Rv2607

Tuberculist information
Gene namepdxH
Protein functionProbable pyridoxamine 5'-phosphate oxidase PdxH (PNP/PMP oxidase) (pyridoxinephosphate oxidase) (PNPOX) (pyridoxine 5'-phosphate oxidase)
Functional category(tuberculist)intermediary metabolism and respiration
Gene location(kb)2934.2
Molecular mass(da)25186.3
External sites TB Database TubercuList WebTB
Protein sequence
Number of amino acids : 224
	  		  	1    MDDDAQMVAIDKDQLARMRGEYGPEKDGCGDLDFDWLDDGWLTLLRRWLNDAQRAGVSEP   60
			  	61   NAMVLATVADGKPVTRSVLCKILDESGVAFFTSYTSAKGEQLAVTPYASATFPWYQLGRQ  120
			  	121  AHVQGPVSKVSTEEIFTYWSMRPRGAQLGAWASQQSRPVGSRAQLDNQLAEVTRRFADQD  180
			  	181  QIPVPPGWGGYRIAPEIVEFWQGRENRMHNRIRVANGRLERLQP

Known structures in the PDB
PDB ID2A2J
Total residue count492
Number of chains2
MethodX-RAY
Resolution2.5
1 23 45 67 89 111 133 155 177 199 221 Range: 49 to 134  |  Coverage: 37% Pyridox_oxidase Range: 188 to 224  |  Coverage: 16% PNPOx_C Range: 24 to 226  |  Coverage: 90% 1 Range: 24 to 224  |  Coverage: 89% 2 Range: 1 to 224  |  Coverage: 99% 1
Number of amino acids : 224
Domains assigned based on sequence. Mtb Structural proteome models CHOPIN models
Profile-based domain assignment
Structural/Functional domain familyPfam acc.no./SCOP IDDomain Region
Pyridox_oxidasePF0124349-134
PNPOx_CPF10590188-224
Mtb Structural Proteome models
Model Number1
Model nameRv2607_2a2j_A
Template2A2J    APDBCREDO
Template coverage24_226
Template Identity(%)100.0
Model coverage(%)90.2
Normalized DOPE score-1.512

Model Number2
Model nameRv2607
Template2A2J    APDBCREDO
Template coverage24_224
Template Identity(%)100.0
Model coverage(%)89.3
Normalized DOPE score-1.332

Structure Models from Chopin
Model Number1
Profileb.45.1.1 - 2.30.110.10
Click for model details
zscore17.41
Residue begin1
Residue end224
Binding pockets
STRING
Cytoscape Web will replace the contents of this div with protein-protein interaction network.
Protein interacting with Rv2607Gene nameConfidence Score
Rv2606csnzP0.987
Rv2604csnoP0.981
Rv1689tyrS0.963
Rv1689tyrS0.963
Potential ligand/drug binding sites
No binding sites identified
Similarity to known drug target from sensitive sequence analysis
No drug targets
List of small molecules tested from TIBLE
Data not available
Off-target activity - ligand based from TIBLE
Data not available
Small molecules involved in protein-protein complex from TIMBAL .Proteins similar to Mtb based on sequence analysis.
Data not available
STITCH interactions  
Chemical NameConfidence scoreMolecular Weight
pyridoxal phosphatePubChem0.994247.142
pyridoxaminePubChem0.976168.193
pyridoxamine 5'-phosphatePubChem0.963248.173
flavin mononucleotidePubChem0.951456.344
ammoniaPubChem0.91417.0305
molecular oxygenPubChem0.91331.9988
hydrogen peroxidePubChem0.91234.0147
H(+)PubChem0.9052.01588
deuteriumPubChem0.9042.01588
S-(2-hydroxyethylmercapto)-L-cysteinePubChem0.9197.276
protiumPubChem0.92.01576
adenosine diphosphatePubChem0.9427.201
adenosine triphosphatePubChem0.9507.181
hydroxyl radicalsPubChem0.917.0073
phosphatePubChem0.8596.9872
hydron diphosphatePubChem0.779391.981
2-mercaptoethanolPubChem0.77978.1334
pyridoxalPubChem0.741167.162
vitamin B6PubChem0.738169.178