HEADER OXIDOREDUCTASE 21-JUL-17 5WJA TITLE CRYSTAL STRUCTURE OF H107A PEPTIDYLGLYCINE ALPHA-HYDROXYLATING TITLE 2 MONOOXYGENASE (PHM) IN COMPLEX WITH CITRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDYL-GLYCINE ALPHA-AMIDATING MONOOXYGENASE; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: PHM; COMPND 5 SYNONYM: PAM; COMPND 6 EC: 1.14.17.3,4.3.2.5; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: PAM; SOURCE 6 EXPRESSION_SYSTEM: CRICETULUS GRISEUS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10029; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: CHO; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCIS KEYWDS PEPTIDYLGLYCINE MONOOXYGENASE, PEPTIDYLGLYCINE 2-HYDROXYLASE, PHM, KEYWDS 2 METAL BINDING PROTEIN, OXIDOREDUCTASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.MAHESHWARI,K.RUDZKA,S.B.GABELLI,L.M.AMZEL REVDAT 5 30-OCT-24 5WJA 1 REMARK REVDAT 4 04-OCT-23 5WJA 1 LINK REVDAT 3 27-NOV-19 5WJA 1 REMARK REVDAT 2 17-OCT-18 5WJA 1 JRNL REVDAT 1 18-JUL-18 5WJA 0 JRNL AUTH S.MAHESHWARI,C.SHIMOKAWA,K.RUDZKA,C.D.KLINE,B.A.EIPPER, JRNL AUTH 2 R.E.MAINS,S.B.GABELLI,N.BLACKBURN,L.M.AMZEL JRNL TITL EFFECTS OF COPPER OCCUPANCY ON THE CONFORMATIONAL LANDSCAPE JRNL TITL 2 OF PEPTIDYLGLYCINE ALPHA-HYDROXYLATING MONOOXYGENASE. JRNL REF COMMUN BIOL V. 1 74 2018 JRNL REFN ESSN 2399-3642 JRNL PMID 30271955 JRNL DOI 10.1038/S42003-018-0082-Y REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 26271 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4798 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 142 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.60000 REMARK 3 B22 (A**2) : -3.16000 REMARK 3 B33 (A**2) : -1.45000 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): 0.415 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.279 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.244 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.497 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5WJA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000229130. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-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) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E DW REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27694 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 29.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.33900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: REFMAC REMARK 200 STARTING MODEL: 1PHM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19-24% PEG 4000, TRIS HCL, CITRATE, PH REMARK 280 8.5, VAPOR DIFFUSION, 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 29.77200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.79100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.30650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.79100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.77200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.30650 REMARK 290 SMTRY3 4 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 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 APPLY THE FOLLOWING TO CHAINS: D 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 ASN A 45 REMARK 465 GLU A 46 REMARK 465 CYS A 47 REMARK 465 LEU A 48 REMARK 465 GLY A 49 REMARK 465 PRO A 355 REMARK 465 VAL A 356 REMARK 465 VAL D 356 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 D 1112 O HOH D 1153 1.97 REMARK 500 O HOH A 1119 O HOH A 1122 2.17 REMARK 500 ND1 HIS D 172 OB2 FLC D 1002 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 287 CB - CG - OD1 ANGL. DEV. = 5.9 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 ILE A 51 -44.64 88.27 REMARK 500 ASP A 58 -141.25 54.98 REMARK 500 ASP A 104 -73.14 -32.00 REMARK 500 CYS A 114 -67.62 -123.59 REMARK 500 ASN A 115 54.20 113.02 REMARK 500 THR A 132 162.02 67.60 REMARK 500 ASP A 133 -62.81 -7.01 REMARK 500 LYS A 134 52.59 -109.40 REMARK 500 ASN A 144 38.67 76.36 REMARK 500 ALA A 145 52.44 -158.54 REMARK 500 PRO A 146 115.80 -33.22 REMARK 500 ARG A 180 99.95 -48.30 REMARK 500 ASP A 181 -6.68 120.20 REMARK 500 LYS A 230 39.52 -141.59 REMARK 500 HIS A 244 -153.68 -99.42 REMARK 500 GLU A 278 -90.86 -11.12 REMARK 500 ASP D 58 -148.65 -163.83 REMARK 500 THR D 72 106.27 35.36 REMARK 500 LYS D 74 -65.83 -96.28 REMARK 500 ASP D 77 -115.78 67.08 REMARK 500 THR D 78 134.78 68.96 REMARK 500 ASP D 133 -37.39 -32.60 REMARK 500 LYS D 134 104.64 43.50 REMARK 500 ALA D 135 -146.42 -156.17 REMARK 500 ASN D 182 -47.36 78.76 REMARK 500 HIS D 183 -161.07 36.73 REMARK 500 ASP D 185 122.29 67.50 REMARK 500 HIS D 244 -159.66 -99.18 REMARK 500 GLU D 298 57.99 -67.77 REMARK 500 ARG D 300 128.84 162.31 REMARK 500 THR D 301 -74.80 92.80 REMARK 500 LYS D 336 -158.90 36.06 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 50 ILE A 51 -147.09 REMARK 500 GLY A 121 SER A 122 -144.87 REMARK 500 THR A 132 ASP A 133 143.62 REMARK 500 PHE A 179 ARG A 180 145.29 REMARK 500 ALA D 135 ASN D 136 -138.45 REMARK 500 LYS D 336 ASN D 337 -140.88 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 A1001 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 108 ND1 REMARK 620 2 HIS A 172 ND1 117.9 REMARK 620 3 HOH A1140 O 81.5 113.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1002 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 128 OE1 REMARK 620 2 HIS A 242 NE2 112.0 REMARK 620 3 HIS A 244 NE2 101.7 109.0 REMARK 620 4 MET A 314 SD 98.5 113.4 120.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A1009 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 279 NE2 REMARK 620 2 HIS D 235 ND1 78.8 REMARK 620 3 ASP D 282 OD1 79.4 2.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU D1001 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 242 NE2 REMARK 620 2 HIS D 244 NE2 111.7 REMARK 620 3 MET D 314 SD 108.9 120.6 REMARK 620 4 HOH D1113 O 117.3 83.9 113.0 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CU A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1008 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 1009 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CU D 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FLC D 1002 DBREF 5WJA A 45 356 UNP P14925 AMD_RAT 45 356 DBREF 5WJA D 45 356 UNP P14925 AMD_RAT 45 356 SEQADV 5WJA ALA A 107 UNP P14925 HIS 107 ENGINEERED MUTATION SEQADV 5WJA ALA D 107 UNP P14925 HIS 107 ENGINEERED MUTATION SEQRES 1 A 312 ASN GLU CYS LEU GLY THR ILE GLY PRO VAL THR PRO LEU SEQRES 2 A 312 ASP ALA SER ASP PHE ALA LEU ASP ILE ARG MET PRO GLY SEQRES 3 A 312 VAL THR PRO LYS GLU SER ASP THR TYR PHE CYS MET SER SEQRES 4 A 312 MET ARG LEU PRO VAL ASP GLU GLU ALA PHE VAL ILE ASP SEQRES 5 A 312 PHE LYS PRO ARG ALA SER MET ASP THR VAL ALA HIS MET SEQRES 6 A 312 LEU LEU PHE GLY CYS ASN MET PRO SER SER THR GLY SER SEQRES 7 A 312 TYR TRP PHE CYS ASP GLU GLY THR CYS THR ASP LYS ALA SEQRES 8 A 312 ASN ILE LEU TYR ALA TRP ALA ARG ASN ALA PRO PRO THR SEQRES 9 A 312 ARG LEU PRO LYS GLY VAL GLY PHE ARG VAL GLY GLY GLU SEQRES 10 A 312 THR GLY SER LYS TYR PHE VAL LEU GLN VAL HIS TYR GLY SEQRES 11 A 312 ASP ILE SER ALA PHE ARG ASP ASN HIS LYS ASP CYS SER SEQRES 12 A 312 GLY VAL SER VAL HIS LEU THR ARG VAL PRO GLN PRO LEU SEQRES 13 A 312 ILE ALA GLY MET TYR LEU MET MET SER VAL ASP THR VAL SEQRES 14 A 312 ILE PRO PRO GLY GLU LYS VAL VAL ASN ALA ASP ILE SER SEQRES 15 A 312 CYS GLN TYR LYS MET TYR PRO MET HIS VAL PHE ALA TYR SEQRES 16 A 312 ARG VAL HIS THR HIS HIS LEU GLY LYS VAL VAL SER GLY SEQRES 17 A 312 TYR ARG VAL ARG ASN GLY GLN TRP THR LEU ILE GLY ARG SEQRES 18 A 312 GLN ASN PRO GLN LEU PRO GLN ALA PHE TYR PRO VAL GLU SEQRES 19 A 312 HIS PRO VAL ASP VAL THR PHE GLY ASP ILE LEU ALA ALA SEQRES 20 A 312 ARG CYS VAL PHE THR GLY GLU GLY ARG THR GLU ALA THR SEQRES 21 A 312 HIS ILE GLY GLY THR SER SER ASP GLU MET CYS ASN LEU SEQRES 22 A 312 TYR ILE MET TYR TYR MET GLU ALA LYS TYR ALA LEU SER SEQRES 23 A 312 PHE MET THR CYS THR LYS ASN VAL ALA PRO ASP MET PHE SEQRES 24 A 312 ARG THR ILE PRO ALA GLU ALA ASN ILE PRO ILE PRO VAL SEQRES 1 D 312 ASN GLU CYS LEU GLY THR ILE GLY PRO VAL THR PRO LEU SEQRES 2 D 312 ASP ALA SER ASP PHE ALA LEU ASP ILE ARG MET PRO GLY SEQRES 3 D 312 VAL THR PRO LYS GLU SER ASP THR TYR PHE CYS MET SER SEQRES 4 D 312 MET ARG LEU PRO VAL ASP GLU GLU ALA PHE VAL ILE ASP SEQRES 5 D 312 PHE LYS PRO ARG ALA SER MET ASP THR VAL ALA HIS MET SEQRES 6 D 312 LEU LEU PHE GLY CYS ASN MET PRO SER SER THR GLY SER SEQRES 7 D 312 TYR TRP PHE CYS ASP GLU GLY THR CYS THR ASP LYS ALA SEQRES 8 D 312 ASN ILE LEU TYR ALA TRP ALA ARG ASN ALA PRO PRO THR SEQRES 9 D 312 ARG LEU PRO LYS GLY VAL GLY PHE ARG VAL GLY GLY GLU SEQRES 10 D 312 THR GLY SER LYS TYR PHE VAL LEU GLN VAL HIS TYR GLY SEQRES 11 D 312 ASP ILE SER ALA PHE ARG ASP ASN HIS LYS ASP CYS SER SEQRES 12 D 312 GLY VAL SER VAL HIS LEU THR ARG VAL PRO GLN PRO LEU SEQRES 13 D 312 ILE ALA GLY MET TYR LEU MET MET SER VAL ASP THR VAL SEQRES 14 D 312 ILE PRO PRO GLY GLU LYS VAL VAL ASN ALA ASP ILE SER SEQRES 15 D 312 CYS GLN TYR LYS MET TYR PRO MET HIS VAL PHE ALA TYR SEQRES 16 D 312 ARG VAL HIS THR HIS HIS LEU GLY LYS VAL VAL SER GLY SEQRES 17 D 312 TYR ARG VAL ARG ASN GLY GLN TRP THR LEU ILE GLY ARG SEQRES 18 D 312 GLN ASN PRO GLN LEU PRO GLN ALA PHE TYR PRO VAL GLU SEQRES 19 D 312 HIS PRO VAL ASP VAL THR PHE GLY ASP ILE LEU ALA ALA SEQRES 20 D 312 ARG CYS VAL PHE THR GLY GLU GLY ARG THR GLU ALA THR SEQRES 21 D 312 HIS ILE GLY GLY THR SER SER ASP GLU MET CYS ASN LEU SEQRES 22 D 312 TYR ILE MET TYR TYR MET GLU ALA LYS TYR ALA LEU SER SEQRES 23 D 312 PHE MET THR CYS THR LYS ASN VAL ALA PRO ASP MET PHE SEQRES 24 D 312 ARG THR ILE PRO ALA GLU ALA ASN ILE PRO ILE PRO VAL HET CU A1001 1 HET CU A1002 1 HET GOL A1003 6 HET GOL A1004 6 HET GOL A1005 6 HET GOL A1006 6 HET GOL A1007 6 HET GOL A1008 6 HET NI A1009 1 HET CU D1001 1 HET FLC D1002 13 HETNAM CU COPPER (II) ION HETNAM GOL GLYCEROL HETNAM NI NICKEL (II) ION HETNAM FLC CITRATE ANION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CU 3(CU 2+) FORMUL 5 GOL 6(C3 H8 O3) FORMUL 11 NI NI 2+ FORMUL 13 FLC C6 H5 O7 3- FORMUL 14 HOH *142(H2 O) HELIX 1 AA1 ILE A 176 ARG A 180 5 5 HELIX 2 AA2 ALA A 339 ILE A 346 5 8 HELIX 3 AA3 PRO A 347 ILE A 352 5 6 HELIX 4 AA4 ASP D 127 GLY D 129 5 3 HELIX 5 AA5 SER D 177 ASP D 181 5 5 HELIX 6 AA6 LYS D 326 ALA D 328 5 3 HELIX 7 AA7 ALA D 339 ILE D 346 5 8 HELIX 8 AA8 PRO D 347 ILE D 352 5 6 SHEET 1 AA1 9 VAL A 54 LEU A 57 0 SHEET 2 AA1 9 ASP A 61 ARG A 67 -1 O ALA A 63 N THR A 55 SHEET 3 AA1 9 GLY A 188 THR A 194 -1 O VAL A 189 N ILE A 66 SHEET 4 AA1 9 ALA A 92 ARG A 100 -1 N ARG A 100 O GLY A 188 SHEET 5 AA1 9 VAL A 154 VAL A 158 -1 O VAL A 158 N ALA A 92 SHEET 6 AA1 9 LEU A 200 MET A 208 1 O ALA A 202 N GLY A 155 SHEET 7 AA1 9 ASN A 316 GLU A 324 -1 O ILE A 319 N TYR A 205 SHEET 8 AA1 9 MET A 234 HIS A 242 -1 N ARG A 240 O TYR A 318 SHEET 9 AA1 9 TYR A 275 VAL A 283 -1 O VAL A 283 N MET A 234 SHEET 1 AA2 7 VAL A 54 LEU A 57 0 SHEET 2 AA2 7 ASP A 61 ARG A 67 -1 O ALA A 63 N THR A 55 SHEET 3 AA2 7 GLY A 188 THR A 194 -1 O VAL A 189 N ILE A 66 SHEET 4 AA2 7 ALA A 92 ARG A 100 -1 N ARG A 100 O GLY A 188 SHEET 5 AA2 7 VAL A 154 VAL A 158 -1 O VAL A 158 N ALA A 92 SHEET 6 AA2 7 LEU A 200 MET A 208 1 O ALA A 202 N GLY A 155 SHEET 7 AA2 7 PHE A 331 CYS A 334 1 O MET A 332 N MET A 204 SHEET 1 AA3 5 TRP A 124 PHE A 125 0 SHEET 2 AA3 5 THR A 78 ARG A 85 -1 N CYS A 81 O TRP A 124 SHEET 3 AA3 5 TYR A 166 TYR A 173 -1 O TYR A 173 N THR A 78 SHEET 4 AA3 5 VAL A 106 GLY A 113 -1 N HIS A 108 O HIS A 172 SHEET 5 AA3 5 ILE A 137 ALA A 142 -1 O LEU A 138 N LEU A 111 SHEET 1 AA4 2 VAL A 213 ILE A 214 0 SHEET 2 AA4 2 THR A 304 HIS A 305 -1 O THR A 304 N ILE A 214 SHEET 1 AA5 4 VAL A 221 GLN A 228 0 SHEET 2 AA5 4 ILE A 288 PHE A 295 -1 O PHE A 295 N VAL A 221 SHEET 3 AA5 4 GLY A 247 ARG A 256 -1 N VAL A 255 O ILE A 288 SHEET 4 AA5 4 GLN A 259 GLN A 266 -1 O ILE A 263 N GLY A 252 SHEET 1 AA6 9 VAL D 54 ASP D 58 0 SHEET 2 AA6 9 ASP D 61 ARG D 67 -1 O ALA D 63 N THR D 55 SHEET 3 AA6 9 GLY D 188 THR D 194 -1 O LEU D 193 N PHE D 62 SHEET 4 AA6 9 GLU D 91 ARG D 100 -1 N ARG D 100 O GLY D 188 SHEET 5 AA6 9 VAL D 154 GLY D 159 -1 O VAL D 158 N ALA D 92 SHEET 6 AA6 9 LEU D 200 MET D 208 1 O ALA D 202 N GLY D 155 SHEET 7 AA6 9 ASN D 316 GLU D 324 -1 O MET D 323 N ILE D 201 SHEET 8 AA6 9 MET D 234 HIS D 242 -1 N ALA D 238 O MET D 320 SHEET 9 AA6 9 TYR D 275 VAL D 283 -1 O TYR D 275 N TYR D 239 SHEET 1 AA7 7 VAL D 54 ASP D 58 0 SHEET 2 AA7 7 ASP D 61 ARG D 67 -1 O ALA D 63 N THR D 55 SHEET 3 AA7 7 GLY D 188 THR D 194 -1 O LEU D 193 N PHE D 62 SHEET 4 AA7 7 GLU D 91 ARG D 100 -1 N ARG D 100 O GLY D 188 SHEET 5 AA7 7 VAL D 154 GLY D 159 -1 O VAL D 158 N ALA D 92 SHEET 6 AA7 7 LEU D 200 MET D 208 1 O ALA D 202 N GLY D 155 SHEET 7 AA7 7 PHE D 331 THR D 335 1 O MET D 332 N LEU D 206 SHEET 1 AA8 5 TRP D 124 PHE D 125 0 SHEET 2 AA8 5 TYR D 79 ARG D 85 -1 N CYS D 81 O TRP D 124 SHEET 3 AA8 5 TYR D 166 TYR D 173 -1 O VAL D 171 N PHE D 80 SHEET 4 AA8 5 VAL D 106 CYS D 114 -1 N ALA D 107 O HIS D 172 SHEET 5 AA8 5 ASN D 136 ALA D 142 -1 O TYR D 139 N LEU D 111 SHEET 1 AA9 4 VAL D 221 GLN D 228 0 SHEET 2 AA9 4 ILE D 288 PHE D 295 -1 O PHE D 295 N VAL D 221 SHEET 3 AA9 4 GLY D 247 ARG D 256 -1 N TYR D 253 O ALA D 290 SHEET 4 AA9 4 GLN D 259 GLN D 266 -1 O GLY D 264 N GLY D 252 SSBOND 1 CYS A 81 CYS A 126 1555 1555 2.04 SSBOND 2 CYS A 114 CYS A 131 1555 1555 2.12 SSBOND 3 CYS A 227 CYS A 334 1555 1555 2.05 SSBOND 4 CYS A 293 CYS A 315 1555 1555 2.01 SSBOND 5 CYS D 47 CYS D 186 1555 1555 2.04 SSBOND 6 CYS D 81 CYS D 126 1555 1555 2.06 SSBOND 7 CYS D 114 CYS D 131 1555 1555 2.03 SSBOND 8 CYS D 227 CYS D 334 1555 1555 2.02 SSBOND 9 CYS D 293 CYS D 315 1555 1555 2.02 LINK ND1 HIS A 108 CU CU A1001 1555 1555 2.22 LINK OE1 GLU A 128 CU CU A1002 1555 1555 2.18 LINK ND1 HIS A 172 CU CU A1001 1555 1555 2.08 LINK NE2 HIS A 242 CU CU A1002 1555 1555 2.04 LINK NE2 HIS A 244 CU CU A1002 1555 1555 2.27 LINK NE2 HIS A 279 NI NI A1009 1555 1555 2.00 LINK SD MET A 314 CU CU A1002 1555 1555 2.11 LINK CU CU A1001 O HOH A1140 1555 1555 2.53 LINK NI NI A1009 ND1 HIS D 235 3444 1555 1.93 LINK NI NI A1009 OD1 ASP D 282 3444 1555 1.90 LINK NE2 HIS D 242 CU CU D1001 1555 1555 2.10 LINK NE2 HIS D 244 CU CU D1001 1555 1555 2.14 LINK SD MET D 314 CU CU D1001 1555 1555 2.12 LINK CU CU D1001 O HOH D1113 1555 1555 2.43 SITE 1 AC1 4 HIS A 108 HIS A 172 HOH A1140 HOH A1178 SITE 1 AC2 4 GLU A 128 HIS A 242 HIS A 244 MET A 314 SITE 1 AC3 4 ARG A 85 PRO A 87 GLN A 259 TRP A 260 SITE 1 AC4 4 LEU A 262 VAL A 277 GLU A 278 HIS A 279 SITE 1 AC5 5 SER A 209 VAL A 210 ASP A 211 ASP A 224 SITE 2 AC5 5 THR A 335 SITE 1 AC6 5 ASN A 136 PHE A 156 ARG A 157 SER A 164 SITE 2 AC6 5 HOH A1109 SITE 1 AC7 5 TYR A 139 ALA A 140 THR A 148 MET A 320 SITE 2 AC7 5 HOH A1129 SITE 1 AC8 7 SER A 83 MET A 84 ARG A 85 SER A 118 SITE 2 AC8 7 SER A 119 THR A 120 HOH A1114 SITE 1 AC9 3 HIS A 279 HIS D 235 ASP D 282 SITE 1 AD1 5 HIS D 242 HIS D 244 MET D 314 FLC D1002 SITE 2 AD1 5 HOH D1113 SITE 1 AD2 12 TYR D 79 HIS D 108 LEU D 110 GLN D 170 SITE 2 AD2 12 HIS D 172 ARG D 240 HIS D 242 ASN D 316 SITE 3 AD2 12 TYR D 318 CU D1001 HOH D1113 HOH D1127 CRYST1 59.544 100.613 101.582 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016794 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009939 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009844 0.00000