HEADER HYDROLASE 06-SEP-12 4GZ7 TITLE THE CRYSTAL STRUCTURE OF APO-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 CARBOXYLATION, ZINC BINDING, ALPHA-BETA BARREL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.C.HSIEN,M.C.CHEN,C.C.HSU,S.I.CHAN,Y.S.YANG,C.J.CHEN REVDAT 2 20-MAR-24 4GZ7 1 REMARK REVDAT 1 11-SEP-13 4GZ7 0 JRNL AUTH Y.C.HSIEN,M.C.CHEN,C.C.HSU,S.I.CHAN,Y.S.YANG,C.J.CHEN JRNL TITL LYSINE CARBOXYLATION: METAL AND STRUCTURE 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,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN 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 (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 39580 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2094 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) : 2713 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1500 REMARK 3 BIN FREE R VALUE SET COUNT : 161 REMARK 3 BIN FREE R VALUE : 0.1830 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3805 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 232 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.00000 REMARK 3 B22 (A**2) : -1.00000 REMARK 3 B33 (A**2) : 2.01000 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): 0.136 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.127 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.077 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.678 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3924 ; 0.024 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5310 ; 2.041 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 491 ; 6.394 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 175 ;35.967 ;23.543 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 652 ;13.679 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;16.444 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 579 ; 0.164 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3000 ; 0.011 ; 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 : 1.40 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 4GZ7 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 DEPOSITION ID IS D_1000074817. 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 REMARK 200 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44645 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 44886.0 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 11.800 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04500 REMARK 200 FOR THE DATA SET : 25.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.50 REMARK 200 R MERGE FOR SHELL (I) : 0.30000 REMARK 200 R SYM FOR SHELL (I) : 0.41000 REMARK 200 FOR SHELL : 11.80 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 (%): 55.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M LITHIUM SULFATE MONOHYDRAT, PEG REMARK 280 4000 12% W/V, ISO-PROPANOL 2% V/V, N-(2-ACETAMIDO)-IMINODIACETIC REMARK 280 ACID (ADA) BUFFER, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 80.41150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 80.41150 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.27350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 80.41150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 23.63675 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 80.41150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 70.91025 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 80.41150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 70.91025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 80.41150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 23.63675 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 80.41150 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 80.41150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.27350 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 80.41150 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 80.41150 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 47.27350 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 80.41150 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 70.91025 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 80.41150 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 23.63675 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 80.41150 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 23.63675 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 80.41150 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 70.91025 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 80.41150 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 80.41150 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 47.27350 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: 7040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 916 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 917 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 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 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: 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 ND1 HIS A 213 N2 MHA A 603 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 HIS A 188 CG HIS A 188 CD2 0.056 REMARK 500 HIS A 282 CG HIS A 282 CD2 0.055 REMARK 500 HIS A 460 CG HIS A 460 CD2 0.103 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 LYS A 13 CD - CE - NZ ANGL. DEV. = 14.0 DEGREES REMARK 500 ARG A 46 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 114 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 167 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 228 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 390 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 448 NE - CZ - NH1 ANGL. DEV. = 3.4 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 89.03 -151.04 REMARK 500 TYR A 160 59.92 74.94 REMARK 500 HIS A 244 66.57 34.02 REMARK 500 CYS A 324 83.28 -154.45 REMARK 500 ASP A 337 107.14 -161.05 REMARK 500 SER A 375 -47.43 -145.55 REMARK 500 ASN A 383 50.40 86.89 REMARK 500 PHE A 384 48.00 -148.01 REMARK 500 ASP A 394 -9.62 83.12 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 MHA A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MHA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MHA A 603 REMARK 999 REMARK 999 SEQUENCE REMARK 999 A SEQUENCE DATABASE REFERENCE FOR THIS PROTEIN DOES NOT CURRENTLY REMARK 999 EXIST. DBREF 4GZ7 A 1 500 PDB 4GZ7 4GZ7 1 500 SEQRES 1 A 500 MET ALA GLU ALA GLY GLU ILE LEU ILE LYS GLY GLY LYS SEQRES 2 A 500 VAL VAL ASN GLU ASP CYS SER PHE PHE SER ASP VAL HIS SEQRES 3 A 500 ILE ARG GLY GLY LYS ILE VAL GLU VAL GLY PRO ASP LEU SEQRES 4 A 500 ARG VAL PRO PRO GLY ALA ARG VAL ILE ASP ALA THR ASP SEQRES 5 A 500 ARG LEU VAL ILE PRO GLY GLY ILE ASP THR HIS THR HIS SEQRES 6 A 500 MET GLU LEU ALA PHE MET GLY THR ARG ALA VAL ASP ASP SEQRES 7 A 500 PHE HIS ILE GLY THR LYS ALA ALA LEU ALA GLY GLY THR SEQRES 8 A 500 THR MET ILE LEU ASP PHE VAL MET THR GLN LYS GLY GLN SEQRES 9 A 500 SER LEU LEU GLU ALA TYR ASP LEU TRP ARG LYS THR ALA SEQRES 10 A 500 ASP PRO LYS VAL CYS CYS ASP TYR SER LEU HIS VAL ALA SEQRES 11 A 500 VAL THR TRP TRP SER ASP GLU VAL LYS ASP GLU MET ARG SEQRES 12 A 500 THR LEU ALA GLN GLU ARG GLY VAL ASN SER PHE LYS MET SEQRES 13 A 500 PHE MET ALA TYR LYS GLY LEU PHE MET LEU ARG ASP ASP SEQRES 14 A 500 GLU LEU TYR ALA VAL PHE SER HIS CYS LYS GLU VAL GLY SEQRES 15 A 500 ALA ILE ALA GLN VAL HIS ALA GLU ASN GLY ASP LEU ILE SEQRES 16 A 500 ALA GLU GLY ALA LYS LYS MET LEU SER LEU GLY ILE THR SEQRES 17 A 500 GLY PRO GLU GLY HIS GLU LEU CYS ARG PRO GLU ALA VAL SEQRES 18 A 500 GLU ALA GLU ALA THR GLN ARG ALA ILE THR ILE ALA SER SEQRES 19 A 500 ALA VAL ASN CYS PRO LEU TYR VAL VAL HIS VAL MET SER SEQRES 20 A 500 LYS SER ALA ALA ASP VAL VAL SER LYS ALA ARG LYS ASP SEQRES 21 A 500 GLY ARG VAL VAL PHE GLY GLU PRO ILE ALA ALA SER LEU SEQRES 22 A 500 GLY THR ASP GLY THR ASN TYR TRP HIS LYS ASP TRP ALA SEQRES 23 A 500 HIS ALA ALA GLN TYR VAL MET GLY PRO PRO LEU ARG PRO SEQRES 24 A 500 ASP PRO SER THR PRO GLY TYR LEU MET ASP LEU LEU ALA SEQRES 25 A 500 ASN ASP ASP LEU THR LEU THR GLY THR ASP ASN CYS THR SEQRES 26 A 500 PHE SER ARG CYS GLN LYS ALA LEU GLY LYS ASP ASP PHE SEQRES 27 A 500 THR ARG ILE PRO ASN GLY VAL ASN GLY VAL GLU ASP ARG SEQRES 28 A 500 MET SER VAL ILE TRP GLU LYS GLY VAL HIS SER GLY LYS SEQRES 29 A 500 MET ASP GLU ASN ARG PHE VAL ALA VAL THR SER SER ASN SEQRES 30 A 500 ALA ALA LYS ILE PHE ASN PHE TYR PRO GLN LYS GLY ARG SEQRES 31 A 500 ILE ALA LYS ASP SER ASP ALA ASP VAL VAL ILE TRP ASP SEQRES 32 A 500 PRO LYS THR THR ARG LYS ILE SER ALA GLN THR HIS HIS SEQRES 33 A 500 GLN ALA VAL ASP TYR ASN ILE PHE GLU GLY MET GLU CYS SEQRES 34 A 500 HIS GLY VAL PRO VAL VAL THR VAL SER ARG GLY ARG VAL SEQRES 35 A 500 VAL TYR GLU GLU GLY ARG LEU LYS VAL SER PRO GLY GLN SEQRES 36 A 500 GLY ARG PHE ILE HIS ARG GLN PRO PHE SER GLU PHE VAL SEQRES 37 A 500 TYR LYS ARG ILE ARG GLN ARG ASP GLU VAL GLY LYS PRO SEQRES 38 A 500 ALA VAL VAL ILE ARG GLU PRO TYR ALA GLY GLU VAL VAL SEQRES 39 A 500 ALA LEU GLY THR SER ASP HET MHA A 601 13 HET MHA A 602 13 HET MHA A 603 13 HETNAM MHA (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID HETSYN MHA N-(2-ACETAMIDO)IMINODIACETIC ACID FORMUL 2 MHA 3(C6 H10 N2 O5) FORMUL 5 HOH *232(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 GLN A 290 1 7 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 HIS A 26 O VAL A 33 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 ILE A 48 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 SER A 153 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 SHEET 1 D 2 ALA A 69 PHE A 70 0 SHEET 2 D 2 THR A 73 ARG A 74 -1 O THR A 73 N PHE A 70 CISPEP 1 GLY A 294 PRO A 295 0 -5.74 CISPEP 2 TYR A 385 PRO A 386 0 4.00 SITE 1 AC1 12 HIS A 65 LEU A 68 HIS A 244 MET A 293 SITE 2 AC1 12 GLY A 294 ASP A 322 ASN A 343 GLY A 344 SITE 3 AC1 12 MHA A 602 HOH A 758 HOH A 803 HOH A 810 SITE 1 AC2 11 PHE A 70 TYR A 160 PHE A 164 THR A 339 SITE 2 AC2 11 ILE A 341 PRO A 342 ASN A 343 MHA A 601 SITE 3 AC2 11 MHA A 603 HOH A 813 HOH A 851 SITE 1 AC3 12 ILE A 195 ALA A 199 HIS A 213 CYS A 216 SITE 2 AC3 12 ARG A 217 PHE A 338 THR A 339 ASN A 343 SITE 3 AC3 12 MHA A 602 HOH A 837 HOH A 864 HOH A 884 CRYST1 160.823 160.823 94.547 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 0.006218 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006218 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010577 0.00000