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Classification of phyla is from NCBI page
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132 projects found  

3 accessions found for Rhizobium sp. NGR234  

Data for CP000874  

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_1.hmm [HisKA]
Sequence database: CP000874.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
CP000874_1433 CDS_1465123-1468092 106.1 5.9e-30 1
CP000874_1225 CDS_1226803-1229508 79.0 2.7e-22 1
CP000874_2153 CDS_2240282-2243662 75.8 2.2e-21 1
CP000874_0761 CDS_784721-783705 61.9 1.9e-17 1
CP000874_1594 CDS_1642911-1641622 55.3 1.4e-15 1
CP000874_2030 CDS_2108803-2107424 44.8 1.3e-12 1
CP000874_0310 CDS_324062-321858 43.8 2.6e-12 1
CP000874_2245 CDS_2345692-2342129 43.5 3.2e-12 1
CP000874_1658 CDS_1713567-1717568 42.5 6e-12 1
CP000874_2157 CDS_2247652-2249562 37.4 1.7e-10 1
CP000874_1372 CDS_1404940-1402931 32.6 3.9e-09 1
CP000874_0237 CDS_244906-243584 27.0 1.5e-07 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000874_1433 1/1 345 410 .. 1 87 [] 106.1 5.9e-30
CP000874_1225 1/1 668 736 .. 1 87 [] 79.0 2.7e-22
CP000874_2153 1/1 676 742 .. 1 87 [] 75.8 2.2e-21
CP000874_0761 1/1 126 196 .. 1 87 [] 61.9 1.9e-17
CP000874_1594 1/1 200 263 .. 1 87 [] 55.3 1.4e-15
CP000874_2030 1/1 239 304 .. 1 87 [] 44.8 1.3e-12
CP000874_0310 1/1 376 441 .. 1 87 [] 43.8 2.6e-12
CP000874_2245 1/1 798 873 .. 1 87 [] 43.5 3.2e-12
CP000874_1658 1/1 1110 1180 .. 1 87 [] 42.5 6e-12
CP000874_2157 1/1 420 488 .. 1 87 [] 37.4 1.7e-10
CP000874_1372 1/1 441 509 .. 1 87 [] 32.6 3.9e-09
CP000874_0237 1/1 235 293 .. 1 87 [] 27.0 1.5e-07

Alignments of top-scoring domains:
CP000874_1433: domain 1 of 1, from 345 to 410: score 106.1, E = 5.9e-30
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
akseflan+sHE+RTP+++++g aelL+ telse+q
CP000874_1 345 AKSEFLANMSHEIRTPMNGVIGIAELLEG---------TELSEQQ-- 380

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r+y+++il++a+ l +Lind+Ld+s+ieag
CP000874_1 381 ----------RRYVSIILHSADTLMDLINDILDFSKIEAG 410

CP000874_1225: domain 1 of 1, from 668 to 736: score 79.0, E = 2.7e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+s +l ++sH+L+TPL+aI+g a +L++++ ++++ee+r
CP000874_1 668 LRSALLTSISHDLKTPLAAIMGSAGTLRDYS-------GAMPEEDR- 706

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++l+t+ +e+erl+r i +lLd++rie+g
CP000874_1 707 ----------TDLLSTVVDESERLNRFIANLLDMTRIESG 736

CP000874_2153: domain 1 of 1, from 676 to 742: score 75.8, E = 2.2e-21
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+ + +lsHELRTPL+a++gya++L++ d++ ++
CP000874_2 676 AKSRYVVGLSHELRTPLNAVLGYAQILER--------DETIPSSR-- 712

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++++i+r+a++l+ Li+ lLd+s+ieag
CP000874_2 713 ----------QGAIKVIKRSADHLSGLIDGLLDISKIEAG 742

CP000874_0761: domain 1 of 1, from 126 to 196: score 61.9, E = 1.9e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ f+a++ HEL+ PLtaIrg+aelLl+ + +e ++
CP000874_0 126 YVRSFAAHVCHELKSPLTAIRGAAELLLD----------DDPEAPMP 162

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ R +++le il +aerl+rL+ +l++l+ +e +
CP000874_0 163 KADR------QRFLENILADAERLDRLLVRLRELAHAELP 196

CP000874_1594: domain 1 of 1, from 200 to 263: score 55.3, E = 1.4e-15
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a+++++ ++sHELR PL+ +++ + +L+ s+ ++
CP000874_1 200 AQQRLFHDVSHELRSPLSRLQAVVGVLRQ------------SPAKL- 233

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+l++i+re+erl+ L+ ++L+l+r+ a
CP000874_1 234 ----------DAMLDRIDREVERLDTLVGEVLTLARLTAR 263

CP000874_2030: domain 1 of 1, from 239 to 304: score 44.8, E = 1.3e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a++ f+ n+sH+LRTPL+ Ir+ + l+++ +++ +++
CP000874_2 239 ALRHFTGNASHQLRTPLAIIRTQLALARR----------AATVDEA- 274

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
r + ++++++ +r++ +lL +++i+a
CP000874_2 275 ----------RAAALKADEAVANAERILAQLLLMAKIDAA 304

CP000874_0310: domain 1 of 1, from 376 to 441: score 43.8, E = 2.6e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ +f+a++sH+L +PL+a ++++ +++ ++ +e
CP000874_0 376 TRARFVAAASHDLLQPLSAAKLFVASARD---------ETEDERA-- 411

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
l+++++++ + ++++ lLd+sr+++
CP000874_0 412 ----------GGTLDKAHKALASVEAILGALLDISRLDEA 441

CP000874_2245: domain 1 of 1, from 798 to 873: score 43.5, E = 3.2e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
k++fla++sH+L +PL+a r+y+ +L e + l ++ +
CP000874_2 798 GKTRFLAAASHDLLQPLNAARLYLAALDE--------SLRLKPDSAE 836

peLR..ledpeyreyletilreaerllrLindlLdlsrieag<-*
+ LR+++ r + + + ++ + +rL+++lLd+s ++g
CP000874_2 837 KDLRteE-----RALAKNAAAALSSTERLLDELLDISSYDSG 873

CP000874_1658: domain 1 of 1, from 1110 to 1180: score 42.5, E = 6e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++se+ a+++HE ++PL+a+ +++++++++l +e + qr+
CP000874_1 1110 SLSELSASIAHEVNQPLAAVVANSHACQRWLT------AEPPNLQRA 1150

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +e+i r+a++ + +++++ l + g
CP000874_1 1151 ----------QRTVERIVRDANSAADVVSRIRALFKQSIG 1180

CP000874_2157: domain 1 of 1, from 420 to 488: score 37.4, E = 1.7e-10
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ +a+++HE+++P+++Ir+ya+ ++ +ld +s+
CP000874_2 420 ILGQVAAGVAHEINQPVATIRAYADNARVFLD------RGQSATA-- 458

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e +i + +er ++ ++l+ ++r ++
CP000874_2 459 ----------AENMTSIAELTERVGAITDELRRFARKGHF 488

CP000874_1372: domain 1 of 1, from 441 to 509: score 32.6, E = 3.9e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ a+lsHE+++PL+a ++ya+ + +++ ++ e
CP000874_1 441 GLGQMSAALSHEFNQPLAAAKTYADSAAL------LIERGRTNEA-- 479

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ +++i ++r+ ++ + l+ ++r ++
CP000874_1 480 ----------SDNVRRISGLIDRMAAISRHLRNFARKPNE 509

CP000874_0237: domain 1 of 1, from 235 to 293: score 27.0, E = 1.5e-07
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ + la++sH+L TP+t +++ ae++++
CP000874_0 235 ERVQILAAISHDLQTPITRMKLRAEMAED------------------ 263

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ +++ +rL+ + ++r +g
CP000874_0 264 ----------SVDKDKLVQDLGEVERLVKEGVAYARSAHG 293


Histogram of all scores:
score obs exp (one = represents 8 sequences)
----- --- ---
-15 1 0|=
-14 3 0|=
-13 22 1|*==
-12 88 53|======*====
-11 223 275|============================ *
-10 403 511|=================================================== *
-9 459 528|==========================================================*
-8 423 395|=================================================*===
-7 315 249|===============================*========
-6 180 143|=================*=====
-5 78 78|=========*
-4 58 42|=====*==
-3 29 22|==*=
-2 13 11|=*
-1 9 6|*=
0 3 3|*
1 3 1|*
2 1 0|=
3 2 0|=
4 1 0|=
> 5 14 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 103.1487
P(chi-square) = 4.241e-17

Total sequences searched: 2328

Whole sequence top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 21K

Domain top hits:
tophits_s report:
Total hits: 12
Satisfying E cutoff: 12
Total memory: 25K


Acknowledgements:

This research is funded by:

Developed by: