HEADER HYDROLASE 02-FEB-19 6JDZ TITLE LIGAND COMPLEX STRUCTURE OF GH10 FAMILY XYLANASE XYNAF1, SOAKING FOR TITLE 2 20 MINUTES CAVEAT 6JDZ XYP C 1 HAS WRONG CHIRALITY AT ATOM C4 XYP D 1 HAS WRONG CAVEAT 2 6JDZ CHIRALITY AT ATOM C1 XYP E 1 HAS WRONG CHIRALITY AT ATOM C4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-XYLANASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-1,4-XYLANASE; COMPND 5 EC: 3.2.1.8; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ASPERGILLUS FUMIGATUS Z5; SOURCE 3 ORGANISM_TAXID: 1437362; SOURCE 4 GENE: Y699_04481; SOURCE 5 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS GH10 FAMILY, THERMOPHBILIC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR G.LI,Y.MIAO,R.ZHANG REVDAT 3 30-OCT-24 6JDZ 1 HETSYN LINK REVDAT 2 29-JUL-20 6JDZ 1 CAVEAT COMPND REMARK HETNAM REVDAT 2 2 1 LINK SITE ATOM REVDAT 1 20-MAY-20 6JDZ 0 JRNL AUTH G.LI,Y.MIAO,R.ZHANG JRNL TITL CRYSTAL STRUCTURE OF GH10 FAMILY XYLANASE XYNAF1 FROM JRNL TITL 2 ASPERGILLUS FUMIGATUS Z5 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.16 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.16 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 3 NUMBER OF REFLECTIONS : 171492 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) : 0.138 REMARK 3 R VALUE (WORKING SET) : 0.137 REMARK 3 FREE R VALUE : 0.157 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 8963 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) : 1.16 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.19 REMARK 3 REFLECTION IN BIN (WORKING SET) : 12317 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 620 REMARK 3 BIN FREE R VALUE : 0.2420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4842 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 165 REMARK 3 SOLVENT ATOMS : 608 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.99 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.40000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.29000 REMARK 3 B12 (A**2) : -0.14000 REMARK 3 B13 (A**2) : 0.35000 REMARK 3 B23 (A**2) : 0.26000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.033 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.035 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.023 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.516 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.976 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5339 ; 0.027 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4879 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7312 ; 2.526 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11283 ; 1.280 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 692 ; 7.058 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 214 ;34.741 ;25.514 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 786 ;11.291 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ; 1.350 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 825 ; 0.234 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6142 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1212 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES REMARK 3 : REFINED INDIVIDUALLY REMARK 3 2. THE UNUSUAL CHIRALITY CONCERNING XYP 504 WAS DUE TO THAT O4A REMARK 3 ATOM OF XYP 504 WAS CAPTURED BY RESIDUE ARG 246 AND FORMED 3 H- REMARK 3 BONDS. THE UNUSUAL CHIRALITY CONCERNING XYP 502 WAS DUE TO THAT REMARK 3 THE O2B, O3B AND O4B ATOMS WERE FIXED BY PROTEIN THROUGH 7 H-BONDS. REMARK 4 REMARK 4 6JDZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1300010917. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 180455 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.160 REMARK 200 RESOLUTION RANGE LOW (A) : 62.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.2800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.16 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.52200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.625 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES PH6.5, 25%(W/V) PEG 6000, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E, F 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 O1 GOL A 506 O HOH A 601 1.73 REMARK 500 O1 GOL B 507 O HOH B 601 1.76 REMARK 500 O5 XYP E 1 O4 XYP F 2 1.86 REMARK 500 O5 XYP C 1 O4 XYP D 2 1.87 REMARK 500 C1 XYP C 1 O4 XYP D 2 2.01 REMARK 500 O4 XYP F 1 C2 XYP F 2 2.19 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 O HOH A 722 O HOH A 862 1545 1.78 REMARK 500 O HOH A 760 O HOH B 679 1654 2.11 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 149 CE1 TYR A 149 CZ -0.110 REMARK 500 TYR A 149 CZ TYR A 149 OH 0.114 REMARK 500 TYR B 149 CE1 TYR B 149 CZ -0.122 REMARK 500 TYR B 200 CB TYR B 200 CG -0.096 REMARK 500 ASP B 223 CB ASP B 223 CG 0.131 REMARK 500 SER B 260 CB SER B 260 OG -0.125 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 30 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ASP A 41 OD1 - CG - OD2 ANGL. DEV. = 11.8 DEGREES REMARK 500 ASP A 41 CB - CG - OD2 ANGL. DEV. = -9.8 DEGREES REMARK 500 ASP A 55 CB - CG - OD1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ASP A 55 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ASP A 70 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ARG A 84 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 246 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP A 315 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP B 24 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP B 41 CB - CG - OD2 ANGL. DEV. = -9.8 DEGREES REMARK 500 ASP B 55 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP B 55 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR B 175 CB - CG - CD2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ASP B 305 CB - CG - OD1 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 ASN A 50 -29.03 -142.87 REMARK 500 GLU A 242 40.98 -143.48 REMARK 500 ASP A 283 175.88 70.65 REMARK 500 ALA A 300 54.17 36.37 REMARK 500 GLU B 242 40.00 -142.99 REMARK 500 ASP B 283 174.86 76.14 REMARK 500 ALA B 300 58.41 34.02 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 TYR A 18 PHE A 19 150.00 REMARK 500 TYR B 18 PHE B 19 149.77 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 GLY B 101 -10.01 REMARK 500 REMARK 500 REMARK: NULL 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 XYP C 1 REMARK 610 XYP E 1 DBREF1 6JDZ A 5 323 UNP A0A0J5Q413_ASPFM DBREF2 6JDZ A A0A0J5Q413 20 338 DBREF1 6JDZ B 5 323 UNP A0A0J5Q413_ASPFM DBREF2 6JDZ B A0A0J5Q413 20 338 SEQRES 1 A 319 ALA GLY LEU ASN THR ALA ALA LYS ALA LYS GLY LEU LYS SEQRES 2 A 319 TYR PHE GLY SER ALA THR ASP ASN PRO GLU LEU THR ASP SEQRES 3 A 319 SER ALA TYR VAL ALA GLN LEU SER ASN THR ASP ASP PHE SEQRES 4 A 319 GLY GLN ILE THR PRO GLY ASN SER MET LYS TRP ASP ALA SEQRES 5 A 319 THR GLU PRO SER GLN ASN SER PHE SER PHE ALA ASN GLY SEQRES 6 A 319 ASP ALA VAL VAL ASN LEU ALA ASN LYS ASN GLY GLN LEU SEQRES 7 A 319 MET ARG CYS HIS THR LEU VAL TRP HIS SER GLN LEU PRO SEQRES 8 A 319 ASN TRP VAL SER SER GLY SER TRP THR ASN ALA THR LEU SEQRES 9 A 319 LEU ALA ALA MET LYS ASN HIS ILE THR ASN VAL VAL THR SEQRES 10 A 319 HIS TYR LYS GLY LYS CYS TYR ALA TRP ASP VAL VAL ASN SEQRES 11 A 319 GLU ALA LEU ASN GLU ASP GLY THR PHE ARG ASN SER VAL SEQRES 12 A 319 PHE TYR GLN ILE ILE GLY PRO ALA TYR ILE PRO ILE ALA SEQRES 13 A 319 PHE ALA THR ALA ALA ALA ALA ASP PRO ASP VAL LYS LEU SEQRES 14 A 319 TYR TYR ASN ASP TYR ASN ILE GLU TYR SER GLY ALA LYS SEQRES 15 A 319 ALA THR ALA ALA GLN ASN ILE VAL LYS MET ILE LYS ALA SEQRES 16 A 319 TYR GLY ALA LYS ILE ASP GLY VAL GLY LEU GLN ALA HIS SEQRES 17 A 319 PHE ILE VAL GLY SER THR PRO SER GLN SER ASP LEU THR SEQRES 18 A 319 THR VAL LEU LYS GLY TYR THR ALA LEU GLY VAL GLU VAL SEQRES 19 A 319 ALA TYR THR GLU LEU ASP ILE ARG MET GLN LEU PRO SER SEQRES 20 A 319 THR ALA ALA LYS LEU ALA GLN GLN SER THR ASP PHE GLN SEQRES 21 A 319 GLY VAL ALA ALA ALA CYS VAL SER THR THR GLY CYS VAL SEQRES 22 A 319 GLY VAL THR ILE TRP ASP TRP THR ASP LYS TYR SER TRP SEQRES 23 A 319 VAL PRO SER VAL PHE GLN GLY TYR GLY ALA PRO LEU PRO SEQRES 24 A 319 TRP ASP GLU ASN TYR VAL LYS LYS PRO ALA TYR ASP GLY SEQRES 25 A 319 LEU MET ALA GLY LEU GLY ALA SEQRES 1 B 319 ALA GLY LEU ASN THR ALA ALA LYS ALA LYS GLY LEU LYS SEQRES 2 B 319 TYR PHE GLY SER ALA THR ASP ASN PRO GLU LEU THR ASP SEQRES 3 B 319 SER ALA TYR VAL ALA GLN LEU SER ASN THR ASP ASP PHE SEQRES 4 B 319 GLY GLN ILE THR PRO GLY ASN SER MET LYS TRP ASP ALA SEQRES 5 B 319 THR GLU PRO SER GLN ASN SER PHE SER PHE ALA ASN GLY SEQRES 6 B 319 ASP ALA VAL VAL ASN LEU ALA ASN LYS ASN GLY GLN LEU SEQRES 7 B 319 MET ARG CYS HIS THR LEU VAL TRP HIS SER GLN LEU PRO SEQRES 8 B 319 ASN TRP VAL SER SER GLY SER TRP THR ASN ALA THR LEU SEQRES 9 B 319 LEU ALA ALA MET LYS ASN HIS ILE THR ASN VAL VAL THR SEQRES 10 B 319 HIS TYR LYS GLY LYS CYS TYR ALA TRP ASP VAL VAL ASN SEQRES 11 B 319 GLU ALA LEU ASN GLU ASP GLY THR PHE ARG ASN SER VAL SEQRES 12 B 319 PHE TYR GLN ILE ILE GLY PRO ALA TYR ILE PRO ILE ALA SEQRES 13 B 319 PHE ALA THR ALA ALA ALA ALA ASP PRO ASP VAL LYS LEU SEQRES 14 B 319 TYR TYR ASN ASP TYR ASN ILE GLU TYR SER GLY ALA LYS SEQRES 15 B 319 ALA THR ALA ALA GLN ASN ILE VAL LYS MET ILE LYS ALA SEQRES 16 B 319 TYR GLY ALA LYS ILE ASP GLY VAL GLY LEU GLN ALA HIS SEQRES 17 B 319 PHE ILE VAL GLY SER THR PRO SER GLN SER ASP LEU THR SEQRES 18 B 319 THR VAL LEU LYS GLY TYR THR ALA LEU GLY VAL GLU VAL SEQRES 19 B 319 ALA TYR THR GLU LEU ASP ILE ARG MET GLN LEU PRO SER SEQRES 20 B 319 THR ALA ALA LYS LEU ALA GLN GLN SER THR ASP PHE GLN SEQRES 21 B 319 GLY VAL ALA ALA ALA CYS VAL SER THR THR GLY CYS VAL SEQRES 22 B 319 GLY VAL THR ILE TRP ASP TRP THR ASP LYS TYR SER TRP SEQRES 23 B 319 VAL PRO SER VAL PHE GLN GLY TYR GLY ALA PRO LEU PRO SEQRES 24 B 319 TRP ASP GLU ASN TYR VAL LYS LYS PRO ALA TYR ASP GLY SEQRES 25 B 319 LEU MET ALA GLY LEU GLY ALA HET XYP C 1 9 HET XYP C 2 9 HET XYP D 1 10 HET XYP D 2 9 HET XYP E 1 9 HET XYP E 2 9 HET XYP F 1 10 HET XYP F 2 9 HET NAG A 505 14 HET GOL A 506 6 HET GOL A 507 6 HET GOL A 508 6 HET MES A 509 12 HET PEG A 510 7 HET NAG B 505 14 HET GOL B 506 6 HET GOL B 507 6 HET PEG B 508 7 HET PEG B 509 7 HETNAM XYP BETA-D-XYLOPYRANOSE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GOL GLYCEROL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN XYP BETA-D-XYLOSE; D-XYLOSE; XYLOSE 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 HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 XYP 8(C5 H10 O5) FORMUL 7 NAG 2(C8 H15 N O6) FORMUL 8 GOL 5(C3 H8 O3) FORMUL 11 MES C6 H13 N O4 S FORMUL 12 PEG 3(C4 H10 O3) FORMUL 18 HOH *608(H2 O) HELIX 1 AA1 GLY A 6 LYS A 14 1 9 HELIX 2 AA2 ASP A 24 THR A 29 5 6 HELIX 3 AA3 ASP A 30 SER A 38 1 9 HELIX 4 AA4 LYS A 53 GLU A 58 1 6 HELIX 5 AA5 PHE A 66 GLY A 80 1 15 HELIX 6 AA6 PRO A 95 SER A 100 1 6 HELIX 7 AA7 THR A 104 TYR A 123 1 20 HELIX 8 AA8 SER A 146 GLY A 153 1 8 HELIX 9 AA9 ALA A 155 ASP A 168 1 14 HELIX 10 AB1 GLY A 184 TYR A 200 1 17 HELIX 11 AB2 SER A 220 ALA A 233 1 14 HELIX 12 AB3 THR A 252 THR A 273 1 22 HELIX 13 AB4 THR A 285 SER A 289 5 5 HELIX 14 AB5 TRP A 290 PHE A 295 1 6 HELIX 15 AB6 LYS A 311 LEU A 321 1 11 HELIX 16 AB7 GLY B 6 LYS B 14 1 9 HELIX 17 AB8 ASP B 24 THR B 29 5 6 HELIX 18 AB9 ASP B 30 SER B 38 1 9 HELIX 19 AC1 LYS B 53 GLU B 58 1 6 HELIX 20 AC2 PHE B 66 GLY B 80 1 15 HELIX 21 AC3 PRO B 95 SER B 100 1 6 HELIX 22 AC4 THR B 104 TYR B 123 1 20 HELIX 23 AC5 SER B 146 GLY B 153 1 8 HELIX 24 AC6 ALA B 155 ASP B 168 1 14 HELIX 25 AC7 GLY B 184 TYR B 200 1 17 HELIX 26 AC8 SER B 220 ALA B 233 1 14 HELIX 27 AC9 THR B 252 THR B 273 1 22 HELIX 28 AD1 TRP B 290 PHE B 295 1 6 HELIX 29 AD2 LYS B 311 LEU B 321 1 11 SHEET 1 AA111 HIS A 212 ILE A 214 0 SHEET 2 AA111 TYR A 298 GLY A 299 0 SHEET 3 AA111 GLY A 206 LEU A 209 0 SHEET 4 AA111 LYS A 172 ASP A 177 1 N TYR A 175 O GLY A 208 SHEET 5 AA111 ALA A 129 ASN A 134 1 N TRP A 130 O TYR A 174 SHEET 6 AA111 LEU A 82 VAL A 89 1 N CYS A 85 O ALA A 129 SHEET 7 AA111 GLN A 45 PRO A 48 1 N ILE A 46 O LEU A 82 SHEET 8 AA111 TYR A 18 THR A 23 1 N SER A 21 O GLN A 45 SHEET 9 AA111 CYS A 276 ILE A 281 1 O VAL A 279 N GLY A 20 SHEET 10 AA111 GLU A 237 GLN A 248 1 N VAL A 238 O VAL A 277 SHEET 11 AA111 TYR A 298 GLY A 299 -1 O GLY A 299 N MET A 247 SHEET 1 AA211 HIS B 212 ILE B 214 0 SHEET 2 AA211 TYR B 298 GLY B 299 0 SHEET 3 AA211 GLY B 206 LEU B 209 0 SHEET 4 AA211 LYS B 172 ASP B 177 1 N TYR B 175 O GLY B 208 SHEET 5 AA211 ALA B 129 ASN B 134 1 N TRP B 130 O TYR B 174 SHEET 6 AA211 LEU B 82 VAL B 89 1 N CYS B 85 O ALA B 129 SHEET 7 AA211 GLN B 45 PRO B 48 1 N ILE B 46 O LEU B 82 SHEET 8 AA211 TYR B 18 THR B 23 1 N SER B 21 O GLN B 45 SHEET 9 AA211 CYS B 276 ILE B 281 1 O ILE B 281 N ALA B 22 SHEET 10 AA211 GLU B 237 GLN B 248 1 N LEU B 243 O THR B 280 SHEET 11 AA211 TYR B 298 GLY B 299 -1 O GLY B 299 N MET B 247 SSBOND 1 CYS A 85 CYS A 127 1555 1555 2.04 SSBOND 2 CYS A 270 CYS A 276 1555 1555 2.07 SSBOND 3 CYS B 85 CYS B 127 1555 1555 2.04 SSBOND 4 CYS B 270 CYS B 276 1555 1555 2.06 LINK ND2 ASN A 105 C1 NAG A 505 1555 1555 1.46 LINK ND2 ASN B 105 C1 NAG B 505 1555 1555 1.44 LINK O4 XYP C 1 C1 XYP C 2 1555 1555 1.53 LINK O4 XYP D 1 C1 XYP D 2 1555 1555 1.47 LINK O4 XYP E 1 C1 XYP E 2 1555 1555 1.47 LINK O4 XYP F 1 C1 XYP F 2 1555 1555 1.41 CISPEP 1 HIS A 86 THR A 87 0 -2.95 CISPEP 2 LEU A 249 PRO A 250 0 13.19 CISPEP 3 HIS B 86 THR B 87 0 -2.18 CISPEP 4 LEU B 249 PRO B 250 0 2.68 CRYST1 44.353 57.365 64.845 73.94 80.58 68.62 P 1 2 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 0.022546 -0.008827 -0.001701 0.00000 SCALE2 0.000000 0.018721 -0.004552 0.00000 SCALE3 0.000000 0.000000 0.016087 0.00000