HEADER OXIDOREDUCTASE 31-MAR-12 4EGP TITLE THE X-RAY CRYSTAL STRUCTURE OF CYP199A4 IN COMPLEX WITH 2-NAPHTHOIC TITLE 2 ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOPSEUDOMONAS PALUSTRIS; SOURCE 3 ORGANISM_TAXID: 316058; SOURCE 4 STRAIN: HAA2; SOURCE 5 GENE: RPB_3613; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS CYTOCHROME P450, SECONDARY METABOLITES BIOSYNTHESIS, TRANSPORT, KEYWDS 2 CATABOLISM, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR W.ZHOU,S.G.BELL,W.YANG,R.M.ZHOU,A.B.H.TAN,L.-L.WONG REVDAT 2 08-NOV-23 4EGP 1 REMARK LINK REVDAT 1 20-FEB-13 4EGP 0 JRNL AUTH S.G.BELL,R.M.ZHOU,W.YANG,A.B.H.TAN,A.S.GENTLEMAN,L.-L.WONG, JRNL AUTH 2 W.ZHOU JRNL TITL INVESTIGATION OF THE SUBSTRATE RANGE OF CYP199A4: JRNL TITL 2 MODIFICATION OF THE PARTITION BETWEEN HYDROXYLATION AND JRNL TITL 3 DESATURATION ACTIVITIES BY SUBSTRATE AND PROTEIN ENGINEERING JRNL REF CHEMISTRY V. 18 16677 2012 JRNL REFN ISSN 0947-6539 JRNL PMID 23135838 JRNL DOI 10.1002/CHEM.201202776 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 25268 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1341 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.07 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1734 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.3410 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.3430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6042 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 147 REMARK 3 SOLVENT ATOMS : 19 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 62.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.54000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.57000 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): 2.781 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.436 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.910 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.867 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6353 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8679 ; 1.798 ; 2.028 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 786 ; 7.068 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 278 ;37.328 ;23.022 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 969 ;20.405 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 58 ;18.816 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 937 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4953 ; 0.008 ; 0.022 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): 3933 ; 1.779 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6336 ; 2.549 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2420 ; 1.377 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2342 ; 2.431 ; 4.500 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4EGP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-APR-12. REMARK 100 THE DEPOSITION ID IS D_1000071595. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS HTC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26716 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.13800 REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 15.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.74900 REMARK 200 R SYM FOR SHELL (I) : 0.64200 REMARK 200 FOR SHELL : 2.550 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: 4DNZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS, 1.45M (NH4)2SO4, 0.1M REMARK 280 NACL, 0.1M COCL2, PH 5.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.12900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.12900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 71.77250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 86.10500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 71.77250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 86.10500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 53.12900 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 71.77250 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 86.10500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 53.12900 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 71.77250 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 86.10500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 ILE A 1 REMARK 465 SER A 2 REMARK 465 ASN A 3 REMARK 465 SER A 4 REMARK 465 SER A 5 REMARK 465 ALA A 6 REMARK 465 GLU A 7 REMARK 465 SER A 8 REMARK 465 ILE A 9 REMARK 465 SER A 10 REMARK 465 ALA A 11 REMARK 465 PRO A 12 REMARK 465 PRO A 13 REMARK 465 ASN A 14 REMARK 465 ASP A 15 REMARK 465 SER A 16 REMARK 465 MET B 0 REMARK 465 ILE B 1 REMARK 465 SER B 2 REMARK 465 ASN B 3 REMARK 465 SER B 4 REMARK 465 SER B 5 REMARK 465 ALA B 6 REMARK 465 GLU B 7 REMARK 465 SER B 8 REMARK 465 ILE B 9 REMARK 465 SER B 10 REMARK 465 ALA B 11 REMARK 465 PRO B 12 REMARK 465 PRO B 13 REMARK 465 ASN B 14 REMARK 465 ASP B 15 REMARK 465 SER B 16 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 ALA A 281 CB - CA - C ANGL. DEV. = -11.8 DEGREES REMARK 500 PRO B 217 C - N - CD ANGL. DEV. = -18.1 DEGREES REMARK 500 ASP B 385 N - CA - CB ANGL. DEV. = -19.7 DEGREES REMARK 500 PRO B 408 C - N - CD ANGL. DEV. = -13.2 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 PRO A 90 162.78 -47.19 REMARK 500 GLU A 99 43.97 -105.87 REMARK 500 CYS A 144 99.64 -63.01 REMARK 500 ILE A 148 -75.47 -79.36 REMARK 500 LEU A 151 -69.73 -144.90 REMARK 500 LEU A 250 -63.05 -102.97 REMARK 500 SER A 293 74.53 55.18 REMARK 500 PHE A 298 135.51 -177.34 REMARK 500 ASP A 335 76.67 52.15 REMARK 500 SER A 353 146.14 -173.47 REMARK 500 CYS A 358 108.80 -26.22 REMARK 500 GLN A 361 -33.21 -34.40 REMARK 500 GLU A 369 -72.89 -60.37 REMARK 500 ASN A 394 -34.62 -39.34 REMARK 500 LYS B 87 -76.11 -90.33 REMARK 500 PRO B 90 135.04 -29.81 REMARK 500 PRO B 93 129.12 -36.83 REMARK 500 ILE B 97 -59.45 -135.37 REMARK 500 LYS B 122 -32.60 -37.58 REMARK 500 ARG B 125 -65.99 -13.79 REMARK 500 PHE B 128 -70.49 -80.69 REMARK 500 ILE B 145 -150.89 -122.00 REMARK 500 ALA B 147 -37.31 61.48 REMARK 500 ILE B 148 -74.02 -84.44 REMARK 500 LEU B 151 -72.74 -133.17 REMARK 500 ALA B 154 -28.90 -140.41 REMARK 500 LEU B 157 -28.78 -34.80 REMARK 500 VAL B 159 -18.41 -141.06 REMARK 500 ARG B 171 2.26 -57.81 REMARK 500 PRO B 188 98.21 -66.42 REMARK 500 GLU B 197 56.71 -108.15 REMARK 500 ARG B 198 43.07 -152.18 REMARK 500 HIS B 202 -50.71 -129.13 REMARK 500 ALA B 216 138.76 -23.89 REMARK 500 PHE B 220 -79.60 -132.20 REMARK 500 ALA B 226 11.32 -67.99 REMARK 500 LEU B 250 -83.97 -115.60 REMARK 500 TYR B 262 17.13 -67.05 REMARK 500 ALA B 265 24.96 -78.73 REMARK 500 ARG B 266 9.51 -153.84 REMARK 500 PHE B 267 45.73 -152.60 REMARK 500 PRO B 268 -8.42 -54.93 REMARK 500 LEU B 271 -30.70 -38.63 REMARK 500 THR B 279 19.12 -62.41 REMARK 500 LEU B 280 -69.56 -105.34 REMARK 500 ALA B 281 -75.31 31.86 REMARK 500 PRO B 294 -38.18 -33.20 REMARK 500 ARG B 304 -165.28 -172.54 REMARK 500 ARG B 331 -19.35 -44.58 REMARK 500 LYS B 344 85.98 -67.85 REMARK 500 REMARK 500 THIS ENTRY HAS 65 RAMACHANDRAN OUTLIERS. 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 HEM A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 358 SG REMARK 620 2 HEM A 501 NA 97.1 REMARK 620 3 HEM A 501 NB 79.3 91.2 REMARK 620 4 HEM A 501 NC 84.9 175.7 85.3 REMARK 620 5 HEM A 501 ND 99.2 89.2 178.4 94.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 358 SG REMARK 620 2 HEM B 501 NA 105.5 REMARK 620 3 HEM B 501 NB 78.4 90.7 REMARK 620 4 HEM B 501 NC 76.7 177.3 88.3 REMARK 620 5 HEM B 501 ND 101.9 91.6 177.5 89.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FIV A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FIV A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 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 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FIV B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DNZ RELATED DB: PDB REMARK 900 THE SAME PROTEIN SUBSTRATE FREE REMARK 900 RELATED ID: 4DO1 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH 4-METHOXYBENZOIC ACID REMARK 900 RELATED ID: 4EGM RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH 4-ETHYLBENZOIC ACID REMARK 900 RELATED ID: 4EGN RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH VERATRIC ACID REMARK 900 RELATED ID: 4EGO RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH INDOLE-6-CARBOXYLIC ACID DBREF 4EGP A 0 409 UNP Q2IU02 Q2IU02_RHOP2 1 410 DBREF 4EGP B 0 409 UNP Q2IU02 Q2IU02_RHOP2 1 410 SEQRES 1 A 410 MET ILE SER ASN SER SER ALA GLU SER ILE SER ALA PRO SEQRES 2 A 410 PRO ASN ASP SER THR ILE PRO HIS LEU ALA ILE ASP PRO SEQRES 3 A 410 PHE SER LEU ASP PHE PHE ASP ASP PRO TYR PRO ASP GLN SEQRES 4 A 410 GLN THR LEU ARG ASP ALA GLY PRO VAL VAL TYR LEU ASP SEQRES 5 A 410 LYS TRP ASN VAL TYR GLY VAL ALA ARG TYR ALA GLU VAL SEQRES 6 A 410 HIS ALA VAL LEU ASN ASP PRO THR THR PHE CYS SER SER SEQRES 7 A 410 ARG GLY VAL GLY LEU SER ASP PHE LYS LYS GLU LYS PRO SEQRES 8 A 410 TRP ARG PRO PRO SER LEU ILE LEU GLU ALA ASP PRO PRO SEQRES 9 A 410 ALA HIS THR ARG PRO ARG ALA VAL LEU SER LYS VAL LEU SEQRES 10 A 410 SER PRO ALA THR MET LYS THR ILE ARG ASP GLY PHE ALA SEQRES 11 A 410 ALA ALA ALA ASP ALA LYS VAL ASP GLU LEU LEU GLN ARG SEQRES 12 A 410 GLY CYS ILE ASP ALA ILE ALA ASP LEU ALA GLU ALA TYR SEQRES 13 A 410 PRO LEU SER VAL PHE PRO ASP ALA MET GLY LEU LYS GLN SEQRES 14 A 410 GLU GLY ARG GLU HIS LEU LEU PRO TYR ALA GLY LEU VAL SEQRES 15 A 410 PHE ASN ALA PHE GLY PRO PRO ASN GLU LEU ARG GLN THR SEQRES 16 A 410 ALA ILE GLU ARG SER ALA PRO HIS GLN ALA TYR VAL ASN SEQRES 17 A 410 GLU GLN CYS GLN ARG PRO ASN LEU ALA PRO GLY GLY PHE SEQRES 18 A 410 GLY ALA CYS ILE HIS ALA PHE THR ASP THR GLY GLU ILE SEQRES 19 A 410 THR PRO ASP GLU ALA PRO LEU LEU VAL ARG SER LEU LEU SEQRES 20 A 410 SER ALA GLY LEU ASP THR THR VAL ASN GLY ILE GLY ALA SEQRES 21 A 410 ALA VAL TYR CYS LEU ALA ARG PHE PRO GLY GLU LEU GLN SEQRES 22 A 410 ARG LEU ARG SER ASP PRO THR LEU ALA ARG ASN ALA PHE SEQRES 23 A 410 GLU GLU ALA VAL ARG PHE GLU SER PRO VAL GLN THR PHE SEQRES 24 A 410 PHE ARG THR THR THR ARG GLU VAL GLU LEU GLY GLY ALA SEQRES 25 A 410 VAL ILE GLY GLU GLY GLU LYS VAL LEU MET PHE LEU GLY SEQRES 26 A 410 SER ALA ASN ARG ASP PRO ARG ARG TRP SER ASP PRO ASP SEQRES 27 A 410 LEU TYR ASP ILE THR ARG LYS THR SER GLY HIS VAL GLY SEQRES 28 A 410 PHE GLY SER GLY VAL HIS MET CYS VAL GLY GLN LEU VAL SEQRES 29 A 410 ALA ARG LEU GLU GLY GLU VAL MET LEU SER ALA LEU ALA SEQRES 30 A 410 ARG LYS VAL ALA ALA ILE ASP ILE ASP GLY PRO VAL LYS SEQRES 31 A 410 ARG ARG PHE ASN ASN THR LEU ARG GLY LEU GLU SER LEU SEQRES 32 A 410 PRO VAL LYS LEU THR PRO ALA SEQRES 1 B 410 MET ILE SER ASN SER SER ALA GLU SER ILE SER ALA PRO SEQRES 2 B 410 PRO ASN ASP SER THR ILE PRO HIS LEU ALA ILE ASP PRO SEQRES 3 B 410 PHE SER LEU ASP PHE PHE ASP ASP PRO TYR PRO ASP GLN SEQRES 4 B 410 GLN THR LEU ARG ASP ALA GLY PRO VAL VAL TYR LEU ASP SEQRES 5 B 410 LYS TRP ASN VAL TYR GLY VAL ALA ARG TYR ALA GLU VAL SEQRES 6 B 410 HIS ALA VAL LEU ASN ASP PRO THR THR PHE CYS SER SER SEQRES 7 B 410 ARG GLY VAL GLY LEU SER ASP PHE LYS LYS GLU LYS PRO SEQRES 8 B 410 TRP ARG PRO PRO SER LEU ILE LEU GLU ALA ASP PRO PRO SEQRES 9 B 410 ALA HIS THR ARG PRO ARG ALA VAL LEU SER LYS VAL LEU SEQRES 10 B 410 SER PRO ALA THR MET LYS THR ILE ARG ASP GLY PHE ALA SEQRES 11 B 410 ALA ALA ALA ASP ALA LYS VAL ASP GLU LEU LEU GLN ARG SEQRES 12 B 410 GLY CYS ILE ASP ALA ILE ALA ASP LEU ALA GLU ALA TYR SEQRES 13 B 410 PRO LEU SER VAL PHE PRO ASP ALA MET GLY LEU LYS GLN SEQRES 14 B 410 GLU GLY ARG GLU HIS LEU LEU PRO TYR ALA GLY LEU VAL SEQRES 15 B 410 PHE ASN ALA PHE GLY PRO PRO ASN GLU LEU ARG GLN THR SEQRES 16 B 410 ALA ILE GLU ARG SER ALA PRO HIS GLN ALA TYR VAL ASN SEQRES 17 B 410 GLU GLN CYS GLN ARG PRO ASN LEU ALA PRO GLY GLY PHE SEQRES 18 B 410 GLY ALA CYS ILE HIS ALA PHE THR ASP THR GLY GLU ILE SEQRES 19 B 410 THR PRO ASP GLU ALA PRO LEU LEU VAL ARG SER LEU LEU SEQRES 20 B 410 SER ALA GLY LEU ASP THR THR VAL ASN GLY ILE GLY ALA SEQRES 21 B 410 ALA VAL TYR CYS LEU ALA ARG PHE PRO GLY GLU LEU GLN SEQRES 22 B 410 ARG LEU ARG SER ASP PRO THR LEU ALA ARG ASN ALA PHE SEQRES 23 B 410 GLU GLU ALA VAL ARG PHE GLU SER PRO VAL GLN THR PHE SEQRES 24 B 410 PHE ARG THR THR THR ARG GLU VAL GLU LEU GLY GLY ALA SEQRES 25 B 410 VAL ILE GLY GLU GLY GLU LYS VAL LEU MET PHE LEU GLY SEQRES 26 B 410 SER ALA ASN ARG ASP PRO ARG ARG TRP SER ASP PRO ASP SEQRES 27 B 410 LEU TYR ASP ILE THR ARG LYS THR SER GLY HIS VAL GLY SEQRES 28 B 410 PHE GLY SER GLY VAL HIS MET CYS VAL GLY GLN LEU VAL SEQRES 29 B 410 ALA ARG LEU GLU GLY GLU VAL MET LEU SER ALA LEU ALA SEQRES 30 B 410 ARG LYS VAL ALA ALA ILE ASP ILE ASP GLY PRO VAL LYS SEQRES 31 B 410 ARG ARG PHE ASN ASN THR LEU ARG GLY LEU GLU SER LEU SEQRES 32 B 410 PRO VAL LYS LEU THR PRO ALA HET HEM A 501 43 HET FIV A 502 13 HET FIV A 503 13 HET SO4 A 504 5 HET SO4 A 505 5 HET GOL A 506 6 HET CL A 507 1 HET HEM B 501 43 HET FIV B 502 13 HET SO4 B 503 5 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM FIV NAPHTHALENE-2-CARBOXYLIC ACID HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN HEM HEME HETSYN FIV 2-NAPHTHOIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 FIV 3(C11 H8 O2) FORMUL 6 SO4 3(O4 S 2-) FORMUL 8 GOL C3 H8 O3 FORMUL 9 CL CL 1- FORMUL 13 HOH *19(H2 O) HELIX 1 1 SER A 27 ASP A 33 1 7 HELIX 2 2 ASP A 33 ALA A 44 1 12 HELIX 3 3 ARG A 60 ASP A 70 1 11 HELIX 4 4 HIS A 105 LEU A 116 1 12 HELIX 5 5 SER A 117 GLN A 141 1 25 HELIX 6 6 GLU A 153 GLY A 165 1 13 HELIX 7 7 GLY A 170 GLU A 172 5 3 HELIX 8 8 HIS A 173 PHE A 185 1 13 HELIX 9 9 ASN A 189 ARG A 198 1 10 HELIX 10 10 SER A 199 CYS A 210 1 12 HELIX 11 11 GLN A 211 LEU A 215 5 5 HELIX 12 12 GLY A 219 GLY A 231 1 13 HELIX 13 13 ASP A 236 GLY A 249 1 14 HELIX 14 14 LEU A 250 PHE A 267 1 18 HELIX 15 15 PHE A 267 ASP A 277 1 11 HELIX 16 16 LEU A 280 SER A 293 1 14 HELIX 17 17 PHE A 322 ARG A 328 1 7 HELIX 18 18 GLY A 360 LYS A 378 1 19 HELIX 19 19 SER B 27 ASP B 33 1 7 HELIX 20 20 PRO B 34 ALA B 44 1 11 HELIX 21 21 ARG B 60 ASN B 69 1 10 HELIX 22 22 HIS B 105 LEU B 116 1 12 HELIX 23 23 SER B 117 ALA B 130 1 14 HELIX 24 24 ALA B 132 GLN B 141 1 10 HELIX 25 25 VAL B 159 GLY B 165 1 7 HELIX 26 26 HIS B 173 PHE B 185 1 13 HELIX 27 27 LEU B 191 GLU B 197 1 7 HELIX 28 28 SER B 199 GLN B 211 1 13 HELIX 29 29 ARG B 212 LEU B 215 5 4 HELIX 30 30 PHE B 220 ALA B 226 1 7 HELIX 31 31 ASP B 236 LEU B 250 1 15 HELIX 32 32 LEU B 250 ALA B 265 1 16 HELIX 33 33 PHE B 267 ASP B 277 1 11 HELIX 34 34 ALA B 281 SER B 293 1 13 HELIX 35 35 LEU B 323 ARG B 328 1 6 HELIX 36 36 GLY B 360 ARG B 365 1 6 SHEET 1 A 6 HIS A 20 LEU A 21 0 SHEET 2 A 6 VAL A 48 LEU A 50 1 O TYR A 49 N LEU A 21 SHEET 3 A 6 VAL A 55 VAL A 58 -1 O GLY A 57 N VAL A 48 SHEET 4 A 6 LYS A 318 MET A 321 1 O LEU A 320 N TYR A 56 SHEET 5 A 6 PHE A 298 THR A 302 -1 N ARG A 300 O VAL A 319 SHEET 6 A 6 PHE A 74 CYS A 75 -1 N CYS A 75 O THR A 301 SHEET 1 B 3 ILE A 145 ASP A 146 0 SHEET 2 B 3 PRO A 403 PRO A 408 -1 O VAL A 404 N ILE A 145 SHEET 3 B 3 VAL A 379 ASP A 383 -1 N ALA A 380 O THR A 407 SHEET 1 C 2 VAL A 306 LEU A 308 0 SHEET 2 C 2 ALA A 311 ILE A 313 -1 O ALA A 311 N LEU A 308 SHEET 1 D 2 LYS A 389 ARG A 391 0 SHEET 2 D 2 GLY A 398 SER A 401 -1 O GLU A 400 N LYS A 389 SHEET 1 E 6 HIS B 20 LEU B 21 0 SHEET 2 E 6 VAL B 48 LEU B 50 1 O TYR B 49 N LEU B 21 SHEET 3 E 6 VAL B 55 VAL B 58 -1 O VAL B 55 N LEU B 50 SHEET 4 E 6 LYS B 318 PHE B 322 1 O LEU B 320 N TYR B 56 SHEET 5 E 6 THR B 297 THR B 302 -1 N ARG B 300 O VAL B 319 SHEET 6 E 6 PHE B 74 CYS B 75 -1 N CYS B 75 O THR B 301 SHEET 1 F 2 VAL B 306 LEU B 308 0 SHEET 2 F 2 ALA B 311 ILE B 313 -1 O ALA B 311 N LEU B 308 SHEET 1 G 2 ALA B 381 ASP B 385 0 SHEET 2 G 2 VAL B 404 THR B 407 -1 O THR B 407 N ALA B 381 SHEET 1 H 2 LYS B 389 PHE B 392 0 SHEET 2 H 2 ARG B 397 SER B 401 -1 O GLY B 398 N ARG B 391 LINK SG CYS A 358 FE HEM A 501 1555 1555 2.40 LINK SG CYS B 358 FE HEM B 501 1555 1555 2.28 CISPEP 1 PRO A 102 PRO A 103 0 10.17 CISPEP 2 PRO B 102 PRO B 103 0 8.04 SITE 1 AC1 19 ILE A 97 LEU A 98 HIS A 105 ARG A 109 SITE 2 AC1 19 LEU A 116 ALA A 248 GLY A 249 THR A 252 SITE 3 AC1 19 PHE A 298 ARG A 300 GLY A 350 PHE A 351 SITE 4 AC1 19 GLY A 352 HIS A 356 CYS A 358 VAL A 359 SITE 5 AC1 19 GLY A 360 ALA A 364 FIV A 502 SITE 1 AC2 10 ARG A 92 SER A 95 LEU A 98 VAL A 181 SITE 2 AC2 10 PHE A 182 ARG A 243 SER A 244 SER A 247 SITE 3 AC2 10 ALA A 248 HEM A 501 SITE 1 AC3 5 GLY A 179 ASN A 183 ALA A 195 ASP A 251 SITE 2 AC3 5 ARG A 391 SITE 1 AC4 2 ARG A 107 HOH A 607 SITE 1 AC5 4 ARG A 109 SER A 113 GOL A 506 LYS B 114 SITE 1 AC6 5 SER A 113 SER A 117 GLN A 361 LEU A 362 SITE 2 AC6 5 SO4 A 505 SITE 1 AC7 4 ARG A 92 TYR A 177 GLN A 203 ARG A 243 SITE 1 AC8 17 ILE B 97 LEU B 98 HIS B 105 ARG B 109 SITE 2 AC8 17 LEU B 245 ALA B 248 GLY B 249 THR B 252 SITE 3 AC8 17 THR B 253 VAL B 295 ARG B 300 PHE B 351 SITE 4 AC8 17 HIS B 356 CYS B 358 VAL B 359 GLY B 360 SITE 5 AC8 17 FIV B 502 SITE 1 AC9 9 ARG B 92 SER B 95 LEU B 98 VAL B 181 SITE 2 AC9 9 PHE B 182 LEU B 240 SER B 244 ALA B 248 SITE 3 AC9 9 HEM B 501 SITE 1 BC1 3 LYS A 114 ARG B 109 SER B 113 CRYST1 143.545 172.210 106.258 90.00 90.00 90.00 C 2 2 21 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 0.006966 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005807 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009411 0.00000