HEADER HYDROLASE 29-DEC-17 6C0D TITLE CRYSTAL STRUCTURE OF AN AMIDASE (HYDANTOINASE/CARBAMOYLASE FAMILY) TITLE 2 FROM BURKHOLDERIA PHYMATUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMIDASE, HYDANTOINASE/CARBAMOYLASE FAMILY; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BUPHA.12245.B.B1; COMPND 5 EC: 3.5.1.87; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARABURKHOLDERIA PHYMATUM (STRAIN DSM 17167 / SOURCE 3 CIP 108236 / LMG 21445 / STM815); SOURCE 4 ORGANISM_COMMON: BURKHOLDERIA PHYMATUM; SOURCE 5 ORGANISM_TAXID: 391038; SOURCE 6 STRAIN: DSM 17167 / CIP 108236 / LMG 21445 / STM815; SOURCE 7 GENE: BPHY_4610; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: BUPHA.12245.B.B1 KEYWDS SSGCID, STRUCTURAL GENOMICS, BURKHOLDERIA PHYMATUM, AMIDASE, KEYWDS 2 HYDRANTOINASE FAMILY, CARBAMOYLASE FAMILY, SEATTLE STRUCTURAL KEYWDS 3 GENOMICS CENTER FOR INFECTIOUS DISEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 03-APR-24 6C0D 1 REMARK REVDAT 2 13-MAR-24 6C0D 1 REMARK REVDAT 1 21-MAR-18 6C0D 0 JRNL AUTH J.ABENDROTH,D.G.CONRADY,D.D.LORIMER,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF AN AMIDASE (HYDANTOINASE/CARBAMOYLASE JRNL TITL 2 FAMILY) FROM BURKHOLDERIA PHYMATUM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13RC1_2961 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 67230 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.960 REMARK 3 FREE R VALUE TEST SET COUNT : 1991 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 44.7332 - 4.3372 1.00 4836 161 0.1478 0.1609 REMARK 3 2 4.3372 - 3.4430 1.00 4739 119 0.1330 0.1314 REMARK 3 3 3.4430 - 3.0079 1.00 4723 100 0.1513 0.1944 REMARK 3 4 3.0079 - 2.7329 1.00 4662 145 0.1620 0.1818 REMARK 3 5 2.7329 - 2.5370 1.00 4628 160 0.1592 0.1704 REMARK 3 6 2.5370 - 2.3875 1.00 4696 109 0.1670 0.2045 REMARK 3 7 2.3875 - 2.2679 1.00 4647 129 0.1634 0.1995 REMARK 3 8 2.2679 - 2.1692 1.00 4614 146 0.1653 0.1977 REMARK 3 9 2.1692 - 2.0857 1.00 4602 162 0.1582 0.1739 REMARK 3 10 2.0857 - 2.0137 1.00 4639 168 0.1639 0.1989 REMARK 3 11 2.0137 - 1.9508 1.00 4564 169 0.1773 0.2239 REMARK 3 12 1.9508 - 1.8950 1.00 4625 145 0.1969 0.2227 REMARK 3 13 1.8950 - 1.8451 1.00 4624 144 0.2099 0.1991 REMARK 3 14 1.8451 - 1.8001 1.00 4640 134 0.2265 0.2646 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.13 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 : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 198 ) REMARK 3 ORIGIN FOR THE GROUP (A): 63.0853 64.1393 9.3074 REMARK 3 T TENSOR REMARK 3 T11: 0.3077 T22: 0.1406 REMARK 3 T33: 0.2514 T12: -0.0069 REMARK 3 T13: 0.0016 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 1.8647 L22: 1.8933 REMARK 3 L33: 3.1440 L12: -0.2235 REMARK 3 L13: -0.0384 L23: 0.0310 REMARK 3 S TENSOR REMARK 3 S11: -0.0003 S12: -0.0027 S13: 0.4069 REMARK 3 S21: -0.1915 S22: -0.0201 S23: -0.1018 REMARK 3 S31: -0.7607 S32: 0.0763 S33: -0.0013 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 199 THROUGH 345 ) REMARK 3 ORIGIN FOR THE GROUP (A): 95.8753 60.3766 0.3062 REMARK 3 T TENSOR REMARK 3 T11: 0.1487 T22: 0.2164 REMARK 3 T33: 0.1679 T12: -0.0498 REMARK 3 T13: 0.0092 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 2.4049 L22: 0.6264 REMARK 3 L33: 0.4624 L12: 1.2036 REMARK 3 L13: -1.0650 L23: -0.5095 REMARK 3 S TENSOR REMARK 3 S11: 0.1222 S12: -0.2249 S13: 0.0814 REMARK 3 S21: 0.0681 S22: -0.0807 S23: 0.0001 REMARK 3 S31: -0.0935 S32: 0.1806 S33: -0.0436 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 346 THROUGH 413 ) REMARK 3 ORIGIN FOR THE GROUP (A): 67.3994 50.2417 6.6279 REMARK 3 T TENSOR REMARK 3 T11: 0.1427 T22: 0.1257 REMARK 3 T33: 0.1430 T12: -0.0116 REMARK 3 T13: 0.0012 T23: 0.0243 REMARK 3 L TENSOR REMARK 3 L11: 2.5093 L22: 1.5239 REMARK 3 L33: 2.1382 L12: 0.1866 REMARK 3 L13: 0.2494 L23: 1.0701 REMARK 3 S TENSOR REMARK 3 S11: -0.0343 S12: 0.0749 S13: 0.1515 REMARK 3 S21: -0.2368 S22: 0.0009 S23: -0.0132 REMARK 3 S31: -0.3055 S32: 0.2176 S33: 0.0315 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 6C0D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1000231878. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67274 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 44.719 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.405 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.43 REMARK 200 R MERGE FOR SHELL (I) : 0.54500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.080 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MORDA, PHASER, PARROT REMARK 200 STARTING MODEL: PDB ENTRY 5J4MA AS PER MORDA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MICROLYTIC MCSG-1 SCREEN F11: 200MM REMARK 280 AMMONIUM SULFATE, 25% PEG 3350, 100MM HEPES FREE ACID / NAOH PH REMARK 280 7.5: BUPHA.12245.B.B1.PW38373 AT 22.42MG/ML: CRYO: 15% EG IN 2 REMARK 280 STEPS: TRAY 296390 F11: PUCK JZK7-6., VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.00667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 22.50333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 22.50333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.00667 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: 7950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31010 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -97.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 204.93000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 118.31639 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -22.50333 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 753 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1083 LIES ON A SPECIAL POSITION. 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 -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 HIS A 2 REMARK 465 GLY A 379 REMARK 465 GLY A 380 REMARK 465 VAL A 381 REMARK 465 SER A 382 REMARK 465 HIS A 383 REMARK 465 ASP A 384 REMARK 465 PHE A 385 REMARK 465 ARG A 414 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 7 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 154 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 179 CG CD CE NZ REMARK 470 GLU A 322 CG CD OE1 OE2 REMARK 470 ILE A 378 CG1 CG2 CD1 REMARK 470 ILE A 386 CG1 CG2 CD1 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 OE1 GLU A 190 O HOH A 601 2.15 REMARK 500 O HOH A 982 O HOH A 1018 2.17 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 ARG A 32 76.32 -150.52 REMARK 500 SER A 80 -142.28 -168.41 REMARK 500 THR A 87 62.61 -113.55 REMARK 500 GLN A 311 -40.35 -138.87 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 A1082 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH A1083 DISTANCE = 6.19 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 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 81 NE2 REMARK 620 2 ASP A 92 OD1 93.1 REMARK 620 3 HIS A 188 NE2 128.8 89.9 REMARK 620 4 HOH A 678 O 94.7 171.7 83.0 REMARK 620 5 HOH A 910 O 113.5 89.4 117.6 90.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 511 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-BUPHA.12245.B RELATED DB: TARGETTRACK REMARK 900 RELATED ID: BUPHA.12245.B RELATED DB: TARGETTRACK DBREF 6C0D A 1 414 UNP B2JR29 B2JR29_PARP8 1 414 SEQADV 6C0D MET A -7 UNP B2JR29 INITIATING METHIONINE SEQADV 6C0D ALA A -6 UNP B2JR29 EXPRESSION TAG SEQADV 6C0D HIS A -5 UNP B2JR29 EXPRESSION TAG SEQADV 6C0D HIS A -4 UNP B2JR29 EXPRESSION TAG SEQADV 6C0D HIS A -3 UNP B2JR29 EXPRESSION TAG SEQADV 6C0D HIS A -2 UNP B2JR29 EXPRESSION TAG SEQADV 6C0D HIS A -1 UNP B2JR29 EXPRESSION TAG SEQADV 6C0D HIS A 0 UNP B2JR29 EXPRESSION TAG SEQRES 1 A 422 MET ALA HIS HIS HIS HIS HIS HIS MET HIS GLU ASP PHE SEQRES 2 A 422 PRO ARG ILE ASP PRO ILE ARG LEU LEU ASP ASP LEU LYS SEQRES 3 A 422 THR LEU ARG SER PHE GLY ALA THR GLY PRO GLY VAL VAL SEQRES 4 A 422 ARG LEU SER LEU SER PRO VAL ASP ILE ASP ALA ARG ARG SEQRES 5 A 422 TRP LEU ALA GLY ARG MET THR ASP ALA GLY LEU ASP ALA SEQRES 6 A 422 ALA ILE ASP GLY VAL GLY THR VAL PHE GLY ARG SER ARG SEQRES 7 A 422 LYS PRO GLY PRO ALA LEU VAL ILE GLY SER HIS SER ASP SEQRES 8 A 422 THR GLN PRO THR GLY GLY TRP LEU ASP GLY ALA LEU GLY SEQRES 9 A 422 VAL ILE TYR GLY LEU GLU ILE ALA ARG ALA LEU GLY GLU SEQRES 10 A 422 CYS GLU ALA THR ARG GLU PHE ALA VAL ASP VAL ALA SER SEQRES 11 A 422 TRP ILE ASP GLU GLU GLY THR PHE SER SER PHE LEU GLY SEQRES 12 A 422 SER ARG SER PHE VAL GLY ASP ALA ILE ASP ASP SER LEU SEQRES 13 A 422 ARG SER ALA ARG ASN HIS GLU GLY LEU LEU LEU GLY ASP SEQRES 14 A 422 ALA LEU ALA GLN ALA GLY LEU ALA ASN THR PRO ARG VAL SEQRES 15 A 422 THR LEU ASP ARG LYS ARG GLN ARG ALA TYR LEU GLU PRO SEQRES 16 A 422 HIS ILE GLU GLN GLY GLY ARG LEU GLU ALA SER ALA LYS SEQRES 17 A 422 LEU ILE GLY VAL VAL THR THR ILE VAL GLY ILE ARG GLU SEQRES 18 A 422 PHE GLN LEU ARG PHE ILE GLY GLN ARG ASN HIS ALA GLY SEQRES 19 A 422 THR THR PRO MET ALA ILE ARG ARG ASP ALA GLY ALA ALA SEQRES 20 A 422 LEU VAL ALA PHE ILE ALA HIS ILE ASP ASP ALA PHE GLY SEQRES 21 A 422 ARG LEU ALA ASP ALA ASP THR VAL TRP THR VAL GLY ARG SEQRES 22 A 422 ILE ASP LEU ASP PRO GLY SER PHE SER VAL VAL PRO GLY SEQRES 23 A 422 LYS ALA VAL LEU HIS LEU GLN PHE ARG ASP ALA ASN PRO SEQRES 24 A 422 ASN ARG LEU HIS ALA MET GLU ASN ALA LEU VAL ALA LEU SEQRES 25 A 422 VAL ASP GLU TRP ASN GLY GLN HIS LEU VAL ARG ALA GLU SEQRES 26 A 422 LEU ILE ALA CYS GLU GLY ALA GLU GLU PRO VAL THR MET SEQRES 27 A 422 ASP ALA ALA LEU GLN GLN HIS LEU ALA GLN ALA ALA ASP SEQRES 28 A 422 ALA LEU ALA PRO GLY GLN TRP MET HIS MET PRO SER GLY SEQRES 29 A 422 ALA SER HIS ASP ALA GLN VAL ILE ALA GLN HIS ILE PRO SEQRES 30 A 422 ALA CYS MET LEU PHE VAL PRO SER ILE GLY GLY VAL SER SEQRES 31 A 422 HIS ASP PHE ILE GLU ASP THR ALA GLU GLN HIS ILE VAL SEQRES 32 A 422 LEU GLY CYS GLU VAL ALA ALA ARG ALA ALA ALA ARG ILE SEQRES 33 A 422 ALA GLY ALA LEU ARG ARG HET ZN A 501 1 HET EPE A 502 15 HET SO4 A 503 5 HET SO4 A 504 5 HET EDO A 505 4 HET EDO A 506 4 HET EDO A 507 4 HET EDO A 508 4 HET EDO A 509 4 HET EDO A 510 8 HET EDO A 511 4 HETNAM ZN ZINC ION HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EPE HEPES HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 EPE C8 H18 N2 O4 S FORMUL 4 SO4 2(O4 S 2-) FORMUL 6 EDO 7(C2 H6 O2) FORMUL 13 HOH *483(H2 O) HELIX 1 AA1 ASP A 9 PHE A 23 1 15 HELIX 2 AA2 SER A 36 ALA A 53 1 18 HELIX 3 AA3 GLY A 93 CYS A 110 1 18 HELIX 4 AA4 GLU A 111 ARG A 114 5 4 HELIX 5 AA5 PHE A 133 GLY A 141 1 9 HELIX 6 AA6 ILE A 144 ALA A 151 1 8 HELIX 7 AA7 LEU A 158 ALA A 166 1 9 HELIX 8 AA8 GLY A 193 ALA A 199 1 7 HELIX 9 AA9 PRO A 229 ARG A 233 5 5 HELIX 10 AB1 ASP A 235 ALA A 255 1 21 HELIX 11 AB2 ASN A 290 GLY A 310 1 21 HELIX 12 AB3 ASP A 331 ALA A 346 1 16 HELIX 13 AB4 HIS A 359 ALA A 365 1 7 HELIX 14 AB5 ALA A 390 LEU A 412 1 23 SHEET 1 AA1 2 ALA A 25 THR A 26 0 SHEET 2 AA1 2 GLY A 29 VAL A 30 -1 O GLY A 29 N THR A 26 SHEET 1 AA2 8 ASP A 56 ILE A 59 0 SHEET 2 AA2 8 VAL A 65 ARG A 68 -1 O ARG A 68 N ASP A 56 SHEET 3 AA2 8 ALA A 117 SER A 122 -1 O VAL A 120 N GLY A 67 SHEET 4 AA2 8 ALA A 75 SER A 80 1 N ILE A 78 O ASP A 119 SHEET 5 AA2 8 GLN A 181 GLU A 190 1 O ALA A 183 N VAL A 77 SHEET 6 AA2 8 ALA A 370 PRO A 376 1 O LEU A 373 N HIS A 188 SHEET 7 AA2 8 ILE A 202 ILE A 208 -1 N GLY A 203 O PHE A 374 SHEET 8 AA2 8 VAL A 328 THR A 329 -1 O VAL A 328 N ILE A 208 SHEET 1 AA3 8 ASP A 56 ILE A 59 0 SHEET 2 AA3 8 VAL A 65 ARG A 68 -1 O ARG A 68 N ASP A 56 SHEET 3 AA3 8 ALA A 117 SER A 122 -1 O VAL A 120 N GLY A 67 SHEET 4 AA3 8 ALA A 75 SER A 80 1 N ILE A 78 O ASP A 119 SHEET 5 AA3 8 GLN A 181 GLU A 190 1 O ALA A 183 N VAL A 77 SHEET 6 AA3 8 ALA A 370 PRO A 376 1 O LEU A 373 N HIS A 188 SHEET 7 AA3 8 ILE A 202 ILE A 208 -1 N GLY A 203 O PHE A 374 SHEET 8 AA3 8 TRP A 350 SER A 355 1 O MET A 351 N VAL A 204 SHEET 1 AA4 4 VAL A 260 ASP A 269 0 SHEET 2 AA4 4 LYS A 279 ASP A 288 -1 O LYS A 279 N ASP A 269 SHEET 3 AA4 4 GLY A 210 ILE A 219 -1 N PHE A 218 O ALA A 280 SHEET 4 AA4 4 ARG A 315 ALA A 320 -1 O ILE A 319 N GLN A 215 SHEET 1 AA5 2 ASN A 223 HIS A 224 0 SHEET 2 AA5 2 VAL A 275 VAL A 276 -1 O VAL A 276 N ASN A 223 LINK NE2 HIS A 81 ZN ZN A 501 1555 1555 2.06 LINK OD1 ASP A 92 ZN ZN A 501 1555 1555 2.16 LINK NE2 HIS A 188 ZN ZN A 501 1555 1555 2.15 LINK ZN ZN A 501 O HOH A 678 1555 1555 2.26 LINK ZN ZN A 501 O HOH A 910 1555 1555 2.11 CISPEP 1 ASP A 269 PRO A 270 0 8.08 CISPEP 2 ASP A 269 PRO A 270 0 9.96 SITE 1 AC1 5 HIS A 81 ASP A 92 HIS A 188 HOH A 678 SITE 2 AC1 5 HOH A 910 SITE 1 AC2 10 GLU A 213 HIS A 224 ARG A 287 ALA A 357 SITE 2 AC2 10 SER A 358 HOH A 610 HOH A 640 HOH A 676 SITE 3 AC2 10 HOH A 727 HOH A 831 SITE 1 AC3 6 GLN A 340 ALA A 344 ARG A 403 ARG A 407 SITE 2 AC3 6 HOH A 608 HOH A 709 SITE 1 AC4 7 ALA A 199 ALA A 339 GLN A 340 ASP A 343 SITE 2 AC4 7 TRP A 350 HOH A 658 HOH A 886 SITE 1 AC5 7 ARG A 194 GLY A 226 THR A 227 ASP A 258 SITE 2 AC5 7 GLY A 356 HOH A 637 HOH A 672 SITE 1 AC6 7 ALA A 238 ASP A 248 TRP A 261 HOH A 650 SITE 2 AC6 7 HOH A 747 HOH A 796 HOH A 874 SITE 1 AC7 4 HIS A 312 LEU A 313 VAL A 314 HOH A 857 SITE 1 AC8 4 ALA A 365 HIS A 367 ILE A 368 HOH A 611 SITE 1 AC9 6 LEU A 195 GLU A 196 ALA A 199 LYS A 200 SITE 2 AC9 6 LEU A 201 GLN A 336 SITE 1 AD1 4 ASP A 9 ILE A 11 ARG A 12 ASP A 15 SITE 1 AD2 5 ARG A 12 ARG A 49 ASP A 52 HOH A 755 SITE 2 AD2 5 HOH A 856 CRYST1 136.620 136.620 67.510 90.00 90.00 120.00 P 32 2 1 6 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 0.007320 0.004226 0.000000 0.00000 SCALE2 0.000000 0.008452 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014813 0.00000