HEADER TRANSFERASE 14-DEC-20 7DOJ TITLE SOLUTION STRUCTURE OF TGS DOMAIN OF THE MYCOBACTERIUM TUBERCULOSIS REL TITLE 2 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP PYROPHOSPHOKINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.6.5; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 GENE: RELA, ERS007661_01112, ERS007688_02630; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: C41 KEYWDS MYCOBACTERIUM TUBERCULOSIS, REL, TGS DOMAIN, TRNA BINDING, STRINGENT KEYWDS 2 RESPONSE, RNA BINDING PROTEIN, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 19 AUTHOR S.JOON,B.SINGAL,G.GRUEBER REVDAT 4 15-MAY-24 7DOJ 1 REMARK REVDAT 3 14-JUN-23 7DOJ 1 REMARK REVDAT 2 16-FEB-22 7DOJ 1 JRNL REVDAT 1 01-DEC-21 7DOJ 0 JRNL AUTH J.SHIN,B.SINGAL,A.GRUBER,D.M.K.WONG,P.RAGUNATHAN,G.GRUBER JRNL TITL ATOMIC STRUCTURE OF THE REGULATORY TGS DOMAIN OF REL PROTEIN JRNL TITL 2 FROM MYCOBACTERIUM TUBERCULOSIS AND ITS INTERACTION WITH JRNL TITL 3 DEACYLATED TRNA. JRNL REF FEBS LETT. V. 595 3006 2021 JRNL REFN ISSN 0014-5793 JRNL PMID 34808002 JRNL DOI 10.1002/1873-3468.14236 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7DOJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-DEC-20. REMARK 100 THE DEPOSITION ID IS D_1300019843. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 8.5 REMARK 210 IONIC STRENGTH : 350 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.3 MM [U-15N] TGS DOMAIN OF REL REMARK 210 PROTEIN, 50 MM TRIS, 350 MM REMARK 210 SODIUM CHLORIDE, 1 MM DTT, 5 % V/ REMARK 210 V NA GLYCEROL, 90 % V/V H2O, 10 % REMARK 210 V/V [U-2H] D2O, 90% H2O/10% D2O; REMARK 210 0.3 MM [U-13C; U-15N] TGS REMARK 210 DOMAIN OF REL PROTEIN, 50 MM REMARK 210 TRIS, 350 MM SODIUM CHLORIDE, 1 REMARK 210 MM DTT, 5 % V/V NA GLYCEROL, 90 % REMARK 210 V/V H2O, 10 % V/V [U-2H] D2O, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.2, NMRPIPE, NMRDRAW, REMARK 210 SPARKY, CYANA REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 19 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-19 REMARK 465 RES C SSSEQI REMARK 465 MET A -10 REMARK 465 LYS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 PRO A -2 REMARK 465 MET A -1 REMARK 465 VAL A 0 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 LEU A 2 -169.15 -59.82 REMARK 500 1 ALA A 3 177.52 60.70 REMARK 500 1 VAL A 4 -35.66 178.62 REMARK 500 1 GLN A 5 94.76 -48.84 REMARK 500 1 VAL A 32 -72.54 -80.00 REMARK 500 2 LEU A 2 -72.17 67.50 REMARK 500 2 VAL A 4 91.25 55.73 REMARK 500 2 GLN A 5 104.82 59.37 REMARK 500 2 VAL A 32 -73.80 -79.83 REMARK 500 2 ARG A 39 80.60 -152.06 REMARK 500 3 VAL A 32 -72.83 -79.78 REMARK 500 4 LEU A 2 83.49 61.42 REMARK 500 4 VAL A 4 -43.33 -166.94 REMARK 500 4 VAL A 32 -73.10 -79.76 REMARK 500 5 ALA A 3 136.20 63.89 REMARK 500 5 GLN A 5 71.81 -104.61 REMARK 500 5 VAL A 32 -72.88 -79.73 REMARK 500 6 VAL A 32 -73.11 -79.90 REMARK 500 7 LEU A 2 -75.54 -62.90 REMARK 500 7 VAL A 32 -72.95 -79.84 REMARK 500 8 VAL A 32 -73.12 -79.89 REMARK 500 9 ALA A 3 -171.42 59.28 REMARK 500 9 VAL A 4 -45.51 -157.35 REMARK 500 9 VAL A 32 -72.36 -79.90 REMARK 500 10 ALA A 3 170.06 60.08 REMARK 500 10 VAL A 4 -50.02 -154.39 REMARK 500 10 VAL A 32 -73.34 -79.92 REMARK 500 11 ALA A 3 144.53 -170.26 REMARK 500 11 GLN A 5 67.20 -106.09 REMARK 500 11 VAL A 32 -73.80 -79.80 REMARK 500 12 ALA A 3 43.62 -173.87 REMARK 500 12 VAL A 32 -73.00 -79.99 REMARK 500 13 ALA A 3 74.80 -69.86 REMARK 500 13 VAL A 4 155.12 61.33 REMARK 500 13 VAL A 32 -72.91 -79.72 REMARK 500 14 LEU A 2 -76.75 -121.99 REMARK 500 14 VAL A 4 106.04 59.75 REMARK 500 14 VAL A 32 -73.22 -79.57 REMARK 500 15 ALA A 3 66.16 -157.27 REMARK 500 15 VAL A 4 145.41 63.08 REMARK 500 15 VAL A 32 -73.53 -79.86 REMARK 500 16 LEU A 2 32.75 -162.74 REMARK 500 16 VAL A 32 -72.91 -79.77 REMARK 500 17 VAL A 4 -55.93 -153.99 REMARK 500 17 VAL A 32 -73.23 -79.91 REMARK 500 18 LEU A 2 90.93 60.58 REMARK 500 18 VAL A 4 53.89 -153.57 REMARK 500 18 VAL A 32 -72.84 -79.84 REMARK 500 19 ALA A 3 98.05 54.93 REMARK 500 19 VAL A 32 -72.80 -79.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36403 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF TGS DOMAIN OF THE MYCOBACTERIUM TUBERCULOSIS REMARK 900 REL PROTEIN DBREF1 7DOJ A 1 66 UNP A0A655DL01_MYCTX DBREF2 7DOJ A A0A655DL01 394 459 SEQADV 7DOJ MET A -10 UNP A0A655DL0 INITIATING METHIONINE SEQADV 7DOJ LYS A -9 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ HIS A -8 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ HIS A -7 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ HIS A -6 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ HIS A -5 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ HIS A -4 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ HIS A -3 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ PRO A -2 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ MET A -1 UNP A0A655DL0 EXPRESSION TAG SEQADV 7DOJ VAL A 0 UNP A0A655DL0 EXPRESSION TAG SEQRES 1 A 77 MET LYS HIS HIS HIS HIS HIS HIS PRO MET VAL ASP LEU SEQRES 2 A 77 ALA VAL GLN GLU ILE PHE VAL PHE THR PRO LYS GLY ASP SEQRES 3 A 77 VAL ILE THR LEU PRO THR GLY SER THR PRO VAL ASP PHE SEQRES 4 A 77 ALA TYR ALA VAL HIS THR GLU VAL GLY HIS ARG CYS ILE SEQRES 5 A 77 GLY ALA ARG VAL ASN GLY ARG LEU VAL ALA LEU GLU ARG SEQRES 6 A 77 LYS LEU GLU ASN GLY GLU VAL VAL GLU VAL PHE THR HELIX 1 AA1 THR A 24 HIS A 33 1 10 HELIX 2 AA2 HIS A 33 ARG A 39 1 7 SHEET 1 AA1 2 GLU A 6 PHE A 10 0 SHEET 2 AA1 2 VAL A 16 PRO A 20 -1 O ILE A 17 N VAL A 9 SHEET 1 AA2 3 ARG A 48 VAL A 50 0 SHEET 2 AA2 3 GLY A 42 VAL A 45 -1 N ALA A 43 O VAL A 50 SHEET 3 AA2 3 VAL A 62 PHE A 65 -1 O PHE A 65 N GLY A 42 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1