HEADER HYDROLASE 07-JUL-14 4QTG TITLE CRYSTAL STRUCTURE OF 5-CARBOXYVANILLATE DECARBOXYLASE LIGW2 (TARGET TITLE 2 EFI-505250) FROM NOVOSPHINGOBIUM AROMATICIVORANS DSM 12444 COMPLEXED TITLE 3 WITH MANGANESE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5-CARBOXYVANILLATE DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOVOSPHINGOBIUM AROMATICIVORANS; SOURCE 3 ORGANISM_TAXID: 279238; SOURCE 4 STRAIN: DSM 12444 / F199; SOURCE 5 GENE: SARO_0799; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET KEYWDS HYDROLASE, AMIDOHYDROLASE, METAL BINDING SITE, DECARBOXYLASE, LIGW2, KEYWDS 2 MANGANESE, ENZYME FUNCTION INITIATIVE, EFI, STRUCTURAL GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR Y.PATSKOVSKY,A.VLADIMIROVA,R.TORO,R.BHOSLE,J.A.GERLT,F.M.RAUSHEL, AUTHOR 2 S.C.ALMO REVDAT 2 20-SEP-23 4QTG 1 REMARK SEQADV LINK REVDAT 1 20-AUG-14 4QTG 0 JRNL AUTH Y.PATSKOVSKY,A.VLADIMIROVA,R.TORO,R.BHOSLE,F.M.RAUSHEL, JRNL AUTH 2 S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF 5-CARBOXYVANILLATE DECARBOXYLASE LIGW2 JRNL TITL 2 FROM NOVOSPHINGOBIUM AROMATICIVORANS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.47 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0071 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) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 118586 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) : 0.122 REMARK 3 R VALUE (WORKING SET) : 0.120 REMARK 3 FREE R VALUE : 0.164 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3732 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) : 1.47 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8156 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.56 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 282 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5559 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 786 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.58000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : -0.32000 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): 0.059 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.057 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.738 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5786 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5497 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7835 ; 1.770 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12661 ; 1.009 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 721 ; 6.242 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 282 ;34.286 ;23.688 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1015 ;12.646 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 47 ;17.151 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 840 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6565 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1342 ; 0.002 ; 0.020 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): 2812 ; 2.503 ; 2.469 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2811 ; 2.496 ; 2.468 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3518 ; 2.749 ; 3.478 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3519 ; 2.752 ; 3.479 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2974 ; 5.703 ; 3.001 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2974 ; 5.703 ; 3.001 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4305 ; 5.513 ; 4.022 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 7527 ; 4.624 ;10.274 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 7528 ; 4.624 ;10.275 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 11283 ; 5.242 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 197 ;25.107 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 11746 ;10.268 ; 5.000 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 : BABINET MODEL WITH 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4QTG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000086491. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 122409 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -5.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : 0.10200 REMARK 200 FOR THE DATA SET : 18.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 REMARK 200 R MERGE FOR SHELL (I) : 0.79000 REMARK 200 R SYM FOR SHELL (I) : 0.79000 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MR REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4QRN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.085M AMMONIUM CITRATE, PH 5.6, 0.17M REMARK 280 SODIUM ACETATE, 1MM MNCL2, 25% PEG 4000,15% GLYCEROL, VAPOR REMARK 280 DIFFUSION,SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 30.23400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 70.81150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.74300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 70.81150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.23400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.74300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 SER A -14 REMARK 465 SER A -13 REMARK 465 GLY A -12 REMARK 465 VAL A -11 REMARK 465 ASP A -10 REMARK 465 LEU A -9 REMARK 465 GLY A -8 REMARK 465 THR A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 GLN A 3 REMARK 465 MET B -21 REMARK 465 HIS B -20 REMARK 465 HIS B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 SER B -14 REMARK 465 SER B -13 REMARK 465 GLY B -12 REMARK 465 VAL B -11 REMARK 465 ASP B -10 REMARK 465 LEU B -9 REMARK 465 GLY B -8 REMARK 465 THR B -7 REMARK 465 GLU B -6 REMARK 465 ASN B -5 REMARK 465 LEU B -4 REMARK 465 TYR B -3 REMARK 465 PHE B -2 REMARK 465 GLN B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 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 25 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 176 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 222 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 MET A 304 CG - SD - CE ANGL. DEV. = 10.3 DEGREES REMARK 500 ARG B 148 NE - CZ - NH1 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG B 148 NE - CZ - NH2 ANGL. DEV. = 4.4 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 SER A 159 -128.74 49.29 REMARK 500 PHE A 210 -61.42 -157.84 REMARK 500 ALA A 245 -7.77 65.25 REMARK 500 GLN A 342 -65.09 -133.75 REMARK 500 SER B 159 -134.13 52.75 REMARK 500 PHE B 210 -54.78 -159.87 REMARK 500 ALA B 245 -13.68 71.65 REMARK 500 GLN B 342 -63.50 -129.20 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 MN A 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 19 OE2 REMARK 620 2 HIS A 188 NE2 88.6 REMARK 620 3 ASP A 314 OD1 91.2 176.3 REMARK 620 4 HOH A 662 O 169.7 85.0 95.7 REMARK 620 5 HOH A 688 O 106.3 91.2 92.3 65.9 REMARK 620 6 HOH A 875 O 101.7 94.9 81.6 86.9 151.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 19 OE2 REMARK 620 2 HIS B 188 NE2 89.2 REMARK 620 3 ASP B 314 OD1 90.5 176.5 REMARK 620 4 HOH B 610 O 101.1 92.9 83.8 REMARK 620 5 HOH B 685 O 103.0 88.3 95.1 155.9 REMARK 620 6 HOH B 788 O 170.5 86.7 94.2 87.7 68.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4QRN RELATED DB: PDB REMARK 900 COMPLEX WITH MANGANESE AND 4-HYDROXY-3-METHOXY-5-NITROBENZOIC ACID REMARK 900 RELATED ID: 4QS5 RELATED DB: PDB REMARK 900 D314N MUTANT, COMPLEX WITH MANGANESE AND 4-HYDROXY-3-METHOXY-5- REMARK 900 NITROBENZOIC ACID REMARK 900 RELATED ID: 4QS6 RELATED DB: PDB REMARK 900 D314N MUTANT, COMPLEX WITH 4-HYDROXY-3-METHOXY-5-NITROBENZOIC ACID REMARK 900 RELATED ID: EFI-505250 RELATED DB: TARGETTRACK DBREF 4QTG A 1 351 UNP Q2GA79 Q2GA79_NOVAD 1 351 DBREF 4QTG B 1 351 UNP Q2GA79 Q2GA79_NOVAD 1 351 SEQADV 4QTG MET A -21 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS A -20 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS A -19 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS A -18 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS A -17 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS A -16 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS A -15 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG SER A -14 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG SER A -13 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLY A -12 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG VAL A -11 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG ASP A -10 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG LEU A -9 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLY A -8 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG THR A -7 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLU A -6 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG ASN A -5 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG LEU A -4 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG TYR A -3 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG PHE A -2 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLN A -1 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG SER A 0 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG MET B -21 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS B -20 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS B -19 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS B -18 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS B -17 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS B -16 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG HIS B -15 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG SER B -14 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG SER B -13 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLY B -12 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG VAL B -11 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG ASP B -10 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG LEU B -9 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLY B -8 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG THR B -7 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLU B -6 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG ASN B -5 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG LEU B -4 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG TYR B -3 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG PHE B -2 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG GLN B -1 UNP Q2GA79 EXPRESSION TAG SEQADV 4QTG SER B 0 UNP Q2GA79 EXPRESSION TAG SEQRES 1 A 373 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 373 GLY THR GLU ASN LEU TYR PHE GLN SER MET THR GLN ASP SEQRES 3 A 373 LEU LYS THR GLY GLY GLU GLN GLY TYR LEU ARG ILE ALA SEQRES 4 A 373 THR GLU GLU ALA PHE ALA THR ARG GLU ILE ILE ASP VAL SEQRES 5 A 373 TYR LEU ARG MET ILE ARG ASP GLY THR ALA ASP LYS GLY SEQRES 6 A 373 MET VAL SER LEU TRP GLY PHE TYR ALA GLN SER PRO SER SEQRES 7 A 373 GLU ARG ALA THR GLN ILE LEU GLU ARG LEU LEU ASP LEU SEQRES 8 A 373 GLY GLU ARG ARG ILE ALA ASP MET ASP ALA THR GLY ILE SEQRES 9 A 373 ASP LYS ALA ILE LEU ALA LEU THR SER PRO GLY VAL GLN SEQRES 10 A 373 PRO LEU HIS ASP LEU ASP GLU ALA ARG THR LEU ALA THR SEQRES 11 A 373 ARG ALA ASN ASP THR LEU ALA ASP ALA CYS GLN LYS TYR SEQRES 12 A 373 PRO ASP ARG PHE ILE GLY MET GLY THR VAL ALA PRO GLN SEQRES 13 A 373 ASP PRO GLU TRP SER ALA ARG GLU ILE HIS ARG GLY ALA SEQRES 14 A 373 ARG GLU LEU GLY PHE LYS GLY ILE GLN ILE ASN SER HIS SEQRES 15 A 373 THR GLN GLY ARG TYR LEU ASP GLU GLU PHE PHE ASP PRO SEQRES 16 A 373 ILE PHE ARG ALA LEU VAL GLU VAL ASP GLN PRO LEU TYR SEQRES 17 A 373 ILE HIS PRO ALA THR SER PRO ASP SER MET ILE ASP PRO SEQRES 18 A 373 MET LEU GLU ALA GLY LEU ASP GLY ALA ILE PHE GLY PHE SEQRES 19 A 373 GLY VAL GLU THR GLY MET HIS LEU LEU ARG LEU ILE THR SEQRES 20 A 373 ILE GLY ILE PHE ASP LYS TYR PRO SER LEU GLN ILE MET SEQRES 21 A 373 VAL GLY HIS MET GLY GLU ALA LEU PRO TYR TRP LEU TYR SEQRES 22 A 373 ARG LEU ASP TYR MET HIS GLN ALA GLY VAL ARG SER GLN SEQRES 23 A 373 ARG TYR GLU ARG MET LYS PRO LEU LYS LYS THR ILE GLU SEQRES 24 A 373 GLY TYR LEU LYS SER ASN VAL LEU VAL THR ASN SER GLY SEQRES 25 A 373 VAL ALA TRP GLU PRO ALA ILE LYS PHE CYS GLN GLN VAL SEQRES 26 A 373 MET GLY GLU ASP ARG VAL MET TYR ALA MET ASP TYR PRO SEQRES 27 A 373 TYR GLN TYR VAL ALA ASP GLU VAL ARG ALA MET ASP ALA SEQRES 28 A 373 MET ASP MET SER ALA GLN THR LYS LYS LYS PHE PHE GLN SEQRES 29 A 373 THR ASN ALA GLU LYS TRP PHE LYS LEU SEQRES 1 B 373 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 B 373 GLY THR GLU ASN LEU TYR PHE GLN SER MET THR GLN ASP SEQRES 3 B 373 LEU LYS THR GLY GLY GLU GLN GLY TYR LEU ARG ILE ALA SEQRES 4 B 373 THR GLU GLU ALA PHE ALA THR ARG GLU ILE ILE ASP VAL SEQRES 5 B 373 TYR LEU ARG MET ILE ARG ASP GLY THR ALA ASP LYS GLY SEQRES 6 B 373 MET VAL SER LEU TRP GLY PHE TYR ALA GLN SER PRO SER SEQRES 7 B 373 GLU ARG ALA THR GLN ILE LEU GLU ARG LEU LEU ASP LEU SEQRES 8 B 373 GLY GLU ARG ARG ILE ALA ASP MET ASP ALA THR GLY ILE SEQRES 9 B 373 ASP LYS ALA ILE LEU ALA LEU THR SER PRO GLY VAL GLN SEQRES 10 B 373 PRO LEU HIS ASP LEU ASP GLU ALA ARG THR LEU ALA THR SEQRES 11 B 373 ARG ALA ASN ASP THR LEU ALA ASP ALA CYS GLN LYS TYR SEQRES 12 B 373 PRO ASP ARG PHE ILE GLY MET GLY THR VAL ALA PRO GLN SEQRES 13 B 373 ASP PRO GLU TRP SER ALA ARG GLU ILE HIS ARG GLY ALA SEQRES 14 B 373 ARG GLU LEU GLY PHE LYS GLY ILE GLN ILE ASN SER HIS SEQRES 15 B 373 THR GLN GLY ARG TYR LEU ASP GLU GLU PHE PHE ASP PRO SEQRES 16 B 373 ILE PHE ARG ALA LEU VAL GLU VAL ASP GLN PRO LEU TYR SEQRES 17 B 373 ILE HIS PRO ALA THR SER PRO ASP SER MET ILE ASP PRO SEQRES 18 B 373 MET LEU GLU ALA GLY LEU ASP GLY ALA ILE PHE GLY PHE SEQRES 19 B 373 GLY VAL GLU THR GLY MET HIS LEU LEU ARG LEU ILE THR SEQRES 20 B 373 ILE GLY ILE PHE ASP LYS TYR PRO SER LEU GLN ILE MET SEQRES 21 B 373 VAL GLY HIS MET GLY GLU ALA LEU PRO TYR TRP LEU TYR SEQRES 22 B 373 ARG LEU ASP TYR MET HIS GLN ALA GLY VAL ARG SER GLN SEQRES 23 B 373 ARG TYR GLU ARG MET LYS PRO LEU LYS LYS THR ILE GLU SEQRES 24 B 373 GLY TYR LEU LYS SER ASN VAL LEU VAL THR ASN SER GLY SEQRES 25 B 373 VAL ALA TRP GLU PRO ALA ILE LYS PHE CYS GLN GLN VAL SEQRES 26 B 373 MET GLY GLU ASP ARG VAL MET TYR ALA MET ASP TYR PRO SEQRES 27 B 373 TYR GLN TYR VAL ALA ASP GLU VAL ARG ALA MET ASP ALA SEQRES 28 B 373 MET ASP MET SER ALA GLN THR LYS LYS LYS PHE PHE GLN SEQRES 29 B 373 THR ASN ALA GLU LYS TRP PHE LYS LEU HET MN A 401 1 HET GOL A 402 6 HET GOL A 403 6 HET MN B 401 1 HET GOL B 402 6 HET GOL B 403 6 HETNAM MN MANGANESE (II) ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MN 2(MN 2+) FORMUL 4 GOL 4(C3 H8 O3) FORMUL 9 HOH *786(H2 O) HELIX 1 1 THR A 24 ASP A 37 1 14 HELIX 2 2 ASP A 41 ALA A 52 1 12 HELIX 3 3 SER A 56 ASP A 68 1 13 HELIX 4 4 GLY A 70 THR A 80 1 11 HELIX 5 5 ASP A 99 TYR A 121 1 23 HELIX 6 6 ASP A 135 GLU A 149 1 15 HELIX 7 7 GLU A 168 PHE A 170 5 3 HELIX 8 8 PHE A 171 ASP A 182 1 12 HELIX 9 9 ILE A 197 ALA A 203 1 7 HELIX 10 10 PHE A 210 ILE A 226 1 17 HELIX 11 11 GLY A 227 TYR A 232 1 6 HELIX 12 12 GLY A 240 ALA A 245 1 6 HELIX 13 13 TRP A 249 SER A 263 1 15 HELIX 14 14 THR A 275 ASN A 283 1 9 HELIX 15 15 TRP A 293 GLY A 305 1 13 HELIX 16 16 VAL A 320 ALA A 329 1 10 HELIX 17 17 SER A 333 GLN A 342 1 10 HELIX 18 18 GLN A 342 PHE A 349 1 8 HELIX 19 19 THR B 24 ASP B 37 1 14 HELIX 20 20 ASP B 41 SER B 54 1 14 HELIX 21 21 SER B 56 ASP B 68 1 13 HELIX 22 22 GLY B 70 THR B 80 1 11 HELIX 23 23 ASP B 99 TYR B 121 1 23 HELIX 24 24 ASP B 135 GLU B 149 1 15 HELIX 25 25 GLU B 168 PHE B 170 5 3 HELIX 26 26 PHE B 171 ASP B 182 1 12 HELIX 27 27 ILE B 197 GLY B 204 1 8 HELIX 28 28 PHE B 210 GLY B 227 1 18 HELIX 29 29 GLY B 227 TYR B 232 1 6 HELIX 30 30 GLY B 240 GLU B 244 5 5 HELIX 31 31 TRP B 249 SER B 263 1 15 HELIX 32 32 THR B 275 ASN B 283 1 9 HELIX 33 33 TRP B 293 GLY B 305 1 13 HELIX 34 34 VAL B 320 ALA B 329 1 10 HELIX 35 35 SER B 333 GLN B 342 1 10 HELIX 36 36 GLN B 342 PHE B 349 1 8 SHEET 1 A 3 ILE A 16 PHE A 22 0 SHEET 2 A 3 LYS A 84 LEU A 89 1 O LYS A 84 N ALA A 17 SHEET 3 A 3 PHE A 125 GLY A 127 1 O ILE A 126 N LEU A 87 SHEET 1 B 5 ILE A 155 ILE A 157 0 SHEET 2 B 5 LEU A 185 ILE A 187 1 O TYR A 186 N ILE A 155 SHEET 3 B 5 ILE A 237 VAL A 239 1 O MET A 238 N LEU A 185 SHEET 4 B 5 VAL A 284 THR A 287 1 O LEU A 285 N ILE A 237 SHEET 5 B 5 VAL A 309 MET A 310 1 O MET A 310 N VAL A 286 SHEET 1 C 3 ILE B 16 PHE B 22 0 SHEET 2 C 3 LYS B 84 LEU B 89 1 O LYS B 84 N ALA B 17 SHEET 3 C 3 PHE B 125 GLY B 127 1 O ILE B 126 N LEU B 87 SHEET 1 D 5 ILE B 155 ILE B 157 0 SHEET 2 D 5 LEU B 185 ILE B 187 1 O TYR B 186 N ILE B 155 SHEET 3 D 5 ILE B 237 VAL B 239 1 O MET B 238 N LEU B 185 SHEET 4 D 5 VAL B 284 THR B 287 1 O LEU B 285 N ILE B 237 SHEET 5 D 5 VAL B 309 MET B 310 1 O MET B 310 N VAL B 286 LINK OE2 GLU A 19 MN MN A 401 1555 1555 2.10 LINK NE2 HIS A 188 MN MN A 401 1555 1555 2.21 LINK OD1 ASP A 314 MN MN A 401 1555 1555 2.11 LINK MN MN A 401 O HOH A 662 1555 1555 2.24 LINK MN MN A 401 O HOH A 688 1555 1555 2.20 LINK MN MN A 401 O HOH A 875 1555 1555 2.20 LINK OE2 GLU B 19 MN MN B 401 1555 1555 2.14 LINK NE2 HIS B 188 MN MN B 401 1555 1555 2.19 LINK OD1 ASP B 314 MN MN B 401 1555 1555 2.12 LINK MN MN B 401 O HOH B 610 1555 1555 2.24 LINK MN MN B 401 O HOH B 685 1555 1555 2.22 LINK MN MN B 401 O HOH B 788 1555 1555 2.19 CISPEP 1 SER A 91 PRO A 92 0 7.07 CISPEP 2 TYR A 315 PRO A 316 0 1.78 CISPEP 3 SER B 91 PRO B 92 0 15.58 CISPEP 4 TYR B 315 PRO B 316 0 3.20 SITE 1 AC1 6 GLU A 19 HIS A 188 ASP A 314 HOH A 662 SITE 2 AC1 6 HOH A 688 HOH A 875 SITE 1 AC2 8 TYR A 255 GLN A 258 ALA A 259 ARG A 262 SITE 2 AC2 8 HOH A 579 HOH A 871 HOH A 873 ASP B 331 SITE 1 AC3 5 ASP A 41 GLN A 162 PRO A 193 ASP A 194 SITE 2 AC3 5 HOH A 744 SITE 1 AC4 6 GLU B 19 HIS B 188 ASP B 314 HOH B 610 SITE 2 AC4 6 HOH B 685 HOH B 788 SITE 1 AC5 6 ASP B 41 GLN B 162 PRO B 193 ASP B 194 SITE 2 AC5 6 HOH B 686 HOH B 748 SITE 1 AC6 6 ASP B 307 LYS B 339 THR B 343 ASN B 344 SITE 2 AC6 6 LYS B 347 HOH B 554 CRYST1 60.468 85.486 141.623 90.00 90.00 90.00 P 21 21 21 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 0.016538 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011698 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007061 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.312350 -0.941764 -0.124574 21.74903 1 MTRIX2 2 -0.941021 -0.324691 0.095159 31.16302 1 MTRIX3 2 -0.130065 0.087504 -0.987637 -6.06957 1