Tuberculist information
Gene namelysA
Protein functionDiaminopimelate decarboxylase LysA (DAP decarboxylase)
Functional category(tuberculist)intermediary metabolism and respiration
Gene location(kb)1448.03
Molecular mass(da)47425.9
External sites TB Database TubercuList WebTB
Protein sequence
Number of amino acids : 447
	  		  	1    VNELLHLAPNVWPRNTTRDEVGVVCIAGIPLTQLAQEYGTPLFVIDEDDFRSRCRETAAA   60
			  	61   FGSGANVHYAAKAFLCSEVARWISEEGLCLDVCTGGELAVALHASFPPERITLHGNNKSV  120
			  	121  SELTAAVKAGVGHIVVDSMTEIERLDAIAGEAGIVQDVLVRLTVGVEAHTHEFISTAHED  180
			  	181  QKFGLSVASGAAMAAVRRVFATDHLRLVGLHSHIGSQIFDVDGFELAAHRVIGLLRDVVG  240
			  	241  EFGPEKTAQIATVDLGGGLGISYLPSDDPPPIAELAAKLGTIVSDESTAVGLPTPKLVVE  300
			  	301  PGRAIAGPGTITLYEVGTVKDVDVSATAHRRYVSVDGGMSDNIRTALYGAQYDVRLVSRV  360
			  	361  SDAPPVPARLVGKHCESGDIIVRDTWVPDDIRPGDLVAVAATGAYCYSLSSRYNMVGRPA  420
			  	421  VVAVHAGNARLVLRRETVDDLLSLEVR
			  			

Known structures in the PDB
PDB ID1HKV
Total residue count906
Number of chains2
MethodX-RAY
Resolution2.6
PDB ID1HKW
Total residue count906
Number of chains2
MethodX-RAY
Resolution2.8
PDB ID2O0T
Total residue count1868
Number of chains4
MethodX-RAY
Resolution2.33
Profile-based domain assignment
Structural/Functional domain familyPfam acc.no./SCOP IDDomain Region
Orn_Arg_deC_NPF0278446-308
Orn_DAP_Arg_deCPF00278284-424
Mtb Structural Proteome models
Model Number1
Model nameRv1293_2o0t_A
Template2O0T    APDBCREDO
Template coverage2_447
Template Identity(%)100.0
Model coverage(%)99.6
Normalized DOPE score-1.387

Model Number2
Model nameRv1293
Template1HKV    APDBCREDO
Template coverage2_447
Template Identity(%)100.0
Model coverage(%)99.6
Normalized DOPE score-1.118

Structure Models from Chopin
Model Number1
Profilec.1.6.1
Click for model details
zscore32.98
Residue begin46
Residue end308
Model Number2
Profile2.40.37.10
Click for model details
zscore13.51
Residue begin249
Residue end447
Binding pockets
STRING
Cytoscape Web will replace the contents of this div with protein-protein interaction network.
Protein interacting with Rv1293Gene nameConfidence Score
Rv2726cdapF0.999
Rv2773cdapB0.997
Rv2773cdapB0.997
Rv1295thrC0.996
Rv1294thrA0.995
Rv1294thrA0.995
Rv1294thrA0.995
Rv3709cask0.992
Rv3709cask0.992
Rv3709cask0.992
Rv2753cdapA0.99
Rv3708casd0.99
Rv3708casd0.99
Rv1292argS0.986
Rv1292argS0.986
Rv1292argS0.986
Rv1296thrB0.983
Rv1296thrB0.983
Rv2192ctrpD0.945
Rv2192ctrpD0.945
Rv1659argH0.936
Rv1659argH0.936
Rv3838cpheA0.933
Rv3838cpheA0.933
Rv2158cmurE0.932
Rv2158cmurE0.932
Rv2158cmurE0.932
Rv1656argF0.924
Rv1658argG0.924
Rv1656argF0.924
Rv2987cleuD0.92
Rv3423calr0.92
Rv3423calr0.92
Rv1652argC0.917
Rv1652argC0.917
Rv3290clat0.904
Rv1202dapE0.901
Rv1202dapE0.901
Potential ligand/drug binding sites
Protein ModelPocket NumberDrug Binding Site PMIN ScorePvalue PMINPMAX ScorePvalue PMAX
Rv1293_2o0t_A51s9p_DES_A_459PDBCREDO0.6730.1030.6500.001
Rv1293_2o0t_A52xkw_P1B_B_1475PDBCREDO0.6380.1370.6380.001
Rv1293_2o0t_A53bbt_FMM_D_91PDBCREDO0.7050.0770.6350.001
Rv1293_2o0t_A51mx1_THA_C_3PDBCREDO0.6540.1210.6310.001
Rv1293_2o0t_A53oht_1N1_B_1000PDBCREDO0.6530.1220.6300.001
Rv1293_2o0t_A53bbt_FMM_B_91PDBCREDO0.7000.0810.6260.001
Rv1293_2o0t_A53erd_DES_A_600PDBCREDO0.6210.1550.6210.001
Rv1293_2o0t_A53erd_DES_B_800PDBCREDO0.6200.1560.6200.001
Rv1293_2o0t_A51fm6_BRL_D_503PDBCREDO0.6400.1340.6180.002
Rv1293_2o0t_A51mx1_THA_E_5PDBCREDO0.6350.1400.6120.002
Rv1293_2o0t_A53oht_1N1_A_1000PDBCREDO0.6550.1190.6090.002
Rv1293_2o0t_A53adx_IMN_B_3PDBCREDO0.7620.0410.6060.002
Rv1293_2o0t_A52prg_BRL_A_1PDBCREDO0.6270.1490.6050.002
Rv1293_2o0t_A53h52_486_C_4PDBCREDO0.6000.1790.6000.002
Rv1293_2o0t_A51s9p_DES_D_600PDBCREDO0.6210.1540.6000.002
Rv1293_2o0t_A51zgy_BRL_A_503PDBCREDO0.6870.0910.5980.002
Rv1293_2o0t_A53rif_IVM_A_402PDBCREDO0.5950.1840.5950.002
Rv1293_2o0t_A53ri5_IVM_C_350PDBCREDO0.5950.1850.5950.002
Rv1293_2o0t_A53rif_IVM_B_403PDBCREDO0.5950.1850.5950.002
Rv1293_2o0t_A53spk_TPV_A_100PDBCREDO0.6820.0950.5940.002
Rv1293_2o0t_A53rif_IVM_D_402PDBCREDO0.5940.1870.5940.002
Rv1293_2o0t_A52fum_MIX_A_539PDBCREDO0.5930.1880.5930.002
Rv1293_2o0t_A53ria_IVM_C_349PDBCREDO0.5930.1880.5930.002
Rv1293_2o0t_A53qt0_486_A_4PDBCREDO0.6580.1170.5920.002
Rv1293_2o0t_A51gs4_ZK5_A_1918PDBCREDO0.5920.1890.5920.002
Rv1293_2o0t_A51jg2_ADN_A_500PDBCREDO0.6340.1400.5910.002
Rv1293_2o0t_A52h42_VIA_C_903PDBCREDO0.5890.1920.5890.003
Rv1293_2o0t_A51jg3_ADN_A_500PDBCREDO0.6100.1670.5880.003
Rv1293_2o0t_A52uxo_TAC_B_1211PDBCREDO0.7370.0550.5860.003
Rv1293_2o0t_A53rif_IVM_A_403PDBCREDO0.5860.1960.5860.003
Rv1293_2o0t_A51ya4_CTX_C_3PDBCREDO0.7070.0760.5850.003
Rv1293_2o0t_A52fum_MIX_D_3539PDBCREDO0.6500.1240.5850.003
Rv1293_2o0t_A53k54_1N1_A_1PDBCREDO0.6050.1730.5830.003
Rv1293_2o0t_A53gws_T3_X_500PDBCREDO0.7160.0690.5830.003
Rv1293_2o0t_A52h77_T3_A_1PDBCREDO0.6690.1070.5820.003
Rv1293_2o0t_A53jwq_VIA_B_901PDBCREDO0.5810.2030.5810.003
Rv1293_2o0t_A53h0a_9RA_A_500PDBCREDO0.6420.1330.5770.003
Rv1293_2o0t_A51mx1_THA_D_4PDBCREDO0.6970.0830.5770.003
Rv1293_2o0t_A51mx1_THA_F_6PDBCREDO0.6960.0840.5770.003
Rv1293_2o0t_A53oct_1N1_A_663PDBCREDO0.6180.1580.5760.003
Rv1293_2o0t_A51bsx_T3_B_2PDBCREDO0.7060.0760.5750.003
Rv1293_2o0t_A53jwq_VIA_D_901PDBCREDO0.6380.1360.5750.003
Rv1293_2o0t_A51bsx_T3_A_1PDBCREDO0.7050.0770.5740.003
Rv1293_2o0t_A51ya4_CTX_B_2PDBCREDO0.6930.0860.5740.003
Rv1293_2o0t_A51sqn_NDR_A_1001PDBCREDO0.5950.1850.5740.003
Rv1293_2o0t_A52prg_BRL_B_2PDBCREDO0.5950.1850.5740.003
Rv1293_2o0t_A53ln1_CEL_D_682PDBCREDO0.6380.1370.5740.003
Rv1293_2o0t_A51ya3_STR_A_1001PDBCREDO0.6160.1610.5740.003
Rv1293_2o0t_A52ito_IRE_A_2020PDBCREDO0.6410.1340.5730.003
Rv1293_2o0t_A52h79_T3_A_1PDBCREDO0.6810.0960.5730.003
Rv1293_2o0t_A51ya3_STR_C_3001PDBCREDO0.5930.1870.5720.003
Rv1293_2o0t_A51sqn_NDR_B_2001PDBCREDO0.5920.1890.5710.004
Rv1293_2o0t_A53ads_IMN_B_3PDBCREDO0.8100.0210.5690.004
Rv1293_2o0t_A51xzx_T3_X_500PDBCREDO0.7210.0660.5680.004
Rv1293_2o0t_A51ya3_STR_B_2001PDBCREDO0.6090.1680.5670.004
Rv1293_2o0t_A53uvv_T3_A_501PDBCREDO0.7190.0670.5670.004
Rv1293_2o0t_A52q1v_PDN_A_248PDBCREDO0.6070.1710.5660.004
Rv1293_2o0t_A53ols_EST_B_600PDBCREDO0.7110.0730.5660.004
Rv1293_2o0t_A52gqg_1N1_A_501PDBCREDO0.5640.2240.5640.004
Rv1293_2o0t_A53ols_EST_A_600PDBCREDO0.7090.0740.5640.004
Rv1293_2o0t_A52h42_VIA_A_901PDBCREDO0.6270.1490.5640.004
Rv1293_2o0t_A51g50_EST_A_600PDBCREDO0.7090.0740.5640.004
Rv1293_2o0t_A51s9p_DES_B_459PDBCREDO0.6790.0980.5620.004
Rv1293_2o0t_A51s9p_DES_C_500PDBCREDO0.6780.0980.5620.004
Rv1293_2o0t_A51a28_STR_A_1PDBCREDO0.5780.2060.5580.004
Rv1293_2o0t_A51nhz_486_A_800PDBCREDO0.6410.1340.5580.004
Rv1293_2o0t_A52cbr_A80_A_201PDBCREDO0.6000.1790.5570.004
Rv1293_2o0t_A53uud_EST_A_600PDBCREDO0.7000.0800.5570.004
Rv1293_2o0t_A53uud_EST_B_600PDBCREDO0.6990.0820.5560.005
Rv1293_2o0t_A52yja_EST_B_1550PDBCREDO0.6980.0820.5550.005
Rv1293_2o0t_A53ri5_IVM_A_349PDBCREDO0.6170.1590.5520.005
Rv1293_2o0t_A53sxr_1N1_A_1PDBCREDO0.6670.1090.5520.005
Rv1293_2o0t_A51fm6_BRL_X_504PDBCREDO0.6980.0820.5500.005
Rv1293_2o0t_A53qlg_1N1_A_601PDBCREDO0.6380.1370.5490.005
Rv1293_2o0t_A53rhw_IVM_A_348PDBCREDO0.6140.1630.5490.005
Rv1293_2o0t_A53ri5_IVM_D_349PDBCREDO0.6130.1640.5490.005
Rv1293_2o0t_A53g5d_1N1_A_1PDBCREDO0.6370.1380.5480.005
Rv1293_2o0t_A53ri5_IVM_B_349PDBCREDO0.6120.1640.5480.005
Rv1293_2o0t_A53rif_IVM_E_402PDBCREDO0.6120.1640.5480.005
Rv1293_2o0t_A52w8y_NDR_B_1000PDBCREDO0.6610.1140.5470.005
Rv1293_2o0t_A53rhw_IVM_D_349PDBCREDO0.6120.1650.5470.005
Rv1293_2o0t_A53g5d_1N1_B_1PDBCREDO0.6350.1400.5470.005
Rv1293_2o0t_A53rhw_IVM_D_348PDBCREDO0.6110.1660.5470.005
Rv1293_2o0t_A53ria_IVM_C_350PDBCREDO0.6110.1660.5470.005
Rv1293_2o0t_A53rhw_IVM_B_349PDBCREDO0.6100.1670.5460.005
Rv1293_2o0t_A52ity_IRE_A_2020PDBCREDO0.6590.1160.5450.005
Rv1293_2o0t_A53qlg_1N1_B_601PDBCREDO0.6330.1410.5450.005
Rv1293_2o0t_A53rhw_IVM_B_348PDBCREDO0.6100.1680.5450.005
Rv1293_2o0t_A53ria_IVM_A_348PDBCREDO0.6100.1680.5450.005
Rv1293_2o0t_A52h42_VIA_B_902PDBCREDO0.5440.2520.5440.006
Rv1293_2o0t_A53cs8_BRL_A_503PDBCREDO0.6560.1180.5440.006
Rv1293_2o0t_A53ria_IVM_E_349PDBCREDO0.6070.1710.5430.006
Rv1293_2o0t_A51p93_DEX_B_2999PDBCREDO0.6030.1760.5420.006
Rv1293_2o0t_A53f4x_KLT_A_300PDBCREDO0.6040.1740.5410.006
Rv1293_2o0t_A53kw2_ADN_B_300PDBCREDO0.6530.1210.5410.006
Rv1293_2o0t_A53ria_IVM_E_348PDBCREDO0.6040.1740.5400.006
Rv1293_2o0t_A32xkw_P1B_A_1478PDBCREDO0.5520.2410.5380.006
Rv1293_2o0t_A51p93_DEX_A_1999PDBCREDO0.5970.1830.5370.006
Rv1293_2o0t_A51jg3_ADN_B_550PDBCREDO0.6240.1520.5370.006
Rv1293_2o0t_A53o1c_ADN_A_127PDBCREDO0.5560.2360.5360.006
Rv1293_2o0t_A52aax_PDN_A_502PDBCREDO0.6360.1390.5350.006
Rv1293_2o0t_A51ie4_T44_B_328PDBCREDO0.6210.1550.5340.006
Rv1293_2o0t_A52zva_1N1_A_513PDBCREDO0.6450.1300.5340.006
Rv1293_2o0t_A53kw2_ADN_A_300PDBCREDO0.5740.2110.5340.006
Rv1293_2o0t_A51qkn_RAL_A_600PDBCREDO0.6550.1200.5330.007
Rv1293_2o0t_A52hw2_RFP_A_1200PDBCREDO0.6970.0830.5330.007
Rv1293_2o0t_A52y6o_1N1_A_1892PDBCREDO0.6750.1020.5320.007
Rv1293_2o0t_A51lhu_EST_A_301PDBCREDO0.5510.2420.5320.007
Rv1293_2o0t_A53sxr_1N1_B_2PDBCREDO0.6690.1070.5320.007
Rv1293_2o0t_A52aa6_STR_B_402PDBCREDO0.6310.1440.5310.007
Rv1293_2o0t_A52aax_PDN_B_503PDBCREDO0.6310.1440.5310.007
Rv1293_2o0t_A52aa6_STR_A_401PDBCREDO0.6310.1440.5310.007
Rv1293_2o0t_A51mx1_THA_A_1PDBCREDO0.7200.0660.5270.007
Rv1293_2o0t_A51z9y_FUN_A_500PDBCREDO0.5890.1920.5270.007
Rv1293_2o0t_A51cil_ETS_A_263PDBCREDO0.5860.1970.5270.007
Rv1293_2o0t_A33bjw_SVR_B_501PDBCREDO0.5260.2780.5260.007
Rv1293_2o0t_A52j7y_E3O_A_1454PDBCREDO0.5880.1940.5260.007
Rv1293_2o0t_A51mx1_THA_B_2PDBCREDO0.6880.0900.5250.007
Rv1293_2o0t_A54eb6_VLB_C_503PDBCREDO0.5250.2810.5250.007
Rv1293_2o0t_A53ln1_CEL_A_682PDBCREDO0.6440.1310.5240.008
Rv1293_2o0t_A51uwh_BAX_A_1723PDBCREDO0.7290.0610.5230.008
Rv1293_2o0t_A51uwh_BAX_B_1723PDBCREDO0.7290.0610.5230.008
Rv1293_2o0t_A53ln1_CEL_B_682PDBCREDO0.6420.1330.5220.008
Rv1293_2o0t_A52jfa_RAL_A_600PDBCREDO0.6840.0940.5220.008
Rv1293_2o0t_A53qgz_ADN_A_127PDBCREDO0.5410.2560.5220.008
Rv1293_2o0t_A53ln1_CEL_C_682PDBCREDO0.6410.1340.5220.008
Rv1293_2o0t_A52xpv_MIY_A_1209PDBCREDO0.5410.2570.5220.008
Rv1293_2o0t_A33bjw_SVR_F_502PDBCREDO0.5220.2850.5220.008
Rv1293_2o0t_A33bjw_SVR_B_512PDBCREDO0.5210.2850.5210.008
Rv1293_2o0t_A51ie4_T44_A_128PDBCREDO0.6830.0950.5210.008
Rv1293_2o0t_A52jfa_RAL_B_600PDBCREDO0.7040.0780.5210.008
Rv1293_2o0t_A33bjw_SVR_H_504PDBCREDO0.5210.2860.5210.008
Rv1293_2o0t_A51sn5_T3_C_601PDBCREDO0.7110.0730.5210.008
Rv1293_2o0t_A53lfa_1N1_A_361PDBCREDO0.7110.0730.5210.008
Rv1293_2o0t_A51err_RAL_A_600PDBCREDO0.7000.0810.5180.008
Rv1293_2o0t_A51err_RAL_B_600PDBCREDO0.7000.0810.5180.008
Rv1293_2o0t_A33bjw_SVR_C_505PDBCREDO0.5600.2300.5180.008
Rv1293_2o0t_A53d90_NOG_A_1001PDBCREDO0.5940.1860.5170.008
Rv1293_2o0t_A33bjw_SVR_E_503PDBCREDO0.5590.2310.5170.008
Rv1293_2o0t_A51y0x_T44_X_500PDBCREDO0.7190.0670.5170.008
Rv1293_2o0t_A51m17_AQ4_A_999PDBCREDO0.6760.1000.5160.009
Rv1293_2o0t_A53k2h_LYA_B_514PDBCREDO0.5340.2660.5160.009
Rv1293_2o0t_A53aod_RFP_C_2002PDBCREDO0.5350.2660.5160.009
Rv1293_2o0t_A54asd_BAX_A_1500PDBCREDO0.7620.0410.5150.009
Rv1293_2o0t_A53d90_NOG_B_2001PDBCREDO0.5920.1880.5150.009
Rv1293_2o0t_A53ri5_IVM_E_349PDBCREDO0.6220.1540.5150.009
Rv1293_2o0t_A52itz_IRE_A_2021PDBCREDO0.6470.1280.5140.009
Rv1293_2o0t_A31xkk_FMM_A_91PDBCREDO0.5140.2960.5140.009
Rv1293_2o0t_A54eyb_0WO_A_303PDBCREDO0.5320.2700.5130.009
Rv1293_2o0t_A51a28_STR_B_2PDBCREDO0.6480.1260.5110.009
Rv1293_2o0t_A51a27_EST_A_350PDBCREDO0.5930.1880.5100.009
Rv1293_2o0t_A33bjw_SVR_G_506PDBCREDO0.5370.2620.5100.009
Rv1293_2o0t_A51p93_DEX_D_4999PDBCREDO0.6260.1490.5100.009
Rv1293_2o0t_A53e22_LOC_D_700PDBCREDO0.6660.1090.5090.010
Rv1293_2o0t_A53e22_LOC_B_700PDBCREDO0.6660.1100.5080.010
Rv1293_2o0t_A51sn0_T44_C_601PDBCREDO0.7900.0290.5080.010
Rv1293_2o0t_A52fum_MIX_B_1539PDBCREDO0.6380.1370.5070.010
Rv1293_2o0t_A51p93_DEX_C_3999PDBCREDO0.6230.1530.5070.010
Rv1293_2o0t_A53ads_IMN_A_2PDBCREDO0.5440.2520.5070.010
Rv1293_2o0t_A53r9c_ECL_A_452PDBCREDO0.6910.0880.5060.010
Rv1293_2o0t_A53gn8_DEX_A_247PDBCREDO0.6190.1560.5040.010
Rv1293_2o0t_A53h52_486_D_2PDBCREDO0.7010.0800.5030.010
Rv1293_2o0t_A53mne_DEX_A_784PDBCREDO0.6180.1590.5030.010
Rv1293_2o0t_A54eyb_0WO_B_301PDBCREDO0.5210.2860.5030.010
Rv1293_2o0t_A53gn8_DEX_B_247PDBCREDO0.6170.1590.5020.011
Rv1293_2o0t_A53adx_IMN_A_2PDBCREDO0.5020.3150.5020.011
Rv1293_2o0t_A52aa5_STR_B_302PDBCREDO0.5960.1840.5020.011
Rv1293_2o0t_A53frq_ERY_B_195PDBCREDO0.6560.1190.5010.011
Rv1293_2o0t_A53oez_STI_B_601PDBCREDO0.6560.1190.5010.011
Rv1293_2o0t_A31uwj_BAX_A_1723PDBCREDO0.6050.1730.5000.011
Rv1293_2o0t_A51m2z_DEX_D_401PDBCREDO0.6140.1620.5000.011
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 NameConfidence scoreMolecular Weight
L-lysinePubChem0.999146.188
pyridoxal phosphatePubChem0.994247.142
diaminopimelic acidPubChem0.991190.197
meso-diaminopimelatePubChem0.989190.197
Nchembio861-comp5PubChem0.968377.33
SeMetPubChem0.961196.106
selenomethioninePubChem0.961196.106
ll-2,6-diaminopimelic acidPubChem0.954190.197
sulfatePubChem0.94896.0626
hydron sulfatePubChem0.948196.157
poly-L-lysine hydrobromidePubChem0.918146.188
deuteriumPubChem0.9172.01588
protiumPubChem0.92.01576
H(+)PubChem0.92.01588
carbon dioxidePubChem0.944.0095
azelaic acidPubChem0.879188.221
dihydrodipicolinatePubChem0.708169.135
magnesiumPubChem0.70324.305