YRC Public Data Repository - Protein Structure Prediction

Protein:	NTRB_ECOLI
Organism:	Escherichia coli
Length:	349 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for NTRB_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|108805455, gi... - gi\|108805455\|ref\|YP_645392.1\| multi-sensor hybrid histidine kinase [Rubrobacter xylanophilus DSM 994...	237.0	[0..4]	[344..494]
gi\|113731686, gi... - gi\|167644688\|ref\|YP_001682351.1\| multi-sensor hybrid histidine kinase [Caulobacter sp. K31], gi\|1673...	235.0	[0..10]	[346..274]
gi\|68186676, gi\|... - gi\|91772668\|ref\|YP_565360.1\| PAS/PAC sensor signal transduction histidine kinase [Methanococcoides b...	233.0	[0..3]	[346..92]
gi\|86609102 - gi\|86609102\|ref\|YP_477864.1\| sensory box histidine kinase/response regulator [Cyanobacteria bacteriu... gi\|86557644, gi\|... - gi\|86609102\|ref\|YP_477864.1\| sensory box histidine kinase/response regulator [Synechococcus sp. JA-2...	230.0	[0..5]	[349..685]
gi\|206567337, gi... - gi\|206578279\|ref\|YP_002241252.1\| nitrogen regulation protein NR(II) [Klebsiella pneumoniae 342], gi\|... gi\|3808291 - gi\|3808291\|gb\|AAC69321.1\| nitrogen regulatory protein [Enterobacter gergoviae]	230.0	[0..11]	[349..11]
gi\|82778957, gi\|... - gi\|82778957\|ref\|YP_405306.1\| nitrogen regulation protein NR(II) [Shigella dysenteriae Sd197], gi\|812...	230.0	[0..1]	[349..1]
NTRB_KLEOX - Nitrogen regulation protein NtrB OS=Klebsiella oxytoca GN=ntrB PE=3 SV=1 gi\|78980, gi\|43895 - pir\|\|A24114 nitrogen regulation protein II (EC 2.7.3.-) ntrB - Klebsiella pneumoniae, gi\|43895\|emb\|C...	230.0	[0..11]	[349..11]
gi\|148657135, gi... - gi\|148657135\|ref\|YP_001277340.1\| signal transduction histidine kinase, nitrogen specific, NtrB [Rose...	230.0	[0..4]	[347..302]
gi\|81247624, gi\|... - gi\|82546213\|ref\|YP_410160.1\| nitrogen regulation protein NR(II) [Shigella boydii Sb227], gi\|81247624...	230.0	[0..1]	[349..1]

Back

Predicted Domain #1

Region A:
Residues: [1-120]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MATGTQPDAG QILNSLINSI LLIDDNLAIH YANPAAQQLL AQSSRKLFGT PLPELLSYFS  60
   61 LNIELMQESL EAGQGFTDNE VTLVIDGRSH ILSVTAQRMP DGMILLEMAP MDNQRRLSQE 120
  121

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	6.69897
Match:	2cmnA
Description:	No description for 2cmnA was found.

Predicted Domain #2

Region A:
Residues: [121-190]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QLQHAQQVAA RDLVRGLAHE IKNPLGGLRG AAQLLSKALP DPSLLEYTKV IIEQADRLRN  60
   61 LVDRLLGPQL

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.81
Match:	2c2aA
Description:	Structure of the entire cytoplasmic portion of a sensor histidine kinase protein
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [191-349]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PGTRVTESIH KVAERVVTLV SMELPDNVRL IRDYDPSLPE LAHDPDQIEQ VLLNIVRNAL  60
   61 QALGPEGGEI ILRTRTAFQL TLHGERYRLA ARIDVEDNGP GIPPHLQDTL FYPMVSGREG 120
  121 GTGLGLSIAR NLIDQHSGKI EFTSWPGHTE FSVYLPIRK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	34.69897
Match:	1r62A
Description:	Crystal structure of the C-terminal Domain of the Two-Component System Transmitter Protein NRII (NtrB)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein histidine kinase activity	4.82398483954378	bayes_pls_golite062009
two-component sensor activity	4.79766298875975	bayes_pls_golite062009
phosphotransferase activity, nitrogenous group as acceptor	4.76164614213074	bayes_pls_golite062009
two-component response regulator activity	3.47298917518553	bayes_pls_golite062009
signal transducer activity	2.91676094682887	bayes_pls_golite062009
molecular transducer activity	2.91676094682887	bayes_pls_golite062009
catalytic activity	2.4793446884777	bayes_pls_golite062009
protein kinase activity	2.34507002285329	bayes_pls_golite062009
kinase activity	2.18775056477858	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	2.17409873880782	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.98933866931605	bayes_pls_golite062009
transferase activity	1.22111910037432	bayes_pls_golite062009
transcription regulator activity	0.58586522747167	bayes_pls_golite062009
DNA binding	0.239841145406416	bayes_pls_golite062009
binding	0.162154598845105	bayes_pls_golite062009
nucleic acid binding	0.158963148146657	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: