HEADER HYDROLASE 06-SEP-12 4H00 TITLE THE CRYSTAL STRUCTURE OF MON-ZN DIHYDROPYRIMIDINASE FROM TETRAODON TITLE 2 NIGROVIRIDIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROPYRIMIDINASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TETRAODON NIGROVIRIDIS; SOURCE 3 ORGANISM_COMMON: SPOTTED GREEN PUFFERFISH; SOURCE 4 ORGANISM_TAXID: 99883; SOURCE 5 GENE: DPYS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET44A(+) KEYWDS HYDROLASE, CARBOXYLATION, ZINC BINDING, ALPHA-BETA BARREL EXPDTA X-RAY DIFFRACTION AUTHOR Y.C.HSIEH,M.C.CHEN,C.C.HSU,S.I.CHAN,Y.S.YANG,C.J.CHEN REVDAT 1 11-SEP-13 4H00 0 JRNL AUTH Y.C.HSIEH,M.C.CHEN,C.C.HSU,S.I.CHAN,Y.S.YANG,C.J.CHEN JRNL TITL LYSINE CARBOXYLATION: METAL AND STRUCTURAL REQUIREMENTS FOR JRNL TITL 2 POST-TRANSLATIONAL MODIFICATION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 39533 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2100 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2719 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.62 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 151 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3759 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 206 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.35000 REMARK 3 B22 (A**2) : -1.35000 REMARK 3 B33 (A**2) : 2.70000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.132 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.229 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3842 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5202 ; 1.927 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 484 ; 6.507 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 173 ;36.694 ;23.526 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 643 ;14.431 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;15.282 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 571 ; 0.145 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2933 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4H00 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-SEP-12. REMARK 100 THE RCSB ID CODE IS RCSB074846. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL; NULL REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : NSRRC; SPRING-8 REMARK 200 BEAMLINE : BL13B1; BL12B2 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : NULL; NULL REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R; ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40386 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : 0.04200 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LITHIUM SULFATE MONOHYDRATE, PEG 4000 REMARK 280 (12%, W/V), TRIS-SODIUM CITRATE DIHYDRATE (PH 6.5), VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+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 80.49900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 80.49900 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.18500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 23.59250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 80.49900 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 70.77750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 70.77750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 80.49900 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 23.59250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 80.49900 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.18500 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 80.49900 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 47.18500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 80.49900 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 70.77750 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 23.59250 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 80.49900 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 23.59250 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 70.77750 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 80.49900 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 80.49900 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 47.18500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 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 0.00000 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 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 822 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 832 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 796 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 GLY A -19 REMARK 465 SER A -18 REMARK 465 ALA A -17 REMARK 465 GLY A -16 REMARK 465 SER A -15 REMARK 465 GLY A -14 REMARK 465 THR A -13 REMARK 465 ILE A -12 REMARK 465 ASP A -11 REMARK 465 ASP A -10 REMARK 465 ASP A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 SER A -6 REMARK 465 PRO A -5 REMARK 465 GLY A -4 REMARK 465 ALA A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 TYR A 489 REMARK 465 ALA A 490 REMARK 465 GLY A 491 REMARK 465 GLU A 492 REMARK 465 VAL A 493 REMARK 465 VAL A 494 REMARK 465 ALA A 495 REMARK 465 LEU A 496 REMARK 465 GLY A 497 REMARK 465 THR A 498 REMARK 465 SER A 499 REMARK 465 ASP A 500 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 460 CG HIS A 460 CD2 0.062 REMARK 500 ARG A 461 CD ARG A 461 NE -0.105 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 ASP A 314 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 366 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 390 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 439 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 441 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 461 CD - NE - CZ ANGL. DEV. = 9.5 DEGREES REMARK 500 ARG A 461 NE - CZ - NH1 ANGL. DEV. = 9.0 DEGREES REMARK 500 ARG A 461 NE - CZ - NH2 ANGL. DEV. = -10.1 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 HIS A 63 89.01 -153.23 REMARK 500 GLU A 67 40.96 38.44 REMARK 500 MET A 71 59.57 -115.43 REMARK 500 THR A 73 -40.35 -147.05 REMARK 500 ARG A 74 114.81 92.35 REMARK 500 HIS A 244 71.74 29.40 REMARK 500 CYS A 324 86.46 -152.65 REMARK 500 ASP A 337 105.75 -163.14 REMARK 500 SER A 375 -49.62 -146.00 REMARK 500 ASN A 383 51.92 86.47 REMARK 500 PHE A 384 45.87 -152.42 REMARK 500 ASP A 394 -7.74 78.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 THR A 73 22.7 L L OUTSIDE RANGE 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 ZN A 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 322 OD1 REMARK 620 2 KCX A 155 OQ2 174.3 REMARK 620 3 HIS A 65 NE2 89.6 95.3 REMARK 620 4 HIS A 63 NE2 89.6 91.4 109.7 REMARK 620 N 1 2 3 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 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4GZ7 RELATED DB: PDB REMARK 900 RELATED ID: 4H01 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE DATABASE REFERENCE FOR THIS PROTEIN DOES NOT CURRENTLY REMARK 999 EXIST. DBREF 4H00 A -19 500 PDB 4H00 4H00 -19 500 SEQRES 1 A 520 GLY SER ALA GLY SER GLY THR ILE ASP ASP ASP ASP LYS SEQRES 2 A 520 SER PRO GLY ALA ARG GLY SER MET ALA GLU ALA GLY GLU SEQRES 3 A 520 ILE LEU ILE LYS GLY GLY LYS VAL VAL ASN GLU ASP CYS SEQRES 4 A 520 SER PHE PHE SER ASP VAL HIS ILE ARG GLY GLY LYS ILE SEQRES 5 A 520 VAL GLU VAL GLY PRO ASP LEU ARG VAL PRO PRO GLY ALA SEQRES 6 A 520 ARG VAL ILE ASP ALA THR ASP ARG LEU VAL ILE PRO GLY SEQRES 7 A 520 GLY ILE ASP THR HIS THR HIS MET GLU LEU ALA PHE MET SEQRES 8 A 520 GLY THR ARG ALA VAL ASP ASP PHE HIS ILE GLY THR LYS SEQRES 9 A 520 ALA ALA LEU ALA GLY GLY THR THR MET ILE LEU ASP PHE SEQRES 10 A 520 VAL MET THR GLN LYS GLY GLN SER LEU LEU GLU ALA TYR SEQRES 11 A 520 ASP LEU TRP ARG LYS THR ALA ASP PRO LYS VAL CYS CYS SEQRES 12 A 520 ASP TYR SER LEU HIS VAL ALA VAL THR TRP TRP SER ASP SEQRES 13 A 520 GLU VAL LYS ASP GLU MET ARG THR LEU ALA GLN GLU ARG SEQRES 14 A 520 GLY VAL ASN SER PHE KCX MET PHE MET ALA TYR LYS GLY SEQRES 15 A 520 LEU PHE MET LEU ARG ASP ASP GLU LEU TYR ALA VAL PHE SEQRES 16 A 520 SER HIS CYS LYS GLU VAL GLY ALA ILE ALA GLN VAL HIS SEQRES 17 A 520 ALA GLU ASN GLY ASP LEU ILE ALA GLU GLY ALA LYS LYS SEQRES 18 A 520 MET LEU SER LEU GLY ILE THR GLY PRO GLU GLY HIS GLU SEQRES 19 A 520 LEU CYS ARG PRO GLU ALA VAL GLU ALA GLU ALA THR GLN SEQRES 20 A 520 ARG ALA ILE THR ILE ALA SER ALA VAL ASN CYS PRO LEU SEQRES 21 A 520 TYR VAL VAL HIS VAL MET SER LYS SER ALA ALA ASP VAL SEQRES 22 A 520 VAL SER LYS ALA ARG LYS ASP GLY ARG VAL VAL PHE GLY SEQRES 23 A 520 GLU PRO ILE ALA ALA SER LEU GLY THR ASP GLY THR ASN SEQRES 24 A 520 TYR TRP HIS LYS ASP TRP ALA HIS ALA ALA GLN TYR VAL SEQRES 25 A 520 MET GLY PRO PRO LEU ARG PRO ASP PRO SER THR PRO GLY SEQRES 26 A 520 TYR LEU MET ASP LEU LEU ALA ASN ASP ASP LEU THR LEU SEQRES 27 A 520 THR GLY THR ASP ASN CYS THR PHE SER ARG CYS GLN LYS SEQRES 28 A 520 ALA LEU GLY LYS ASP ASP PHE THR ARG ILE PRO ASN GLY SEQRES 29 A 520 VAL ASN GLY VAL GLU ASP ARG MET SER VAL ILE TRP GLU SEQRES 30 A 520 LYS GLY VAL HIS SER GLY LYS MET ASP GLU ASN ARG PHE SEQRES 31 A 520 VAL ALA VAL THR SER SER ASN ALA ALA LYS ILE PHE ASN SEQRES 32 A 520 PHE TYR PRO GLN LYS GLY ARG ILE ALA LYS ASP SER ASP SEQRES 33 A 520 ALA ASP VAL VAL ILE TRP ASP PRO LYS THR THR ARG LYS SEQRES 34 A 520 ILE SER ALA GLN THR HIS HIS GLN ALA VAL ASP TYR ASN SEQRES 35 A 520 ILE PHE GLU GLY MET GLU CYS HIS GLY VAL PRO VAL VAL SEQRES 36 A 520 THR VAL SER ARG GLY ARG VAL VAL TYR GLU GLU GLY ARG SEQRES 37 A 520 LEU LYS VAL SER PRO GLY GLN GLY ARG PHE ILE HIS ARG SEQRES 38 A 520 GLN PRO PHE SER GLU PHE VAL TYR LYS ARG ILE ARG GLN SEQRES 39 A 520 ARG ASP GLU VAL GLY LYS PRO ALA VAL VAL ILE ARG GLU SEQRES 40 A 520 PRO TYR ALA GLY GLU VAL VAL ALA LEU GLY THR SER ASP MODRES 4H00 KCX A 155 LYS LYSINE NZ-CARBOXYLIC ACID HET KCX A 155 12 HET ZN A 601 1 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM ZN ZINC ION FORMUL 1 KCX C7 H14 N2 O4 FORMUL 2 ZN ZN 2+ FORMUL 3 HOH *206(H2 O) HELIX 1 1 ASP A 78 GLY A 89 1 12 HELIX 2 2 SER A 105 ASP A 118 1 14 HELIX 3 3 SER A 135 ARG A 149 1 15 HELIX 4 4 ARG A 167 GLY A 182 1 16 HELIX 5 5 ASN A 191 LEU A 205 1 15 HELIX 6 6 GLY A 209 CYS A 216 1 8 HELIX 7 7 PRO A 218 VAL A 236 1 19 HELIX 8 8 SER A 247 ASP A 260 1 14 HELIX 9 9 ILE A 269 THR A 275 1 7 HELIX 10 10 ASP A 276 HIS A 282 5 7 HELIX 11 11 ASP A 284 TYR A 291 1 8 HELIX 12 12 SER A 302 ASN A 313 1 12 HELIX 13 13 SER A 327 ALA A 332 1 6 HELIX 14 14 LEU A 333 LYS A 335 5 3 HELIX 15 15 ASP A 337 ILE A 341 5 5 HELIX 16 16 ASP A 350 VAL A 360 1 11 HELIX 17 17 ASP A 366 SER A 375 1 10 HELIX 18 18 SER A 375 ASN A 383 1 9 HELIX 19 19 SER A 465 GLY A 479 1 15 SHEET 1 A 4 LYS A 31 GLY A 36 0 SHEET 2 A 4 ASP A 24 ARG A 28 -1 N ASP A 24 O GLY A 36 SHEET 3 A 4 GLU A 6 LYS A 10 -1 N ILE A 7 O ILE A 27 SHEET 4 A 4 ARG A 46 ASP A 49 1 O ARG A 46 N LEU A 8 SHEET 1 B 7 SER A 20 PHE A 22 0 SHEET 2 B 7 LYS A 13 VAL A 15 -1 N VAL A 14 O PHE A 21 SHEET 3 B 7 LEU A 54 PRO A 57 1 O VAL A 55 N LYS A 13 SHEET 4 B 7 VAL A 399 LYS A 409 -1 O TRP A 402 N LEU A 54 SHEET 5 B 7 GLU A 428 SER A 438 -1 O VAL A 437 N VAL A 399 SHEET 6 B 7 ARG A 441 GLU A 445 -1 O ARG A 441 N SER A 438 SHEET 7 B 7 ARG A 448 LEU A 449 -1 O ARG A 448 N GLU A 445 SHEET 1 C 7 GLY A 59 THR A 64 0 SHEET 2 C 7 THR A 91 VAL A 98 1 O MET A 93 N ASP A 61 SHEET 3 C 7 ASP A 124 ALA A 130 1 O HIS A 128 N VAL A 98 SHEET 4 C 7 SER A 153 PHE A 157 1 O KCX A 155 N VAL A 129 SHEET 5 C 7 ILE A 184 HIS A 188 1 O GLN A 186 N PHE A 154 SHEET 6 C 7 LEU A 240 VAL A 245 1 O TYR A 241 N ALA A 185 SHEET 7 C 7 VAL A 264 PRO A 268 1 O PHE A 265 N VAL A 242 LINK C PHE A 154 N KCX A 155 1555 1555 1.32 LINK C KCX A 155 N MET A 156 1555 1555 1.34 LINK OD1 ASP A 322 ZN ZN A 601 1555 1555 2.14 LINK OQ2 KCX A 155 ZN ZN A 601 1555 1555 2.16 LINK NE2 HIS A 65 ZN ZN A 601 1555 1555 2.16 LINK NE2 HIS A 63 ZN ZN A 601 1555 1555 2.23 CISPEP 1 GLY A 294 PRO A 295 0 -2.80 CISPEP 2 TYR A 385 PRO A 386 0 -0.45 SITE 1 AC1 4 HIS A 63 HIS A 65 KCX A 155 ASP A 322 CRYST1 160.998 160.998 94.370 90.00 90.00 90.00 I 41 2 2 16 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 0.006211 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006211 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010597 0.00000