HEADER LIPID BINDING PROTEIN 30-NOV-19 6LFA TITLE STRUCTURE OF THE N-TERMINAL DOMAIN OF WAG31 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELL WALL SYNTHESIS PROTEIN WAG31; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN; COMPND 5 SYNONYM: ANTIGEN 84; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS (STRAIN ATCC 25618 / SOURCE 3 H37RV); SOURCE 4 ORGANISM_TAXID: 83332; SOURCE 5 STRAIN: ATCC 25618 / H37RV; SOURCE 6 GENE: WAG31, AG84, RV2145C, MTCY270.23; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIVIVA, WAG31, MYCOBACTERIAL POLAR GROWTH, LIPID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.N.CHAUDHURI,K.CHOUKATE REVDAT 2 22-NOV-23 6LFA 1 REMARK REVDAT 1 15-JUL-20 6LFA 0 JRNL AUTH B.N.CHAUDHURI,K.CHOUKATE JRNL TITL STRUCTURAL BASIS OF SELF-ASSEMBLY IN THE LIPID-BINDING JRNL TITL 2 DOMAIN OF MYCOBACTERIAL POLAR GROWTH FACTOR WAG31 JRNL REF IUCRJ V. 7 767 2020 JRNL REFN ESSN 2052-2525 JRNL DOI 10.1107/S2052252520006053 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.08 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 6363 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.540 REMARK 3 FREE R VALUE TEST SET COUNT : 353 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 2.3830 - 2.3010 0.92 0 0 0.1797 0.2452 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.75 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : 12.824 688 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6LFA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-DEC-19. REMARK 100 THE DEPOSITION ID IS D_1300014314. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9677 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6374 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 30.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 12.10 REMARK 200 R MERGE (I) : 0.23500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.2 REMARK 200 DATA REDUNDANCY IN SHELL : 9.90 REMARK 200 R MERGE FOR SHELL (I) : 1.05000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.220 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2WUJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MGCL2, 0.1 M NA CACODYLATE, 50% REMARK 280 (V/V) PEG 200, PH 6.5, VAPOR DIFFUSION, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 22.49400 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.88400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 22.49400 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.88400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -11.46788 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 60.15667 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -13 REMARK 465 ALA A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 MET B -13 REMARK 465 ALA B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 ASN B -4 REMARK 465 LEU B -3 REMARK 465 PHE B -2 REMARK 465 TYR B -1 REMARK 465 GLN B 0 REMARK 465 GLY B 1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 218 O HOH B 118 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 HIS A -6 39.26 -146.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 101 DBREF 6LFA A 2 60 UNP P9WMU1 WAG31_MYCTU 2 60 DBREF 6LFA B 2 60 UNP P9WMU1 WAG31_MYCTU 2 60 SEQADV 6LFA MET A -13 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA ALA A -12 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS A -11 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS A -10 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS A -9 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS A -8 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS A -7 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS A -6 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA GLU A -5 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA ASN A -4 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA LEU A -3 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA PHE A -2 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA TYR A -1 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA GLN A 0 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA GLY A 1 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA MET B -13 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA ALA B -12 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS B -11 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS B -10 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS B -9 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS B -8 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS B -7 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA HIS B -6 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA GLU B -5 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA ASN B -4 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA LEU B -3 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA PHE B -2 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA TYR B -1 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA GLN B 0 UNP P9WMU1 EXPRESSION TAG SEQADV 6LFA GLY B 1 UNP P9WMU1 EXPRESSION TAG SEQRES 1 A 74 MET ALA HIS HIS HIS HIS HIS HIS GLU ASN LEU PHE TYR SEQRES 2 A 74 GLN GLY PRO LEU THR PRO ALA ASP VAL HIS ASN VAL ALA SEQRES 3 A 74 PHE SER LYS PRO PRO ILE GLY LYS ARG GLY TYR ASN GLU SEQRES 4 A 74 ASP GLU VAL ASP ALA PHE LEU ASP LEU VAL GLU ASN GLU SEQRES 5 A 74 LEU THR ARG LEU ILE GLU GLU ASN SER ASP LEU ARG GLN SEQRES 6 A 74 ARG ILE ASN GLU LEU ASP GLN GLU LEU SEQRES 1 B 74 MET ALA HIS HIS HIS HIS HIS HIS GLU ASN LEU PHE TYR SEQRES 2 B 74 GLN GLY PRO LEU THR PRO ALA ASP VAL HIS ASN VAL ALA SEQRES 3 B 74 PHE SER LYS PRO PRO ILE GLY LYS ARG GLY TYR ASN GLU SEQRES 4 B 74 ASP GLU VAL ASP ALA PHE LEU ASP LEU VAL GLU ASN GLU SEQRES 5 B 74 LEU THR ARG LEU ILE GLU GLU ASN SER ASP LEU ARG GLN SEQRES 6 B 74 ARG ILE ASN GLU LEU ASP GLN GLU LEU HET PGE A 101 24 HETNAM PGE TRIETHYLENE GLYCOL FORMUL 3 PGE C6 H14 O4 FORMUL 4 HOH *36(H2 O) HELIX 1 AA1 THR A 4 VAL A 11 1 8 HELIX 2 AA2 ASN A 24 LEU A 60 1 37 HELIX 3 AA3 THR B 4 VAL B 11 1 8 HELIX 4 AA4 ASN B 24 GLU B 59 1 36 CISPEP 1 ILE A 18 GLY A 19 0 9.24 CISPEP 2 ILE B 18 GLY B 19 0 -28.68 SITE 1 AC1 2 PRO A 2 ASP A 7 CRYST1 44.988 53.768 61.240 90.00 100.79 90.00 C 1 2 1 8 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 0.022228 0.000000 0.004237 0.00000 SCALE2 0.000000 0.018598 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016623 0.00000