ l ++ p ++ + +
CP001769_0 288 ERKRLSRELHDGLGQMLTAIKLQIEGLEASLS-RTTPTdpvgaaPHS 333

ealdeirelarealaevRrllgdLRpaal<-*
+ l+++++l+ ++++e+R + +L p++l
CP001769_0 334 KNLKTLKTLVTQTIQETRTISNNLMPSVL 362

CP001769_5301: domain 1 of 1, from 288 to 354: score 53.0, E = 4e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R ARELHD++gQ+L+++kl++e ++ + ++e+ +++++e+
CP001769_5 288 ERRRFARELHDGIGQMLTGLKLHAEKLK-ST--SFADEKQKQRFAEL 331

relarealaevRrllgdLRpaal<-*
+l+ ++++ +R++ +L p++l
CP001769_5 332 CDLIADTIQTTRQVSYNLMPSTL 354

CP001769_6093: domain 1 of 1, from 456 to 527: score 45.9, E = 5e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe...eareal
E +RIAR+LHD vg +L+ + l + ++++ +k+ ++++++ +l
CP001769_6 456 EKERIARDLHDNVGAHLAFVVTNLTHISAQAE-KKPITdgqRLASQL 501

deirelarealaevRrllgdLRpaal<-*
++i ++ rea + +R++++++ +
CP001769_6 502 RTIVTHTREAVKLLRETIWAINQESF 527

CP001769_5735: domain 1 of 1, from 63 to 129: score 42.1, E = 6.5e-12
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+A ++HD++g +Ls+ k+ l ++r++ + ++++ +++
CP001769_5 63 ERKRLAEDMHDGIGTMLSVTKMSLNQLERQV---SGDGQISFQFQKT 106

relarealaevRrllgdLRpaal<-*
r +++e+++ vRr+ ++L p++l
CP001769_5 107 RSMIDETMTNVRRISRNLVPTTL 129

CP001769_6373: domain 1 of 1, from 438 to 503: score 41.2, E = 1.2e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R A ELHD +g L++++++ + ++ + ++ +e + +
CP001769_6 438 ERQRVANELHDQLGSVLFGLRIGFDKLKVDT--KTT--DGQEVVSSL 480

relarealaevRrllgdLRpaal<-*
++++ a++evR + ++L p++l
CP001769_6 481 LQTVQSAYEEVRLISHNLWPSEL 503

CP001769_5921: domain 1 of 1, from 528 to 593: score 40.4, E = 2.1e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+A +LHDs+g L+aik ++++ + ++ ++ ++
CP001769_5 528 ERKRMAADLHDSLGGLLAAIKTSMSALS---P-AHMTDREQQIYYNL 570

relarealaevRrllgdLRpaal<-*
+a+ea aevR l ++L+p++l
CP001769_5 571 LNMAKEAFAEVRYLSHNLQPDEL 593

CP001769_6322: domain 1 of 1, from 452 to 517: score 39.9, E = 2.8e-11
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeeareal.de
ER+R A ELHD ++ Lsa+++ ++++ + + a++ + ++
CP001769_6 452 ERKRVALELHDNLSSLLSAVNMSIQAIN-----PQNLSNAEQSVyRN 493

irelarealaevRrllgdLRpaal<-*
+++l++ a++evR++ +++ pa+l
CP001769_6 494 VKQLIQNAYSEVRNISHNILPAGL 517

CP001769_4728: domain 1 of 1, from 837 to 896: score 37.7, E = 1.3e-10
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+A +LHD +g +Ls ik qle++ +r++l++
CP001769_4 837 ERQRLAADLHDDLGATLSTIKGQLETLP----------SLRQELEMP 873

relarealaevRrllgdLRpaal<-*
+l +a+ ++R + ++L p+++
CP001769_4 874 IRLMGKAIGDLRFISHNLMPPEF 896

CP001769_6411: domain 1 of 1, from 391 to 452: score 34.4, E = 1.2e-09
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RIAR+LHD++g +Ls ikl +e+ + + p ++ + +
CP001769_6 391 ERSRIARDLHDGLGIQLSRIKLFVEAHQ-----EQLPLSVK---EPL 429

relarealaevRrllgdLRpaal<-*
+ ++ea +e+R + +LRp al
CP001769_6 430 NQFLDEACTETRLISNNLRPYAL 452


Histogram of all scores:
score obs exp (one = represents 23 sequences)
----- --- ---
-15 1 0|=
-14 48 0|===
-13 150 0|=======
-12 244 72|===*=======
-11 397 597|================== *
-10 1113 1387|================================================= *
-9 1349 1575|==========================================================*
-8 1050 1214|============================================== *
-7 821 763|=================================*==
-6 522 432|==================*====
-5 402 231|==========*=======
-4 178 120|=====*==
-3 78 62|==*=
-2 67 31|=*=
-1 38 16|*=
0 23 8|*
1 11 4|*
2 10 2|*
3 4 1|*
4 4 0|=
5 2 0|=
6 1 0|=
7 0 0|
> 8 11 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 852.4498
P(chi-square) = 0

Total sequences searched: 6524

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: