HEADER IMMUNE SYSTEM 12-SEP-17 6EH6 TITLE F11 T-CELL RECEPTOR RECOGNISING PKYVKQNTLKLAT PEPTIDE PRESENTED BY TITLE 2 HLA-DR*0101 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN T CELL RECEPTOR ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HUMAN T CELL RECEPTOR BETACHAIN; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS T CELL RECEPTOR, HUMAN LEUKOCYTE ANTIGEN, INFLUENZA EPITOPE, KEYWDS 2 HAEMAGGLUTININ, 3D STRUCTURE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.J.RIZKALLAH,D.K.COLE REVDAT 3 17-JAN-24 6EH6 1 REMARK REVDAT 2 09-MAY-18 6EH6 1 COMPND JRNL HETNAM REVDAT 1 18-APR-18 6EH6 0 JRNL AUTH C.J.HOLLAND,B.J.MACLACHLAN,V.BIANCHI,S.J.HESKETH,R.MORGAN, JRNL AUTH 2 O.VICKERY,A.M.BULEK,A.FULLER,A.GODKIN,A.K.SEWELL, JRNL AUTH 3 P.J.RIZKALLAH,S.WELLS,D.K.COLE JRNL TITL IN SILICOAND STRUCTURAL ANALYSES DEMONSTRATE THAT INTRINSIC JRNL TITL 2 PROTEIN MOTIONS GUIDE T CELL RECEPTOR COMPLEMENTARITY JRNL TITL 3 DETERMINING REGION LOOP FLEXIBILITY. JRNL REF FRONT IMMUNOL V. 9 674 2018 JRNL REFN ESSN 1664-3224 JRNL PMID 29696015 JRNL DOI 10.3389/FIMMU.2018.00674 REMARK 2 REMARK 2 RESOLUTION. 1.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 46009 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.194 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 : 2450 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) : 1.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.83 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3350 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 171 REMARK 3 BIN FREE R VALUE : 0.3460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3493 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.70000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : -1.64000 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): 0.121 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.244 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3624 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3324 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4899 ; 2.008 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7665 ; 0.915 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 440 ; 7.951 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 172 ;38.133 ;24.419 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 584 ;14.754 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;13.625 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 529 ; 0.129 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4104 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 853 ; 0.001 ; 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 113 REMARK 3 ORIGIN FOR THE GROUP (A): -25.0542 -5.3617 21.8238 REMARK 3 T TENSOR REMARK 3 T11: 0.0313 T22: 0.1152 REMARK 3 T33: 0.1355 T12: -0.0522 REMARK 3 T13: 0.0191 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 5.7600 L22: 1.2947 REMARK 3 L33: 1.4019 L12: -0.3163 REMARK 3 L13: 0.9828 L23: 0.3099 REMARK 3 S TENSOR REMARK 3 S11: 0.0938 S12: -0.0999 S13: 0.0461 REMARK 3 S21: 0.0313 S22: -0.0769 S23: 0.1481 REMARK 3 S31: 0.1383 S32: -0.1603 S33: -0.0169 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 114 A 202 REMARK 3 ORIGIN FOR THE GROUP (A): 7.9590 -11.6225 15.5151 REMARK 3 T TENSOR REMARK 3 T11: 0.0185 T22: 0.1091 REMARK 3 T33: 0.1502 T12: 0.0088 REMARK 3 T13: -0.0139 T23: -0.0117 REMARK 3 L TENSOR REMARK 3 L11: 2.3730 L22: 4.7518 REMARK 3 L33: 3.5151 L12: 1.3425 REMARK 3 L13: 0.4217 L23: 1.1211 REMARK 3 S TENSOR REMARK 3 S11: -0.0885 S12: 0.1965 S13: 0.1226 REMARK 3 S21: -0.2283 S22: 0.2023 S23: -0.1548 REMARK 3 S31: 0.0407 S32: 0.2305 S33: -0.1138 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 114 REMARK 3 ORIGIN FOR THE GROUP (A): -30.1224 -15.9353 0.7756 REMARK 3 T TENSOR REMARK 3 T11: 0.0301 T22: 0.0811 REMARK 3 T33: 0.1406 T12: -0.0206 REMARK 3 T13: -0.0260 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 4.2323 L22: 0.9802 REMARK 3 L33: 2.2448 L12: 0.3446 REMARK 3 L13: -1.7731 L23: -0.3503 REMARK 3 S TENSOR REMARK 3 S11: 0.0471 S12: 0.0064 S13: 0.0335 REMARK 3 S21: -0.1065 S22: -0.0271 S23: 0.1551 REMARK 3 S31: 0.1228 S32: -0.0784 S33: -0.0200 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 115 B 240 REMARK 3 ORIGIN FOR THE GROUP (A): -0.3069 -24.2666 7.4618 REMARK 3 T TENSOR REMARK 3 T11: 0.1130 T22: 0.0411 REMARK 3 T33: 0.0976 T12: -0.0026 REMARK 3 T13: 0.0237 T23: -0.0149 REMARK 3 L TENSOR REMARK 3 L11: 1.5764 L22: 1.9194 REMARK 3 L33: 6.2982 L12: 0.3891 REMARK 3 L13: 2.1070 L23: 1.3162 REMARK 3 S TENSOR REMARK 3 S11: 0.1421 S12: 0.0025 S13: 0.0242 REMARK 3 S21: 0.3696 S22: -0.0393 S23: 0.0286 REMARK 3 S31: 0.6244 S32: -0.0060 S33: -0.1029 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6EH6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-SEP-17. REMARK 100 THE DEPOSITION ID IS D_1200006585. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-OCT-12 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 : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.1.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48509 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.780 REMARK 200 RESOLUTION RANGE LOW (A) : 50.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 0.80800 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: PHASER REMARK 200 STARTING MODEL: 4GKZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 1.5K, 100MM MMT PH 6.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 42.89000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 57.04000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.89000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 57.04000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 7.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 441 LIES ON A SPECIAL POSITION. 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 OD2 ASP B 53 O HOH B 401 2.15 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 ND2 ASN A 145 ND2 ASN A 145 2555 2.09 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 SER B 185 CB SER B 185 OG -0.120 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 98 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP A 118 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP B 2 N - CA - C ANGL. DEV. = -19.7 DEGREES REMARK 500 LEU B 87 CB - CG - CD2 ANGL. DEV. = -13.4 DEGREES REMARK 500 ARG B 106 NE - CZ - NH2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP B 149 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP B 222 CB - CG - OD1 ANGL. DEV. = 6.2 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 SER A 27 123.42 -174.55 REMARK 500 ALA A 53 -117.66 -111.73 REMARK 500 THR A 72 55.75 35.76 REMARK 500 PHE A 74 68.37 -152.59 REMARK 500 ALA A 87 -179.02 -177.24 REMARK 500 ASP A 98 -1.37 -147.99 REMARK 500 ASN A 116 78.78 -118.92 REMARK 500 ASP A 118 57.52 -145.36 REMARK 500 SER A 129 44.40 -85.37 REMARK 500 ASP A 131 72.07 -109.57 REMARK 500 ASP B 50 -179.01 -171.30 REMARK 500 HIS B 150 76.04 -163.90 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 PRO A 40 ASN A 41 -38.16 REMARK 500 PRO A 201 SER A 202 142.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 306 DBREF 6EH6 A 1 202 PDB 6EH6 6EH6 1 202 DBREF 6EH6 B 1 240 PDB 6EH6 6EH6 1 240 SEQRES 1 A 202 ALA GLN SER VAL THR GLN LEU GLY SER HIS VAL SER VAL SEQRES 2 A 202 SER GLU GLY ALA LEU VAL LEU LEU ARG CYS ASN TYR SER SEQRES 3 A 202 SER SER VAL PRO PRO TYR LEU PHE TRP TYR VAL GLN TYR SEQRES 4 A 202 PRO ASN GLN GLY LEU GLN LEU LEU LEU LYS TYR THR SER SEQRES 5 A 202 ALA ALA THR LEU VAL LYS GLY ILE ASN GLY PHE GLU ALA SEQRES 6 A 202 GLU PHE LYS LYS SER GLU THR SER PHE HIS LEU THR LYS SEQRES 7 A 202 PRO SER ALA HIS MET SER ASP ALA ALA GLU TYR PHE CYS SEQRES 8 A 202 ALA VAL SER GLU GLN ASP ASP LYS ILE ILE PHE GLY LYS SEQRES 9 A 202 GLY THR ARG LEU HIS ILE LEU PRO ASN ILE GLN ASN PRO SEQRES 10 A 202 ASP PRO ALA VAL TYR GLN LEU ARG ASP SER LYS SER SER SEQRES 11 A 202 ASP LYS SER VAL CYS LEU PHE THR ASP PHE ASP SER GLN SEQRES 12 A 202 THR ASN VAL SER GLN SER LYS ASP SER ASP VAL TYR ILE SEQRES 13 A 202 THR ASP LYS CYS VAL LEU ASP MET ARG SER MET ASP PHE SEQRES 14 A 202 LYS SER ASN SER ALA VAL ALA TRP SER ASN LYS SER ASP SEQRES 15 A 202 PHE ALA CYS ALA ASN ALA PHE ASN ASN SER ILE ILE PRO SEQRES 16 A 202 GLU ASP THR PHE PHE PRO SER SEQRES 1 B 240 ALA ASP VAL THR GLN THR PRO ARG ASN ARG ILE THR LYS SEQRES 2 B 240 THR GLY LYS ARG ILE MET LEU GLU CYS SER GLN THR LYS SEQRES 3 B 240 GLY HIS ASP ARG MET TYR TRP TYR ARG GLN ASP PRO GLY SEQRES 4 B 240 LEU GLY LEU ARG LEU ILE TYR TYR SER PHE ASP VAL LYS SEQRES 5 B 240 ASP ILE ASN LYS GLY GLU ILE SER ASP GLY TYR SER VAL SEQRES 6 B 240 SER ARG GLN ALA GLN ALA LYS PHE SER LEU SER LEU GLU SEQRES 7 B 240 SER ALA ILE PRO ASN GLN THR ALA LEU TYR PHE CYS ALA SEQRES 8 B 240 THR SER ASP GLU SER TYR GLY TYR THR PHE GLY SER GLY SEQRES 9 B 240 THR ARG LEU THR VAL VAL GLU ASP LEU ASN LYS VAL SER SEQRES 10 B 240 PRO PRO GLU VAL ALA VAL PHE GLU PRO SER GLU ALA GLU SEQRES 11 B 240 ILE SER HIS THR GLN LYS ALA THR LEU VAL CYS LEU ALA SEQRES 12 B 240 THR GLY PHE TYR PRO ASP HIS VAL GLU LEU SER TRP TRP SEQRES 13 B 240 VAL ASN GLY LYS GLU VAL HIS SER GLY VAL CYS THR ASP SEQRES 14 B 240 PRO GLN PRO LEU LYS GLU GLN PRO ALA LEU ASN ASP SER SEQRES 15 B 240 ARG TYR SER LEU SER SER ARG LEU ARG VAL SER ALA THR SEQRES 16 B 240 PHE TRP GLN ASN PRO ARG ASN HIS PHE ARG CYS GLN VAL SEQRES 17 B 240 GLN PHE TYR GLY LEU SER GLU ASN ASP GLU TRP THR GLN SEQRES 18 B 240 ASP ARG ALA LYS PRO VAL THR GLN ILE VAL SER ALA GLU SEQRES 19 B 240 ALA TRP GLY ARG ALA ASP HET EDO A 301 4 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET EDO B 301 4 HET EDO B 302 4 HET EDO B 303 4 HET EDO B 304 4 HET GOL B 305 6 HET PEG B 306 7 HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 EDO 10(C2 H6 O2) FORMUL 13 GOL C3 H8 O3 FORMUL 14 PEG C4 H10 O3 FORMUL 15 HOH *153(H2 O) HELIX 1 AA1 ILE A 60 GLY A 62 5 3 HELIX 2 AA2 LYS A 69 THR A 72 5 4 HELIX 3 AA3 HIS A 82 ALA A 86 5 5 HELIX 4 AA4 ARG A 165 ASP A 168 5 4 HELIX 5 AA5 ALA A 184 PHE A 189 1 6 HELIX 6 AA6 ILE B 81 THR B 85 5 5 HELIX 7 AA7 ASP B 112 VAL B 116 5 5 HELIX 8 AA8 SER B 127 GLN B 135 1 9 HELIX 9 AA9 ALA B 194 GLN B 198 1 5 SHEET 1 AA1 2 SER A 3 THR A 5 0 SHEET 2 AA1 2 ASN A 24 SER A 26 -1 O ASN A 24 N THR A 5 SHEET 1 AA2 5 HIS A 10 SER A 14 0 SHEET 2 AA2 5 THR A 106 LEU A 111 1 O HIS A 109 N VAL A 11 SHEET 3 AA2 5 ALA A 87 GLU A 95 -1 N TYR A 89 O THR A 106 SHEET 4 AA2 5 LEU A 33 GLN A 38 -1 N TYR A 36 O PHE A 90 SHEET 5 AA2 5 LEU A 44 TYR A 50 -1 O LEU A 47 N TRP A 35 SHEET 1 AA3 4 HIS A 10 SER A 14 0 SHEET 2 AA3 4 THR A 106 LEU A 111 1 O HIS A 109 N VAL A 11 SHEET 3 AA3 4 ALA A 87 GLU A 95 -1 N TYR A 89 O THR A 106 SHEET 4 AA3 4 LYS A 99 PHE A 102 -1 O LYS A 99 N GLU A 95 SHEET 1 AA4 4 VAL A 19 LEU A 21 0 SHEET 2 AA4 4 SER A 73 LYS A 78 -1 O LEU A 76 N LEU A 21 SHEET 3 AA4 4 GLU A 64 LYS A 68 -1 N GLU A 64 O THR A 77 SHEET 4 AA4 4 LEU A 56 LYS A 58 -1 N VAL A 57 O ALA A 65 SHEET 1 AA5 8 VAL A 154 ILE A 156 0 SHEET 2 AA5 8 PHE A 169 SER A 178 -1 O TRP A 177 N TYR A 155 SHEET 3 AA5 8 SER A 133 THR A 138 -1 N CYS A 135 O ALA A 176 SHEET 4 AA5 8 ALA A 120 ASP A 126 -1 N ALA A 120 O THR A 138 SHEET 5 AA5 8 GLU B 120 GLU B 125 -1 O GLU B 125 N ARG A 125 SHEET 6 AA5 8 LYS B 136 PHE B 146 -1 O VAL B 140 N PHE B 124 SHEET 7 AA5 8 TYR B 184 SER B 193 -1 O LEU B 186 N ALA B 143 SHEET 8 AA5 8 VAL B 166 THR B 168 -1 N CYS B 167 O ARG B 189 SHEET 1 AA6 8 CYS A 160 MET A 164 0 SHEET 2 AA6 8 PHE A 169 SER A 178 -1 O PHE A 169 N MET A 164 SHEET 3 AA6 8 SER A 133 THR A 138 -1 N CYS A 135 O ALA A 176 SHEET 4 AA6 8 ALA A 120 ASP A 126 -1 N ALA A 120 O THR A 138 SHEET 5 AA6 8 GLU B 120 GLU B 125 -1 O GLU B 125 N ARG A 125 SHEET 6 AA6 8 LYS B 136 PHE B 146 -1 O VAL B 140 N PHE B 124 SHEET 7 AA6 8 TYR B 184 SER B 193 -1 O LEU B 186 N ALA B 143 SHEET 8 AA6 8 LEU B 173 LYS B 174 -1 N LEU B 173 O SER B 185 SHEET 1 AA7 4 THR B 4 THR B 6 0 SHEET 2 AA7 4 ILE B 18 SER B 23 -1 O GLU B 21 N THR B 6 SHEET 3 AA7 4 LYS B 72 LEU B 77 -1 O LEU B 75 N LEU B 20 SHEET 4 AA7 4 TYR B 63 ALA B 69 -1 N SER B 64 O SER B 76 SHEET 1 AA8 6 ASN B 9 LYS B 13 0 SHEET 2 AA8 6 THR B 105 VAL B 110 1 O VAL B 110 N THR B 12 SHEET 3 AA8 6 ALA B 86 SER B 93 -1 N TYR B 88 O THR B 105 SHEET 4 AA8 6 ARG B 30 ASP B 37 -1 N GLN B 36 O LEU B 87 SHEET 5 AA8 6 GLY B 41 ASP B 50 -1 O ILE B 45 N TRP B 33 SHEET 6 AA8 6 ASP B 53 LYS B 56 -1 O ASN B 55 N TYR B 47 SHEET 1 AA9 4 ASN B 9 LYS B 13 0 SHEET 2 AA9 4 THR B 105 VAL B 110 1 O VAL B 110 N THR B 12 SHEET 3 AA9 4 ALA B 86 SER B 93 -1 N TYR B 88 O THR B 105 SHEET 4 AA9 4 TYR B 99 PHE B 101 -1 O THR B 100 N THR B 92 SHEET 1 AB1 4 LYS B 160 VAL B 162 0 SHEET 2 AB1 4 VAL B 151 VAL B 157 -1 N VAL B 157 O LYS B 160 SHEET 3 AB1 4 HIS B 203 PHE B 210 -1 O GLN B 209 N GLU B 152 SHEET 4 AB1 4 GLN B 229 TRP B 236 -1 O GLN B 229 N PHE B 210 SSBOND 1 CYS A 23 CYS A 91 1555 1555 2.05 SSBOND 2 CYS A 135 CYS A 185 1555 1555 2.10 SSBOND 3 CYS A 160 CYS B 167 1555 1555 2.04 SSBOND 4 CYS B 22 CYS B 90 1555 1555 2.15 SSBOND 5 CYS B 141 CYS B 206 1555 1555 2.02 CISPEP 1 THR B 6 PRO B 7 0 -4.29 CISPEP 2 TYR B 147 PRO B 148 0 -3.94 SITE 1 AC1 6 HIS A 109 LYS A 159 VAL A 161 ILE A 193 SITE 2 AC1 6 HOH A 433 HOH A 436 SITE 1 AC2 4 PRO A 112 SER A 142 ASN A 172 HOH A 428 SITE 1 AC3 3 LYS A 132 SER A 133 EDO B 301 SITE 1 AC4 8 LYS A 58 GLY A 59 ILE A 60 ASN A 61 SITE 2 AC4 8 GLY A 62 PHE A 63 GLY B 15 SER B 79 SITE 1 AC5 5 GLY A 43 LEU A 44 PHE B 101 GLY B 102 SITE 2 AC5 5 SER B 103 SITE 1 AC6 4 ASN A 113 PHE A 169 LYS A 170 HOH A 438 SITE 1 AC7 7 LYS A 132 EDO A 303 GLU B 120 ALA B 122 SITE 2 AC7 7 PHE B 124 LEU B 142 THR B 144 SITE 1 AC8 4 LYS B 26 GLY B 27 ALA B 224 LYS B 225 SITE 1 AC9 5 ARG B 35 ASP B 61 TYR B 63 ASN B 83 SITE 2 AC9 5 GLN B 84 SITE 1 AD1 2 TRP B 156 GLU B 161 SITE 1 AD2 11 SER A 28 ASP A 97 ASP A 98 LYS A 99 SITE 2 AD2 11 ARG B 30 TYR B 32 SER B 93 ASP B 94 SITE 3 AD2 11 GLU B 95 SER B 96 TYR B 97 SITE 1 AD3 9 ILE B 11 THR B 12 LYS B 13 LYS B 16 SITE 2 AD3 9 GLY B 212 LEU B 213 SER B 214 ASP B 217 SITE 3 AD3 9 HOH B 418 CRYST1 85.780 114.080 50.720 90.00 90.00 90.00 P 21 21 2 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 0.011658 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008766 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019716 0.00000