HEADER OXIDOREDUCTASE 07-OCT-13 4N3M TITLE JOINT NEUTRON/X-RAY STRUCTURE OF URATE OXIDASE IN COMPLEX WITH 8- TITLE 2 AZAXANTHINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: URICASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: URATE OXIDASE; COMPND 5 EC: 1.7.3.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS FLAVUS; SOURCE 3 ORGANISM_TAXID: 5059; SOURCE 4 GENE: UAZ, UOX; SOURCE 5 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 6 EXPRESSION_SYSTEM_COMMON: YEAST; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4932 KEYWDS URATE OXIDASE, URICASE, OXIDOREDUCTASE EXPDTA NEUTRON DIFFRACTION; X-RAY DIFFRACTION AUTHOR E.OKSANEN,M.P.BLAKELEY,M.BUDAYOVA-SPANO REVDAT 3 13-JUN-18 4N3M 1 REMARK REVDAT 2 26-FEB-14 4N3M 1 JRNL REVDAT 1 05-FEB-14 4N3M 0 JRNL AUTH E.OKSANEN,M.P.BLAKELEY,M.EL-HAJJI,U.RYDE,M.BUDAYOVA-SPANO JRNL TITL THE NEUTRON STRUCTURE OF URATE OXIDASE RESOLVES A JRNL TITL 2 LONG-STANDING MECHANISTIC CONUNDRUM AND REVEALS UNEXPECTED JRNL TITL 3 CHANGES IN PROTONATION. JRNL REF PLOS ONE V. 9 86651 2014 JRNL REFN ESSN 1932-6203 JRNL PMID 24466188 JRNL DOI 10.1371/JOURNAL.PONE.0086651 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6_289) 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 X-RAY DATA. REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 30380 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.141 REMARK 3 R VALUE (WORKING SET) : 0.140 REMARK 3 FREE R VALUE : 0.172 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1519 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 33.0338 - 4.1322 0.93 2927 154 0.1204 0.1338 REMARK 3 2 4.1322 - 3.2808 1.00 3022 158 0.1221 0.1404 REMARK 3 3 3.2808 - 2.8664 1.00 3010 159 0.1484 0.1906 REMARK 3 4 2.8664 - 2.6044 1.00 2980 157 0.1559 0.2082 REMARK 3 5 2.6044 - 2.4178 1.00 2973 156 0.1519 0.1927 REMARK 3 6 2.4178 - 2.2753 0.99 2945 155 0.1442 0.1807 REMARK 3 7 2.2753 - 2.1614 0.99 2928 155 0.1407 0.1844 REMARK 3 8 2.1614 - 2.0673 0.99 2932 154 0.1430 0.1655 REMARK 3 9 2.0673 - 1.9877 0.98 2910 153 0.1572 0.2198 REMARK 3 10 1.9877 - 1.9191 0.76 2234 118 0.1870 0.2484 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.41 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 : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 3 NEUTRON DATA. REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 71.8 REMARK 3 NUMBER OF REFLECTIONS : 23199 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.240 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 1139 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 48.1153 - 3.8071 0.96 3864 195 0.1974 0.2052 REMARK 3 2 3.8071 - 3.0220 0.92 3555 172 0.2063 0.2275 REMARK 3 3 3.0220 - 2.6400 0.84 3203 169 0.2317 0.2822 REMARK 3 4 2.6400 - 2.3986 0.77 2936 150 0.2458 0.3008 REMARK 3 5 2.3986 - 2.2267 0.68 2582 147 0.2724 0.3387 REMARK 3 6 2.2267 - 2.0954 0.61 2307 122 0.2980 0.3176 REMARK 3 7 2.0954 - 1.9905 0.53 2027 101 0.3295 0.3416 REMARK 3 8 1.9905 - 1.9038 0.42 1586 83 0.3663 0.3628 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) : 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) : NULL 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 4983 REMARK 3 ANGLE : 1.485 8588 REMARK 3 CHIRALITY : 0.104 367 REMARK 3 PLANARITY : 0.008 805 REMARK 3 DIHEDRAL : 19.432 1290 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 4N3M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-OCT-13. REMARK 100 THE DEPOSITION ID IS D_1000082709. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : OTHER REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : MULTILAYER MIRROR REMARK 200 OPTICS : XENOCS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : LAUEGEN REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23362 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 61.430 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 73.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.14100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 45.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.23600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 230 REMARK 230 EXPERIMENTAL DETAILS REMARK 230 EXPERIMENT TYPE : NEUTRON DIFFRACTION REMARK 230 DATE OF DATA COLLECTION : 30-AUG-08 REMARK 230 TEMPERATURE (KELVIN) : 293.0 REMARK 230 PH : 8.50 REMARK 230 NUMBER OF CRYSTALS USED : 1 REMARK 230 REMARK 230 NEUTRON SOURCE : NUCLEAR REACTOR REMARK 230 BEAMLINE : NULL REMARK 230 WAVELENGTH OR RANGE (A) : 3.25-4.35 REMARK 230 MONOCHROMATOR : NI/TI WAVELENGTH FILTER REMARK 230 OPTICS : NULL REMARK 230 REMARK 230 DETECTOR TYPE : IMAGE PLATE REMARK 230 DETECTOR MANUFACTURER : CUSTOM-MADE REMARK 230 INTENSITY-INTEGRATION SOFTWARE : LAUEGEN REMARK 230 DATA SCALING SOFTWARE : SCALA REMARK 230 REMARK 230 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 230 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 230 RESOLUTION RANGE LOW (A) : 50.000 REMARK 230 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 230 REMARK 230 OVERALL. REMARK 230 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 230 DATA REDUNDANCY : NULL REMARK 230 R MERGE (I) : 0.04200 REMARK 230 R SYM (I) : NULL REMARK 230 FOR THE DATA SET : 19.8800 REMARK 230 REMARK 230 IN THE HIGHEST RESOLUTION SHELL. REMARK 230 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 230 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.04 REMARK 230 COMPLETENESS FOR SHELL (%) : 84.2 REMARK 230 DATA REDUNDANCY IN SHELL : NULL REMARK 230 R MERGE FOR SHELL (I) : 0.14400 REMARK 230 R SYM FOR SHELL (I) : NULL REMARK 230 FOR SHELL : 8.530 REMARK 230 REMARK 230 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 230 SOFTWARE USED : MOLREP REMARK 230 STARTING MODEL: NULL REMARK 230 REMARK 230 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5 % PEG 8000, 0.1 M NACL, 0.1 M REMARK 280 TRISHCL PD 8.5, 8 MG/ML URATE OXIDASE, TEMPERATURE-CONTROLLED REMARK 280 BATCH, TEMPERATURE 291K, PH 8.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 40.10000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.10000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 52.75000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 40.10000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.10000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 52.75000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 40.10000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 48.10000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 52.75000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 40.10000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 48.10000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 52.75000 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: 23440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -164.0 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 -1.000000 0.000000 0.000000 -80.20000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 -80.20000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 SER A 296 REMARK 465 LEU A 297 REMARK 465 LYS A 298 REMARK 465 SER A 299 REMARK 465 LYS A 300 REMARK 465 LEU A 301 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 SER A 1 OG REMARK 470 LYS A 4 CD CE NZ REMARK 470 GLU A 22 CG CD OE1 OE2 REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 LYS A 48 CE NZ REMARK 470 ASN A 92 CG OD1 ND2 REMARK 470 LYS A 114 CG CD CE NZ REMARK 470 GLN A 131 CD OE1 NE2 REMARK 470 LYS A 138 CD CE NZ REMARK 470 LYS A 143 CE NZ REMARK 470 GLN A 158 CG CD OE1 NE2 REMARK 470 LYS A 171 CG CD CE NZ REMARK 470 GLN A 187 CD OE1 NE2 REMARK 470 GLU A 213 CG CD OE1 OE2 REMARK 470 LYS A 217 CE NZ REMARK 470 LYS A 266 CE NZ REMARK 470 LYS A 273 CB CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O ASP A 123 O ASP A 123 4555 1.64 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 A 241 NE - CZ - NH2 ANGL. DEV. = -3.2 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 HIS A 118 28.79 -154.74 REMARK 500 ASP A 175 107.01 -160.05 REMARK 500 SER A 226 162.92 177.78 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 123 SER A 124 148.48 REMARK 500 REMARK 500 REMARK: NULL 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 NA A 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 88 O REMARK 620 2 ILE A 94 O 111.6 REMARK 620 3 TYR A 91 O 91.3 88.3 REMARK 620 4 DOD A 659 O 80.9 164.8 100.3 REMARK 620 5 GLU A 136 OE1 106.5 83.0 162.0 85.2 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 AZA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2IBA RELATED DB: PDB REMARK 900 X-RAY STRUCTURE WITH 8-AZAXANTINE REMARK 900 RELATED ID: 4N9M RELATED DB: PDB REMARK 900 RELATED ID: 4N9S RELATED DB: PDB REMARK 900 RELATED ID: 4N9V RELATED DB: PDB DBREF 4N3M A 1 301 UNP Q00511 URIC_ASPFL 2 302 SEQRES 1 A 302 ACE SER ALA VAL LYS ALA ALA ARG TYR GLY LYS ASP ASN SEQRES 2 A 302 VAL ARG VAL TYR LYS VAL HIS LYS ASP GLU LYS THR GLY SEQRES 3 A 302 VAL GLN THR VAL TYR GLU MET THR VAL CYS VAL LEU LEU SEQRES 4 A 302 GLU GLY GLU ILE GLU THR SER TYR THR LYS ALA ASP ASN SEQRES 5 A 302 SER VAL ILE VAL ALA THR ASP SER ILE LYS ASN THR ILE SEQRES 6 A 302 TYR ILE THR ALA LYS GLN ASN PRO VAL THR PRO PRO GLU SEQRES 7 A 302 LEU PHE GLY SER ILE LEU GLY THR HIS PHE ILE GLU LYS SEQRES 8 A 302 TYR ASN HIS ILE HIS ALA ALA HIS VAL ASN ILE VAL CYS SEQRES 9 A 302 HIS ARG TRP THR ARG MET ASP ILE ASP GLY LYS PRO HIS SEQRES 10 A 302 PRO HIS SER PHE ILE ARG ASP SER GLU GLU LYS ARG ASN SEQRES 11 A 302 VAL GLN VAL ASP VAL VAL GLU GLY LYS GLY ILE ASP ILE SEQRES 12 A 302 LYS SER SER LEU SER GLY LEU THR VAL LEU LYS SER THR SEQRES 13 A 302 ASN SER GLN PHE TRP GLY PHE LEU ARG ASP GLU TYR THR SEQRES 14 A 302 THR LEU LYS GLU THR TRP ASP ARG ILE LEU SER THR ASP SEQRES 15 A 302 VAL ASP ALA THR TRP GLN TRP LYS ASN PHE SER GLY LEU SEQRES 16 A 302 GLN GLU VAL ARG SER HIS VAL PRO LYS PHE ASP ALA THR SEQRES 17 A 302 TRP ALA THR ALA ARG GLU VAL THR LEU LYS THR PHE ALA SEQRES 18 A 302 GLU ASP ASN SER ALA SER VAL GLN ALA THR MET TYR LYS SEQRES 19 A 302 MET ALA GLU GLN ILE LEU ALA ARG GLN GLN LEU ILE GLU SEQRES 20 A 302 THR VAL GLU TYR SER LEU PRO ASN LYS HIS TYR PHE GLU SEQRES 21 A 302 ILE ASP LEU SER TRP HIS LYS GLY LEU GLN ASN THR GLY SEQRES 22 A 302 LYS ASN ALA GLU VAL PHE ALA PRO GLN SER ASP PRO ASN SEQRES 23 A 302 GLY LEU ILE LYS CYS THR VAL GLY ARG SER SER LEU LYS SEQRES 24 A 302 SER LYS LEU HET ACE A 0 6 HET AZA A 401 13 HET CL A 402 1 HET NA A 403 1 HETNAM ACE ACETYL GROUP HETNAM AZA 8-AZAXANTHINE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 1 ACE C2 H4 O FORMUL 2 AZA C4 H3 N5 O2 FORMUL 3 CL CL 1- FORMUL 4 NA NA 1+ FORMUL 5 DOD *169(D2 O) HELIX 1 1 ILE A 42 LYS A 48 1 7 HELIX 2 2 ASP A 50 ILE A 54 5 5 HELIX 3 3 ALA A 56 ASN A 71 1 16 HELIX 4 4 PRO A 75 TYR A 91 1 17 HELIX 5 5 GLY A 193 HIS A 200 1 8 HELIX 6 6 HIS A 200 ASP A 222 1 23 HELIX 7 7 SER A 226 GLN A 242 1 17 HELIX 8 8 THR A 271 ALA A 275 5 5 SHEET 1 A 8 TYR A 8 LYS A 20 0 SHEET 2 A 8 GLN A 27 GLY A 40 -1 O LEU A 38 N TYR A 8 SHEET 3 A 8 ILE A 94 HIS A 104 -1 O HIS A 98 N LEU A 37 SHEET 4 A 8 LYS A 127 VAL A 135 -1 O VAL A 132 N VAL A 99 SHEET 5 A 8 GLY A 139 LYS A 153 -1 O ASP A 141 N ASP A 133 SHEET 6 A 8 LEU A 178 TRP A 188 -1 O VAL A 182 N LEU A 149 SHEET 7 A 8 ILE A 245 ASN A 254 -1 O GLU A 246 N GLN A 187 SHEET 8 A 8 GLY A 286 GLY A 293 -1 O VAL A 292 N VAL A 248 SHEET 1 B 2 THR A 107 ILE A 111 0 SHEET 2 B 2 LYS A 114 ILE A 121 -1 O HIS A 116 N MET A 109 SHEET 1 C 2 TYR A 257 GLU A 259 0 SHEET 2 C 2 PHE A 278 PRO A 280 -1 O ALA A 279 N PHE A 258 LINK C ACE A 0 N SER A 1 1555 1555 1.34 LINK O ILE A 88 NA NA A 403 1555 1555 2.27 LINK O ILE A 94 NA NA A 403 1555 1555 2.34 LINK O TYR A 91 NA NA A 403 1555 1555 2.41 LINK NA NA A 403 O DOD A 659 1555 1555 2.45 LINK OE1 GLU A 136 NA NA A 403 1555 1555 2.67 CISPEP 1 THR A 74 PRO A 75 0 -4.14 CISPEP 2 ASP A 283 PRO A 284 0 -11.88 SITE 1 AC1 11 ILE A 54 ALA A 56 THR A 57 PHE A 159 SITE 2 AC1 11 ARG A 176 SER A 226 VAL A 227 GLN A 228 SITE 3 AC1 11 ASN A 254 CL A 402 DOD A 633 SITE 1 AC2 5 THR A 57 ASN A 254 HIS A 256 GLY A 286 SITE 2 AC2 5 AZA A 401 SITE 1 AC3 6 ILE A 88 TYR A 91 ASN A 92 ILE A 94 SITE 2 AC3 6 GLU A 136 DOD A 659 CRYST1 80.200 96.200 105.500 90.00 90.00 90.00 I 2 2 2 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 0.012469 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010395 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009479 0.00000 HETATM 1 C ACE A 0 -61.908 -9.629 -32.622 1.00 49.01 C HETATM 2 O ACE A 0 -61.324 -8.677 -33.181 1.00 54.35 O HETATM 3 CH3 ACE A 0 -63.072 -10.323 -33.299 1.00 46.24 C HETATM 4 H1 ACE A 0 -63.270 -9.778 -34.223 1.00 47.76 H HETATM 5 H2 ACE A 0 -62.763 -11.338 -33.551 1.00 50.71 H HETATM 6 H3 ACE A 0 -63.931 -10.395 -32.622 1.00 51.41 H