SInCRe - Rv1832

Tuberculist information

Gene name	gcvB
Protein function	Probable glycine dehydrogenase GcvB (glycine decarboxylase) (glycine cleavage system P-protein)
Functional category(tuberculist)	intermediary metabolism and respiration
Gene location(kb)	2075.88
Molecular mass(da)	99478.8
External sites	TB Database TubercuList WebTB

Protein sequence

Number of amino acids : 941

	  		  	1    VSDHSTFADRHIGLDSQAVATMLAVIGVDSLDDLAVKAVPAGILDTLTDTGAAPGLDSLP   60
			  	61   PAASEAEALAELRALADANTVAVSMIGQGYYDTHTPPVLLRNIIENPAWYTAYTPYQPEI  120
			  	121  SQGRLEALLNFQTLVTDLTGLEIANASMLDEGTAAAEAMTLMHRAARGPVKRVVVDADVF  180
			  	181  TQTAAVLATRAKPLGIEIVTADLRAGLPDGEFFGVIAQLPGASGRITDWSALVQQAHDRG  240
			  	241  ALVAVGADLLALTLIAPPGEIGADVAFGTTQRFGVPMGFGGPHAGYLAVHAKHARQLPGR  300
			  	301  LVGVSVDSDGTPAYRLALQTREQHIRRDKATSNICTAQVLLAVLAAMYASYHGAGGLTAI  360
			  	361  ARRVHAHAEAIAGALGDALVHDKYFDTVLARVPGRADEVLARAKANGINLWRVDADHVSV  420
			  	421  ACDEATTDTHVAVVLDAFGVAAAAPAHTDIATRTSEFLTHPAFTQYRTETSMMRYLRALA  480
			  	481  DKDIALDRSMIPLGSCTMKLNAAAEMESITWPEFGRQHPFAPASDTAGLRQLVADLQSWL  540
			  	541  VLITGYDAVSLQPNAGSQGEYAGLLAIHEYHASRGEPHRDICLIPSSAHGTNAASAALAG  600
			  	601  MRVVVVDCHDNGDVDLDDLRAKVGEHAERLSALMITYPSTHGVYEHDIAEICAAVHDAGG  660
			  	661  QVYVDGANLNALVGLARPGKFGGDVSHLNLHKTFCIPHGGGGPGVGPVAVRAHLAPFLPG  720
			  	721  HPFAPELPKGYPVSSAPYGSASILPITWAYIRMMGAEGLRAASLTAITSANYIARRLDEY  780
			  	781  YPVLYTGENGMVAHECILDLRGITKLTGITVDDVAKRLADYGFHAPTMSFPVAGTLMVEP  840
			  	841  TESESLAEVDAFCEAMIGIRAEIDKVGAGEWPVDDNPLRGAPHTAQCLLASDWDHPYTRE  900
			  	901  QAAYPLGTAFRPKVWPAVRRIDGAYGDRNLVCSCPPVEAFA

Known structures in the PDB

No Known structures

Number of amino acids : 941

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
GDC-P	PF02347	9-438
GDC-P	PF02347	445-722
Aminotran_5	PF00266	527-852

Mtb Structural Proteome models

Model Number	1
Model name	Rv1832.1
Template	1WYU APDB CREDO
Template coverage	2_435
Template Identity(%)	33.9
Model coverage(%)	45.7
Normalized DOPE score	0.346

Model Number	2
Model name	Rv1832
Template	1WYU BPDB CREDO
Template coverage	2_472
Template Identity(%)	37.6
Model coverage(%)	54.9
Normalized DOPE score	0.567

Model Number	3
Model name	Rv1832.2
Template	1Y4I APDB CREDO
Template coverage	49_393
Template Identity(%)	17.2
Model coverage(%)	39.1
Normalized DOPE score	0.96

Structure Models from Chopin

Model Number	1
Profile	c.67.1.7 Click for model details
zscore	33.72
Residue begin	7
Residue end	430

Model Number	2
Profile	c.67.1.7 Click for model details
zscore	33.72
Residue begin	451
Residue end	874

Binding pockets

STRING

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

Protein interacting with Rv1832	Gene name	Confidence Score
Rv2211c	gcvT	0.999
Rv2211c	gcvT	0.999
Rv1826	gcvH	0.996
Rv0070c	glyA2	0.995
Rv1093	glyA1	0.995
Rv0462	lpdC	0.985
Rv0462	lpdC	0.985
Rv0462	lpdC	0.985
Rv3303c	lpdA	0.935
Rv3303c	lpdA	0.935
Rv3303c	lpdA	0.935
Rv0794c	Rv0794c	0.922
Rv0794c	Rv0794c	0.922
Rv0794c	Rv0794c	0.922
Rv2764c	thyA	0.918
Rv1905c	aao	0.917
Rv3356c	folD	0.909
Rv3356c	folD	0.909

Potential ligand/drug binding sites

Protein Model	Pocket Number	Drug Binding Site	PMIN Score	Pvalue PMIN	PMAX Score	Pvalue PMAX
Rv1832.2	5	2nni_MTK_A_501 PDB CREDO	0.700	0.081	0.643	0.001
Rv1832.2	5	1sa1_POD_B_700 PDB CREDO	0.686	0.092	0.612	0.002
Rv1832.2	5	3frq_ERY_A_195 PDB CREDO	0.666	0.109	0.611	0.002
Rv1832.2	5	1hwk_117_B_1 PDB CREDO	0.642	0.133	0.606	0.002
Rv1832.2	5	3ut5_LOC_B_502 PDB CREDO	0.717	0.069	0.601	0.002
Rv1832.2	5	1sa1_POD_D_701 PDB CREDO	0.691	0.088	0.597	0.002
Rv1832.2	5	3ut5_LOC_D_502 PDB CREDO	0.755	0.045	0.595	0.002
Rv1832.2	5	1uwj_BAX_A_1723 PDB CREDO	0.605	0.173	0.588	0.003
Rv1832.2	5	3e22_LOC_B_700 PDB CREDO	0.733	0.058	0.578	0.003
Rv1832.2	5	3e22_LOC_D_700 PDB CREDO	0.732	0.059	0.577	0.003
Rv1832.2	1	3tvx_PNX_A_902 PDB CREDO	0.570	0.217	0.570	0.004
Rv1832.2	5	1xkk_FMM_A_91 PDB CREDO	0.667	0.108	0.568	0.004
Rv1832.2	5	2v0z_C41_O_1327 PDB CREDO	0.646	0.128	0.565	0.004
Rv1832.2	5	1hwk_117_A_2 PDB CREDO	0.633	0.142	0.564	0.004
Rv1832.2	5	1hwk_117_C_4 PDB CREDO	0.633	0.142	0.564	0.004
Rv1832.2	5	3sm2_478_A_126 PDB CREDO	0.695	0.085	0.562	0.004
Rv1832.2	5	1hwl_FBI_B_1 PDB CREDO	0.638	0.137	0.552	0.005
Rv1832.2	5	1hwl_FBI_D_3 PDB CREDO	0.637	0.137	0.551	0.005
Rv1832.2	5	3spk_TPV_B_100 PDB CREDO	0.597	0.183	0.548	0.005
Rv1832.2	5	1t46_STI_A_3 PDB CREDO	0.611	0.166	0.548	0.005
Rv1832.2	1	3tvx_PNX_B_902 PDB CREDO	0.637	0.137	0.546	0.005
Rv1832.2	5	1hwk_117_D_3 PDB CREDO	0.648	0.126	0.544	0.006
Rv1832.2	5	1z2b_VLB_C_800 PDB CREDO	0.628	0.147	0.543	0.006
Rv1832.2	5	1hwl_FBI_C_4 PDB CREDO	0.628	0.147	0.543	0.006
Rv1832.2	5	3d91_REM_A_350 PDB CREDO	0.609	0.169	0.543	0.006
Rv1832.2	5	3frq_ERY_B_195 PDB CREDO	0.688	0.090	0.543	0.006
Rv1832.2	5	3d91_REM_B_350 PDB CREDO	0.608	0.170	0.541	0.006
Rv1832.2	5	1hwl_FBI_A_2 PDB CREDO	0.626	0.150	0.541	0.006
Rv1832.1	6	2cbr_A80_A_201 PDB CREDO	0.535	0.266	0.535	0.006
Rv1832.2	1	2xtk_AZM_A_1339 PDB CREDO	0.534	0.267	0.534	0.006
Rv1832.2	5	3bjw_SVR_E_503 PDB CREDO	0.579	0.206	0.533	0.007
Rv1832.2	5	1uwj_BAX_B_1723 PDB CREDO	0.596	0.184	0.531	0.007
Rv1832.1	12	1hk2_T44_A_3003 PDB CREDO	0.528	0.275	0.528	0.007
Rv1832.2	5	2v0z_C41_C_1328 PDB CREDO	0.648	0.126	0.524	0.008
Rv1832.2	5	1uwh_BAX_B_1723 PDB CREDO	0.624	0.152	0.523	0.008
Rv1832.2	1	3ay0_ADN_A_401 PDB CREDO	0.523	0.283	0.523	0.008
Rv1832.2	5	1uwh_BAX_A_1723 PDB CREDO	0.623	0.153	0.523	0.008
Rv1832.2	5	3tkd_CYZ_B_267 PDB CREDO	0.622	0.153	0.522	0.008
Rv1832.2	1	4afg_QMR_D_1214 PDB CREDO	0.609	0.169	0.522	0.008
Rv1832.2	1	2pkm_ADN_A_501 PDB CREDO	0.629	0.146	0.521	0.008
Rv1832.2	1	1udu_CIA_A_1003 PDB CREDO	0.546	0.249	0.520	0.008
Rv1832.2	1	3ay0_ADN_B_402 PDB CREDO	0.520	0.288	0.520	0.008
Rv1832.2	1	4afg_QMR_C_1214 PDB CREDO	0.606	0.172	0.520	0.008
Rv1832.2	5	1hwi_115_B_1 PDB CREDO	0.657	0.117	0.518	0.008
Rv1832.2	1	4fr8_TNG_A_601 PDB CREDO	0.571	0.216	0.518	0.008
Rv1832.1	12	1uof_PNN_A_1312 PDB CREDO	0.560	0.230	0.516	0.009
Rv1832.2	1	4afg_QMR_B_1214 PDB CREDO	0.542	0.255	0.516	0.009
Rv1832.2	5	1hwi_115_D_3 PDB CREDO	0.653	0.121	0.515	0.009
Rv1832.2	1	4aft_QMR_D_301 PDB CREDO	0.600	0.179	0.515	0.009
Rv1832.1	6	1jzs_MRC_A_1301 PDB CREDO	0.533	0.268	0.514	0.009
Rv1832.2	1	4afg_QMR_A_1214 PDB CREDO	0.597	0.182	0.512	0.009
Rv1832.1	6	3kw2_ADN_A_300 PDB CREDO	0.509	0.304	0.509	0.009
Rv1832.1	12	2iyf_ERY_A_1400 PDB CREDO	0.551	0.242	0.508	0.010
Rv1832.1	12	3sv8_SV6_A_1 PDB CREDO	0.529	0.274	0.508	0.010
Rv1832.2	5	3b0w_DGX_B_1 PDB CREDO	0.507	0.307	0.507	0.010
Rv1832.2	5	3h52_486_B_1 PDB CREDO	0.587	0.195	0.507	0.010
Rv1832.2	1	1igj_DGX_B_228 PDB CREDO	0.625	0.151	0.507	0.010
Rv1832.1	12	3mdz_EZL_A_264 PDB CREDO	0.529	0.274	0.507	0.010
Rv1832.2	5	3h52_486_D_2 PDB CREDO	0.603	0.176	0.506	0.010
Rv1832.1	6	3oht_1N1_A_1000 PDB CREDO	0.505	0.311	0.505	0.010
Rv1832.1	12	1hk3_T44_A_3003 PDB CREDO	0.574	0.212	0.504	0.010
Rv1832.1	12	1uho_VDN_A_1000 PDB CREDO	0.504	0.313	0.504	0.010
Rv1832.2	5	3tne_RIT_A_401 PDB CREDO	0.637	0.137	0.503	0.010
Rv1832.1	12	1wu8_ADN_B_501 PDB CREDO	0.503	0.314	0.503	0.010
Rv1832.2	5	1lhv_NOG_A_301 PDB CREDO	0.655	0.119	0.501	0.011

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
tetrahydrofolatePubChem	0.99	445.429
carbon dioxidePubChem	0.948	44.0095
5,10-methylenetetrahydrofolatePubChem	0.939	457.44
ammoniaPubChem	0.932	17.0305
polyglycinePubChem	0.91	75.0666
H4FPubChem	0.9	445.429
N5,N10-methylenetetrahydrofolatePubChem	0.9	457.44
pyridoxal phosphatePubChem	0.862	247.142
4-O-methyl-alpha-D-glucuronic acidPubChem	0.829	208.166
glyoxylatePubChem	0.828	74.0355
polyglycolic acidPubChem	0.825	76.0514
formatePubChem	0.758	45.0174
lipoamidePubChem	0.707	205.341