HEADER OXIDOREDUCTASE 20-MAR-15 4YWO TITLE MERCURIC REDUCTASE FROM METALLOSPHAERA SEDULA COMPND MOL_ID: 1; COMPND 2 MOLECULE: MERCURIC REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METALLOSPHAERA SEDULA (STRAIN ATCC 51363 / DSM SOURCE 3 5348); SOURCE 4 ORGANISM_TAXID: 399549; SOURCE 5 STRAIN: ATCC 51363 / DSM 5348; SOURCE 6 GENE: MSED_1241; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MERCURIC REDUCTASE, FAD, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.H.ARTZ,O.A.ZADVORNYY,S.WHITE,J.W.PETERS REVDAT 3 27-SEP-23 4YWO 1 REMARK REVDAT 2 22-NOV-17 4YWO 1 REMARK REVDAT 1 16-SEP-15 4YWO 0 JRNL AUTH J.H.ARTZ,S.N.WHITE,O.A.ZADVORNYY,C.J.FUGATE,D.HICKS, JRNL AUTH 2 G.H.GAUSS,M.C.POSEWITZ,E.S.BOYD,J.W.PETERS JRNL TITL BIOCHEMICAL AND STRUCTURAL PROPERTIES OF A THERMOSTABLE JRNL TITL 2 MERCURIC ION REDUCTASE FROM METALLOSPHAERA SEDULA. JRNL REF FRONT BIOENG BIOTECHNOL V. 3 97 2015 JRNL REFN ISSN 2296-4185 JRNL PMID 26217660 JRNL DOI 10.3389/FBIOE.2015.00097 REMARK 2 REMARK 2 RESOLUTION. 1.62 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 67801 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3604 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) : 1.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4502 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.08 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 245 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3367 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 83 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.02000 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): 0.074 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.076 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.522 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3573 ; 0.025 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3525 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4847 ; 2.340 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8114 ; 0.984 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 465 ; 5.907 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 151 ;33.389 ;24.172 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 625 ;12.202 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;17.826 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 556 ; 0.137 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4029 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 759 ; 0.001 ; 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): 1803 ; 2.361 ; 2.116 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1802 ; 2.358 ; 2.114 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2260 ; 3.162 ; 3.168 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2261 ; 3.162 ; 3.171 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1770 ; 4.230 ; 2.645 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1770 ; 4.225 ; 2.645 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2579 ; 6.277 ; 3.755 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4079 ; 7.251 ;18.063 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4013 ; 7.214 ;17.879 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4YWO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000208203. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : XDS, HKL-2000, AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71541 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.620 REMARK 200 RESOLUTION RANGE LOW (A) : 70.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.16870 REMARK 200 R SYM (I) : 0.19570 REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.46800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: 1ZK7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.085 M TRIS, 15% V/V GLYCEROL, 14% REMARK 280 W/V PEG400, 0.19 M LISO4, AND 20 MG/ML PROTEIN, PH 8.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.94750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.24200 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.94750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 52.24200 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: 11530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -65.0 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 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 -13 REMARK 465 GLY A -12 REMARK 465 SER A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 VAL A 441 REMARK 465 SER A 442 REMARK 465 ARG A 443 REMARK 465 LEU A 444 REMARK 465 SER A 445 REMARK 465 CYS A 446 REMARK 465 CYS A 447 REMARK 465 VAL A 448 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 O LYS A 32 O2B FAD A 501 1.75 REMARK 500 O3B FAD A 501 O HOH A 601 2.09 REMARK 500 ND1 HIS A 414 O HOH A 602 2.16 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 394 CD GLU A 394 OE2 0.069 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 MET A 17 CG - SD - CE ANGL. DEV. = 10.2 DEGREES REMARK 500 MET A 85 CG - SD - CE ANGL. DEV. = -11.2 DEGREES REMARK 500 ARG A 86 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 86 NE - CZ - NH2 ANGL. DEV. = -5.2 DEGREES REMARK 500 ASP A 157 CB - CG - OD1 ANGL. DEV. = 12.2 DEGREES REMARK 500 ARG A 181 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG A 357 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 373 NE - CZ - NH2 ANGL. DEV. = -4.6 DEGREES REMARK 500 ARG A 408 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 408 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 431 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 438 NE - CZ - NH1 ANGL. DEV. = 3.6 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 VAL A 42 22.97 -142.26 REMARK 500 GLU A 67 55.44 -99.63 REMARK 500 TYR A 90 -62.76 -133.59 REMARK 500 ALA A 129 57.76 -145.38 REMARK 500 ARG A 169 -155.90 -108.65 REMARK 500 ARG A 169 -154.96 -109.44 REMARK 500 ILE A 196 63.47 34.77 REMARK 500 THR A 333 170.18 -56.79 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 GLN A 177 0.07 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 506 DBREF 4YWO A 1 448 UNP A4YG49 A4YG49_METS5 1 448 SEQADV 4YWO MET A -13 UNP A4YG49 INITIATING METHIONINE SEQADV 4YWO GLY A -12 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO SER A -11 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO SER A -10 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO HIS A -9 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO HIS A -8 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO HIS A -7 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO HIS A -6 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO HIS A -5 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO HIS A -4 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO SER A -3 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO GLN A -2 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO ASP A -1 UNP A4YG49 EXPRESSION TAG SEQADV 4YWO PRO A 0 UNP A4YG49 EXPRESSION TAG SEQRES 1 A 462 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 A 462 PRO MET HIS LYS LEU ALA ILE ILE GLY TYR GLY ALA ALA SEQRES 3 A 462 GLY PHE ALA ALA MET ILE LYS ALA ASN GLU LEU GLY VAL SEQRES 4 A 462 LYS PRO VAL LEU ILE GLY LYS GLY GLU ILE GLY GLY THR SEQRES 5 A 462 CYS VAL ASN VAL GLY CYS VAL PRO SER LYS ARG MET LEU SEQRES 6 A 462 TYR ILE ALA GLU ILE TYR LYS LYS ALA ARG GLU VAL THR SEQRES 7 A 462 GLY SER GLU VAL TYR PRO PRO PHE SER SER PHE GLN GLU SEQRES 8 A 462 LYS ASP GLY LEU VAL GLN GLU MET ARG LYS THR LYS TYR SEQRES 9 A 462 GLU ASP LEU LEU SER TYR TYR ASP VAL GLU LEU ILE GLN SEQRES 10 A 462 GLY GLU ALA ARG PHE ILE SER PRO HIS ALA VAL LYS VAL SEQRES 11 A 462 ASN GLY GLN VAL ILE GLU ALA GLU LYS PHE VAL ILE ALA SEQRES 12 A 462 THR GLY SER SER PRO LEU ILE PRO ARG ILE PRO GLY LEU SEQRES 13 A 462 ASP LYS VAL GLY PHE TRP THR ASN ARG GLU ALA LEU SER SEQRES 14 A 462 PRO ASP ARG ARG ILE ASP SER LEU ALA VAL ILE GLY GLY SEQRES 15 A 462 ARG ALA LEU ALA LEU GLU PHE ALA GLN MET TYR SER ARG SEQRES 16 A 462 MET LYS VAL GLU VAL ALA ILE LEU GLN ARG SER PRO VAL SEQRES 17 A 462 LEU ILE PRO ASP TRP GLU PRO GLU ALA SER VAL GLU ALA SEQRES 18 A 462 ARG ARG ILE MET GLU ASN ASP GLY VAL ALA VAL VAL THR SEQRES 19 A 462 GLY VAL ASN VAL LYS GLU VAL ARG LYS GLY ALA GLY LYS SEQRES 20 A 462 ILE VAL ILE THR ASP LYS GLY GLU VAL GLU ALA ASP GLU SEQRES 21 A 462 ILE LEU LEU ALA THR GLY ARG LYS PRO ASN VAL ASP LEU SEQRES 22 A 462 GLY LEU GLU ASN ALA GLY VAL ARG LEU ASN GLU ARG GLY SEQRES 23 A 462 GLY ILE LYS VAL ASP ASP GLU LEU ARG THR ASP ASN PRO SEQRES 24 A 462 HIS ILE TYR ALA ALA GLY ASP VAL LEU GLY GLY LYS MET SEQRES 25 A 462 LEU GLU ALA LEU ALA GLY ARG GLN GLY SER ILE ALA THR SEQRES 26 A 462 GLU ASN ALA LEU THR GLY SER HIS LYS ARG VAL ASP GLU SEQRES 27 A 462 ASN ALA VAL PRO GLN VAL ILE PHE THR GLN PRO ASN LEU SEQRES 28 A 462 ALA ARG VAL GLY LEU THR GLU ALA GLU ALA ARG ALA LYS SEQRES 29 A 462 GLU GLY GLU VAL GLU ALA ARG VAL LEU PRO MET SER SER SEQRES 30 A 462 VAL ALA LYS ALA GLU ILE ILE ASN SER ARG LEU GLY PHE SEQRES 31 A 462 VAL LYS MET VAL THR MET ASN GLY ARG ILE VAL GLY VAL SEQRES 32 A 462 HIS ALA VAL GLY GLU ASN VAL ALA GLU MET ILE GLY GLU SEQRES 33 A 462 ALA ALA LEU ALA ILE ARG PHE GLY ALA THR VAL HIS ASP SEQRES 34 A 462 LEU ILE ASP THR VAL HIS MET PHE PRO THR ILE ALA GLU SEQRES 35 A 462 SER LEU ARG LEU VAL ALA LEU ALA PHE ARG SER ASP VAL SEQRES 36 A 462 SER ARG LEU SER CYS CYS VAL HET FAD A 501 53 HET GOL A 502 6 HET GOL A 503 6 HET GOL A 504 6 HET GOL A 505 6 HET GOL A 506 6 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 GOL 5(C3 H8 O3) FORMUL 8 HOH *212(H2 O) HELIX 1 AA1 GLY A 10 LEU A 23 1 14 HELIX 2 AA2 GLY A 36 GLY A 43 1 8 HELIX 3 AA3 GLY A 43 GLY A 65 1 23 HELIX 4 AA4 PHE A 72 TYR A 90 1 19 HELIX 5 AA5 TYR A 90 TYR A 97 1 8 HELIX 6 AA6 GLY A 141 GLY A 146 1 6 HELIX 7 AA7 THR A 149 SER A 155 1 7 HELIX 8 AA8 ARG A 169 ARG A 181 1 13 HELIX 9 AA9 GLU A 200 ASP A 214 1 15 HELIX 10 AB1 GLY A 260 GLY A 265 5 6 HELIX 11 AB2 GLY A 291 GLY A 295 5 5 HELIX 12 AB3 LEU A 299 GLY A 317 1 19 HELIX 13 AB4 ASP A 323 VAL A 327 5 5 HELIX 14 AB5 THR A 343 ALA A 349 1 7 HELIX 15 AB6 VAL A 364 ILE A 370 1 7 HELIX 16 AB7 ASN A 395 GLU A 398 5 4 HELIX 17 AB8 MET A 399 PHE A 409 1 11 HELIX 18 AB9 THR A 412 ASP A 418 1 7 HELIX 19 AC1 ALA A 427 ALA A 436 1 10 SHEET 1 AA1 6 GLU A 100 GLN A 103 0 SHEET 2 AA1 6 VAL A 28 GLY A 31 1 N LEU A 29 O ILE A 102 SHEET 3 AA1 6 HIS A 2 ILE A 7 1 N ILE A 6 O VAL A 28 SHEET 4 AA1 6 GLN A 119 ILE A 128 1 O VAL A 127 N ILE A 7 SHEET 5 AA1 6 ALA A 113 VAL A 116 -1 N VAL A 114 O ILE A 121 SHEET 6 AA1 6 ALA A 106 SER A 110 -1 N ARG A 107 O LYS A 115 SHEET 1 AA2 5 GLU A 100 GLN A 103 0 SHEET 2 AA2 5 VAL A 28 GLY A 31 1 N LEU A 29 O ILE A 102 SHEET 3 AA2 5 HIS A 2 ILE A 7 1 N ILE A 6 O VAL A 28 SHEET 4 AA2 5 GLN A 119 ILE A 128 1 O VAL A 127 N ILE A 7 SHEET 5 AA2 5 ILE A 287 ALA A 289 1 O TYR A 288 N PHE A 126 SHEET 1 AA3 2 SER A 132 PRO A 134 0 SHEET 2 AA3 2 ARG A 253 PRO A 255 -1 O LYS A 254 N SER A 133 SHEET 1 AA4 4 ALA A 217 VAL A 219 0 SHEET 2 AA4 4 GLU A 185 LEU A 189 1 N ILE A 188 O ALA A 217 SHEET 3 AA4 4 SER A 162 ILE A 166 1 N VAL A 165 O ALA A 187 SHEET 4 AA4 4 GLU A 246 LEU A 249 1 O LEU A 248 N ILE A 166 SHEET 1 AA5 3 VAL A 224 LYS A 229 0 SHEET 2 AA5 3 LYS A 233 THR A 237 -1 O ILE A 234 N ARG A 228 SHEET 3 AA5 3 GLY A 240 ALA A 244 -1 O ALA A 244 N LYS A 233 SHEET 1 AA6 5 GLN A 329 ILE A 331 0 SHEET 2 AA6 5 ASN A 336 GLY A 341 -1 O LEU A 337 N ILE A 331 SHEET 3 AA6 5 ARG A 385 GLY A 393 -1 O ALA A 391 N ALA A 338 SHEET 4 AA6 5 PHE A 376 MET A 382 -1 N LYS A 378 O HIS A 390 SHEET 5 AA6 5 VAL A 354 PRO A 360 -1 N GLU A 355 O THR A 381 SSBOND 1 CYS A 39 CYS A 44 1555 1555 2.94 CISPEP 1 GLN A 334 PRO A 335 0 -10.94 CISPEP 2 PHE A 423 PRO A 424 0 -4.34 SITE 1 AC1 41 GLY A 8 TYR A 9 GLY A 10 ALA A 11 SITE 2 AC1 41 ALA A 12 GLY A 31 LYS A 32 GLY A 37 SITE 3 AC1 41 THR A 38 CYS A 39 VAL A 42 GLY A 43 SITE 4 AC1 41 CYS A 44 SER A 47 LYS A 48 GLY A 104 SITE 5 AC1 41 ALA A 106 ALA A 129 THR A 130 GLY A 131 SITE 6 AC1 41 ASN A 150 ARG A 253 LEU A 259 GLY A 291 SITE 7 AC1 41 ASP A 292 MET A 298 LEU A 299 GLU A 300 SITE 8 AC1 41 ALA A 303 PHE A 332 MET A 422 PHE A 423 SITE 9 AC1 41 HOH A 601 HOH A 605 HOH A 609 HOH A 623 SITE 10 AC1 41 HOH A 636 HOH A 652 HOH A 684 HOH A 695 SITE 11 AC1 41 HOH A 707 SITE 1 AC2 6 ILE A 109 GLU A 202 GLU A 206 PHE A 376 SITE 2 AC2 6 HOH A 604 HOH A 655 SITE 1 AC3 10 LEU A 51 TYR A 52 PHE A 332 THR A 333 SITE 2 AC3 10 ASN A 336 ASN A 395 HOH A 610 HOH A 683 SITE 3 AC3 10 HOH A 731 HOH A 739 SITE 1 AC4 8 TYR A 52 LYS A 59 GLN A 334 ILE A 370 SITE 2 AC4 8 GLU A 394 HOH A 630 HOH A 694 HOH A 703 SITE 1 AC5 6 PHE A 72 ARG A 158 ARG A 159 ILE A 160 SITE 2 AC5 6 HOH A 629 HOH A 719 SITE 1 AC6 6 LEU A 280 LEU A 294 GLN A 306 VAL A 322 SITE 2 AC6 6 GLU A 324 HOH A 686 CRYST1 55.679 95.895 104.484 90.00 90.00 90.00 P 2 21 21 4 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 0.017960 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010428 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009571 0.00000