PDB Short entry for 1YJK HEADER OXIDOREDUCTASE 14-JAN-05 1YJK TITLE REDUCED PEPTIDYLGLYCINE ALPHA-HYDROXYLATING MONOOXYGENASE (PHM) IN A TITLE 2 NEW CRYSTAL FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDYL-GLYCINE ALPHA-AMIDATING MONOOXYGENASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PEPTIDYLGLYCINE ALPHA-HYDROXYLATING MONOOXYGENASE (RESIDUES COMPND 5 50-355); COMPND 6 SYNONYM: PAM; COMPND 7 EC: 1.14.17.3; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: PAM; SOURCE 6 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CHINESE HAMSTER; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: DG44; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: VIRUS; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PCIS KEYWDS MONOOXYGENASE, BIOACTIVE PEPTIDE ACTIVATION, ASCORBATE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR X.SIEBERT,B.A.EIPPER,R.E.MAINS,S.T.PRIGGE,N.J.BLACKBURN,L.M.AMZEL REVDAT 3 13-JUL-11 1YJK 1 VERSN REVDAT 2 24-FEB-09 1YJK 1 VERSN REVDAT 1 15-NOV-05 1YJK 0 JRNL AUTH X.SIEBERT,B.A.EIPPER,R.E.MAINS,S.T.PRIGGE,N.J.BLACKBURN, JRNL AUTH 2 L.M.AMZEL JRNL TITL THE CATALYTIC COPPER OF PEPTIDYLGLYCINE ALPHA-HYDROXYLATING JRNL TITL 2 MONOOXYGENASE ALSO PLAYS A CRITICAL STRUCTURAL ROLE. JRNL REF BIOPHYS.J. V. 89 3312 2005 JRNL REFN ISSN 0006-3495 JRNL PMID 16100265 JRNL DOI 10.1529/BIOPHYSJ.105.066100 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 19055 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 930 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1332 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.1960 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2369 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 84 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.42000 REMARK 3 B22 (A**2) : 1.07000 REMARK 3 B33 (A**2) : -0.65000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.135 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.600 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2473 ; 0.027 ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3348 ; 2.111 ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 301 ; 7.596 ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 105 ;34.894 ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 381 ;17.073 ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;22.278 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 360 ; 0.175 ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1876 ; 0.010 ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 999 ; 0.224 ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1616 ; 0.315 ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 119 ; 0.182 ; 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): 49 ; 0.223 ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.285 ; 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): 1570 ; 1.424 ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2461 ; 2.077 ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1053 ; 3.383 ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 887 ; 4.765 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 201 A 354 REMARK 3 ORIGIN FOR THE GROUP (A): 28.7980 7.0950 20.2680 REMARK 3 T TENSOR REMARK 3 T11: -0.1277 T22: -0.1488 REMARK 3 T33: -0.1233 T12: 0.0072 REMARK 3 T13: -0.0405 T23: 0.0021 REMARK 3 L TENSOR REMARK 3 L11: 1.4615 L22: 0.9580 REMARK 3 L33: 3.0027 L12: -0.3749 REMARK 3 L13: -0.5706 L23: 0.4755 REMARK 3 S TENSOR REMARK 3 S11: -0.0150 S12: 0.1217 S13: -0.1050 REMARK 3 S21: -0.1035 S22: -0.0350 S23: 0.1920 REMARK 3 S31: -0.0477 S32: -0.3560 S33: 0.0501 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YJK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-05. REMARK 100 THE RCSB ID CODE IS RCSB031585. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUN-04 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 : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19100 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 48.220 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.700 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : 0.05400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, MAGNESIUM CHLORIDE, TRIS, PH REMARK 280 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 29.57300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.95850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.16750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.95850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.57300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.16750 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLY A 308 REMARK 465 THR A 309 REMARK 465 SER A 310 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 GLU A 302 CG CD OE1 OE2 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 SD MET A 84 O HOH A 874 1.93 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 ASP A 175 C ILE A 176 N 0.144 REMARK 500 PHE A 179 CB PHE A 179 CG 0.103 REMARK 500 PHE A 179 CG PHE A 179 CD1 -0.100 REMARK 500 PHE A 179 CZ PHE A 179 CE2 0.136 REMARK 500 GLY A 217 C GLY A 217 O 0.102 REMARK 500 GLU A 218 CG GLU A 218 CD 0.109 REMARK 500 GLU A 218 CD GLU A 218 OE1 0.080 REMARK 500 GLU A 218 CD GLU A 218 OE2 0.082 REMARK 500 GLY A 217 C GLU A 218 N 0.238 REMARK 500 THR A 301 CA THR A 301 CB 0.191 REMARK 500 THR A 301 CB THR A 301 OG1 0.386 REMARK 500 THR A 301 C THR A 301 O 0.166 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 CYS A 81 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 85 NE - CZ - NH2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ASP A 89 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP A 104 CB - CG - OD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 127 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ASP A 133 CB - CG - OD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 LYS A 152 CD - CE - NZ ANGL. DEV. = 14.4 DEGREES REMARK 500 ILE A 176 O - C - N ANGL. DEV. = 11.1 DEGREES REMARK 500 PHE A 179 CB - CG - CD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ASP A 224 CB - CG - OD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 312 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 LEU A 329 CA - CB - CG ANGL. DEV. = 15.8 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 ASP A 58 -162.60 179.86 REMARK 500 SER A 102 106.63 -58.04 REMARK 500 ASP A 104 -78.55 -86.45 REMARK 500 ALA A 145 80.93 -158.35 REMARK 500 LYS A 230 31.55 -142.98 REMARK 500 HIS A 244 -152.79 -98.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 851 DISTANCE = 6.21 ANGSTROMS 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 CU A 357 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 107 ND1 REMARK 620 2 HIS A 108 ND1 139.7 REMARK 620 3 HIS A 172 ND1 104.4 109.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 358 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 885 O REMARK 620 2 MET A 314 SD 112.8 REMARK 620 3 HIS A 242 NE2 93.7 115.5 REMARK 620 4 HIS A 244 NE2 111.8 109.6 112.6 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 CU A 357 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 358 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 801 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YJL RELATED DB: PDB REMARK 900 RELATED ID: 1YI9 RELATED DB: PDB REMARK 900 OXIDIZED PHM-M314I REMARK 900 RELATED ID: 1YIP RELATED DB: PDB REMARK 900 OXIDIZED PHM IN M314I CRYSTAL FORM REMARK 900 RELATED ID: 1PHM RELATED DB: PDB REMARK 900 OXIDIZED PHM REMARK 900 RELATED ID: 1OPM RELATED DB: PDB REMARK 900 OXIDIZED PHM WITH SUBSTRATE REMARK 900 RELATED ID: 3PHM RELATED DB: PDB REMARK 900 REDUCED PHM REMARK 900 RELATED ID: 1SDW RELATED DB: PDB REMARK 900 REDUCED PHM WITH SUBSTRATE AND DIOXYGEN DBREF 1YJK A 50 355 UNP P14925 AMD_RAT 50 355 SEQRES 1 A 306 THR ILE GLY PRO VAL THR PRO LEU ASP ALA SER ASP PHE SEQRES 2 A 306 ALA LEU ASP ILE ARG MET PRO GLY VAL THR PRO LYS GLU SEQRES 3 A 306 SER ASP THR TYR PHE CYS MET SER MET ARG LEU PRO VAL SEQRES 4 A 306 ASP GLU GLU ALA PHE VAL ILE ASP PHE LYS PRO ARG ALA SEQRES 5 A 306 SER MET ASP THR VAL HIS HIS MET LEU LEU PHE GLY CYS SEQRES 6 A 306 ASN MET PRO SER SER THR GLY SER TYR TRP PHE CYS ASP SEQRES 7 A 306 GLU GLY THR CYS THR ASP LYS ALA ASN ILE LEU TYR ALA SEQRES 8 A 306 TRP ALA ARG ASN ALA PRO PRO THR ARG LEU PRO LYS GLY SEQRES 9 A 306 VAL GLY PHE ARG VAL GLY GLY GLU THR GLY SER LYS TYR SEQRES 10 A 306 PHE VAL LEU GLN VAL HIS TYR GLY ASP ILE SER ALA PHE SEQRES 11 A 306 ARG ASP ASN HIS LYS ASP CYS SER GLY VAL SER VAL HIS SEQRES 12 A 306 LEU THR ARG VAL PRO GLN PRO LEU ILE ALA GLY MET TYR SEQRES 13 A 306 LEU MET MET SER VAL ASP THR VAL ILE PRO PRO GLY GLU SEQRES 14 A 306 LYS VAL VAL ASN ALA ASP ILE SER CYS GLN TYR LYS MET SEQRES 15 A 306 TYR PRO MET HIS VAL PHE ALA TYR ARG VAL HIS THR HIS SEQRES 16 A 306 HIS LEU GLY LYS VAL VAL SER GLY TYR ARG VAL ARG ASN SEQRES 17 A 306 GLY GLN TRP THR LEU ILE GLY ARG GLN ASN PRO GLN LEU SEQRES 18 A 306 PRO GLN ALA PHE TYR PRO VAL GLU HIS PRO VAL ASP VAL SEQRES 19 A 306 THR PHE GLY ASP ILE LEU ALA ALA ARG CYS VAL PHE THR SEQRES 20 A 306 GLY GLU GLY ARG THR GLU ALA THR HIS ILE GLY GLY THR SEQRES 21 A 306 SER SER ASP GLU MET CYS ASN LEU TYR ILE MET TYR TYR SEQRES 22 A 306 MET GLU ALA LYS TYR ALA LEU SER PHE MET THR CYS THR SEQRES 23 A 306 LYS ASN VAL ALA PRO ASP MET PHE ARG THR ILE PRO ALA SEQRES 24 A 306 GLU ALA ASN ILE PRO ILE PRO HET CU A 357 1 HET CU A 358 1 HET GOL A 701 6 HET GOL A 702 6 HET GOL A 703 6 HET GOL A 704 6 HET GOL A 801 6 HETNAM CU COPPER (II) ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CU 2(CU 2+) FORMUL 4 GOL 5(C3 H8 O3) FORMUL 9 HOH *84(H2 O) HELIX 1 1 ASP A 127 GLY A 129 5 3 HELIX 2 2 LYS A 326 ALA A 328 5 3 HELIX 3 3 ALA A 339 ILE A 346 5 8 HELIX 4 4 PRO A 347 ILE A 352 5 6 SHEET 1 A 9 VAL A 54 PRO A 56 0 SHEET 2 A 9 ASP A 61 ARG A 67 -1 O ALA A 63 N THR A 55 SHEET 3 A 9 GLY A 188 THR A 194 -1 O VAL A 189 N ILE A 66 SHEET 4 A 9 ALA A 92 ARG A 100 -1 N ARG A 100 O GLY A 188 SHEET 5 A 9 VAL A 154 VAL A 158 -1 O VAL A 158 N ALA A 92 SHEET 6 A 9 LEU A 200 MET A 208 1 O ALA A 202 N GLY A 155 SHEET 7 A 9 ASN A 316 GLU A 324 -1 O ILE A 319 N TYR A 205 SHEET 8 A 9 MET A 234 HIS A 242 -1 N ARG A 240 O TYR A 318 SHEET 9 A 9 TYR A 275 VAL A 283 -1 O TYR A 275 N TYR A 239 SHEET 1 B 7 VAL A 54 PRO A 56 0 SHEET 2 B 7 ASP A 61 ARG A 67 -1 O ALA A 63 N THR A 55 SHEET 3 B 7 GLY A 188 THR A 194 -1 O VAL A 189 N ILE A 66 SHEET 4 B 7 ALA A 92 ARG A 100 -1 N ARG A 100 O GLY A 188 SHEET 5 B 7 VAL A 154 VAL A 158 -1 O VAL A 158 N ALA A 92 SHEET 6 B 7 LEU A 200 MET A 208 1 O ALA A 202 N GLY A 155 SHEET 7 B 7 PHE A 331 CYS A 334 1 O CYS A 334 N LEU A 206 SHEET 1 C 5 TRP A 124 PHE A 125 0 SHEET 2 C 5 THR A 78 ARG A 85 -1 N CYS A 81 O TRP A 124 SHEET 3 C 5 TYR A 166 TYR A 173 -1 O TYR A 173 N THR A 78 SHEET 4 C 5 VAL A 106 CYS A 114 -1 N HIS A 108 O HIS A 172 SHEET 5 C 5 ASN A 136 ALA A 142 -1 O LEU A 138 N LEU A 111 SHEET 1 D 2 VAL A 213 ILE A 214 0 SHEET 2 D 2 THR A 304 HIS A 305 -1 O THR A 304 N ILE A 214 SHEET 1 E 4 VAL A 221 GLN A 228 0 SHEET 2 E 4 ILE A 288 PHE A 295 -1 O PHE A 295 N VAL A 221 SHEET 3 E 4 GLY A 247 ARG A 256 -1 N VAL A 255 O ILE A 288 SHEET 4 E 4 GLN A 259 GLN A 266 -1 O ILE A 263 N GLY A 252 SSBOND 1 CYS A 81 CYS A 126 1555 1555 2.05 SSBOND 2 CYS A 114 CYS A 131 1555 1555 2.11 SSBOND 3 CYS A 227 CYS A 334 1555 1555 2.01 SSBOND 4 CYS A 293 CYS A 315 1555 1555 1.99 LINK ND1 HIS A 107 CU CU A 357 1555 1555 2.03 LINK ND1 HIS A 108 CU CU A 357 1555 1555 2.02 LINK ND1 HIS A 172 CU CU A 357 1555 1555 2.02 LINK CU CU A 358 O HOH A 885 1555 1555 1.96 LINK CU CU A 358 SD MET A 314 1555 1555 2.25 LINK CU CU A 358 NE2 HIS A 242 1555 1555 2.06 LINK CU CU A 358 NE2 HIS A 244 1555 1555 2.04 SITE 1 AC1 3 HIS A 107 HIS A 108 HIS A 172 SITE 1 AC2 4 HIS A 242 HIS A 244 MET A 314 HOH A 885 SITE 1 AC3 8 LEU A 138 TYR A 139 THR A 148 LEU A 150 SITE 2 AC3 8 ALA A 238 MET A 320 HOH A 859 HOH A 884 SITE 1 AC4 8 ASN A 136 LEU A 138 PHE A 156 ARG A 157 SITE 2 AC4 8 GLY A 163 SER A 164 SER A 330 HOH A 803 SITE 1 AC5 6 TYR A 205 CYS A 227 GLN A 228 TYR A 229 SITE 2 AC5 6 LYS A 230 THR A 333 SITE 1 AC6 4 ASP A 61 ILE A 95 THR A 194 GLN A 198 SITE 1 AC7 8 SER A 119 TRP A 124 GLU A 128 GLU A 218 SITE 2 AC7 8 VAL A 220 VAL A 221 GLU A 278 HIS A 279 CRYST1 59.146 66.335 69.917 90.00 90.00 90.00 P 21 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 0.016907 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015075 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014303 0.00000