HEADER OXIDOREDUCTASE 15-FEB-13 3ZNQ TITLE IN VITRO AND IN VIVO INHIBITION OF HUMAN D-AMINO ACID OXIDASE: TITLE 2 REGULATION OF D-SERINE CONCENTRATION IN THE BRAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-AMINO-ACID OXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DAAO, DAMOX, DAO; COMPND 5 EC: 1.4.3.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS OXIDOREDUCTASE, NEUROTRANSMISSION EXPDTA X-RAY DIFFRACTION AUTHOR S.C.HOPKINS,M.L.R.HEFFERNAN,L.D.SARASWAT,C.A.BOWEN,L.MELNICK, AUTHOR 2 L.W.HARDY,M.A.ORSINI,M.S.ALLEN,P.KOCH,K.L.SPEAR,R.J.FOGLESONG, AUTHOR 3 M.SOUKRI,M.CHYTIL,Q.K.FANG,S.W.JONES,M.A.VARNEY,A.PANATIER, AUTHOR 4 S.H.R.OLIET,L.POLLEGIONI,L.PIUBELLI,G.MOLLA,M.NARDINI,T.H.LARGE REVDAT 4 20-DEC-23 3ZNQ 1 REMARK REVDAT 3 04-APR-18 3ZNQ 1 REMARK REVDAT 2 22-MAY-13 3ZNQ 1 JRNL REVDAT 1 15-MAY-13 3ZNQ 0 JRNL AUTH S.C.HOPKINS,M.L.R.HEFFERNAN,L.D.SARASWAT,C.A.BOWEN, JRNL AUTH 2 L.MELNICK,L.W.HARDY,M.A.ORSINI,M.S.ALLEN,P.KOCH,K.L.SPEAR, JRNL AUTH 3 R.J.FOGLESONG,M.SOUKRI,M.CHYTIL,Q.K.FANG,S.W.JONES, JRNL AUTH 4 M.A.VARNEY,A.PANATIER,S.H.R.OLIET,L.POLLEGIONI,L.PIUBELLI, JRNL AUTH 5 G.MOLLA,M.NARDINI,T.H.LARGE JRNL TITL STRUCTURAL, KINETIC, AND PHARMACODYNAMIC MECHANISMS OF JRNL TITL 2 D-AMINO ACID OXIDASE INHIBITION BY SMALL MOLECULES. JRNL REF J.MED.CHEM. V. 56 3710 2013 JRNL REFN ISSN 0022-2623 JRNL PMID 23631755 JRNL DOI 10.1021/JM4002583 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.1 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.1 REMARK 3 NUMBER OF REFLECTIONS : 18907 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 966 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.75 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.90 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.13 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2325 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2514 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2196 REMARK 3 BIN R VALUE (WORKING SET) : 0.2502 REMARK 3 BIN FREE R VALUE : 0.2701 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.55 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 129 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5438 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 125 REMARK 3 SOLVENT ATOMS : 52 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 71.94 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 91.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.44580 REMARK 3 B22 (A**2) : -6.44580 REMARK 3 B33 (A**2) : 12.89150 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.559 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.391 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.882 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5766 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7871 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1920 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 169 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 836 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5766 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 720 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 6329 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.05 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.28 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 21.70 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: A1 - A357 REMARK 3 ORIGIN FOR THE GROUP (A): -14.7523 6.5015 14.6195 REMARK 3 T TENSOR REMARK 3 T11: -0.1442 T22: -0.2011 REMARK 3 T33: -0.2658 T12: 0.0637 REMARK 3 T13: -0.1138 T23: -0.0505 REMARK 3 L TENSOR REMARK 3 L11: 3.4980 L22: 3.1029 REMARK 3 L33: 8.1777 L12: -1.6633 REMARK 3 L13: -2.8108 L23: 2.7613 REMARK 3 S TENSOR REMARK 3 S11: -0.0867 S12: -0.2501 S13: -0.2611 REMARK 3 S21: -0.2785 S22: -0.3725 S23: 0.4117 REMARK 3 S31: -1.0488 S32: -0.3604 S33: 0.4592 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: B1 - B355 REMARK 3 ORIGIN FOR THE GROUP (A): 7.3093 32.5094 19.3979 REMARK 3 T TENSOR REMARK 3 T11: 0.1355 T22: -0.0880 REMARK 3 T33: -0.3899 T12: -0.4144 REMARK 3 T13: 0.0593 T23: -0.1380 REMARK 3 L TENSOR REMARK 3 L11: 3.2919 L22: 4.9133 REMARK 3 L33: 5.0515 L12: 2.9125 REMARK 3 L13: -0.5094 L23: 0.5156 REMARK 3 S TENSOR REMARK 3 S11: 0.3626 S12: -0.5387 S13: 0.3142 REMARK 3 S21: -0.0661 S22: -0.3964 S23: 0.0038 REMARK 3 S31: -0.6702 S32: 0.1179 S33: 0.0339 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: POOR DENSITY IS PRESENT FOR RESIDUES REMARK 3 A25, A26, A27, A28, A297, A302, A335, A336, A337, A338, B25, B26, REMARK 3 B27, B28, B29, B30, B56, B57, B58, B59, B99, B100, B101, B174, REMARK 3 B175, B194,B195, B196, B197, B220, B221, B283, B284, B285, B286, REMARK 3 B295, B296, B297,B298, B299, B300, B337, B338. DISORDERED REMARK 3 REGIONS WERE MODELED STEREOCHEMICALLY. FINAL STRUCTURE HAS NO REMARK 3 RESIDUES IN THE DISALLOWED REGION OF THE RAMACHANDRAN PLOT AS REMARK 3 DEFINED IN THE CCP4 PROCHECK PROGRAM. REMARK 4 REMARK 4 3ZNQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1290055843. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18932 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 28.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.4 REMARK 200 DATA REDUNDANCY : 3.850 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 75.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.85 REMARK 200 R MERGE FOR SHELL (I) : 0.54000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2DU8 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 125.78133 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 62.89067 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 62.89067 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 125.78133 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 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 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 6400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 LEU A 339 REMARK 465 SER A 340 REMARK 465 ARG A 341 REMARK 465 MET A 342 REMARK 465 PRO A 343 REMARK 465 PRO A 344 REMARK 465 SER A 345 REMARK 465 HIS A 346 REMARK 465 LEU A 347 REMARK 465 LEU B 339 REMARK 465 SER B 340 REMARK 465 ARG B 341 REMARK 465 MET B 342 REMARK 465 PRO B 343 REMARK 465 PRO B 344 REMARK 465 SER B 345 REMARK 465 HIS B 346 REMARK 465 LEU B 347 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 NE ARG A 283 O2 SS8 A 357 2.14 REMARK 500 REMARK 500 REMARK: NULL 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 PRO A 126 CD PRO A 126 N 0.156 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 LEU A 56 CB - CA - C ANGL. DEV. = -28.1 DEGREES REMARK 500 LEU A 56 N - CA - C ANGL. DEV. = 20.0 DEGREES REMARK 500 TYR B 55 CB - CA - C ANGL. DEV. = 18.8 DEGREES REMARK 500 LEU B 56 CB - CA - C ANGL. DEV. = -17.1 DEGREES REMARK 500 ASN B 60 CB - CA - C ANGL. DEV. = -15.8 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 20 -75.22 -56.79 REMARK 500 GLU A 21 9.36 -52.68 REMARK 500 TYR A 23 82.82 -152.81 REMARK 500 HIS A 24 -32.19 -136.54 REMARK 500 GLN A 53 114.49 -169.28 REMARK 500 TYR A 55 -8.91 -53.04 REMARK 500 LEU A 56 -3.39 76.31 REMARK 500 SER A 136 -155.88 -119.99 REMARK 500 ARG A 162 145.58 -170.48 REMARK 500 GLU A 249 52.48 -90.55 REMARK 500 LEU A 266 -73.85 -76.18 REMARK 500 ASN A 272 56.65 -104.70 REMARK 500 SER A 301 -158.36 58.43 REMARK 500 ASN A 302 53.08 -99.89 REMARK 500 ASN A 308 78.10 -153.19 REMARK 500 HIS A 319 -48.04 -25.89 REMARK 500 LYS A 337 -74.02 -72.75 REMARK 500 HIS B 24 -76.17 -97.14 REMARK 500 GLN B 53 110.83 -166.51 REMARK 500 TYR B 55 -36.06 -26.37 REMARK 500 LEU B 56 -7.39 76.59 REMARK 500 ASP B 58 109.42 -58.11 REMARK 500 PRO B 59 9.20 -65.54 REMARK 500 ALA B 101 83.98 -66.00 REMARK 500 SER B 136 -156.50 -133.40 REMARK 500 GLU B 140 107.66 -58.86 REMARK 500 LYS B 142 -72.26 -55.47 REMARK 500 THR B 233 -75.33 -54.56 REMARK 500 TRP B 260 -71.65 -57.28 REMARK 500 LYS B 271 -1.02 -58.24 REMARK 500 THR B 298 39.99 -154.09 REMARK 500 ASN B 308 81.66 -165.77 REMARK 500 HIS B 319 -57.90 -24.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 172 0.21 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 356 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SS8 A 357 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD B 356 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZNN RELATED DB: PDB REMARK 900 IN VITRO AND IN VIVO INHIBITION OF HUMAN D-AMINO ACID OXIDASE: REMARK 900 REGULATION OF D-SERINE CONCENTRATION IN THE BRAIN REMARK 900 RELATED ID: 3ZNO RELATED DB: PDB REMARK 900 IN VITRO AND IN VIVO INHIBITION OF HUMAN D-AMINO ACID OXIDASE: REMARK 900 REGULATION OF D-SERINE CONCENTRATION IN THE BRAIN REMARK 900 RELATED ID: 3ZNP RELATED DB: PDB REMARK 900 IN VITRO AND IN VIVO INHIBITION OF HUMAN D-AMINO ACID OXIDASE: REMARK 900 REGULATION OF D-SERINE CONCENTRATION IN THE BRAIN DBREF 3ZNQ A 1 347 UNP P14920 OXDA_HUMAN 1 347 DBREF 3ZNQ B 1 347 UNP P14920 OXDA_HUMAN 1 347 SEQRES 1 A 347 MET ARG VAL VAL VAL ILE GLY ALA GLY VAL ILE GLY LEU SEQRES 2 A 347 SER THR ALA LEU CYS ILE HIS GLU ARG TYR HIS SER VAL SEQRES 3 A 347 LEU GLN PRO LEU ASP ILE LYS VAL TYR ALA ASP ARG PHE SEQRES 4 A 347 THR PRO LEU THR THR THR ASP VAL ALA ALA GLY LEU TRP SEQRES 5 A 347 GLN PRO TYR LEU SER ASP PRO ASN ASN PRO GLN GLU ALA SEQRES 6 A 347 ASP TRP SER GLN GLN THR PHE ASP TYR LEU LEU SER HIS SEQRES 7 A 347 VAL HIS SER PRO ASN ALA GLU ASN LEU GLY LEU PHE LEU SEQRES 8 A 347 ILE SER GLY TYR ASN LEU PHE HIS GLU ALA ILE PRO ASP SEQRES 9 A 347 PRO SER TRP LYS ASP THR VAL LEU GLY PHE ARG LYS LEU SEQRES 10 A 347 THR PRO ARG GLU LEU ASP MET PHE PRO ASP TYR GLY TYR SEQRES 11 A 347 GLY TRP PHE HIS THR SER LEU ILE LEU GLU GLY LYS ASN SEQRES 12 A 347 TYR LEU GLN TRP LEU THR GLU ARG LEU THR GLU ARG GLY SEQRES 13 A 347 VAL LYS PHE PHE GLN ARG LYS VAL GLU SER PHE GLU GLU SEQRES 14 A 347 VAL ALA ARG GLU GLY ALA ASP VAL ILE VAL ASN CYS THR SEQRES 15 A 347 GLY VAL TRP ALA GLY ALA LEU GLN ARG ASP PRO LEU LEU SEQRES 16 A 347 GLN PRO GLY ARG GLY GLN ILE MET LYS VAL ASP ALA PRO SEQRES 17 A 347 TRP MET LYS HIS PHE ILE LEU THR HIS ASP PRO GLU ARG SEQRES 18 A 347 GLY ILE TYR ASN SER PRO TYR ILE ILE PRO GLY THR GLN SEQRES 19 A 347 THR VAL THR LEU GLY GLY ILE PHE GLN LEU GLY ASN TRP SEQRES 20 A 347 SER GLU LEU ASN ASN ILE GLN ASP HIS ASN THR ILE TRP SEQRES 21 A 347 GLU GLY CYS CYS ARG LEU GLU PRO THR LEU LYS ASN ALA SEQRES 22 A 347 ARG ILE ILE GLY GLU ARG THR GLY PHE ARG PRO VAL ARG SEQRES 23 A 347 PRO GLN ILE ARG LEU GLU ARG GLU GLN LEU ARG THR GLY SEQRES 24 A 347 PRO SER ASN THR GLU VAL ILE HIS ASN TYR GLY HIS GLY SEQRES 25 A 347 GLY TYR GLY LEU THR ILE HIS TRP GLY CYS ALA LEU GLU SEQRES 26 A 347 ALA ALA LYS LEU PHE GLY ARG ILE LEU GLU GLU LYS LYS SEQRES 27 A 347 LEU SER ARG MET PRO PRO SER HIS LEU SEQRES 1 B 347 MET ARG VAL VAL VAL ILE GLY ALA GLY VAL ILE GLY LEU SEQRES 2 B 347 SER THR ALA LEU CYS ILE HIS GLU ARG TYR HIS SER VAL SEQRES 3 B 347 LEU GLN PRO LEU ASP ILE LYS VAL TYR ALA ASP ARG PHE SEQRES 4 B 347 THR PRO LEU THR THR THR ASP VAL ALA ALA GLY LEU TRP SEQRES 5 B 347 GLN PRO TYR LEU SER ASP PRO ASN ASN PRO GLN GLU ALA SEQRES 6 B 347 ASP TRP SER GLN GLN THR PHE ASP TYR LEU LEU SER HIS SEQRES 7 B 347 VAL HIS SER PRO ASN ALA GLU ASN LEU GLY LEU PHE LEU SEQRES 8 B 347 ILE SER GLY TYR ASN LEU PHE HIS GLU ALA ILE PRO ASP SEQRES 9 B 347 PRO SER TRP LYS ASP THR VAL LEU GLY PHE ARG LYS LEU SEQRES 10 B 347 THR PRO ARG GLU LEU ASP MET PHE PRO ASP TYR GLY TYR SEQRES 11 B 347 GLY TRP PHE HIS THR SER LEU ILE LEU GLU GLY LYS ASN SEQRES 12 B 347 TYR LEU GLN TRP LEU THR GLU ARG LEU THR GLU ARG GLY SEQRES 13 B 347 VAL LYS PHE PHE GLN ARG LYS VAL GLU SER PHE GLU GLU SEQRES 14 B 347 VAL ALA ARG GLU GLY ALA ASP VAL ILE VAL ASN CYS THR SEQRES 15 B 347 GLY VAL TRP ALA GLY ALA LEU GLN ARG ASP PRO LEU LEU SEQRES 16 B 347 GLN PRO GLY ARG GLY GLN ILE MET LYS VAL ASP ALA PRO SEQRES 17 B 347 TRP MET LYS HIS PHE ILE LEU THR HIS ASP PRO GLU ARG SEQRES 18 B 347 GLY ILE TYR ASN SER PRO TYR ILE ILE PRO GLY THR GLN SEQRES 19 B 347 THR VAL THR LEU GLY GLY ILE PHE GLN LEU GLY ASN TRP SEQRES 20 B 347 SER GLU LEU ASN ASN ILE GLN ASP HIS ASN THR ILE TRP SEQRES 21 B 347 GLU GLY CYS CYS ARG LEU GLU PRO THR LEU LYS ASN ALA SEQRES 22 B 347 ARG ILE ILE GLY GLU ARG THR GLY PHE ARG PRO VAL ARG SEQRES 23 B 347 PRO GLN ILE ARG LEU GLU ARG GLU GLN LEU ARG THR GLY SEQRES 24 B 347 PRO SER ASN THR GLU VAL ILE HIS ASN TYR GLY HIS GLY SEQRES 25 B 347 GLY TYR GLY LEU THR ILE HIS TRP GLY CYS ALA LEU GLU SEQRES 26 B 347 ALA ALA LYS LEU PHE GLY ARG ILE LEU GLU GLU LYS LYS SEQRES 27 B 347 LEU SER ARG MET PRO PRO SER HIS LEU HET FAD A 356 53 HET SS8 A 357 19 HET FAD B 356 53 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM SS8 3-PHENETHYL-4H-FURO[3,2-B]PYRROLE-5-CARBOXYLIC ACID FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 SS8 C15 H11 N O3 FORMUL 6 HOH *52(H2 O) HELIX 1 1 GLY A 9 GLU A 21 1 13 HELIX 2 2 ASN A 61 SER A 77 1 17 HELIX 3 3 PRO A 105 THR A 110 5 6 HELIX 4 4 THR A 118 ASP A 123 1 6 HELIX 5 5 GLU A 140 ARG A 155 1 16 HELIX 6 6 SER A 166 GLU A 173 1 8 HELIX 7 7 THR A 182 LEU A 189 5 8 HELIX 8 8 ASN A 252 GLU A 267 1 16 HELIX 9 9 PRO A 268 ALA A 273 5 6 HELIX 10 10 HIS A 311 GLY A 313 5 3 HELIX 11 11 TYR A 314 GLU A 336 1 23 HELIX 12 12 GLY B 9 TYR B 23 1 15 HELIX 13 13 THR B 43 VAL B 47 5 5 HELIX 14 14 ASN B 61 HIS B 80 1 20 HELIX 15 15 SER B 106 THR B 110 5 5 HELIX 16 16 THR B 118 ASP B 123 1 6 HELIX 17 17 GLU B 140 ARG B 155 1 16 HELIX 18 18 SER B 166 GLU B 173 1 8 HELIX 19 19 THR B 182 LEU B 189 5 8 HELIX 20 20 ASN B 252 GLU B 267 1 16 HELIX 21 21 PRO B 268 ALA B 273 5 6 HELIX 22 22 HIS B 311 GLY B 313 5 3 HELIX 23 23 TYR B 314 LYS B 337 1 24 SHEET 1 AA 6 LYS A 158 GLN A 161 0 SHEET 2 AA 6 ASP A 31 ALA A 36 1 O ILE A 32 N LYS A 158 SHEET 3 AA 6 ARG A 2 ILE A 6 1 O VAL A 3 N LYS A 33 SHEET 4 AA 6 VAL A 177 ASN A 180 1 O VAL A 177 N VAL A 4 SHEET 5 AA 6 THR A 303 HIS A 307 1 O GLU A 304 N ILE A 178 SHEET 6 AA 6 ARG A 293 LEU A 296 -1 O GLU A 294 N VAL A 305 SHEET 1 AB 8 LEU A 112 LYS A 116 0 SHEET 2 AB 8 TYR A 130 LEU A 139 -1 O PHE A 133 N ARG A 115 SHEET 3 AB 8 LEU A 89 PHE A 98 -1 O PHE A 90 N ILE A 138 SHEET 4 AB 8 PHE A 213 HIS A 217 1 O PHE A 213 N TYR A 95 SHEET 5 AB 8 TYR A 228 PRO A 231 -1 O ILE A 229 N ILE A 214 SHEET 6 AB 8 VAL A 236 GLY A 239 -1 O THR A 237 N ILE A 230 SHEET 7 AB 8 GLN A 196 VAL A 205 -1 O MET A 203 N LEU A 238 SHEET 8 AB 8 GLN A 243 LEU A 244 1 O GLN A 243 N ARG A 199 SHEET 1 AC 8 LEU A 112 LYS A 116 0 SHEET 2 AC 8 TYR A 130 LEU A 139 -1 O PHE A 133 N ARG A 115 SHEET 3 AC 8 LEU A 89 PHE A 98 -1 O PHE A 90 N ILE A 138 SHEET 4 AC 8 PHE A 213 HIS A 217 1 O PHE A 213 N TYR A 95 SHEET 5 AC 8 TYR A 228 PRO A 231 -1 O ILE A 229 N ILE A 214 SHEET 6 AC 8 VAL A 236 GLY A 239 -1 O THR A 237 N ILE A 230 SHEET 7 AC 8 GLN A 196 VAL A 205 -1 O MET A 203 N LEU A 238 SHEET 8 AC 8 ILE A 275 VAL A 285 -1 N ILE A 276 O LYS A 204 SHEET 1 AD 2 GLN A 243 LEU A 244 0 SHEET 2 AD 2 GLN A 196 VAL A 205 1 O ARG A 199 N GLN A 243 SHEET 1 BA 6 LYS B 158 GLN B 161 0 SHEET 2 BA 6 ILE B 32 ALA B 36 1 O ILE B 32 N LYS B 158 SHEET 3 BA 6 VAL B 3 ILE B 6 1 O VAL B 3 N LYS B 33 SHEET 4 BA 6 VAL B 177 ASN B 180 1 O VAL B 177 N VAL B 4 SHEET 5 BA 6 GLU B 304 HIS B 307 1 O GLU B 304 N ILE B 178 SHEET 6 BA 6 ARG B 293 GLN B 295 -1 O GLU B 294 N VAL B 305 SHEET 1 BB 8 LEU B 112 LYS B 116 0 SHEET 2 BB 8 TYR B 130 LEU B 139 -1 O PHE B 133 N ARG B 115 SHEET 3 BB 8 LEU B 89 PHE B 98 -1 O PHE B 90 N ILE B 138 SHEET 4 BB 8 PHE B 213 THR B 216 1 O PHE B 213 N TYR B 95 SHEET 5 BB 8 TYR B 228 PRO B 231 -1 O ILE B 229 N ILE B 214 SHEET 6 BB 8 VAL B 236 GLY B 239 -1 O THR B 237 N ILE B 230 SHEET 7 BB 8 GLN B 196 ASP B 206 -1 O MET B 203 N LEU B 238 SHEET 8 BB 8 GLN B 243 LEU B 244 1 N GLN B 243 O ARG B 199 SHEET 1 BC 8 LEU B 112 LYS B 116 0 SHEET 2 BC 8 TYR B 130 LEU B 139 -1 O PHE B 133 N ARG B 115 SHEET 3 BC 8 LEU B 89 PHE B 98 -1 O PHE B 90 N ILE B 138 SHEET 4 BC 8 PHE B 213 THR B 216 1 O PHE B 213 N TYR B 95 SHEET 5 BC 8 TYR B 228 PRO B 231 -1 O ILE B 229 N ILE B 214 SHEET 6 BC 8 VAL B 236 GLY B 239 -1 O THR B 237 N ILE B 230 SHEET 7 BC 8 GLN B 196 ASP B 206 -1 O MET B 203 N LEU B 238 SHEET 8 BC 8 ARG B 274 VAL B 285 -1 O ARG B 274 N ASP B 206 SHEET 1 BD 2 GLN B 243 LEU B 244 0 SHEET 2 BD 2 GLN B 196 ASP B 206 1 O ARG B 199 N GLN B 243 CISPEP 1 THR A 40 PRO A 41 0 8.73 CISPEP 2 THR B 40 PRO B 41 0 6.03 SITE 1 AC1 31 ILE A 6 GLY A 7 ALA A 8 GLY A 9 SITE 2 AC1 31 VAL A 10 ILE A 11 ALA A 36 ASP A 37 SITE 3 AC1 31 ARG A 38 THR A 43 THR A 44 THR A 45 SITE 4 AC1 31 ALA A 48 GLY A 50 LEU A 51 ARG A 162 SITE 5 AC1 31 VAL A 164 CYS A 181 THR A 182 GLY A 183 SITE 6 AC1 31 TRP A 185 GLY A 281 ARG A 283 HIS A 311 SITE 7 AC1 31 GLY A 312 GLY A 313 TYR A 314 GLY A 315 SITE 8 AC1 31 LEU A 316 THR A 317 SS8 A 357 SITE 1 AC2 10 GLN A 53 PRO A 54 LEU A 56 HIS A 217 SITE 2 AC2 10 TYR A 224 TYR A 228 ILE A 230 ARG A 283 SITE 3 AC2 10 GLY A 313 FAD A 356 SITE 1 AC3 31 GLY B 7 ALA B 8 GLY B 9 VAL B 10 SITE 2 AC3 31 ILE B 11 ALA B 36 ASP B 37 ARG B 38 SITE 3 AC3 31 THR B 43 THR B 44 THR B 45 ALA B 48 SITE 4 AC3 31 ALA B 49 GLY B 50 LEU B 51 ARG B 162 SITE 5 AC3 31 VAL B 164 CYS B 181 THR B 182 GLY B 183 SITE 6 AC3 31 TRP B 185 ILE B 202 GLY B 281 ARG B 283 SITE 7 AC3 31 PRO B 284 GLY B 312 GLY B 313 TYR B 314 SITE 8 AC3 31 GLY B 315 LEU B 316 THR B 317 CRYST1 84.471 84.471 188.672 90.00 90.00 120.00 P 32 2 1 12 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 0.011838 0.006835 0.000000 0.00000 SCALE2 0.000000 0.013670 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005300 0.00000