SInCRe - Rv3465

Tuberculist information

Gene name	rmlC
Protein function	dTDP-4-dehydrorhamnose 3,5-epimerase RmlC (dTDP-4-keto-6-deoxyglucose 3,5-epimerase) (dTDP-L-rhamnose synthetase) (thymidine diphospho-4-keto-rhamnose 3,5-epimerase)
Functional category(tuberculist)	intermediary metabolism and respiration
Gene location(kb)	3882.83
Molecular mass(da)	22314
External sites	TB Database TubercuList WebTB

Protein sequence

Number of amino acids : 202

	  		  	1    MKARELDVPGAWEITPTIHVDSRGLFFEWLTDHGFRAFAGHSLDVRQVNCSVSSAGVLRG   60
			  	61   LHFAQLPPSQAKYVTCVSGSVFDVVVDIREGSPTFGRWDSVLLDDQDRRTIYVSEGLAHG  120
			  	121  FLALQDNSTVMYLCSAEYNPQREHTICATDPTLAVDWPLVDGAAPSLSDRDAAAPSFEDV  180
			  	181  RASGLLPRWEQTQRFIGEMRGT

Known structures in the PDB

	PDB ID	1PM7
	Total residue count	404
	Number of chains	2
	Method	X-RAY
	Resolution	2.2

	PDB ID	1UPI
	Total residue count	225
	Number of chains	1
	Method	X-RAY
	Resolution	1.7

	PDB ID	2IXC
	Total residue count	808
	Number of chains	4
	Method	X-RAY
	Resolution	1.79

Number of amino acids : 202

Domains assigned based on sequence.

Mtb Structural proteome models

CHOPIN models

Profile-based domain assignment

Structural/Functional domain family	Pfam acc.no./SCOP ID	Domain Region
dTDP_sugar_isom	PF00908	3-180

Mtb Structural Proteome models

Model Number	1
Model name	Rv3465_2ixc_A
Template	2IXC APDB CREDO
Template coverage	1_198
Template Identity(%)	100.0
Model coverage(%)	97.5
Normalized DOPE score	-1.586

Model Number	2
Model name	Rv3465_1upi_A
Template	1UPI APDB CREDO
Template coverage	1_201
Template Identity(%)	100.0
Model coverage(%)	99.0
Normalized DOPE score	-1.549

Model Number	3
Model name	Rv3465
Template	1UPI APDB CREDO
Template coverage	1_201
Template Identity(%)	98.5
Model coverage(%)	99.0
Normalized DOPE score	-1.278

Structure Models from Chopin

Model Number	1
Profile	b.82.1.1 - 2.60.120.10 Click for model details
zscore	40
Residue begin	1
Residue end	202

Binding pockets

STRING

Cytoscape Web will replace the contents of this div with protein-protein interaction network.

Protein interacting with Rv3465	Gene name	Confidence Score
Rv3266c	rmlD	0.999
Rv3464	rmlB	0.999
Rv0334	rmlA	0.998
Rv3634c	galE1	0.994
Rv3784	Rv3784	0.994
Rv3809c	glf	0.988
Rv3809c	glf	0.988
Rv3468c	Rv3468c	0.972
Rv3265c	wbbL1	0.955
Rv1511	gmdA	0.934
Rv1512	epiA	0.921
Rv1302	rfe	0.909

Potential ligand/drug binding sites

Protein Model	Pocket Number	Drug Binding Site	PMIN Score	Pvalue PMIN	PMAX Score	Pvalue PMAX
Rv3465_2ixc_A	2	3hku_TOR_A_300 PDB CREDO	0.552	0.242	0.552	0.005
Rv3465_2ixc_A	2	2c6n_LPR_A_705 PDB CREDO	0.667	0.109	0.528	0.007
Rv3465_2ixc_A	2	3znc_BZ1_A_500 PDB CREDO	0.545	0.251	0.506	0.010

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 Name	Confidence score	Molecular Weight
dTDP-L-rhamnosePubChem	0.999	548.33
deoxythymidine diphosphate-glucosePubChem	0.992	564.329
dTDP-glucosePubChem	0.992	564.329
dTDP-4-keto-L-rhamnosePubChem	0.982	546.314
TDP-4-keto-6-deoxy-d-glucosePubChem	0.982	546.314
S-(2-hydroxyethylmercapto)-L-cysteinePubChem	0.979	197.276
glycerolPubChem	0.967	92.0938
NADPPubChem	0.933	744.413
acetatePubChem	0.909	59.044
deuteriumPubChem	0.908	2.01588
hydride acetatePubChem	0.9	61.0599
NADP(H)PubChem	0.9	745.421
TDP-alpha-GPubChem	0.9	564.329
protiumPubChem	0.9	2.01576
dTDP-4-dehydro-L-rhamnosePubChem	0.9	544.298
H(+)PubChem	0.9	2.01588
hydroxyl radicalsPubChem	0.9	17.0073
rhamnosePubChem	0.893	164.156
fucosePubChem	0.865	164.156
glucose-1-phosphatePubChem	0.862	260.136
thymidine diphosphatePubChem	0.821	402.188