HEADER LYASE 20-APR-15 5A0I OBSLTE 17-APR-19 5A0I 6OH8 TITLE CRYSTALLOGRAPHIC STRUCTURE OF THE BACTERIAL LABDANE-RELATED DITERPENE TITLE 2 SYNTHASE LRDC IN COMPLEX WITH MG AND PPI AT 2.57 A RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: LABDANE-RELATED DITERPENE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.2.3.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES SP.; SOURCE 3 ORGANISM_TAXID: 1931; SOURCE 4 STRAIN: K155; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21((DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-22B; SOURCE 11 OTHER_DETAILS: STREPTOMYCES SP. STRAIN K155 WAS ISOLATED FROM SOIL SOURCE 12 FROM VALLE DE CHALCO, STATE OF MEXICO BY UNAM. KEYWDS LYASE, GENOME MINING, LRDC EXPDTA X-RAY DIFFRACTION AUTHOR S.CENTENO-LEIJA,S.SANCHEZ,E.RUDINO-PINERA,H.SERRANO-POSADA REVDAT 2 17-APR-19 5A0I 1 OBSLTE REVDAT 1 23-MAR-16 5A0I 0 JRNL AUTH S.CENTENO-LEIJA,S.SANCHEZ,E.RUDINO-PINERA,H.SERRANO-POSADA JRNL TITL CRYSTALLOGRAPHIC STRUCTURE OF A BACTERIAL CLASS I JRNL TITL 2 LABDANE-RELATED DITERPENE SYNTHASE. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.57 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.57 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.67 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 20146 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 986 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 34.6694 - 4.9123 1.00 2795 135 0.1668 0.2181 REMARK 3 2 4.9123 - 3.9008 1.00 2734 146 0.1769 0.2111 REMARK 3 3 3.9008 - 3.4082 1.00 2749 144 0.2013 0.2276 REMARK 3 4 3.4082 - 3.0968 1.00 2730 136 0.2328 0.3317 REMARK 3 5 3.0968 - 2.8749 1.00 2709 141 0.2597 0.3217 REMARK 3 6 2.8749 - 2.7055 1.00 2743 150 0.2631 0.2980 REMARK 3 7 2.7055 - 2.5701 1.00 2700 134 0.3157 0.3708 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.51 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 : 0.006 4810 REMARK 3 ANGLE : 0.899 6560 REMARK 3 CHIRALITY : 0.032 749 REMARK 3 PLANARITY : 0.004 850 REMARK 3 DIHEDRAL : 12.969 1708 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 5A0I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-APR-15. REMARK 100 THE DEPOSITION ID IS D_1290063633. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1000 REMARK 200 MONOCHROMATOR : SI-111 DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20167 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.570 REMARK 200 RESOLUTION RANGE LOW (A) : 34.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.57 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: LOW RESOLUTION SAD STRUCTURE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM ACETATE TETRAHYDRATE, REMARK 280 20%(W/V) PEG 3350, PH 7.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 52.04250 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -62.5 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 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 THR A 2 REMARK 465 ASP A 3 REMARK 465 THR A 4 REMARK 465 ASP A 5 REMARK 465 ASP A 6 REMARK 465 GLY A 7 REMARK 465 GLY A 8 REMARK 465 THR A 9 REMARK 465 ARG A 316 REMARK 465 TYR A 317 REMARK 465 GLN A 318 REMARK 465 GLY A 319 REMARK 465 ILE A 320 REMARK 465 ARG A 321 REMARK 465 PRO A 322 REMARK 465 ASN A 323 REMARK 465 ARG A 324 REMARK 465 GLY A 325 REMARK 465 SER A 326 REMARK 465 SER A 327 REMARK 465 THR A 328 REMARK 465 SER A 329 REMARK 465 SER A 330 REMARK 465 PRO A 331 REMARK 465 ALA A 332 REMARK 465 ARG A 333 REMARK 465 SER A 334 REMARK 465 LEU A 335 REMARK 465 GLN A 336 REMARK 465 HIS A 337 REMARK 465 HIS A 338 REMARK 465 HIS A 339 REMARK 465 HIS A 340 REMARK 465 HIS A 341 REMARK 465 HIS A 342 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ASP B 3 REMARK 465 THR B 4 REMARK 465 ASP B 5 REMARK 465 ASP B 6 REMARK 465 GLY B 7 REMARK 465 GLY B 8 REMARK 465 THR B 9 REMARK 465 MET B 10 REMARK 465 HIS B 314 REMARK 465 ALA B 315 REMARK 465 ARG B 316 REMARK 465 TYR B 317 REMARK 465 GLN B 318 REMARK 465 GLY B 319 REMARK 465 ILE B 320 REMARK 465 ARG B 321 REMARK 465 PRO B 322 REMARK 465 ASN B 323 REMARK 465 ARG B 324 REMARK 465 GLY B 325 REMARK 465 SER B 326 REMARK 465 SER B 327 REMARK 465 THR B 328 REMARK 465 SER B 329 REMARK 465 SER B 330 REMARK 465 PRO B 331 REMARK 465 ALA B 332 REMARK 465 ARG B 333 REMARK 465 SER B 334 REMARK 465 LEU B 335 REMARK 465 GLN B 336 REMARK 465 HIS B 337 REMARK 465 HIS B 338 REMARK 465 HIS B 339 REMARK 465 HIS B 340 REMARK 465 HIS B 341 REMARK 465 HIS B 342 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 2033 O HOH A 2035 1.94 REMARK 500 O VAL B 175 O1 GOL B 1316 2.03 REMARK 500 O GLY B 258 O HOH B 2036 2.03 REMARK 500 O LEU B 252 O2 GOL B 1316 2.06 REMARK 500 O THR A 260 O HOH A 2054 2.06 REMARK 500 O SER A 126 O HOH A 2032 2.08 REMARK 500 OE1 GLU B 95 O HOH B 2009 2.09 REMARK 500 O ASN A 120 O1 GOL A 1320 2.12 REMARK 500 OE2 GLU B 42 O HOH B 2004 2.14 REMARK 500 O PHE A 68 O HOH A 2016 2.15 REMARK 500 O LEU B 116 O HOH B 2013 2.16 REMARK 500 OE1 GLU A 22 O HOH A 2005 2.17 REMARK 500 OG1 THR A 284 O HOH A 2059 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG B 32 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES 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 LEU A 11 122.99 65.46 REMARK 500 PHE A 16 39.20 -95.80 REMARK 500 SER A 49 125.98 65.54 REMARK 500 ALA A 94 -154.96 -110.26 REMARK 500 GLU A 95 24.77 44.77 REMARK 500 ARG A 123 -89.29 -82.49 REMARK 500 ALA A 124 137.05 65.02 REMARK 500 HIS A 168 -6.13 -142.22 REMARK 500 ALA A 289 -110.28 54.25 REMARK 500 SER A 290 178.87 56.70 REMARK 500 THR B 70 -107.66 -71.40 REMARK 500 ALA B 71 -179.86 56.32 REMARK 500 ARG B 241 -127.80 -83.74 REMARK 500 ARG B 243 124.23 67.24 REMARK 500 HIS B 288 105.67 -175.07 REMARK 500 ALA B 289 94.71 67.95 REMARK 500 ALA B 296 -28.28 64.98 REMARK 500 REMARK 500 REMARK: NULL 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 B2038 DISTANCE = 6.11 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1316 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PPV A1318 O31 REMARK 620 2 GLU A 95 OE1 132.9 REMARK 620 3 GLU A 95 OE2 143.1 58.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1314 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 95 OE1 REMARK 620 2 HOH B2009 O 61.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1315 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 95 OE1 REMARK 620 2 GLU B 95 OE2 53.4 REMARK 620 3 HOH B2009 O 50.3 91.1 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1316 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1317 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1314 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1315 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPV A 1318 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1319 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1320 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1316 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1321 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 1322 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A0J RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC STRUCTURE OF THE BACTERIAL LABDANE- RELATED REMARK 900 DITERPENE SYNTHASE LRDC IN COMPLEX WITH MG AND PPI AT 2.36 A REMARK 900 RESOLUTION. REMARK 900 RELATED ID: 5A0K RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC STRUCTURE OF THE BACTERIAL LABDANE- RELATED REMARK 900 DITERPENE SYNTHASE LRDC IN COMPLEX WITH MG. DBREF 5A0I A 1 342 PDB 5A0I 5A0I 1 342 DBREF 5A0I B 1 342 PDB 5A0I 5A0I 1 342 SEQRES 1 A 342 MET THR ASP THR ASP ASP GLY GLY THR MET LEU PRO LEU SEQRES 2 A 342 PRO ASP PHE THR ALA THR PHE PRO GLU PRO PHE PRO ALA SEQRES 3 A 342 GLY PRO HIS SER GLU ARG THR GLU HIS ARG LEU LEU ASP SEQRES 4 A 342 TRP LEU GLU GLU HIS PRO LEU LEU PRO SER ALA LYS ALA SEQRES 5 A 342 LYS ALA VAL LEU VAL ASN ILE THR SER HIS GLY ALA SER SEQRES 6 A 342 ARG THR PHE PRO THR ALA ASP ALA ASP ASP LEU LEU LEU SEQRES 7 A 342 PHE ALA GLU LEU LEU LEU TRP LEU THR ALA PHE ASP ASP SEQRES 8 A 342 VAL HIS ALA GLU GLY ASN GLY VAL GLY GLY PRO ALA ALA SEQRES 9 A 342 LEU VAL ASP ARG ALA SER GLU LEU MET LEU VAL LEU ALA SEQRES 10 A 342 GLY GLY ASN PRO PRO ARG ALA MET SER PRO PHE PRO ALA SEQRES 11 A 342 VAL LEU HIS ASP LEU LEU ALA ARG PHE ARG ALA ARG ALA SEQRES 12 A 342 SER ALA ALA ALA TYR HIS ARG LEU ALA ALA SER LEU ARG SEQRES 13 A 342 ASP THR LEU MET ALA LEU VAL TRP GLU ALA HIS HIS VAL SEQRES 14 A 342 ALA LYS PRO GLU GLY VAL ALA LEU ALA THR TYR LEU ALA SEQRES 15 A 342 MET ARG PRO HIS THR VAL PHE ILE LYS THR ILE THR ALA SEQRES 16 A 342 ALA GLY GLU ILE LEU LEU GLY TYR GLU LEU THR ASP THR SEQRES 17 A 342 GLN ARG ALA LEU ALA ALA VAL ARG ASN LEU GLU THR ALA SEQRES 18 A 342 VAL ALA ASN LEU ALA GLY TRP ILE ASN ASP LEU ALA SER SEQRES 19 A 342 TYR GLU ARG GLU MET GLN ARG GLY ARG GLY GLN PRO LEU SEQRES 20 A 342 SER LEU PRO THR LEU LEU HIS ALA ARG HIS GLY GLY THR SEQRES 21 A 342 ILE GLU GLU ALA PHE THR ARG ALA SER SER MET CYS GLU SEQRES 22 A 342 ASN GLU ALA ALA VAL ALA ARG ARG GLY ILE THR HIS LEU SEQRES 23 A 342 ALA HIS ALA SER PRO ASN ALA LEU THR ALA HIS ALA ARG SEQRES 24 A 342 ALA LEU GLU ASP ILE THR ARG SER PHE ILE TRP HIS THR SEQRES 25 A 342 SER HIS ALA ARG TYR GLN GLY ILE ARG PRO ASN ARG GLY SEQRES 26 A 342 SER SER THR SER SER PRO ALA ARG SER LEU GLN HIS HIS SEQRES 27 A 342 HIS HIS HIS HIS SEQRES 1 B 342 MET THR ASP THR ASP ASP GLY GLY THR MET LEU PRO LEU SEQRES 2 B 342 PRO ASP PHE THR ALA THR PHE PRO GLU PRO PHE PRO ALA SEQRES 3 B 342 GLY PRO HIS SER GLU ARG THR GLU HIS ARG LEU LEU ASP SEQRES 4 B 342 TRP LEU GLU GLU HIS PRO LEU LEU PRO SER ALA LYS ALA SEQRES 5 B 342 LYS ALA VAL LEU VAL ASN ILE THR SER HIS GLY ALA SER SEQRES 6 B 342 ARG THR PHE PRO THR ALA ASP ALA ASP ASP LEU LEU LEU SEQRES 7 B 342 PHE ALA GLU LEU LEU LEU TRP LEU THR ALA PHE ASP ASP SEQRES 8 B 342 VAL HIS ALA GLU GLY ASN GLY VAL GLY GLY PRO ALA ALA SEQRES 9 B 342 LEU VAL ASP ARG ALA SER GLU LEU MET LEU VAL LEU ALA SEQRES 10 B 342 GLY GLY ASN PRO PRO ARG ALA MET SER PRO PHE PRO ALA SEQRES 11 B 342 VAL LEU HIS ASP LEU LEU ALA ARG PHE ARG ALA ARG ALA SEQRES 12 B 342 SER ALA ALA ALA TYR HIS ARG LEU ALA ALA SER LEU ARG SEQRES 13 B 342 ASP THR LEU MET ALA LEU VAL TRP GLU ALA HIS HIS VAL SEQRES 14 B 342 ALA LYS PRO GLU GLY VAL ALA LEU ALA THR TYR LEU ALA SEQRES 15 B 342 MET ARG PRO HIS THR VAL PHE ILE LYS THR ILE THR ALA SEQRES 16 B 342 ALA GLY GLU ILE LEU LEU GLY TYR GLU LEU THR ASP THR SEQRES 17 B 342 GLN ARG ALA LEU ALA ALA VAL ARG ASN LEU GLU THR ALA SEQRES 18 B 342 VAL ALA ASN LEU ALA GLY TRP ILE ASN ASP LEU ALA SER SEQRES 19 B 342 TYR GLU ARG GLU MET GLN ARG GLY ARG GLY GLN PRO LEU SEQRES 20 B 342 SER LEU PRO THR LEU LEU HIS ALA ARG HIS GLY GLY THR SEQRES 21 B 342 ILE GLU GLU ALA PHE THR ARG ALA SER SER MET CYS GLU SEQRES 22 B 342 ASN GLU ALA ALA VAL ALA ARG ARG GLY ILE THR HIS LEU SEQRES 23 B 342 ALA HIS ALA SER PRO ASN ALA LEU THR ALA HIS ALA ARG SEQRES 24 B 342 ALA LEU GLU ASP ILE THR ARG SER PHE ILE TRP HIS THR SEQRES 25 B 342 SER HIS ALA ARG TYR GLN GLY ILE ARG PRO ASN ARG GLY SEQRES 26 B 342 SER SER THR SER SER PRO ALA ARG SER LEU GLN HIS HIS SEQRES 27 B 342 HIS HIS HIS HIS HET MG A1316 1 HET MG A1317 1 HET PPV A1318 9 HET GOL A1319 6 HET GOL A1320 6 HET GOL A1321 6 HET PEG A1322 7 HET MG B1314 1 HET MG B1315 1 HET GOL B1316 6 HETNAM MG MAGNESIUM ION HETNAM PPV PYROPHOSPHATE HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG 4(MG 2+) FORMUL 5 PPV H4 O7 P2 FORMUL 6 GOL 4(C3 H8 O3) FORMUL 9 PEG C4 H10 O3 FORMUL 13 HOH *104(H2 O) HELIX 1 1 HIS A 29 HIS A 44 1 16 HELIX 2 2 SER A 49 PHE A 68 1 20 HELIX 3 3 ASP A 72 ALA A 94 1 23 HELIX 4 4 GLY A 100 ALA A 117 1 18 HELIX 5 5 PRO A 127 ALA A 141 1 15 HELIX 6 6 SER A 144 HIS A 167 1 24 HELIX 7 7 LYS A 171 VAL A 175 5 5 HELIX 8 8 ALA A 176 VAL A 188 1 13 HELIX 9 9 PHE A 189 GLY A 202 1 14 HELIX 10 10 LEU A 212 SER A 234 1 23 HELIX 11 11 SER A 234 ARG A 241 1 8 HELIX 12 12 SER A 248 GLY A 258 1 11 HELIX 13 13 ILE A 261 ALA A 287 1 27 HELIX 14 14 PRO A 291 ALA A 315 1 25 HELIX 15 15 HIS B 29 HIS B 44 1 16 HELIX 16 16 SER B 49 PHE B 68 1 20 HELIX 17 17 ASP B 72 ALA B 94 1 23 HELIX 18 18 PRO B 102 ALA B 117 1 16 HELIX 19 19 PRO B 127 ALA B 143 1 17 HELIX 20 20 SER B 144 HIS B 167 1 24 HELIX 21 21 LYS B 171 VAL B 175 5 5 HELIX 22 22 ALA B 176 VAL B 188 1 13 HELIX 23 23 PHE B 189 GLY B 202 1 14 HELIX 24 24 THR B 206 ALA B 211 1 6 HELIX 25 25 LEU B 212 SER B 234 1 23 HELIX 26 26 SER B 234 ARG B 241 1 8 HELIX 27 27 SER B 248 GLY B 258 1 11 HELIX 28 28 THR B 260 LEU B 286 1 27 HELIX 29 29 ALA B 296 HIS B 311 1 16 LINK MG MG A1316 O31 PPV A1318 1555 1555 1.85 LINK MG MG A1316 OE1 GLU A 95 1555 1555 2.42 LINK MG MG A1316 OE2 GLU A 95 1555 1555 1.81 LINK MG MG A1317 OE2 GLU A 95 1555 1555 2.26 LINK MG MG B1314 OE1 GLU B 95 1555 1555 1.80 LINK MG MG B1314 O HOH B2009 1555 1555 2.25 LINK MG MG B1315 OE1 GLU B 95 1555 1555 2.35 LINK MG MG B1315 OE2 GLU B 95 1555 1555 2.35 LINK MG MG B1315 O HOH B2009 1555 1555 2.55 CISPEP 1 GLU A 22 PRO A 23 0 1.34 CISPEP 2 ASN A 97 GLY A 98 0 2.85 CISPEP 3 GLU B 22 PRO B 23 0 8.51 CISPEP 4 GLU B 95 GLY B 96 0 0.45 CISPEP 5 ARG B 243 GLY B 244 0 2.22 CISPEP 6 HIS B 288 ALA B 289 0 -1.43 SITE 1 AC1 4 ASP A 90 GLU A 95 MG A1317 PPV A1318 SITE 1 AC2 5 ASP A 90 GLU A 95 GLU A 165 MG A1316 SITE 2 AC2 5 PPV A1318 SITE 1 AC3 4 ASP B 90 GLU B 95 MG B1315 HOH B2009 SITE 1 AC4 4 GLU B 95 GLU B 165 MG B1314 HOH B2009 SITE 1 AC5 10 ASP A 90 GLU A 95 ARG A 184 THR A 187 SITE 2 AC5 10 ASN A 230 SER A 234 ARG A 237 MG A1316 SITE 3 AC5 10 MG A1317 HOH A2022 SITE 1 AC6 4 ASN A 217 THR A 220 GLU A 275 VAL A 278 SITE 1 AC7 6 GLU A 111 LEU A 114 VAL A 115 GLY A 119 SITE 2 AC7 6 ASN A 120 PRO A 122 SITE 1 AC8 5 GLU B 173 VAL B 175 LEU B 252 ALA B 255 SITE 2 AC8 5 ARG B 256 SITE 1 AC9 6 ALA A 146 ALA A 147 ARG A 150 GLU A 204 SITE 2 AC9 6 ARG A 210 HIS B 149 SITE 1 BC1 7 ASP A 15 PHE A 16 THR A 17 PHE A 20 SITE 2 BC1 7 GLU A 22 ILE A 309 HOH A2006 CRYST1 49.902 104.085 66.450 90.00 111.35 90.00 P 1 21 1 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 0.020039 0.000000 0.007833 0.00000 SCALE2 0.000000 0.009608 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016158 0.00000