HEADER IMMUNE SYSTEM 28-JUN-18 6A6H TITLE CRYSTAL STRUCTURE OF SWINE MAJOR HISTOCOMPATIBILITY COMPLEX CLASS I TITLE 2 SLA-2*040202 FOR 2.3 ANGSTROM COMPND MOL_ID: 1; COMPND 2 MOLECULE: MHC CLASS I ANTIGEN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 7 CHAIN: B; COMPND 8 SYNONYM: LACTOLLIN; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: MET-THR-ALA-HIS-ILE-VAL-VAL-PRO-TYR; COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 GENE: SLA-B, SLA-2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 10 ORGANISM_COMMON: PIG; SOURCE 11 ORGANISM_TAXID: 9823; SOURCE 12 GENE: B2M; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: FOOT-AND-MOUTH DISEASE VIRUS - TYPE A; SOURCE 18 ORGANISM_TAXID: 12111 KEYWDS MHC, IMMUNOLOGY, IMMUNE SYSTEM- TRANSFERASE COMPLEX, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR S.NING,Z.B.WANG REVDAT 5 23-OCT-24 6A6H 1 REMARK REVDAT 4 22-NOV-23 6A6H 1 REMARK REVDAT 3 15-JAN-20 6A6H 1 JRNL REVDAT 2 30-OCT-19 6A6H 1 REMARK REVDAT 1 03-JUL-19 6A6H 0 JRNL AUTH S.NING,Z.B.WANG,P.QI,J.XIAO,X.J.WANG JRNL TITL CRYSTALLIZATION OF SLA-2*04:02:02 COMPLEXED WITH A CTL JRNL TITL 2 EPITOPE DERIVED FROM FMDV. JRNL REF RES. VET. SCI. V. 128 90 2019 JRNL REFN ISSN 1532-2661 JRNL PMID 31760318 JRNL DOI 10.1016/J.RVSC.2019.11.002 REMARK 2 REMARK 2 RESOLUTION. 2.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 2.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 88.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 88.5 REMARK 3 NUMBER OF REFLECTIONS : 16579 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 896 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) : 2.31 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.37 REMARK 3 REFLECTION IN BIN (WORKING SET) : 613 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 44.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 33 REMARK 3 BIN FREE R VALUE : 0.2580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3095 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 132 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.29000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 0.95000 REMARK 3 B12 (A**2) : -0.15000 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): 0.456 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.298 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.209 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.316 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.879 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3186 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2775 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4334 ; 2.033 ; 1.932 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6456 ; 1.147 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 378 ; 8.940 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;38.479 ;23.882 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 507 ;17.620 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;16.096 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 441 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3578 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 679 ; 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): 1521 ; 1.120 ; 1.890 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1520 ; 1.111 ; 1.887 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1896 ; 1.975 ; 2.829 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1897 ; 1.977 ; 2.832 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1665 ; 0.984 ; 1.984 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1666 ; 0.984 ; 1.986 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2439 ; 1.727 ; 2.932 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3531 ; 4.920 ;22.101 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3512 ; 4.861 ;21.929 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 : 3 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 275 REMARK 3 ORIGIN FOR THE GROUP (A): -32.5236 -27.3951 5.2204 REMARK 3 T TENSOR REMARK 3 T11: 0.0738 T22: 0.1554 REMARK 3 T33: 0.0472 T12: 0.0189 REMARK 3 T13: -0.0405 T23: 0.0257 REMARK 3 L TENSOR REMARK 3 L11: 2.4590 L22: 0.3873 REMARK 3 L33: 1.6358 L12: -0.6944 REMARK 3 L13: -1.0255 L23: 0.0493 REMARK 3 S TENSOR REMARK 3 S11: 0.0780 S12: -0.1215 S13: 0.0620 REMARK 3 S21: -0.0346 S22: -0.1351 S23: -0.0605 REMARK 3 S31: -0.0966 S32: 0.1566 S33: 0.0571 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 : B 4 B 100 REMARK 3 ORIGIN FOR THE GROUP (A): -27.3007 -21.8685 -12.2283 REMARK 3 T TENSOR REMARK 3 T11: 0.2068 T22: 0.1245 REMARK 3 T33: 0.1404 T12: 0.1395 REMARK 3 T13: 0.1437 T23: 0.0961 REMARK 3 L TENSOR REMARK 3 L11: 3.7746 L22: 1.6060 REMARK 3 L33: 5.4069 L12: 0.7872 REMARK 3 L13: 1.9011 L23: 1.7078 REMARK 3 S TENSOR REMARK 3 S11: 0.3268 S12: 0.4622 S13: 0.0169 REMARK 3 S21: -0.3790 S22: -0.1603 S23: -0.3676 REMARK 3 S31: -0.3625 S32: 0.1249 S33: -0.1665 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 : C 1 C 9 REMARK 3 ORIGIN FOR THE GROUP (A): -35.3003 -14.0807 21.2019 REMARK 3 T TENSOR REMARK 3 T11: 0.2539 T22: 0.1881 REMARK 3 T33: 0.4718 T12: -0.0376 REMARK 3 T13: -0.0570 T23: -0.1525 REMARK 3 L TENSOR REMARK 3 L11: 9.2245 L22: 2.5313 REMARK 3 L33: 3.1525 L12: -1.7483 REMARK 3 L13: -2.4699 L23: -1.8727 REMARK 3 S TENSOR REMARK 3 S11: 0.1464 S12: -1.0271 S13: 1.9041 REMARK 3 S21: 0.4643 S22: -0.0953 S23: -0.7756 REMARK 3 S31: -0.5624 S32: 0.5987 S33: -0.0511 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 6A6H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1300007995. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19686 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.310 REMARK 200 RESOLUTION RANGE LOW (A) : 88.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.9 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : 0.01538 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.31 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.09900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: 5H94 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE PH4.6 25% REMARK 280 POLYETHYLENE GLYCOL 4,000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.97000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 24.48500 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 24.48500 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 48.97000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 VAL B 3 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 380 O HOH A 380 5555 1.39 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 GLU A 58 CG GLU A 58 CD 0.107 REMARK 500 TYR B 24 CB TYR B 24 CG -0.091 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 ARG A 111 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 111 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP A 129 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 GLY A 198 C - N - CA ANGL. DEV. = -13.0 DEGREES REMARK 500 ARG A 202 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 202 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ALA B 75 N - CA - C ANGL. DEV. = -17.4 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 PRO A 15 51.86 -93.24 REMARK 500 ARG A 17 141.04 -178.72 REMARK 500 ASP A 29 -122.91 52.77 REMARK 500 PRO A 43 114.93 -39.03 REMARK 500 ASP A 119 58.55 34.86 REMARK 500 ASP A 122 150.29 -44.58 REMARK 500 TYR A 123 -59.96 -134.01 REMARK 500 GLU A 128 -32.06 -38.79 REMARK 500 LYS A 176 -52.47 -29.27 REMARK 500 SER A 195 -131.36 53.98 REMARK 500 ASP A 227 65.53 -119.83 REMARK 500 PRO A 269 152.95 -34.72 REMARK 500 ASN B 19 135.80 -39.89 REMARK 500 TRP B 61 -3.99 84.68 REMARK 500 PRO B 73 -140.26 6.05 REMARK 500 ASN B 74 -157.62 -112.06 REMARK 500 ALA B 75 -87.03 168.95 REMARK 500 VAL C 6 -49.11 171.56 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 ARG A 14 PRO A 15 -42.97 REMARK 500 ASN A 42 PRO A 43 -144.82 REMARK 500 GLY A 198 VAL A 199 -134.48 REMARK 500 REMARK 500 REMARK: NULL DBREF 6A6H A 1 275 UNP Q8MHU4 Q8MHU4_PIG 25 299 DBREF 6A6H B 3 100 UNP Q07717 B2MG_PIG 21 118 DBREF 6A6H C 1 9 PDB 6A6H 6A6H 1 9 SEQRES 1 A 275 GLY PRO HIS SER LEU ARG TYR PHE ASP THR ALA VAL SER SEQRES 2 A 275 ARG PRO ASP ARG GLY GLU PRO ARG PHE ILE GLU VAL GLY SEQRES 3 A 275 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 275 ALA PRO ASN PRO ARG MET GLU PRO ARG ALA PRO TRP ILE SEQRES 5 A 275 GLN GLN GLU GLY GLN GLU TYR TRP ASP ARG ASN THR ARG SEQRES 6 A 275 ASN ALA MET GLY ASN ALA GLN ILE TYR ARG GLY ASN LEU SEQRES 7 A 275 ARG THR ALA LEU GLY TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 A 275 SER HIS THR LEU GLN ILE MET TYR GLY CYS ASP VAL GLY SEQRES 9 A 275 PRO ASP GLY LEU LEU LEU ARG GLY TYR SER GLN ASP ALA SEQRES 10 A 275 TYR ASP GLY ALA ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 A 275 ARG SER TRP THR ALA ALA ASP THR ALA ALA GLN ILE THR SEQRES 12 A 275 LYS ARG LYS TRP GLU ALA ALA ASN VAL ALA GLU GLN TRP SEQRES 13 A 275 ARG SER TYR LEU GLN GLY THR CYS VAL GLU TRP LEU GLN SEQRES 14 A 275 LYS TYR LEU GLN MET GLY LYS ASP THR LEU GLN ARG ALA SEQRES 15 A 275 GLU PRO PRO LYS THR HIS VAL THR ARG HIS PRO SER SER SEQRES 16 A 275 ASP LEU GLY VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 A 275 TYR PRO LYS GLU ILE SER LEU THR TRP GLN ARG GLU GLY SEQRES 18 A 275 GLN ASP GLN SER GLN ASP MET GLU LEU VAL GLU THR ARG SEQRES 19 A 275 PRO SER GLY ASP GLY THR PHE GLN LYS TRP ALA ALA LEU SEQRES 20 A 275 VAL VAL PRO PRO GLY GLU GLU GLN SER TYR THR CYS HIS SEQRES 21 A 275 VAL GLN HIS GLU GLY LEU GLN GLU PRO LEU THR LEU ARG SEQRES 22 A 275 TRP ASP SEQRES 1 B 98 VAL ALA ARG PRO PRO LYS VAL GLN VAL TYR SER ARG HIS SEQRES 2 B 98 PRO ALA GLU ASN GLY LYS PRO ASN TYR LEU ASN CYS TYR SEQRES 3 B 98 VAL SER GLY PHE HIS PRO PRO GLN ILE GLU ILE ASP LEU SEQRES 4 B 98 LEU LYS ASN GLY GLU LYS MET ASN ALA GLU GLN SER ASP SEQRES 5 B 98 LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU LEU VAL SEQRES 6 B 98 HIS THR GLU PHE THR PRO ASN ALA VAL ASP GLN TYR SER SEQRES 7 B 98 CYS ARG VAL LYS HIS VAL THR LEU ASP LYS PRO LYS ILE SEQRES 8 B 98 VAL LYS TRP ASP ARG ASP HIS SEQRES 1 C 9 MET THR ALA HIS ILE VAL VAL PRO TYR FORMUL 4 HOH *132(H2 O) HELIX 1 AA1 ALA A 49 GLN A 53 5 5 HELIX 2 AA2 GLY A 56 TYR A 84 1 29 HELIX 3 AA3 ASP A 137 ASN A 151 1 15 HELIX 4 AA4 ASN A 151 GLY A 162 1 12 HELIX 5 AA5 GLY A 162 GLY A 175 1 14 HELIX 6 AA6 GLY A 175 GLN A 180 1 6 HELIX 7 AA7 GLU A 253 TYR A 257 5 5 SHEET 1 AA1 8 GLU A 46 PRO A 47 0 SHEET 2 AA1 8 THR A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 AA1 8 ARG A 21 VAL A 28 -1 N VAL A 28 O THR A 31 SHEET 4 AA1 8 HIS A 3 SER A 13 -1 N THR A 10 O ILE A 23 SHEET 5 AA1 8 HIS A 93 VAL A 103 -1 O LEU A 95 N ALA A 11 SHEET 6 AA1 8 LEU A 109 TYR A 118 -1 O GLN A 115 N MET A 98 SHEET 7 AA1 8 ALA A 121 LEU A 126 -1 O ILE A 124 N ASP A 116 SHEET 8 AA1 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 AA2 4 LYS A 186 HIS A 192 0 SHEET 2 AA2 4 VAL A 199 PHE A 208 -1 O TRP A 204 N HIS A 188 SHEET 3 AA2 4 PHE A 241 VAL A 249 -1 O ALA A 245 N CYS A 203 SHEET 4 AA2 4 MET A 228 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 AA3 4 LYS A 186 HIS A 192 0 SHEET 2 AA3 4 VAL A 199 PHE A 208 -1 O TRP A 204 N HIS A 188 SHEET 3 AA3 4 PHE A 241 VAL A 249 -1 O ALA A 245 N CYS A 203 SHEET 4 AA3 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 AA4 4 GLN A 222 ASP A 223 0 SHEET 2 AA4 4 ILE A 213 ARG A 219 -1 N ARG A 219 O GLN A 222 SHEET 3 AA4 4 THR A 258 HIS A 263 -1 O HIS A 260 N THR A 216 SHEET 4 AA4 4 LEU A 270 LEU A 272 -1 O LEU A 272 N CYS A 259 SHEET 1 AA5 4 LYS B 8 SER B 13 0 SHEET 2 AA5 4 ASN B 23 PHE B 32 -1 O ASN B 26 N TYR B 12 SHEET 3 AA5 4 PHE B 63 PHE B 71 -1 O THR B 69 N LEU B 25 SHEET 4 AA5 4 GLU B 51 GLN B 52 -1 N GLU B 51 O HIS B 68 SHEET 1 AA6 4 LYS B 8 SER B 13 0 SHEET 2 AA6 4 ASN B 23 PHE B 32 -1 O ASN B 26 N TYR B 12 SHEET 3 AA6 4 PHE B 63 PHE B 71 -1 O THR B 69 N LEU B 25 SHEET 4 AA6 4 SER B 56 PHE B 57 -1 N SER B 56 O TYR B 64 SHEET 1 AA7 4 GLU B 46 LYS B 47 0 SHEET 2 AA7 4 GLU B 38 LYS B 43 -1 N LYS B 43 O GLU B 46 SHEET 3 AA7 4 TYR B 79 LYS B 84 -1 O SER B 80 N LEU B 42 SHEET 4 AA7 4 LYS B 92 LYS B 95 -1 O LYS B 92 N VAL B 83 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.09 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.08 SSBOND 3 CYS B 27 CYS B 81 1555 1555 1.97 CISPEP 1 TYR A 209 PRO A 210 0 0.73 CISPEP 2 HIS B 33 PRO B 34 0 -2.91 CISPEP 3 ILE C 5 VAL C 6 0 -29.58 CRYST1 101.802 101.802 73.455 90.00 90.00 120.00 P 32 2 1 6 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 0.009823 0.005671 0.000000 0.00000 SCALE2 0.000000 0.011343 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013614 0.00000