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Classification of phyla is from NCBI page
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264 projects found  

1 accessions found for Xanthomonas campestris pv. campestris str. 8004  

Data for CP000050  

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: CP000050.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000050_3943 CDS_4714295-4713072 88.3 1e-25 1
CP000050_3070 CDS_3728852-3727656 71.9 7e-21 1
CP000050_0110 CDS_133073-134302 64.4 1.2e-18 1
CP000050_2188 CDS_2684452-2686545 63.2 2.6e-18 1
CP000050_1908 CDS_2343485-2340387 46.3 2.4e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000050_3943 1/1 203 270 .. 1 70 [] 88.3 1e-25
CP000050_3070 1/1 199 263 .. 1 70 [] 71.9 7e-21
CP000050_0110 1/1 224 289 .. 1 70 [] 64.4 1.2e-18
CP000050_2188 1/1 491 556 .. 1 70 [] 63.2 2.6e-18
CP000050_1908 1/1 807 874 .. 1 70 [] 46.3 2.4e-13

Alignments of top-scoring domains:
CP000050_3943: domain 1 of 1, from 203 to 270: score 88.3, E = 1e-25
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI R+LHD +g++Ls+++l+++la+rl+ ++dp++ar ++d++
CP000050_3 203 ERERIGRDLHDLLGHTLSLVALKSDLAARLI--ERDPQAARSEIDAV 247

relarealaevRrllgdLRpaal<-*
++++r+ala+vRr+++++R a+l
CP000050_3 248 AQISRDALAQVRRAVTGIRAAGL 270

CP000050_3070: domain 1 of 1, from 199 to 263: score 71.9, E = 7e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI+RELHD +g++L+a++l le+a +++ ++a+e+++++
CP000050_3 199 ERTRISRELHDLLGHHLTALSLNLEVAGHIT-----EGQAQEHVRQA 240

relarealaevRrllgdLRpaal<-*
++la+ l++vR+++++LR+++
CP000050_3 241 HTLAKLLLTDVREAVSQLRDSGA 263

CP000050_0110: domain 1 of 1, from 224 to 289: score 64.4, E = 1.2e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER R+ARELHD+ g+ L+a++++l l+r ++++ + re l+++
CP000050_0 224 ERLRLARELHDVAGHKLTAMRIHLRLLR-----AEPALAPREDLRML 265

relarealaevRrllgdLR.paal<-*
++l+ e l ++R +++ LR++a+l
CP000050_0 266 EQLSGELLGDIRSVVQSLRdDAGL 289

CP000050_2188: domain 1 of 1, from 491 to 556: score 63.2, E = 2.6e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ I+R+LHD +gQ+++a+kl +++a+ d ++dp + re l+ei
CP000050_2 491 ERRAISRDLHDDIGQAITAMKLSAHAAL---D-EADPVARREDLQEI 533

relarealaevRrllgdLRpaal<-*
la+ + + +R+l LRp++l
CP000050_2 534 VSLADSTVTKLRNLSMLLRPPQL 556

CP000050_1908: domain 1 of 1, from 807 to 874: score 46.3, E = 2.4e-13
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIARELHD++ Q+ +++l l++a r l + d+ + r++l+
CP000050_1 807 ERERIARELHDTLLQGTQGLILRLHTASRSL--AWDD-PRRQELEKT 850

relarealaevRrllgdLR.paal<-*
ela++al e R+ + +LR++ l
CP000050_1 851 VELAERALIEGRDRVNGLRdTHSL 874


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 8 0|=
-13 40 0|====
-12 72 47|===*==
-11 151 391|============= *
-10 446 908|====================================== *
-9 652 1031|======================================================= *
-8 663 795|======================================================== *
-7 609 500|=========================================*=========
-6 509 282|=======================*===================
-5 483 151|============*============================
-4 238 79|======*=============
-3 129 40|===*=======
-2 94 20|=*======
-1 62 10|*=====
0 38 5|*===
1 28 2|*==
2 13 1|*=
3 9 0|=
4 9 0|=
5 6 0|=
6 4 0|=
7 1 0|=
8 3 0|=
9 0 0|
> 10 6 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2697.8433
P(chi-square) = 0

Total sequences searched: 4273

Whole sequence top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: