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Classification of phyla is from NCBI page
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132 projects found  

1 accessions found for Granulibacter bethesdensis CGDNIH1  

Data for CP000394  

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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: CP000394.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
CP000394_2362 CDS_2628059-2626500 77.9 5.8e-22 1
CP000394_1837 CDS_2068207-2071713 71.1 5.1e-20 1
CP000394_1972 CDS_2213604-2215289 65.5 1.9e-18 1
CP000394_0185 CDS_209907-212606 61.6 2.4e-17 1
CP000394_1225 CDS_1362725-1360395 50.3 3.8e-14 1
CP000394_1227 CDS_1365510-1364332 50.1 4.6e-14 1
CP000394_2242 CDS_2490058-2491473 49.6 6.2e-14 1
CP000394_2108 CDS_2352814-2355615 44.9 1.4e-12 1
CP000394_0255 CDS_301154-298719 43.8 2.7e-12 1
CP000394_1901 CDS_2135350-2136795 33.9 1.7e-09 1
CP000394_1656 CDS_1863123-1864688 33.9 1.7e-09 1
CP000394_0738 CDS_837026-838462 29.4 3.2e-08 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000394_2362 1/1 232 297 .. 1 85 [. 77.9 5.8e-22
CP000394_1837 1/1 692 758 .. 1 87 [] 71.1 5.1e-20
CP000394_1972 1/1 332 397 .. 1 87 [] 65.5 1.9e-18
CP000394_0185 1/1 672 740 .. 1 87 [] 61.6 2.4e-17
CP000394_1225 1/1 528 599 .. 1 87 [] 50.3 3.8e-14
CP000394_1227 1/1 158 216 .. 1 87 [] 50.1 4.6e-14
CP000394_2242 1/1 268 332 .. 1 87 [] 49.6 6.2e-14
CP000394_2108 1/1 524 592 .. 1 87 [] 44.9 1.4e-12
CP000394_0255 1/1 576 644 .. 1 87 [] 43.8 2.7e-12
CP000394_1901 1/1 266 324 .. 1 87 [] 33.9 1.7e-09
CP000394_1656 1/1 258 316 .. 8 87 .] 33.9 1.7e-09
CP000394_0738 1/1 269 323 .. 1 83 [. 29.4 3.2e-08

Alignments of top-scoring domains:
CP000394_2362: domain 1 of 1, from 232 to 297: score 77.9, E = 5.8e-22
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +f+an+sHELRTPL++++g++e+L+ +e + q
CP000394_2 232 MRADFVANASHELRTPLASLIGFIETLRG-------PAAEDLPAQ-- 269

peLRledpeyreyletilreaerllrLindlLdlsrie<-*
+++l ++ ++aer++rLi+dlL lsrie
CP000394_2 270 ----------ARFLGIMAEQAERMNRLIDDLLSLSRIE 297

CP000394_1837: domain 1 of 1, from 692 to 758: score 71.1, E = 5.1e-20
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
aks+f+ ++sHELR PL+aI+gya+l+ +e ++
CP000394_1 692 AKSRFVVGASHELRSPLNAILGYAQLMDG---------DETLPPR-- 727

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++++ +++r++e+l Li+ lLd+s+ieag
CP000394_1 728 ---------WQRAIGIMRRSGEHLAGLIEGLLDISKIEAG 758

CP000394_1972: domain 1 of 1, from 332 to 397: score 65.5, E = 1.9e-18
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++f+a+++HE+++PL++I ++e+L++ e ++++
CP000394_1 332 AIERFAADVAHEIKNPLSSINSAIETLRR---------VEDPAQH-- 367

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++ ++i +++ rl+rLi d+ d sr +a+
CP000394_1 368 ----------KRLMSIIAQDVGRLDRLITDISDASRVDAE 397

CP000394_0185: domain 1 of 1, from 672 to 740: score 61.6, E = 2.4e-17
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ +l +lsH+LRTPL++I+g+a+ L e+ d+ l+e++r
CP000394_0 672 LRGALLTSLSHDLRTPLASILGAASSLHEY-------DALLTEQDR- 710

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
re+l ti++eaerl+r + +lLd+ r+eag
CP000394_0 711 ----------RELLLTIREEAERLNRFVANLLDMIRLEAG 740

CP000394_1225: domain 1 of 1, from 528 to 599: score 50.3, E = 3.8e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a + ++ ++HE+++PLt I+++ae L++++ a++ ++e+
CP000394_1 528 AWADVARRIAHEIKNPLTPIQLAAERLKRRF----AREISSDPET-- 568

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ + ++ti r + + r+++++ ++r+ ++
CP000394_1 569 ---------FTQCVDTIVRHVGDIGRMVDEFSAFARMPQP 599

CP000394_1227: domain 1 of 1, from 158 to 216: score 50.1, E = 4.6e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + ++a l+HE ++PL++Irg+a+lL+ +e +
CP000394_1 158 SVTGMAAILAHEVKNPLSGIRGAAQLLES----------SVTEAD-- 192

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+e++ i++ea+r+++L++++ ea
CP000394_1 193 ----------KELTVLIREEADRIRALVDRM------EAF 216

CP000394_2242: domain 1 of 1, from 268 to 332: score 49.6, E = 6.2e-14
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++e+la++sH+LRTPLt +r+++ +L +el+ee
CP000394_2 268 QRTEMLAGVSHDLRTPLTRLRLAVAMLPS------VPLEELPEES-- 306

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+ ++ ++e ++r+i L ++r e
CP000394_2 307 --------------RAMIADLEDMERMIKAYLAFARGEGT 332

CP000394_2108: domain 1 of 1, from 524 to 592: score 44.9, E = 1.4e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ Lta+rg +el++++ld ++ l +
CP000394_2 524 AVGQLTGGIAHDFNNLLTALRGSLELIQTNLD-----RGRLQSLP-- 563

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+y+ t+++++er +L +lL +sr ++
CP000394_2 564 -----------RYIATAHQAVERGASLTHRLLAFSRRQTL 592

CP000394_0255: domain 1 of 1, from 576 to 644: score 43.8, E = 2.7e-12
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a ++++ +++H++++ L+ I+g++elL+ t ++e
CP000394_0 576 AVGQLTGGIAHDFNNILACIIGNLELLQI--------KTQKTENS-- 612

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+++y++++l++a+ ++Li++lL +sr +
CP000394_0 613 --------EIERYIQSALNAADKASSLIDRLLSFSRRQPL 644

CP000394_1901: domain 1 of 1, from 266 to 324: score 33.9, E = 1.7e-09
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+++ la++sH+LRTP+ +r+ a+ L +
CP000394_1 266 DRTQALAAVSHDLRTPIQRLRLRASFLDD------------------ 294

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
e+ i+++++ ++++++ +L + ++
CP000394_1 295 ----------TEAQTAIEDDLDEMEAMVSSVLAFLAGDTD 324

CP000394_1656: domain 1 of 1, from 258 to 316: score 33.9, E = 1.7e-09
*->nlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrlpeLRled
n++H+LRTPLt +r+ +e ++ +++ + +
CP000394_1 258 NIAHDLRTPLTRVRMRLEQARS----------AQDLDSA-------- 286

peyreyletilreaerllrLindlLdlsrieag<-*
+ +++ +l+ ++r l++i lL ++ ie+g
CP000394_1 287 ---HAAIDLALNGTDRTLSIITALLRIAEIETG 316

CP000394_0738: domain 1 of 1, from 269 to 323: score 29.4, E = 3.2e-08
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++ l+++ H+LRTP+t +++ ae + +
CP000394_0 269 DRTFILSAIGHDLRTPITRLKLRAEFIDD------------------ 297

peLRledpeyreyletilreaerllrLindlLdlsr<-*
+e+ ++++ +++ l+++++ L + r
CP000394_0 298 ----------EELRRRMIADLDELEEMVSATLAFGR 323


Histogram of all scores:
score obs exp (one = represents 9 sequences)
----- --- ---
-15 3 0|=
-14 10 0|==
-13 31 1|*===
-12 109 55|======*======
-11 207 288|======================= *
-10 357 535|======================================== *
-9 486 553|====================================================== *
-8 440 414|=============================================*===
-7 319 261|============================*=======
-6 186 150|================*====
-5 119 82|=========*====
-4 74 44|====*====
-3 29 23|==*=
-2 24 12|=*=
-1 12 6|*=
0 5 3|*
1 4 1|*
2 4 0|=
3 2 0|=
4 0 0|
5 0 0|
> 6 16 -|==


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 219.1541
P(chi-square) = 1.467e-310

Total sequences searched: 2437

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: