HEADER OXIDOREDUCTASE 10-OCT-07 2VDS OBSLTE 12-OCT-11 2VDS 4A2H TITLE CRYSTAL STRUCTURE OF LACCASE FROM CORIOLOPSIS GALLICA COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACCASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.10.3.2 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CORIOLOPSIS GALLICA; SOURCE 3 ORGANISM_TAXID: 76126 KEYWDS OXIDOREDUCTASE, BLUE MULTICOPPER OXIDASE, BLUE COPPER PROTEIN, BETA KEYWDS 2 SANDWICH, IMMUNOGLOBULIN-LIKE. EXPDTA X-RAY DIFFRACTION AUTHOR E.DE LA MORA,B.VALDERRAMA,E.HORJALES,E.RUDINO-PINERA REVDAT 3 12-OCT-11 2VDS 1 OBSLTE REVDAT 2 24-FEB-09 2VDS 1 VERSN REVDAT 1 28-OCT-08 2VDS 0 JRNL AUTH E.DE LA MORA,B.VALDERRAMA,E.HORJALES,E.RUDINO-PINERA JRNL TITL CRYSTAL STRUCTURE OF LACCASE FROM CORIOLOPSIS GALLICA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.3 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 76.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 3 NUMBER OF REFLECTIONS : 30541 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) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1641 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1797 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2920 REMARK 3 BIN FREE R VALUE SET COUNT : 97 REMARK 3 BIN FREE R VALUE : 0.3650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3767 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 427 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.31 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.45000 REMARK 3 B22 (A**2) : 3.41000 REMARK 3 B33 (A**2) : -0.95000 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): 0.246 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.200 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.141 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.877 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3938 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5415 ; 1.576 ; 1.951 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 500 ; 9.310 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;36.103 ;24.598 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 515 ;14.556 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;20.639 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 615 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3095 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1714 ; 0.204 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2585 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 346 ; 0.145 ; 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): 38 ; 0.222 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.144 ; 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): 2550 ; 0.490 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4038 ; 0.876 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1570 ; 1.281 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1376 ; 1.909 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2VDS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-OCT-07. REMARK 100 THE PDBE ID CODE IS EBI-34104. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAY-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : YALE REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU-MSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34113 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.30 REMARK 200 RESOLUTION RANGE LOW (A) : 34.70 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.5 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 6.7 REMARK 200 R MERGE (I) : 0.11 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.10 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) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.0 REMARK 200 R MERGE FOR SHELL (I) : 0.47 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.60 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1GYC REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1000, PEG 8000, HEPES 100 MM. 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 28.18800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.78650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.39750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 76.78650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.18800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.39750 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 GENERATING THE BIOMOLECULE 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 SOFWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 2332 - O HOH A 2375 2.00 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 ARG A 242 N ARG A 242 CA -0.359 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 GLN A 241 O - C - N ANGL. DEV. = -13.1 DEGREES REMARK 500 GLN A 478 N - CA - C ANGL. DEV. = -23.0 DEGREES REMARK 500 ASP A 494 C - N - CA ANGL. DEV. = 15.3 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 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 SER A 16 52.62 -144.42 REMARK 500 LEU A 58 130.07 76.68 REMARK 500 VAL A 99 65.45 -118.82 REMARK 500 SER A 113 -133.53 51.44 REMARK 500 ASP A 141 -159.89 -146.00 REMARK 500 THR A 179 54.32 -140.71 REMARK 500 ASP A 205 -69.47 -150.75 REMARK 500 ALA A 240 -3.77 87.52 REMARK 500 GLN A 267 50.23 -103.66 REMARK 500 PRO A 285 63.27 -69.70 REMARK 500 PRO A 316 46.21 -79.86 REMARK 500 LEU A 325 81.47 103.58 REMARK 500 ASN A 417 52.52 -158.53 REMARK 500 ASN A 474 66.41 -118.03 REMARK 500 ASP A 494 -55.94 79.04 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 ALA A 312 ALA A 313 44.92 REMARK 500 PRO A 477 GLN A 478 -119.28 REMARK 500 ASP A 493 ASP A 494 39.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN A 241 18.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ARG A 242 16.3 L L OUTSIDE RANGE REMARK 500 LEU A 325 17.7 L L OUTSIDE RANGE REMARK 500 ASP A 493 20.6 L L OUTSIDE RANGE REMARK 500 ASP A 494 14.0 L L OUTSIDE RANGE 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 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 NAG A 507 REMARK 610 NAG A 508 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 CU1 A 518 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 454 ND1 REMARK 620 2 HIS A 393 ND1 95.9 REMARK 620 3 CYS A 449 SG 134.2 129.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 519 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 64 NE2 REMARK 620 2 HIS A 396 NE2 162.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU3 A 516 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 448 NE2 REMARK 620 2 HIS A 111 NE2 120.3 REMARK 620 3 HIS A 398 NE2 107.1 117.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU3 A 517 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 450 NE2 REMARK 620 2 HIS A 66 ND1 116.8 REMARK 620 3 HIS A 109 NE2 110.5 128.4 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAG A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU3 A 516 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU3 A 517 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU1 A 518 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 519 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE DESCRIBED BELOW IS 93 PER CENT IDENTICAL TO REMARK 999 THE SEQUENCE AAW65489 (UNIPROT). DBREF 2VDS A 1 496 PDB 2VDS 2VDS 1 496 SEQRES 1 A 496 ALA ILE GLY PRO VAL ALA ASP LEU THR ILE SER ASN GLY SEQRES 2 A 496 ALA VAL SER PRO ASP GLY PHE SER ARG GLN ALA ILE LEU SEQRES 3 A 496 VAL ASN ASP VAL PHE PRO SER PRO LEU ILE THR GLY ASN SEQRES 4 A 496 LYS GLY ASP ARG PHE GLN LEU ASN VAL ILE ASP ASN MET SEQRES 5 A 496 THR ASN HIS THR MET LEU LYS SER THR SER ILE HIS TRP SEQRES 6 A 496 HIS GLY PHE PHE GLN HIS GLY THR ASN TRP ALA ASP GLY SEQRES 7 A 496 PRO ALA PHE VAL ASN GLN CYS PRO ILE SER THR GLY HIS SEQRES 8 A 496 ALA PHE LEU TYR ASP PHE GLN VAL PRO ASP GLN ALA GLY SEQRES 9 A 496 THR PHE TRP TYR HIS SER HIS LEU SER THR GLN TYR CYS SEQRES 10 A 496 ASP GLY LEU ARG GLY PRO ILE VAL VAL TYR ASP PRO ASP SEQRES 11 A 496 ASP PRO HIS LYS SER LEU TYR ASP VAL ASP ASP ASP SER SEQRES 12 A 496 THR VAL ILE THR LEU ALA ASP TRP TYR HIS LEU ALA ALA SEQRES 13 A 496 LYS VAL GLY ALA PRO VAL PRO THR ALA ASP ALA THR LEU SEQRES 14 A 496 ILE ASN GLY LEU GLY ARG SER SER ALA THR LEU ASN ALA SEQRES 15 A 496 ASP LEU ALA VAL ILE THR VAL THR LYS GLY LYS ARG TYR SEQRES 16 A 496 ARG PHE ARG LEU VAL SER LEU SER CYS ASP PRO ASN TYR SEQRES 17 A 496 THR PHE SER ILE ASP GLY HIS SER LEU THR VAL ILE GLU SEQRES 18 A 496 ALA ASP SER THR ASN LEU LYS PRO HIS THR VAL ASP SER SEQRES 19 A 496 LEU GLN ILE PHE ALA ALA GLN ARG TYR SER PHE VAL LEU SEQRES 20 A 496 ASN ALA ASP GLN ASP VAL ASP ASN TYR TRP ILE ARG ALA SEQRES 21 A 496 LEU PRO ASN SER GLY THR GLN ASN PHE ALA GLY GLY VAL SEQRES 22 A 496 ASN SER ALA ILE LEU ARG TYR ASP GLY ALA ALA PRO VAL SEQRES 23 A 496 GLU PRO THR THR SER GLN THR PRO SER THR ASN PRO LEU SEQRES 24 A 496 VAL GLU SER ALA LEU THR THR LEU LYS GLY VAL ALA ALA SEQRES 25 A 496 ALA GLY SER PRO THR PRO GLY GLY VAL ASP LEU ALA LEU SEQRES 26 A 496 ASN MET ALA PHE GLY PHE ALA GLY ASN PHE THR ILE ASN SEQRES 27 A 496 GLY ALA SER PHE THR PRO PRO THR VAL PRO VAL LEU LEU SEQRES 28 A 496 GLN ILE LEU SER GLY ALA GLN SER ALA GLN ASP LEU LEU SEQRES 29 A 496 PRO ALA GLY SER VAL TYR SER LEU PRO ALA ASN ALA ASP SEQRES 30 A 496 ILE GLU ILE SER LEU PRO ALA THR ALA ALA ALA PRO GLY SEQRES 31 A 496 PHE PRO HIS PRO PHE HIS LEU HIS GLY HIS THR PHE ALA SEQRES 32 A 496 VAL VAL ARG SER ALA GLY SER SER THR TYR ASN TYR ASN SEQRES 33 A 496 ASN PRO VAL TYR ARG ASP VAL VAL SER THR GLY ALA PRO SEQRES 34 A 496 GLY ASP ASN VAL THR ILE ARG PHE ARG THR ASP ASN PRO SEQRES 35 A 496 GLY PRO TRP PHE LEU HIS CYS HIS ILE ASP PHE HIS LEU SEQRES 36 A 496 GLU ALA GLY PHE ALA VAL VAL MET ALA GLU ASP ILE PRO SEQRES 37 A 496 ASP VAL ALA ALA THR ASN PRO VAL PRO GLN ALA TRP SER SEQRES 38 A 496 ASP LEU CYS PRO THR TYR ASP ALA LEU SER PRO ASP ASP SEQRES 39 A 496 GLN GLY HET NAG A 504 14 HET NAG A 505 14 HET NAG A 506 14 HET NAG A 507 2 HET NAG A 508 12 HET CU3 A 516 1 HET CU3 A 517 1 HET CU1 A 518 1 HET CU A 519 1 HETNAM CU1 COPPER (I) ION HETNAM CU COPPER (II) ION HETNAM CU3 COPPER (III) ION HETNAM NAG N-ACETYL-D-GLUCOSAMINE FORMUL 2 CU CU 2+ FORMUL 3 CU1 CU 1+ FORMUL 4 CU3 2(CU 3+) FORMUL 5 NAG 5(C8 H15 N O6) FORMUL 6 HOH *427(H2 O1) HELIX 1 1 ASN A 54 LEU A 58 5 5 HELIX 2 2 THR A 73 ASP A 77 5 5 HELIX 3 3 THR A 114 GLY A 119 5 6 HELIX 4 4 HIS A 133 TYR A 137 5 5 HELIX 5 5 ASP A 141 SER A 143 5 3 HELIX 6 6 ALA A 155 GLY A 159 5 5 HELIX 7 7 PHE A 269 VAL A 273 5 5 HELIX 8 8 VAL A 300 LEU A 304 5 5 HELIX 9 9 PRO A 348 SER A 355 1 8 HELIX 10 10 SER A 359 LEU A 363 5 5 HELIX 11 11 ILE A 451 ALA A 457 1 7 HELIX 12 12 ASP A 469 ASN A 474 1 6 HELIX 13 13 PRO A 477 ALA A 489 1 13 HELIX 14 14 SER A 491 GLN A 495 5 5 SHEET 1 AA 4 ARG A 22 VAL A 27 0 SHEET 2 AA 4 VAL A 5 VAL A 15 -1 O SER A 11 N LEU A 26 SHEET 3 AA 4 ARG A 43 ASP A 50 1 O GLN A 45 N ALA A 6 SHEET 4 AA 4 ALA A 92 GLN A 98 -1 O PHE A 93 N VAL A 48 SHEET 1 AB 4 ILE A 36 ASN A 39 0 SHEET 2 AB 4 ARG A 121 TYR A 127 1 O PRO A 123 N ILE A 36 SHEET 3 AB 4 GLY A 104 SER A 110 -1 O GLY A 104 N VAL A 126 SHEET 4 AB 4 ILE A 63 HIS A 66 -1 O HIS A 64 N HIS A 109 SHEET 1 AC 6 ALA A 167 ILE A 170 0 SHEET 2 AC 6 VAL A 145 TRP A 151 -1 O ALA A 149 N LEU A 169 SHEET 3 AC 6 ARG A 194 SER A 201 1 O ARG A 198 N ILE A 146 SHEET 4 AC 6 ARG A 242 ASN A 248 -1 O TYR A 243 N LEU A 199 SHEET 5 AC 6 LEU A 217 ALA A 222 -1 O THR A 218 N VAL A 246 SHEET 6 AC 6 THR A 225 VAL A 232 -1 O THR A 225 N ALA A 222 SHEET 1 AD 5 VAL A 186 VAL A 189 0 SHEET 2 AD 5 SER A 275 TYR A 280 1 O ILE A 277 N ILE A 187 SHEET 3 AD 5 ASN A 255 PRO A 262 -1 O TYR A 256 N LEU A 278 SHEET 4 AD 5 TYR A 208 ILE A 212 -1 O THR A 209 N LEU A 261 SHEET 5 AD 5 LEU A 235 ILE A 237 -1 O LEU A 235 N PHE A 210 SHEET 1 AE 2 PHE A 329 PHE A 331 0 SHEET 2 AE 2 PHE A 335 ILE A 337 -1 O THR A 336 N GLY A 330 SHEET 1 AF 5 VAL A 369 LEU A 372 0 SHEET 2 AF 5 ALA A 460 GLU A 465 1 O VAL A 462 N TYR A 370 SHEET 3 AF 5 GLY A 443 CYS A 449 -1 O GLY A 443 N GLU A 465 SHEET 4 AF 5 PRO A 394 LEU A 397 -1 O HIS A 396 N HIS A 448 SHEET 5 AF 5 VAL A 423 SER A 425 -1 O VAL A 424 N PHE A 395 SHEET 1 AG 4 ASP A 377 PRO A 383 0 SHEET 2 AG 4 ASN A 432 ARG A 438 -1 O VAL A 433 N LEU A 382 SHEET 3 AG 4 PHE A 402 ARG A 406 -1 O ALA A 403 N ARG A 436 SHEET 4 AG 4 TYR A 420 ARG A 421 -1 O ARG A 421 N PHE A 402 SSBOND 1 CYS A 85 CYS A 484 1555 1555 2.08 SSBOND 2 CYS A 117 CYS A 204 1555 1555 2.03 LINK ND2 ASN A 54 C1 NAG A 504 1555 1555 1.44 LINK ND2 ASN A 432 C1 NAG A 506 1555 1555 1.45 LINK O4 NAG A 504 C1 NAG A 505 1555 1555 1.45 LINK O4 NAG A 506 C1 NAG A 507 1555 1555 1.44 LINK CU CU3 A 516 NE2 HIS A 448 1555 1555 1.96 LINK CU CU3 A 516 NE2 HIS A 111 1555 1555 2.01 LINK CU CU3 A 516 NE2 HIS A 398 1555 1555 2.11 LINK CU CU3 A 517 ND1 HIS A 66 1555 1555 2.09 LINK CU CU3 A 517 NE2 HIS A 109 1555 1555 2.39 LINK CU CU3 A 517 NE2 HIS A 450 1555 1555 2.13 LINK CU CU1 A 518 ND1 HIS A 454 1555 1555 2.49 LINK CU CU1 A 518 ND1 HIS A 393 1555 1555 2.35 LINK CU CU1 A 518 SG CYS A 449 1555 1555 2.12 LINK CU CU A 519 NE2 HIS A 396 1555 1555 1.83 LINK CU CU A 519 NE2 HIS A 64 1555 1555 1.78 CISPEP 1 GLY A 3 PRO A 4 0 3.06 CISPEP 2 PHE A 31 PRO A 32 0 -3.54 CISPEP 3 GLY A 159 ALA A 160 0 -0.90 CISPEP 4 ALA A 313 GLY A 314 0 -26.55 CISPEP 5 ALA A 324 LEU A 325 0 -3.93 CISPEP 6 LEU A 364 PRO A 365 0 7.78 CISPEP 7 PRO A 389 GLY A 390 0 -27.14 CISPEP 8 PHE A 391 PRO A 392 0 -5.64 CISPEP 9 GLN A 495 GLY A 496 0 11.64 SITE 1 AC1 6 GLN A 23 ASN A 54 MET A 57 ALA A 155 SITE 2 AC1 6 NAG A 505 HOH A2421 SITE 1 AC2 8 ARG A 22 HIS A 153 LEU A 154 ALA A 155 SITE 2 AC2 8 VAL A 158 NAG A 504 HOH A2161 HOH A2423 SITE 1 AC3 8 THR A 289 ASN A 326 SER A 381 ASN A 432 SITE 2 AC3 8 NAG A 507 NAG A 508 HOH A2359 HOH A2424 SITE 1 AC4 2 NAG A 506 NAG A 508 SITE 1 AC5 3 NAG A 506 NAG A 507 HOH A2293 SITE 1 AC6 3 HIS A 111 HIS A 398 HIS A 448 SITE 1 AC7 4 HIS A 64 HIS A 66 HIS A 109 HIS A 450 SITE 1 AC8 4 HIS A 393 CYS A 449 ILE A 451 HIS A 454 SITE 1 AC9 5 HIS A 64 HIS A 66 HIS A 396 HIS A 398 SITE 2 AC9 5 HOH A2073 CRYST1 56.376 86.795 153.573 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 0.017738 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011521 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006512 0.00000