HEADER CHAPERONE 17-SEP-19 6UCR TITLE STRUCTURE OF CLPC1-NTD L92S L96P COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEGATIVE REGULATOR OF GENETIC COMPETENCE CLPC/MECB; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN (UNP RESIDUES 1-145); COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS H37RV; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: CLPC, ERS007720_03236; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CLPC1-NTD, ATPASE, MYCOBACTERIUM TUBERCULOSIS, CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR C.ABAD-ZAPATERO,N.M.WOLF REVDAT 2 11-OCT-23 6UCR 1 REMARK REVDAT 1 13-MAY-20 6UCR 0 JRNL AUTH N.M.WOLF,H.LEE,D.ZAGAL,J.W.NAM,D.C.OH,H.LEE,J.W.SUH, JRNL AUTH 2 G.F.PAULI,S.CHO,C.ABAD-ZAPATERO JRNL TITL STRUCTURE OF THE N-TERMINAL DOMAIN OF CLPC1 IN COMPLEX WITH JRNL TITL 2 THE ANTITUBERCULOSIS NATURAL PRODUCT ECUMICIN REVEALS UNIQUE JRNL TITL 3 BINDING INTERACTIONS. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 76 458 2020 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 32355042 JRNL DOI 10.1107/S2059798320004027 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 40.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 7202 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 357 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE 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) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.34 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 : 0.014 1214 REMARK 3 ANGLE : 1.797 1636 REMARK 3 CHIRALITY : 0.081 187 REMARK 3 PLANARITY : 0.007 215 REMARK 3 DIHEDRAL : 18.404 730 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 6UCR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-19. REMARK 100 THE DEPOSITION ID IS D_1000244304. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : .97872 REMARK 200 MONOCHROMATOR : DIAMOND(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7594 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 56.1000 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) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 27.20 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: PDB ENTRY 6CN8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, PH 7.5, 10% PEG8000, 8% REMARK 280 ETHYLENE GLYCOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.06850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.15250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.67500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.15250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.06850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.67500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL 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. (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 1 REMARK 465 HIS A 156 REMARK 465 HIS A 157 REMARK 465 HIS A 158 REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 401 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A 402 DISTANCE = 7.05 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 201 DBREF1 6UCR A 1 145 UNP A0A0U0SI28_MYCTX DBREF2 6UCR A A0A0U0SI28 1 145 SEQADV 6UCR SER A 92 UNP A0A0U0SI2 LEU 92 ENGINEERED MUTATION SEQADV 6UCR PRO A 96 UNP A0A0U0SI2 LEU 96 ENGINEERED MUTATION SEQADV 6UCR LYS A 146 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR LEU A 147 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR ALA A 148 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR ALA A 149 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR ALA A 150 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR LEU A 151 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR GLU A 152 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR HIS A 153 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR HIS A 154 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR HIS A 155 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR HIS A 156 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR HIS A 157 UNP A0A0U0SI2 EXPRESSION TAG SEQADV 6UCR HIS A 158 UNP A0A0U0SI2 EXPRESSION TAG SEQRES 1 A 158 MET PHE GLU ARG PHE THR ASP ARG ALA ARG ARG VAL VAL SEQRES 2 A 158 VAL LEU ALA GLN GLU GLU ALA ARG MET LEU ASN HIS ASN SEQRES 3 A 158 TYR ILE GLY THR GLU HIS ILE LEU LEU GLY LEU ILE HIS SEQRES 4 A 158 GLU GLY GLU GLY VAL ALA ALA LYS SER LEU GLU SER LEU SEQRES 5 A 158 GLY ILE SER LEU GLU GLY VAL ARG SER GLN VAL GLU GLU SEQRES 6 A 158 ILE ILE GLY GLN GLY GLN GLN ALA PRO SER GLY HIS ILE SEQRES 7 A 158 PRO PHE THR PRO ARG ALA LYS LYS VAL LEU GLU LEU SER SEQRES 8 A 158 SER ARG GLU ALA PRO GLN LEU GLY HIS ASN TYR ILE GLY SEQRES 9 A 158 THR GLU HIS ILE LEU LEU GLY LEU ILE ARG GLU GLY GLU SEQRES 10 A 158 GLY VAL ALA ALA GLN VAL LEU VAL LYS LEU GLY ALA GLU SEQRES 11 A 158 LEU THR ARG VAL ARG GLN GLN VAL ILE GLN LEU LEU SER SEQRES 12 A 158 GLY TYR LYS LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS SEQRES 13 A 158 HIS HIS HET ACT A 201 4 HETNAM ACT ACETATE ION FORMUL 2 ACT C2 H3 O2 1- FORMUL 3 HOH *102(H2 O) HELIX 1 AA1 THR A 6 LEU A 23 1 18 HELIX 2 AA2 GLY A 29 ILE A 38 1 10 HELIX 3 AA3 GLY A 43 LEU A 52 1 10 HELIX 4 AA4 SER A 55 GLY A 68 1 14 HELIX 5 AA5 THR A 81 LEU A 98 1 18 HELIX 6 AA6 GLY A 104 GLY A 116 1 13 HELIX 7 AA7 GLY A 118 LEU A 127 1 10 HELIX 8 AA8 GLU A 130 HIS A 154 1 25 SITE 1 AC1 4 GLY A 29 THR A 30 THR A 81 HOH A 310 CRYST1 38.137 63.350 68.305 90.00 90.00 90.00 P 21 21 21 4 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 0.026221 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015785 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014640 0.00000