HEADER OXIDOREDUCTASE 20-JUN-14 4QOD TITLE THE VALUE CRYSTAL STRUCTURE OF APO QUINONE REDUCTASE 2 AT 1.35A COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSYLDIHYDRONICOTINAMIDE DEHYDROGENASE [QUINONE]; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: NRH DEHYDROGENASE [QUINONE] 2, NRH:QUINONE OXIDOREDUCTASE 2, COMPND 5 QUINONE REDUCTASE 2, QR2; COMPND 6 EC: 1.10.99.2; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NQO2, NMOR2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE FLAVOPROTEIN, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.SERRIERE,J.A.BOUTIN,T.ISABET,M.ANTOINE,G.FERRY REVDAT 2 20-SEP-23 4QOD 1 REMARK SEQADV LINK REVDAT 1 01-JUL-15 4QOD 0 JRNL AUTH J.SERRIERE,J.A.BOUTIN,T.ISABET,M.ANTOINE,G.FERRY JRNL TITL THE VALUE CRYSTAL STRUCTURE OF APO QUINONE REDUCTASE 2 AT JRNL TITL 2 1.35A JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 104457 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5498 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) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.38 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7487 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE SET COUNT : 394 REMARK 3 BIN FREE R VALUE : 0.3780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3626 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 332 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.36000 REMARK 3 B22 (A**2) : -0.04000 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): 0.052 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.053 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.328 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): 3912 ; 0.022 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3651 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5310 ; 2.181 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8430 ; 1.033 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 486 ; 6.481 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 176 ;35.071 ;24.034 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 632 ;12.327 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;17.946 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 573 ; 0.134 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4419 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 930 ; 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): 1899 ; 3.993 ; 2.213 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1898 ; 3.974 ; 2.210 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2379 ; 4.109 ; 3.326 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2380 ; 4.108 ; 3.330 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2013 ; 5.784 ; 2.587 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2013 ; 5.785 ; 2.586 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2925 ; 6.780 ; 3.704 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5037 ; 7.231 ;21.099 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4976 ; 6.978 ;20.485 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 7563 ; 6.704 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 97 ;41.506 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 7782 ;17.181 ; 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 : 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4QOD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1000086308. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9785 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104457 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 49.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 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 : 1.370 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 2QWX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH7, 1.4M AMSO4, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 28.06000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.27000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.60000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.27000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.06000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.60000 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: 5930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 0 REMARK 465 ALA A 1 REMARK 465 MET B 0 REMARK 465 ALA B 1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 230 CB CG CD OE1 NE2 REMARK 470 GLN B 230 CB CG CD OE1 NE2 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 C1 GOL B 302 O HOH B 433 1.70 REMARK 500 O HOH A 451 O HOH A 476 1.80 REMARK 500 O VAL A 160 O HOH A 436 1.81 REMARK 500 O HOH B 406 O HOH B 524 2.02 REMARK 500 O3 GOL B 301 O HOH B 410 2.04 REMARK 500 NE2 GLN B 122 O HOH B 444 2.06 REMARK 500 OH TYR A 155 O HOH A 579 2.06 REMARK 500 NH1 ARG A 200 O1 GOL A 303 2.12 REMARK 500 OD1 ASP B 127 O HOH B 444 2.14 REMARK 500 O2 GOL A 301 O HOH A 421 2.14 REMARK 500 O1 GOL A 304 C2 GOL B 301 2.17 REMARK 500 O HOH A 578 O HOH A 579 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 468 O HOH B 425 2555 2.15 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 GLU A 73 CD GLU A 73 OE1 -0.095 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 52 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 78 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 78 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 92 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP B 133 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 MET B 154 CG - SD - CE ANGL. DEV. = 13.8 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 TYR A 132 -124.82 50.10 REMARK 500 TYR A 155 51.32 -100.40 REMARK 500 ASN B 61 88.54 -155.65 REMARK 500 TYR B 132 -116.24 38.84 REMARK 500 TYR B 132 -124.74 54.39 REMARK 500 TYR B 155 47.01 -100.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO B 129 GLY B 130 -143.10 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 305 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 173 ND1 REMARK 620 2 HIS A 177 ND1 106.1 REMARK 620 3 CYS A 222 O 107.5 101.6 REMARK 620 4 CYS A 222 SG 126.4 114.5 97.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 173 ND1 REMARK 620 2 HIS B 177 ND1 110.8 REMARK 620 3 CYS B 222 O 100.5 86.6 REMARK 620 4 CYS B 222 SG 126.6 112.1 112.1 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 GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4QOE RELATED DB: PDB REMARK 900 RELATED ID: 4QOF RELATED DB: PDB REMARK 900 RELATED ID: 4QOG RELATED DB: PDB REMARK 900 RELATED ID: 4QOH RELATED DB: PDB REMARK 900 RELATED ID: 4QOI RELATED DB: PDB REMARK 900 RELATED ID: 4QOJ RELATED DB: PDB DBREF 4QOD A 0 230 UNP P16083 NQO2_HUMAN 1 231 DBREF 4QOD B 0 230 UNP P16083 NQO2_HUMAN 1 231 SEQADV 4QOD PHE A 46 UNP P16083 LEU 47 VARIANT SEQADV 4QOD PHE B 46 UNP P16083 LEU 47 VARIANT SEQRES 1 A 231 MET ALA GLY LYS LYS VAL LEU ILE VAL TYR ALA HIS GLN SEQRES 2 A 231 GLU PRO LYS SER PHE ASN GLY SER LEU LYS ASN VAL ALA SEQRES 3 A 231 VAL ASP GLU LEU SER ARG GLN GLY CYS THR VAL THR VAL SEQRES 4 A 231 SER ASP LEU TYR ALA MET ASN PHE GLU PRO ARG ALA THR SEQRES 5 A 231 ASP LYS ASP ILE THR GLY THR LEU SER ASN PRO GLU VAL SEQRES 6 A 231 PHE ASN TYR GLY VAL GLU THR HIS GLU ALA TYR LYS GLN SEQRES 7 A 231 ARG SER LEU ALA SER ASP ILE THR ASP GLU GLN LYS LYS SEQRES 8 A 231 VAL ARG GLU ALA ASP LEU VAL ILE PHE GLN PHE PRO LEU SEQRES 9 A 231 TYR TRP PHE SER VAL PRO ALA ILE LEU LYS GLY TRP MET SEQRES 10 A 231 ASP ARG VAL LEU CYS GLN GLY PHE ALA PHE ASP ILE PRO SEQRES 11 A 231 GLY PHE TYR ASP SER GLY LEU LEU GLN GLY LYS LEU ALA SEQRES 12 A 231 LEU LEU SER VAL THR THR GLY GLY THR ALA GLU MET TYR SEQRES 13 A 231 THR LYS THR GLY VAL ASN GLY ASP SER ARG TYR PHE LEU SEQRES 14 A 231 TRP PRO LEU GLN HIS GLY THR LEU HIS PHE CYS GLY PHE SEQRES 15 A 231 LYS VAL LEU ALA PRO GLN ILE SER PHE ALA PRO GLU ILE SEQRES 16 A 231 ALA SER GLU GLU GLU ARG LYS GLY MET VAL ALA ALA TRP SEQRES 17 A 231 SER GLN ARG LEU GLN THR ILE TRP LYS GLU GLU PRO ILE SEQRES 18 A 231 PRO CYS THR ALA HIS TRP HIS PHE GLY GLN SEQRES 1 B 231 MET ALA GLY LYS LYS VAL LEU ILE VAL TYR ALA HIS GLN SEQRES 2 B 231 GLU PRO LYS SER PHE ASN GLY SER LEU LYS ASN VAL ALA SEQRES 3 B 231 VAL ASP GLU LEU SER ARG GLN GLY CYS THR VAL THR VAL SEQRES 4 B 231 SER ASP LEU TYR ALA MET ASN PHE GLU PRO ARG ALA THR SEQRES 5 B 231 ASP LYS ASP ILE THR GLY THR LEU SER ASN PRO GLU VAL SEQRES 6 B 231 PHE ASN TYR GLY VAL GLU THR HIS GLU ALA TYR LYS GLN SEQRES 7 B 231 ARG SER LEU ALA SER ASP ILE THR ASP GLU GLN LYS LYS SEQRES 8 B 231 VAL ARG GLU ALA ASP LEU VAL ILE PHE GLN PHE PRO LEU SEQRES 9 B 231 TYR TRP PHE SER VAL PRO ALA ILE LEU LYS GLY TRP MET SEQRES 10 B 231 ASP ARG VAL LEU CYS GLN GLY PHE ALA PHE ASP ILE PRO SEQRES 11 B 231 GLY PHE TYR ASP SER GLY LEU LEU GLN GLY LYS LEU ALA SEQRES 12 B 231 LEU LEU SER VAL THR THR GLY GLY THR ALA GLU MET TYR SEQRES 13 B 231 THR LYS THR GLY VAL ASN GLY ASP SER ARG TYR PHE LEU SEQRES 14 B 231 TRP PRO LEU GLN HIS GLY THR LEU HIS PHE CYS GLY PHE SEQRES 15 B 231 LYS VAL LEU ALA PRO GLN ILE SER PHE ALA PRO GLU ILE SEQRES 16 B 231 ALA SER GLU GLU GLU ARG LYS GLY MET VAL ALA ALA TRP SEQRES 17 B 231 SER GLN ARG LEU GLN THR ILE TRP LYS GLU GLU PRO ILE SEQRES 18 B 231 PRO CYS THR ALA HIS TRP HIS PHE GLY GLN HET GOL A 301 6 HET GOL A 302 6 HET GOL A 303 6 HET GOL A 304 6 HET ZN A 305 1 HET GOL B 301 6 HET GOL B 302 6 HET ZN B 303 1 HETNAM GOL GLYCEROL HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 6(C3 H8 O3) FORMUL 7 ZN 2(ZN 2+) FORMUL 11 HOH *332(H2 O) HELIX 1 1 SER A 16 GLN A 32 1 17 HELIX 2 2 THR A 51 ILE A 55 5 5 HELIX 3 3 ASN A 66 ARG A 78 1 13 HELIX 4 4 ALA A 81 ALA A 94 1 14 HELIX 5 5 PRO A 109 LEU A 120 1 12 HELIX 6 6 PHE A 131 GLY A 135 5 5 HELIX 7 7 THR A 151 THR A 156 5 6 HELIX 8 8 ASP A 163 HIS A 173 1 11 HELIX 9 9 ALA A 191 ALA A 195 5 5 HELIX 10 10 SER A 196 THR A 213 1 18 HELIX 11 11 ILE A 214 GLU A 217 5 4 HELIX 12 12 THR A 223 GLY A 229 1 7 HELIX 13 13 SER B 16 GLN B 32 1 17 HELIX 14 14 THR B 51 ILE B 55 5 5 HELIX 15 15 ASN B 66 GLN B 77 1 12 HELIX 16 16 ALA B 81 ALA B 94 1 14 HELIX 17 17 PRO B 109 LEU B 120 1 12 HELIX 18 18 PHE B 131 GLY B 135 5 5 HELIX 19 19 THR B 151 THR B 156 5 6 HELIX 20 20 ASP B 163 HIS B 173 1 11 HELIX 21 21 LEU B 176 GLY B 180 5 5 HELIX 22 22 SER B 196 THR B 213 1 18 HELIX 23 23 ILE B 214 GLU B 217 5 4 HELIX 24 24 THR B 223 GLY B 229 1 7 SHEET 1 A 5 THR A 35 ASP A 40 0 SHEET 2 A 5 LYS A 4 TYR A 9 1 N VAL A 5 O THR A 35 SHEET 3 A 5 LEU A 96 PRO A 102 1 O ILE A 98 N VAL A 8 SHEET 4 A 5 LEU A 141 THR A 147 1 O SER A 145 N PHE A 99 SHEET 5 A 5 LYS A 182 VAL A 183 1 O LYS A 182 N ALA A 142 SHEET 1 B 5 THR A 35 ASP A 40 0 SHEET 2 B 5 LYS A 4 TYR A 9 1 N VAL A 5 O THR A 35 SHEET 3 B 5 LEU A 96 PRO A 102 1 O ILE A 98 N VAL A 8 SHEET 4 B 5 LEU A 141 THR A 147 1 O SER A 145 N PHE A 99 SHEET 5 B 5 GLN A 187 SER A 189 1 O SER A 189 N VAL A 146 SHEET 1 C 5 THR B 35 ASP B 40 0 SHEET 2 C 5 LYS B 4 TYR B 9 1 N VAL B 5 O THR B 35 SHEET 3 C 5 LEU B 96 PRO B 102 1 O ILE B 98 N VAL B 8 SHEET 4 C 5 LEU B 141 THR B 147 1 O SER B 145 N PHE B 99 SHEET 5 C 5 LYS B 182 VAL B 183 1 O LYS B 182 N ALA B 142 SHEET 1 D 5 THR B 35 ASP B 40 0 SHEET 2 D 5 LYS B 4 TYR B 9 1 N VAL B 5 O THR B 35 SHEET 3 D 5 LEU B 96 PRO B 102 1 O ILE B 98 N VAL B 8 SHEET 4 D 5 LEU B 141 THR B 147 1 O SER B 145 N PHE B 99 SHEET 5 D 5 GLN B 187 SER B 189 1 O SER B 189 N VAL B 146 LINK ND1 HIS A 173 ZN ZN A 305 1555 1555 2.08 LINK ND1 HIS A 177 ZN ZN A 305 1555 1555 2.06 LINK O CYS A 222 ZN ZN A 305 1555 1555 2.00 LINK SG CYS A 222 ZN ZN A 305 1555 1555 2.24 LINK ND1 HIS B 173 ZN ZN B 303 1555 1555 2.08 LINK ND1 HIS B 177 ZN ZN B 303 1555 1555 2.19 LINK O CYS B 222 ZN ZN B 303 1555 1555 1.80 LINK SG CYS B 222 ZN ZN B 303 1555 1555 2.17 CISPEP 1 ILE A 128 PRO A 129 0 2.65 CISPEP 2 ILE B 128 PRO B 129 0 -13.60 CISPEP 3 ILE B 128 PRO B 129 0 10.01 CISPEP 4 GLY B 229 GLN B 230 0 5.99 SITE 1 AC1 5 TRP A 105 HOH A 421 HOH A 591 ASP B 117 SITE 2 AC1 5 LEU B 120 SITE 1 AC2 8 HIS A 11 SER A 16 PHE A 17 ASN A 18 SITE 2 AC2 8 PRO A 192 GOL A 303 HOH A 595 ASN B 66 SITE 1 AC3 5 SER A 16 PHE A 17 GLU A 193 ARG A 200 SITE 2 AC3 5 GOL A 302 SITE 1 AC4 6 TYR A 67 ASP A 117 HOH A 411 HOH A 527 SITE 2 AC4 6 TRP B 105 GOL B 301 SITE 1 AC5 3 HIS A 173 HIS A 177 CYS A 222 SITE 1 AC6 7 PHE A 178 GOL A 304 LEU B 103 TYR B 104 SITE 2 AC6 7 TRP B 105 HOH B 410 HOH B 437 SITE 1 AC7 8 HIS B 11 SER B 16 PHE B 17 ASN B 18 SITE 2 AC7 8 PRO B 192 GLU B 193 HOH B 433 HOH B 434 SITE 1 AC8 4 HIS B 173 HIS B 177 CYS B 222 THR B 223 CRYST1 56.120 83.200 106.540 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 0.017819 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012019 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009386 0.00000