HEADER METAL BINDING PROTEIN 05-SEP-16 5LSV TITLE X-RAY CRYSTAL STRUCTURE OF AA13 LPMO COMPND MOL_ID: 1; COMPND 2 MOLECULE: AOAA13; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS ORYZAE RIB40; SOURCE 3 ORGANISM_COMMON: YELLOW KOJI MOLD; SOURCE 4 ORGANISM_TAXID: 510516; SOURCE 5 GENE: AO090701000246; SOURCE 6 EXPRESSION_SYSTEM: ASPERGILLUS ORYZAE RIB40; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 510516 KEYWDS ENZYME, ASPERGILLUS ORYZAE AA13 LPMO, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.E.H.FRANDSEN,J.-C.N.POULSEN,M.TOVBORG,K.S.JOHANSEN,L.LO LEGGIO REVDAT 4 17-JAN-24 5LSV 1 HETSYN LINK REVDAT 3 29-JUL-20 5LSV 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 17-JAN-18 5LSV 1 REMARK REVDAT 1 18-JAN-17 5LSV 0 JRNL AUTH K.E.FRANDSEN,J.C.POULSEN,M.TOVBORG,K.S.JOHANSEN,L.LO LEGGIO JRNL TITL LEARNING FROM OLIGOSACCHARIDE SOAKS OF CRYSTALS OF AN AA13 JRNL TITL 2 LYTIC POLYSACCHARIDE MONOOXYGENASE: CRYSTAL PACKING, LIGAND JRNL TITL 3 BINDING AND ACTIVE-SITE DISORDER. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 73 64 2017 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 28045386 JRNL DOI 10.1107/S2059798316019641 REMARK 2 REMARK 2 RESOLUTION. 1.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 76110 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) : 0.102 REMARK 3 R VALUE (WORKING SET) : 0.101 REMARK 3 FREE R VALUE : 0.125 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.400 REMARK 3 FREE R VALUE TEST SET COUNT : 2677 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) : 1.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.13 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5570 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 174 REMARK 3 BIN FREE R VALUE : 0.1940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1799 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 354 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : 0.20000 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): 0.024 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.025 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.018 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.837 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.986 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.981 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2220 ; 0.022 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1842 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3074 ; 2.038 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4312 ; 1.038 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 304 ; 7.155 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 106 ;34.724 ;25.283 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 323 ;11.947 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ; 9.239 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 320 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2698 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 520 ; 0.004 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1082 ; 0.975 ; 0.561 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1081 ; 0.974 ; 0.560 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1391 ; 1.297 ; 0.853 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1392 ; 1.296 ; 0.853 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1138 ; 3.678 ; 0.795 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1138 ; 3.677 ; 0.795 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1669 ; 3.818 ; 1.115 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3064 ; 6.740 ; 7.636 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2805 ; 5.478 ; 6.173 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 4061 ; 5.859 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 67 ;54.979 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4281 ;13.044 ; 5.000 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5LSV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200000951. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5-8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78799 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.440 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.3700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.13 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.76 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL REMARK 200 STARTING MODEL: 4OPB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20%(V/V)PEG3000 0.2M ZN-ACETATE 0.1 M REMARK 280 MALATE/MES/TRIS PH5.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 22.70000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 35.95000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.42000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 35.95000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.70000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.42000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -162.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 ZN ZN A 408 O HOH A 801 1.68 REMARK 500 O HOH A 774 O HOH A 831 1.91 REMARK 500 O HOH A 539 O HOH A 769 1.94 REMARK 500 O HOH A 766 O HOH A 826 1.99 REMARK 500 O HOH A 764 O HOH A 828 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O6 NAG A 401 O HOH A 507 2764 2.19 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 TYR A 5 CE1 TYR A 5 CZ -0.080 REMARK 500 ASP A 38 CB ASP A 38 CG -0.151 REMARK 500 GLN A 60 C PRO A 61 N -0.122 REMARK 500 CYS A 227 CB CYS A 227 SG -0.138 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 25 CA - CB - SG ANGL. DEV. = -11.4 DEGREES REMARK 500 CYS A 185 CA - CB - SG ANGL. DEV. = 17.0 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 CYS A 22 78.31 -155.81 REMARK 500 GLN A 101 36.12 -93.91 REMARK 500 LYS A 173 -161.79 66.59 REMARK 500 LYS A 173 -158.86 66.59 REMARK 500 HIS A 208 108.70 -164.30 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 ANGLE, 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 ASN A 59 -11.17 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 852 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A 853 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A 854 DISTANCE = 7.61 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 ZN A 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIC A 1 N REMARK 620 2 HIC A 1 ND1 91.1 REMARK 620 3 HIS A 91 NE2 90.1 133.2 REMARK 620 4 TYR A 224 OH 94.4 99.9 126.6 REMARK 620 5 HOH A 619 O 178.2 88.1 89.3 87.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIC A 1 N REMARK 620 2 HIC A 1 ND1 96.7 REMARK 620 3 HIS A 91 NE2 98.5 159.9 REMARK 620 4 HOH A 619 O 152.7 94.7 77.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 407 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 15 NE2 REMARK 620 2 GLU A 29 OE2 28.8 REMARK 620 3 HOH A 776 O 105.4 134.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 407 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 15 NE2 REMARK 620 2 GLU A 29 OE1 29.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 36 OD1 REMARK 620 2 ASP A 36 OD2 54.5 REMARK 620 3 ASP A 38 OD1 96.1 149.4 REMARK 620 4 GLU A 203 OE1 126.8 153.3 49.5 REMARK 620 5 GLU A 203 OE2 123.0 150.5 49.7 4.4 REMARK 620 6 HOH A 731 O 108.9 84.6 99.4 115.1 119.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 36 OD2 REMARK 620 2 GLU A 203 OE2 123.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 405 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 36 OD2 REMARK 620 2 GLU A 203 OE2 131.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 410 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 87 NE2 REMARK 620 2 HOH A 543 O 105.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 406 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 102 OD1 REMARK 620 2 SER A 104 OG 88.2 REMARK 620 3 HOH A 562 O 90.9 85.1 REMARK 620 4 HOH A 615 O 83.5 93.6 174.2 REMARK 620 5 HOH A 701 O 172.5 87.2 94.7 90.8 REMARK 620 6 HOH A 749 O 90.6 176.9 92.1 89.2 94.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 408 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 153 OE2 REMARK 620 2 HOH A 538 O 94.0 REMARK 620 3 HOH A 755 O 97.3 95.9 REMARK 620 4 HOH A 757 O 90.6 173.9 87.5 REMARK 620 5 HOH A 760 O 93.6 86.2 168.6 89.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 409 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 233 OXT REMARK 620 2 HOH A 742 O 89.3 REMARK 620 3 HOH A 756 O 165.9 104.8 REMARK 620 4 HOH A 764 O 91.7 76.0 92.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 411 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 595 O REMARK 620 2 HOH A 623 O 91.3 REMARK 620 3 HOH A 626 O 170.5 96.6 REMARK 620 N 1 2 DBREF 5LSV A 1 233 UNP Q2U8Y3 Q2U8Y3_ASPOR 47 279 SEQRES 1 A 233 HIC GLY TYR MET TYR ILE PRO SER SER ARG THR ARG LEU SEQRES 2 A 233 GLY HIS GLU ALA GLY ILE ASP SER CYS PRO GLU CYS ALA SEQRES 3 A 233 ILE LEU GLU PRO VAL SER SER TRP PRO ASP LEU ASP ALA SEQRES 4 A 233 ALA PRO VAL GLY ARG SER GLY PRO CYS GLY TYR ASN ALA SEQRES 5 A 233 ARG ASP SER ILE ASP TYR ASN GLN PRO THR THR ASN TRP SEQRES 6 A 233 GLY SER ASP ALA VAL GLN SER TYR SER PRO GLY GLU GLU SEQRES 7 A 233 ILE GLU VAL GLN TRP CYS VAL ASP HIS ASN GLY ASP HIS SEQRES 8 A 233 GLY GLY MET PHE THR TYR ARG ILE CYS GLN ASP GLN SER SEQRES 9 A 233 ILE VAL ASP LYS PHE LEU ASP PRO SER TYR LEU PRO THR SEQRES 10 A 233 ASN ASP GLU LYS GLN ALA ALA GLU ASP CYS PHE ASP ALA SEQRES 11 A 233 GLY LEU LEU PRO CYS THR ASP VAL SER GLY GLN GLU CYS SEQRES 12 A 233 GLY TYR SER ALA ASP CYS THR GLU GLY GLU ALA CYS TRP SEQRES 13 A 233 ARG ASN ASP TRP PHE THR CYS ASN GLY PHE GLU ALA SER SEQRES 14 A 233 ASP ARG PRO LYS CYS GLN GLY VAL ASP ASN ALA GLU LEU SEQRES 15 A 233 ASN SER CYS TYR THR SER ILE ALA GLY GLY TYR THR VAL SEQRES 16 A 233 THR LYS LYS VAL LYS LEU PRO GLU TYR THR SER ASN HIS SEQRES 17 A 233 THR LEU ILE SER PHE LYS TRP ASN SER PHE GLN THR GLY SEQRES 18 A 233 GLN ILE TYR LEU SER CYS ALA ASP ILE ALA ILE GLN MODRES 5LSV HIC A 1 HIS MODIFIED RESIDUE HET HIC A 1 22 HET GLC B 1 12 HET GLC B 2 11 HET NAG A 401 28 HET ZN A 404 2 HET ZN A 405 3 HET ZN A 406 1 HET ZN A 407 2 HET ZN A 408 1 HET ZN A 409 1 HET ZN A 410 1 HET ZN A 411 1 HETNAM HIC 4-METHYL-HISTIDINE HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM ZN ZINC ION HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 1 HIC C7 H11 N3 O2 FORMUL 2 GLC 2(C6 H12 O6) FORMUL 3 NAG C8 H15 N O6 FORMUL 4 ZN 8(ZN 2+) FORMUL 12 HOH *354(H2 O) HELIX 1 AA1 SER A 9 ALA A 17 1 9 HELIX 2 AA2 CYS A 22 ALA A 26 5 5 HELIX 3 AA3 VAL A 42 GLY A 46 5 5 HELIX 4 AA4 ASP A 102 ASP A 107 1 6 HELIX 5 AA5 LYS A 108 LEU A 110 5 3 HELIX 6 AA6 THR A 117 GLY A 131 1 15 HELIX 7 AA7 PRO A 134 VAL A 138 5 5 SHEET 1 AA1 3 GLY A 2 ILE A 6 0 SHEET 2 AA1 3 GLU A 78 ASP A 86 -1 O CYS A 84 N TYR A 3 SHEET 3 AA1 3 GLY A 192 LYS A 200 -1 O VAL A 199 N ILE A 79 SHEET 1 AA2 2 TYR A 50 ASN A 51 0 SHEET 2 AA2 2 ILE A 56 ASP A 57 -1 O ILE A 56 N ASN A 51 SHEET 1 AA3 5 GLN A 71 TYR A 73 0 SHEET 2 AA3 5 ILE A 223 ILE A 232 1 O ALA A 231 N TYR A 73 SHEET 3 AA3 5 SER A 206 ASN A 216 -1 N THR A 209 O ILE A 230 SHEET 4 AA3 5 MET A 94 ILE A 99 -1 N ARG A 98 O SER A 212 SHEET 5 AA3 5 PHE A 161 THR A 162 -1 O PHE A 161 N PHE A 95 SSBOND 1 CYS A 22 CYS A 25 1555 1555 2.01 SSBOND 2 CYS A 48 CYS A 227 1555 1555 2.06 SSBOND 3 CYS A 84 CYS A 185 1555 1555 2.09 SSBOND 4 CYS A 100 CYS A 127 1555 1555 2.11 SSBOND 5 CYS A 135 CYS A 143 1555 1555 2.03 SSBOND 6 CYS A 149 CYS A 155 1555 1555 2.06 SSBOND 7 CYS A 163 CYS A 174 1555 1555 2.08 LINK C AHIC A 1 N GLY A 2 1555 1555 1.33 LINK C BHIC A 1 N GLY A 2 1555 1555 1.33 LINK ND2 ASN A 207 C1 ANAG A 401 1555 1555 1.46 LINK ND2 ASN A 207 C1 BNAG A 401 1555 1555 1.44 LINK O4 GLC B 1 C1 GLC B 2 1555 1555 1.39 LINK N AHIC A 1 ZN A ZN A 404 1555 1555 2.19 LINK N BHIC A 1 ZN B ZN A 404 1555 1555 2.10 LINK ND1AHIC A 1 ZN A ZN A 404 1555 1555 1.96 LINK ND1BHIC A 1 ZN B ZN A 404 1555 1555 1.98 LINK NE2AHIS A 15 ZN A ZN A 407 1555 1555 1.99 LINK NE2BHIS A 15 ZN B ZN A 407 1555 1555 2.00 LINK OE1 GLU A 29 ZN B ZN A 407 1555 4466 1.74 LINK OE2 GLU A 29 ZN A ZN A 407 1555 4466 1.99 LINK OD1 ASP A 36 ZN A ZN A 405 1555 1555 2.03 LINK OD2 ASP A 36 ZN A ZN A 405 1555 1555 2.56 LINK OD2 ASP A 36 ZN B ZN A 405 1555 1555 1.76 LINK OD2 ASP A 36 ZN C ZN A 405 1555 1555 2.25 LINK OD1 ASP A 38 ZN A ZN A 405 1555 1555 2.00 LINK NE2 HIS A 87 ZN A ZN A 410 1555 1555 2.08 LINK NE2AHIS A 91 ZN A ZN A 404 1555 1555 2.08 LINK NE2BHIS A 91 ZN B ZN A 404 1555 1555 2.04 LINK OD1 ASP A 102 ZN ZN A 406 1555 1555 2.05 LINK OG SER A 104 ZN ZN A 406 1555 1555 2.18 LINK OE2 GLU A 153 ZN ZN A 408 1555 1555 2.24 LINK OE1 GLU A 203 ZN A ZN A 405 1555 4556 2.32 LINK OE2 GLU A 203 ZN A ZN A 405 1555 4556 2.00 LINK OE2 GLU A 203 ZN B ZN A 405 1555 4556 2.18 LINK OE2 GLU A 203 ZN C ZN A 405 1555 4556 1.97 LINK OH ATYR A 224 ZN A ZN A 404 1555 1555 1.98 LINK OXT GLN A 233 ZN ZN A 409 1555 1555 2.12 LINK ZN A ZN A 404 O HOH A 619 1555 1555 2.14 LINK ZN B ZN A 404 O HOH A 619 1555 1555 2.45 LINK ZN A ZN A 405 O AHOH A 731 1555 1555 1.90 LINK ZN ZN A 406 O HOH A 562 1555 1555 2.03 LINK ZN ZN A 406 O HOH A 615 1555 1555 2.10 LINK ZN ZN A 406 O HOH A 701 1555 1555 2.02 LINK ZN ZN A 406 O HOH A 749 1555 1555 2.22 LINK ZN A ZN A 407 O HOH A 776 1555 4566 2.26 LINK ZN ZN A 408 O HOH A 538 1555 1555 2.10 LINK ZN ZN A 408 O HOH A 755 1555 1555 1.94 LINK ZN ZN A 408 O HOH A 757 1555 1555 2.19 LINK ZN ZN A 408 O HOH A 760 1555 1555 2.15 LINK ZN ZN A 409 O AHOH A 742 1555 1555 2.28 LINK ZN ZN A 409 O HOH A 756 1555 1555 2.25 LINK ZN ZN A 409 O HOH A 764 1555 1555 2.42 LINK ZN A ZN A 410 O HOH A 543 1555 3756 2.58 LINK ZN ZN A 411 O HOH A 595 1555 2665 1.87 LINK ZN ZN A 411 O AHOH A 623 1555 1555 1.97 LINK ZN ZN A 411 O HOH A 626 1555 4466 1.96 CISPEP 1 ILE A 6 PRO A 7 0 -17.98 CISPEP 2 GLU A 29 PRO A 30 0 -10.47 CISPEP 3 TRP A 34 PRO A 35 0 0.61 CRYST1 45.400 58.840 71.900 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 0.022026 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016995 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013908 0.00000 HETATM 1 N AHIC A 1 41.057 40.056 40.015 0.80 4.21 N ANISOU 1 N AHIC A 1 754 384 459 121 146 101 N HETATM 2 N BHIC A 1 41.154 40.075 40.075 0.20 4.41 N ANISOU 2 N BHIC A 1 723 439 513 68 80 78 N HETATM 3 CA AHIC A 1 42.298 40.554 39.278 0.80 4.57 C ANISOU 3 CA AHIC A 1 821 266 647 -33 236 43 C HETATM 4 CA BHIC A 1 42.383 40.647 39.447 0.20 4.32 C ANISOU 4 CA BHIC A 1 734 298 608 64 134 17 C HETATM 5 C AHIC A 1 43.517 39.799 39.733 0.80 3.83 C ANISOU 5 C AHIC A 1 845 261 348 -65 79 0 C HETATM 6 C BHIC A 1 43.553 39.787 39.765 0.20 3.72 C ANISOU 6 C BHIC A 1 750 282 380 26 44 -2 C HETATM 7 O AHIC A 1 43.932 39.899 40.881 0.80 4.77 O ANISOU 7 O AHIC A 1 964 441 407 21 108 -157 O HETATM 8 O BHIC A 1 44.001 39.825 40.889 0.20 4.60 O ANISOU 8 O BHIC A 1 921 457 366 56 51 -111 O HETATM 9 CB AHIC A 1 42.407 42.035 39.566 0.80 5.46 C ANISOU 9 CB AHIC A 1 658 346 1071 -90 25 -189 C HETATM 10 CB BHIC A 1 42.588 42.027 40.095 0.20 5.29 C ANISOU 10 CB BHIC A 1 868 419 720 153 80 -148 C HETATM 11 CG AHIC A 1 41.370 42.912 38.962 0.80 7.24 C ANISOU 11 CG AHIC A 1 1097 258 1396 -30 -31 69 C HETATM 12 CG BHIC A 1 41.592 43.073 39.649 0.20 6.74 C ANISOU 12 CG BHIC A 1 508 474 1577 106 -47 -292 C HETATM 13 ND1AHIC A 1 40.008 42.682 39.130 0.80 6.95 N ANISOU 13 ND1AHIC A 1 961 462 1218 59 65 -91 N HETATM 14 ND1BHIC A 1 40.278 42.969 39.633 0.20 6.10 N ANISOU 14 ND1BHIC A 1 538 460 1320 -42 161 -465 N HETATM 15 CD2AHIC A 1 41.536 43.979 38.143 0.80 9.69 C ANISOU 15 CD2AHIC A 1 1153 407 2118 26 -44 403 C HETATM 16 CD2BHIC A 1 41.825 44.289 39.041 0.20 7.90 C ANISOU 16 CD2BHIC A 1 700 563 1739 230 -40 -189 C HETATM 17 CE1AHIC A 1 39.364 43.687 38.458 0.80 10.88 C ANISOU 17 CE1AHIC A 1 1309 573 2251 166 311 587 C HETATM 18 CE1BHIC A 1 39.665 44.037 39.145 0.20 9.18 C ANISOU 18 CE1BHIC A 1 972 326 2190 12 37 -374 C HETATM 19 NE2AHIC A 1 40.307 44.508 37.880 0.80 10.04 N ANISOU 19 NE2AHIC A 1 1212 531 2069 158 -90 614 N HETATM 20 NE2BHIC A 1 40.625 44.886 38.777 0.20 7.13 N ANISOU 20 NE2BHIC A 1 632 444 1632 146 -88 -278 N HETATM 21 CZ AHIC A 1 39.989 45.692 37.019 0.80 14.89 C ANISOU 21 CZ AHIC A 1 1810 1215 2631 295 97 1301 C HETATM 22 CZ BHIC A 1 40.393 46.188 38.139 0.20 8.46 C ANISOU 22 CZ BHIC A 1 892 613 1709 108 18 -33 C