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Classification of phyla is from NCBI page
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2 accessions found for Rhodoferax ferrireducens T118  

Data for CP000267  

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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: CP000267.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
-------- ----------- ----- ------- ---
CP000267_1834 CDS_2010630-2008720 69.4 3.7e-20 1
CP000267_0553 CDS_587032-585881 56.6 2.3e-16 1
CP000267_0879 CDS_933467-934546 51.0 9.8e-15 1
CP000267_1838 CDS_2013194-2014075 50.5 1.4e-14 1
CP000267_0769 CDS_817840-819516 45.0 5.7e-13 1
CP000267_3682 CDS_4177437-4176199 44.4 8.6e-13 1
CP000267_1508 CDS_1655025-1656512 34.7 6.1e-10 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000267_1834 1/1 423 491 .. 1 70 [] 69.4 3.7e-20
CP000267_0553 1/1 188 253 .. 1 70 [] 56.6 2.3e-16
CP000267_0879 1/1 154 218 .. 1 70 [] 51.0 9.8e-15
CP000267_1838 1/1 85 152 .. 1 70 [] 50.5 1.4e-14
CP000267_0769 1/1 365 431 .. 1 70 [] 45.0 5.7e-13
CP000267_3682 1/1 200 278 .. 1 70 [] 44.4 8.6e-13
CP000267_1508 1/1 291 351 .. 9 70 .] 34.7 6.1e-10

Alignments of top-scoring domains:
CP000267_1834: domain 1 of 1, from 423 to 491: score 69.4, E = 3.7e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+ +ARELHDs++QsL+ +k+q++l r ++ ++ ++ e+++ l+e
CP000267_1 423 ERHLLARELHDSIAQSLAFLKIQVQLMRDAI--KSSDPvEIAKVLEE 467

irelarealaevRrllgdLRpaal<-*
i +re++ +vR+ll ++R+ +
CP000267_1 468 IDIGVRESYGDVRELLLHFRTRTN 491

CP000267_0553: domain 1 of 1, from 188 to 253: score 56.6, E = 2.3e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARE+HD +g +L+a++ l+++ r++ +++ +++++++
CP000267_0 188 ERAAIAREIHDDIGGALAAVRFDLSWIGRHT--ADP--VTQQHITAA 230

relarealaevRrllgdLRpaal<-*
e++++a+ r+ +LRpa+l
CP000267_0 231 TEMLQQAIGASQRIMMNLRPAIL 253

CP000267_0879: domain 1 of 1, from 154 to 218: score 51.0, E = 9.8e-15
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R A ELHD++gQsL+aik+ l+l +rl d + +++i
CP000267_0 154 ERRRVAIELHDELGQSLTAIKINLQLSERLH--DGS--SSELNAENI 196

relarealaevRrllgdLRpaal<-*
r ++++al++vRrl+++LRpa l
CP000267_0 197 R-IVEDALQQVRRLATGLRPAML 218

CP000267_1838: domain 1 of 1, from 85 to 152: score 50.5, E = 1.4e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+R+AR LHD +g L+++kl + +++ +l ++ ++ea e l+ +
CP000267_1 85 ERHRLARNLHDDLGALLTSAKLDAARIKSRL--ADRAPEALELLAHL 129

relarealaevRrllgdLRpaal<-*
+++ ++a R ++ dLRp+al
CP000267_1 130 VSTLNSGIALGRSIIEDLRPSAL 152

CP000267_0769: domain 1 of 1, from 365 to 431: score 45.0, E = 5.7e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERaRI R+LHDs Q ++k +e ++ ++ ++d+ +ar+++d +
CP000267_0 365 ERARIGRDLHDSAIQPYLGLKYAVESVALRI--PRDN-PARAEIDSL 408

relarealaevRrllgdLRpaal<-*
+el++ a +R+l+++LR++ +
CP000267_0 409 AELVNGEVAALRELISGLRTGND 431

CP000267_3682: domain 1 of 1, from 200 to 278: score 44.4, E = 8.6e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrllds......dkdpe...
ER+RIARE HD++g L a+k+ + + ++l s+++++++ ++e +
CP000267_3 200 ERTRIAREVHDELGSLLVALKMDVNWMDKRL-SeqqqrtPHEAEamr 245

.earealdeirelarealaevRrllgdLRpaal<-*
+++r +++ +l+++a + v r+++dLRp++l
CP000267_3 246 tRLRSKCRNMSGLIERAVDNVGRIITDLRPSIL 278

CP000267_1508: domain 1 of 1, from 291 to 351: score 34.7, E = 6.1e-10
*->LHDsvgQsLsaiklqlelarrlldsdkdpe.earealdeirelarea
LHD +gQ+L+a+++ e+++++ +kd + +++++ +++ +l+ +a
CP000267_1 291 LHDQLGQTLAAVRMAHETIQAVQ--PKDTPvAVQRQQAQLGKLVGHA 335

laevRrllgdLRpaal<-*
+++vR++l dLRp+ l
CP000267_1 336 IQQVRQVLVDLRPPLL 351


Histogram of all scores:
score obs exp (one = represents 13 sequences)
----- --- ---
-14 6 0|=
-13 40 0|====
-12 99 46|===*====
-11 185 382|=============== *
-10 537 886|========================================== *
-9 742 1007|==========================================================*
-8 647 776|================================================== *
-7 578 487|=====================================*=======
-6 449 276|=====================*=============
-5 330 148|===========*==============
-4 198 77|=====*==========
-3 140 39|==*========
-2 81 20|=*=====
-1 49 10|*===
0 32 5|*==
1 21 2|*=
2 10 1|*
3 7 0|=
4 4 0|=
5 2 0|=
6 0 0|
7 3 0|=
8 0 0|
> 9 10 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1640.6656
P(chi-square) = 0

Total sequences searched: 4170

Whole sequence top hits:
tophits_s report:
Total hits: 7
Satisfying E cutoff: 7
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 7
Satisfying E cutoff: 7
Total memory: 23K


Acknowledgements:

This research is funded by:

Developed by: