PDB Short entry for 1YIP HEADER OXIDOREDUCTASE 12-JAN-05 1YIP TITLE OXIDIZED 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 45-355); 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, COPPER, 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 23-AUG-23 1YIP 1 REMARK LINK REVDAT 2 24-FEB-09 1YIP 1 VERSN REVDAT 1 15-NOV-05 1YIP 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. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.2.0003 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 14034 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.895 REMARK 3 FREE R VALUE TEST SET COUNT : 687 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 984 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2250 REMARK 3 BIN FREE R VALUE SET COUNT : 40 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2425 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 158 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.59000 REMARK 3 B22 (A**2) : 2.73900 REMARK 3 B33 (A**2) : -0.15000 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): 0.187 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.954 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2499 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2213 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3403 ; 1.822 ; 1.934 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5151 ; 0.913 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 310 ; 8.542 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;34.563 ;23.148 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 391 ;17.266 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;17.949 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 368 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2785 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 519 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 487 ; 0.235 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2328 ; 0.195 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1142 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1540 ; 0.092 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 150 ; 0.213 ; 0.200 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): 16 ; 0.136 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 87 ; 0.189 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 17 ; 0.208 ; 0.200 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): 1953 ; 1.121 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 625 ; 0.210 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2524 ; 1.383 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2112 ; 0.632 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1110 ; 2.205 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1991 ; 0.876 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 879 ; 3.173 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3039 ; 1.309 ; 4.500 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 47 A 200 REMARK 3 RESIDUE RANGE : A 201 A 354 REMARK 3 ORIGIN FOR THE GROUP (A): 57.8041 7.0705 19.9527 REMARK 3 T TENSOR REMARK 3 T11: -0.0890 T22: -0.1678 REMARK 3 T33: -0.0646 T12: 0.0131 REMARK 3 T13: -0.0244 T23: -0.0095 REMARK 3 L TENSOR REMARK 3 L11: 0.9038 L22: 0.4888 REMARK 3 L33: 1.9576 L12: -0.0958 REMARK 3 L13: -0.3645 L23: 0.1885 REMARK 3 S TENSOR REMARK 3 S11: -0.0144 S12: 0.1072 S13: -0.0404 REMARK 3 S21: -0.0722 S22: -0.0180 S23: 0.0780 REMARK 3 S31: -0.0707 S32: -0.1908 S33: 0.0324 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL PLUS 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1YIP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000031557. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-FEB-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) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA CCP4_5.0, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14064 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 30.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.700 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : 0.05800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.0400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.44400 REMARK 200 R SYM FOR SHELL (I) : 0.44400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.180 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: PDB ENTRY 1OPM 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 29.26150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.93550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.84150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.93550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.26150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.84150 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 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 HOH A 363 O HOH A 511 1.95 REMARK 500 OD2 ASP A 89 NZ LYS A 165 2.05 REMARK 500 O GLN A 198 O HOH A 409 2.09 REMARK 500 OD2 ASP A 133 O HOH A 377 2.11 REMARK 500 OE2 GLU A 91 O HOH A 390 2.16 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 VAL A 54 CB - CA - C ANGL. DEV. = -13.1 DEGREES REMARK 500 ASP A 58 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP A 104 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP A 127 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 157 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 175 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 254 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP A 287 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 341 CB - CG - OD2 ANGL. DEV. = 6.3 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 -176.80 133.20 REMARK 500 ASP A 77 72.02 49.04 REMARK 500 SER A 102 105.49 -59.61 REMARK 500 THR A 130 -71.55 -102.14 REMARK 500 ALA A 145 72.37 -150.66 REMARK 500 ASP A 181 31.34 -95.38 REMARK 500 LYS A 230 34.54 -149.20 REMARK 500 MET A 231 -167.65 -112.01 REMARK 500 HIS A 244 -148.06 -102.99 REMARK 500 ALA A 273 -178.85 -64.91 REMARK 500 THR A 309 15.37 44.30 REMARK 500 SER A 310 79.57 -6.79 REMARK 500 ASP A 312 -65.28 56.86 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 THR A 309 SER A 310 -139.43 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 CU A 357 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 107 ND1 REMARK 620 2 HIS A 108 ND1 154.7 REMARK 620 3 HIS A 172 ND1 106.9 93.0 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 HIS A 242 NE2 REMARK 620 2 HIS A 244 NE2 109.9 REMARK 620 3 MET A 314 SD 99.5 88.1 REMARK 620 4 HOH A 368 O 118.7 131.3 85.3 REMARK 620 5 HOH A 369 O 171.6 78.3 78.6 53.2 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 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YI9 RELATED DB: PDB REMARK 900 M314I MUTANT OF PHM REMARK 900 RELATED ID: 1PHM RELATED DB: PDB REMARK 900 OXIDIZED PHM STRUCTURE REMARK 900 RELATED ID: 1OPM RELATED DB: PDB REMARK 900 OXIDIZED PHM STRUCTURE WITH SUBSTRATE REMARK 900 RELATED ID: 3PHM RELATED DB: PDB REMARK 900 REDUCED PHM STRUCTURE REMARK 900 RELATED ID: 1SDW RELATED DB: PDB REMARK 900 REDUCED PHM STRUCTURE WITH SUBSTRATE AND DIOXYGEN DBREF 1YIP A 45 355 UNP P14925 AMD_RAT 45 355 SEQRES 1 A 311 ASN GLU CYS LEU GLY THR ILE GLY PRO VAL THR PRO LEU SEQRES 2 A 311 ASP ALA SER ASP PHE ALA LEU ASP ILE ARG MET PRO GLY SEQRES 3 A 311 VAL THR PRO LYS GLU SER ASP THR TYR PHE CYS MET SER SEQRES 4 A 311 MET ARG LEU PRO VAL ASP GLU GLU ALA PHE VAL ILE ASP SEQRES 5 A 311 PHE LYS PRO ARG ALA SER MET ASP THR VAL HIS HIS MET SEQRES 6 A 311 LEU LEU PHE GLY CYS ASN MET PRO SER SER THR GLY SER SEQRES 7 A 311 TYR TRP PHE CYS ASP GLU GLY THR CYS THR ASP LYS ALA SEQRES 8 A 311 ASN ILE LEU TYR ALA TRP ALA ARG ASN ALA PRO PRO THR SEQRES 9 A 311 ARG LEU PRO LYS GLY VAL GLY PHE ARG VAL GLY GLY GLU SEQRES 10 A 311 THR GLY SER LYS TYR PHE VAL LEU GLN VAL HIS TYR GLY SEQRES 11 A 311 ASP ILE SER ALA PHE ARG ASP ASN HIS LYS ASP CYS SER SEQRES 12 A 311 GLY VAL SER VAL HIS LEU THR ARG VAL PRO GLN PRO LEU SEQRES 13 A 311 ILE ALA GLY MET TYR LEU MET MET SER VAL ASP THR VAL SEQRES 14 A 311 ILE PRO PRO GLY GLU LYS VAL VAL ASN ALA ASP ILE SER SEQRES 15 A 311 CYS GLN TYR LYS MET TYR PRO MET HIS VAL PHE ALA TYR SEQRES 16 A 311 ARG VAL HIS THR HIS HIS LEU GLY LYS VAL VAL SER GLY SEQRES 17 A 311 TYR ARG VAL ARG ASN GLY GLN TRP THR LEU ILE GLY ARG SEQRES 18 A 311 GLN ASN PRO GLN LEU PRO GLN ALA PHE TYR PRO VAL GLU SEQRES 19 A 311 HIS PRO VAL ASP VAL THR PHE GLY ASP ILE LEU ALA ALA SEQRES 20 A 311 ARG CYS VAL PHE THR GLY GLU GLY ARG THR GLU ALA THR SEQRES 21 A 311 HIS ILE GLY GLY THR SER SER ASP GLU MET CYS ASN LEU SEQRES 22 A 311 TYR ILE MET TYR TYR MET GLU ALA LYS TYR ALA LEU SER SEQRES 23 A 311 PHE MET THR CYS THR LYS ASN VAL ALA PRO ASP MET PHE SEQRES 24 A 311 ARG THR ILE PRO ALA GLU ALA ASN ILE PRO ILE PRO HET CU A 357 1 HET CU A 358 1 HETNAM CU COPPER (II) ION FORMUL 2 CU 2(CU 2+) FORMUL 4 HOH *158(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 LEU A 193 N PHE A 62 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 LEU A 200 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 LEU A 193 N PHE A 62 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 LEU A 200 N GLY A 155 SHEET 7 B 7 PHE A 331 CYS A 334 1 O MET A 332 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 LEU A 110 O GLN A 170 SHEET 5 C 5 ASN A 136 ALA A 142 -1 O LEU A 138 N LEU A 111 SHEET 1 D 2 THR A 212 ILE A 214 0 SHEET 2 D 2 THR A 304 ILE A 306 -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 47 CYS A 186 1555 1555 2.05 SSBOND 2 CYS A 81 CYS A 126 1555 1555 2.06 SSBOND 3 CYS A 114 CYS A 131 1555 1555 2.02 SSBOND 4 CYS A 227 CYS A 334 1555 1555 2.05 SSBOND 5 CYS A 293 CYS A 315 1555 1555 1.94 LINK ND1 HIS A 107 CU CU A 357 1555 1555 2.22 LINK ND1 HIS A 108 CU CU A 357 1555 1555 2.22 LINK ND1 HIS A 172 CU CU A 357 1555 1555 2.26 LINK NE2 HIS A 242 CU CU A 358 1555 1555 2.17 LINK NE2 HIS A 244 CU CU A 358 1555 1555 2.29 LINK SD MET A 314 CU CU A 358 1555 1555 2.45 LINK CU CU A 358 O HOH A 368 1555 1555 2.51 LINK CU CU A 358 O HOH A 369 1555 1555 2.44 SITE 1 AC1 3 HIS A 107 HIS A 108 HIS A 172 SITE 1 AC2 5 HIS A 242 HIS A 244 MET A 314 HOH A 368 SITE 2 AC2 5 HOH A 369 CRYST1 58.523 65.683 69.871 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 0.017100 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015200 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014300 0.00000