HEADER IMMUNE SYSTEM 04-JAN-22 7QPJ TITLE CRYSTAL STRUCTURE OF ENGINEERED TCR (756) COMPLEXED TO HLA-A*02:01 TITLE 2 PRESENTING MAGE-A10 9-MER PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MHC CLASS I ANTIGEN; COMPND 3 CHAIN: C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 7 CHAIN: D; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: MELANOMA-ASSOCIATED ANTIGEN 10; COMPND 11 CHAIN: E; COMPND 12 SYNONYM: CANCER/TESTIS ANTIGEN 1.10,CT1.10,MAGE-10 ANTIGEN; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: T-CELL RECEPTOR ALPHA CHAIN; COMPND 16 CHAIN: A; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 5; COMPND 19 MOLECULE: T-CELL RECEPTOR BETA CHAIN; COMPND 20 CHAIN: B; COMPND 21 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HLA-A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: B2M, CDABP0092, HDCMA22P; 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: HOMO SAPIENS; SOURCE 18 ORGANISM_COMMON: HUMAN; SOURCE 19 ORGANISM_TAXID: 9606; SOURCE 20 MOL_ID: 4; SOURCE 21 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 22 ORGANISM_COMMON: HUMAN; SOURCE 23 ORGANISM_TAXID: 9606; SOURCE 24 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 26 MOL_ID: 5; SOURCE 27 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 28 ORGANISM_COMMON: HUMAN; SOURCE 29 ORGANISM_TAXID: 9606; SOURCE 30 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 31 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS T-CELL RECEPTOR, HUMAN LEUKOCYTE ANTIGEN, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.C.SIMISTER,E.C.BORDER,J.F.VIEIRA,N.J.PUMPHREY REVDAT 2 31-JAN-24 7QPJ 1 REMARK REVDAT 1 03-AUG-22 7QPJ 0 JRNL AUTH P.C.SIMISTER,E.C.BORDER,J.F.VIEIRA,N.J.PUMPHREY JRNL TITL STRUCTURAL INSIGHTS INTO ENGINEERING A T-CELL RECEPTOR JRNL TITL 2 TARGETING MAGE-A10 WITH HIGHER AFFINITY AND SPECIFICITY FOR JRNL TITL 3 CANCER IMMUNOTHERAPY. JRNL REF J IMMUNOTHER CANCER V. 10 2022 JRNL REFN ESSN 2051-1426 JRNL PMID 35851311 JRNL DOI 10.1136/JITC-2022-004600 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.C.BORDER,J.P.SANDERSON,T.WEISSENSTEINER,A.B.GERRY, REMARK 1 AUTH 2 N.J.PUMPHREY REMARK 1 TITL AFFINITY-ENHANCED T-CELL RECEPTORS FOR ADOPTIVE T-CELL REMARK 1 TITL 2 THERAPY TARGETING MAGE-A10: STRATEGY FOR SELECTION OF AN REMARK 1 TITL 3 OPTIMAL CANDIDATE. REMARK 1 REF ONCOIMMUNOLOGY V. 8 32759 2018 REMARK 1 REFN ISSN 2162-4011 REMARK 1 PMID 30713784 REMARK 1 DOI 10.1080/2162402X.2018.1532759 REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 134385 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.925 REMARK 3 FREE R VALUE TEST SET COUNT : 6619 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.54 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 9271 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.35 REMARK 3 BIN R VALUE (WORKING SET) : 0.3390 REMARK 3 BIN FREE R VALUE SET COUNT : 496 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6470 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 528 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.43 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.76800 REMARK 3 B22 (A**2) : -0.79300 REMARK 3 B33 (A**2) : 1.35600 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.14900 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.085 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.088 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.468 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6760 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5950 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9214 ; 1.631 ; 1.649 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13697 ; 1.380 ; 1.579 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 841 ; 7.530 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 383 ;31.142 ;21.984 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1024 ;13.894 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 47 ;14.894 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 865 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7832 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1670 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1055 ; 0.198 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 64 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3085 ; 0.168 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 404 ; 0.211 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 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): 3313 ; 2.341 ; 2.574 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3312 ; 2.340 ; 2.573 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4139 ; 3.556 ; 3.850 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4140 ; 3.555 ; 3.851 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3447 ; 2.983 ; 2.823 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3448 ; 2.983 ; 2.823 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 5064 ; 4.561 ; 4.128 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5065 ; 4.560 ; 4.128 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 : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7QPJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-JAN-22. REMARK 100 THE DEPOSITION ID IS D_1292117548. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAY-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 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 : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 134415 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 77.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 8.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 77.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.04100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 15.40 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: 7PBC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM CHLORIDE, 0.1M MES PH 6.0, REMARK 280 20% W/V PEG 6000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 38.72300 REMARK 290 SMTRY3 2 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, E, 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 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 MET C 1 REMARK 465 MET A 1 REMARK 465 GLN A 2 REMARK 465 PRO A 203 REMARK 465 GLU A 204 REMARK 465 SER A 205 REMARK 465 SER A 206 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 ASP B 241 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG C 18 CD NE CZ NH1 NH2 REMARK 470 ARG C 76 CZ NH1 NH2 REMARK 470 LYS C 122 CD CE NZ REMARK 470 LYS C 177 CE NZ REMARK 470 GLU C 178 CD OE1 OE2 REMARK 470 GLU C 223 CG CD OE1 OE2 REMARK 470 GLN C 227 CG CD OE1 NE2 REMARK 470 GLN C 256 CG CD OE1 NE2 REMARK 470 LYS C 269 CG CD CE NZ REMARK 470 GLU D 17 CG CD OE1 OE2 REMARK 470 LYS D 20 CG CD CE NZ REMARK 470 LYS D 49 CG CD CE NZ REMARK 470 LYS D 59 CG CD CE NZ REMARK 470 GLU D 70 CD OE1 OE2 REMARK 470 GLU D 75 CG CD OE1 OE2 REMARK 470 LYS D 76 CG CD CE NZ REMARK 470 GLU D 78 CD OE1 OE2 REMARK 470 LYS D 95 CE NZ REMARK 470 LYS A 3 CG CD CE NZ REMARK 470 LYS A 43 CE NZ REMARK 470 ASP A 79 CG OD1 OD2 REMARK 470 GLN A 115 CG CD OE1 NE2 REMARK 470 ARG A 125 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 132 O REMARK 470 GLN A 148 CG CD OE1 NE2 REMARK 470 LYS A 150 CG CD CE NZ REMARK 470 ARG B 12 CZ NH1 NH2 REMARK 470 LYS B 15 CD CE NZ REMARK 470 ARG B 78 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 115 CG OD1 ND2 REMARK 470 LYS B 116 CE NZ REMARK 470 GLU B 129 CG CD OE1 OE2 REMARK 470 LYS B 161 CG CD CE NZ REMARK 470 ARG B 202 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 219 CG CD OE1 OE2 REMARK 470 ASP B 223 CG OD1 OD2 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 HE ARG C 98 HE1 HIS C 115 1.17 REMARK 500 H ASN A 8 O HOH A 302 1.27 REMARK 500 HD21 ASN A 54 O HOH A 304 1.55 REMARK 500 HH11 ARG C 83 O HOH C 406 1.55 REMARK 500 O HOH A 397 O HOH A 418 1.97 REMARK 500 OE1 GLU A 196 O HOH A 301 1.97 REMARK 500 O HOH A 316 O HOH A 345 2.04 REMARK 500 NH1 ARG D 4 O HOH D 201 2.10 REMARK 500 N ASN A 8 O HOH A 302 2.10 REMARK 500 O PRO B 201 O HOH B 501 2.13 REMARK 500 O HOH D 235 O HOH D 255 2.14 REMARK 500 O HOH C 533 O HOH C 585 2.15 REMARK 500 O HOH C 455 O HOH C 584 2.16 REMARK 500 OE1 GLN A 111 O HOH A 303 2.16 REMARK 500 O HOH C 461 O HOH A 314 2.19 REMARK 500 O HOH C 409 O HOH C 584 2.19 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 C 158 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG C 158 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ASP C 30 -129.74 49.43 REMARK 500 GLN C 181 45.26 -99.03 REMARK 500 ASN D 43 51.43 36.13 REMARK 500 GLU A 16 132.85 -39.91 REMARK 500 SER A 130 176.82 175.38 REMARK 500 LYS A 180 120.53 -27.32 REMARK 500 ALA B 97 -31.98 -165.97 REMARK 500 THR B 98 -89.08 -121.30 REMARK 500 ASN B 217 49.25 -99.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7PDW RELATED DB: PDB REMARK 900 RELATED ID: 7PBC RELATED DB: PDB REMARK 900 RELATED ID: 7PDX RELATED DB: PDB DBREF 7QPJ C 2 277 UNP Q861F7 Q861F7_HUMAN 1 276 DBREF 7QPJ D 2 100 UNP P61769 B2MG_HUMAN 21 119 DBREF 7QPJ E 1 9 UNP P43363 MAGAA_HUMAN 254 262 DBREF 7QPJ A 1 206 PDB 7QPJ 7QPJ 1 206 DBREF 7QPJ B 1 241 PDB 7QPJ 7QPJ 1 241 SEQADV 7QPJ MET C 1 UNP Q861F7 INITIATING METHIONINE SEQADV 7QPJ MET D 1 UNP P61769 INITIATING METHIONINE SEQRES 1 C 277 MET GLY SER HIS SER MET ARG TYR PHE PHE THR SER VAL SEQRES 2 C 277 SER ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL SEQRES 3 C 277 GLY TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER SEQRES 4 C 277 ASP ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP SEQRES 5 C 277 ILE GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR SEQRES 6 C 277 ARG LYS VAL LYS ALA HIS SER GLN THR HIS ARG VAL ASP SEQRES 7 C 277 LEU GLY THR LEU ARG GLY TYR TYR ASN GLN SER GLU ALA SEQRES 8 C 277 GLY SER HIS THR VAL GLN ARG MET TYR GLY CYS ASP VAL SEQRES 9 C 277 GLY SER ASP TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR SEQRES 10 C 277 ALA TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP SEQRES 11 C 277 LEU ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN THR SEQRES 12 C 277 THR LYS HIS LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN SEQRES 13 C 277 LEU ARG ALA TYR LEU GLU GLY THR CYS VAL GLU TRP LEU SEQRES 14 C 277 ARG ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG SEQRES 15 C 277 THR ASP ALA PRO LYS THR HIS MET THR HIS HIS ALA VAL SEQRES 16 C 277 SER ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU SER SEQRES 17 C 277 PHE TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP SEQRES 18 C 277 GLY GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR SEQRES 19 C 277 ARG PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA SEQRES 20 C 277 VAL VAL VAL PRO SER GLY GLN GLU GLN ARG TYR THR CYS SEQRES 21 C 277 HIS VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU SEQRES 22 C 277 ARG TRP GLU PRO SEQRES 1 D 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 D 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 D 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 D 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 D 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 D 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 D 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 D 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 E 9 GLY LEU TYR ASP GLY MET GLU HIS LEU SEQRES 1 A 206 MET GLN LYS GLU VAL GLU GLN ASN SER GLY PRO LEU SER SEQRES 2 A 206 VAL PRO GLU GLY ALA ILE ALA SER LEU ASN CYS THR TYR SEQRES 3 A 206 SER ASP ARG GLY SER SER SER PHE PHE TRP TYR ARG GLN SEQRES 4 A 206 TYR SER GLY LYS SER PRO GLU LEU ILE MET SER ILE TYR SEQRES 5 A 206 ALA ASN GLY ASP LYS GLU ASP GLY ARG PHE THR ALA GLN SEQRES 6 A 206 LEU ASN LYS ALA SER GLN TYR VAL SER LEU LEU ILE ARG SEQRES 7 A 206 ASP SER GLN PRO SER ASP SER ALA THR TYR LEU CYS ALA SEQRES 8 A 206 VAL ARG GLY THR GLY ARG ARG ALA LEU THR PHE GLY SER SEQRES 9 A 206 GLY THR ARG LEU GLN VAL GLN PRO ASN ILE GLN ASN PRO SEQRES 10 A 206 ASP PRO ALA VAL TYR GLN LEU ARG ASP SER LYS SER SER SEQRES 11 A 206 ASP LYS SER VAL CYS LEU PHE THR ASP PHE ASP SER GLN SEQRES 12 A 206 THR ASN VAL SER GLN SER LYS ASP SER ASP VAL TYR ILE SEQRES 13 A 206 THR ASP LYS CYS VAL LEU ASP MET ARG SER MET ASP PHE SEQRES 14 A 206 LYS SER ASN SER ALA VAL ALA TRP SER ASN LYS SER ASP SEQRES 15 A 206 PHE ALA CYS ALA ASN ALA PHE ASN ASN SER ILE ILE PRO SEQRES 16 A 206 GLU ASP THR PHE PHE PRO SER PRO GLU SER SER SEQRES 1 B 241 MET ASN ALA GLY VAL THR GLN THR PRO LYS PHE ARG ILE SEQRES 2 B 241 LEU LYS ILE GLY GLN SER MET THR LEU GLN CYS ALA GLN SEQRES 3 B 241 ASP MET ASN HIS ASN TYR MET TYR TRP TYR ARG GLN ASP SEQRES 4 B 241 PRO GLY MET GLY LEU LYS LEU ILE TYR TYR SER VAL GLY SEQRES 5 B 241 ALA GLY ILE THR ASP LYS GLY GLU VAL PRO ASN GLY TYR SEQRES 6 B 241 ASN VAL SER ARG SER THR THR GLU ASP PHE PRO LEU ARG SEQRES 7 B 241 LEU GLU LEU ALA ALA PRO SER GLN THR SER VAL TYR PHE SEQRES 8 B 241 CYS ALA SER SER PHE ALA THR GLU ALA PHE PHE GLY GLN SEQRES 9 B 241 GLY THR ARG LEU THR VAL VAL GLU ASP LEU ASN LYS VAL SEQRES 10 B 241 PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SER GLU ALA SEQRES 11 B 241 GLU ILE SER HIS THR GLN LYS ALA THR LEU VAL CYS LEU SEQRES 12 B 241 ALA THR GLY PHE TYR PRO ASP HIS VAL GLU LEU SER TRP SEQRES 13 B 241 TRP VAL ASN GLY LYS GLU VAL HIS SER GLY VAL CYS THR SEQRES 14 B 241 ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA LEU ASN ASP SEQRES 15 B 241 SER ARG TYR ALA LEU SER SER ARG LEU ARG VAL SER ALA SEQRES 16 B 241 THR PHE TRP GLN ASP PRO ARG ASN HIS PHE ARG CYS GLN SEQRES 17 B 241 VAL GLN PHE TYR GLY LEU SER GLU ASN ASP GLU TRP THR SEQRES 18 B 241 GLN ASP ARG ALA LYS PRO VAL THR GLN ILE VAL SER ALA SEQRES 19 B 241 GLU ALA TRP GLY ARG ALA ASP HET GOL C 301 14 HET GOL C 302 14 HET GOL C 303 14 HET GOL C 304 14 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 6 GOL 4(C3 H8 O3) FORMUL 10 HOH *528(H2 O) HELIX 1 AA1 ALA C 50 GLU C 56 5 7 HELIX 2 AA2 GLY C 57 ASN C 87 1 31 HELIX 3 AA3 ASP C 138 ALA C 151 1 14 HELIX 4 AA4 HIS C 152 GLY C 163 1 12 HELIX 5 AA5 GLY C 163 GLY C 176 1 14 HELIX 6 AA6 GLY C 176 GLN C 181 1 6 HELIX 7 AA7 GLN C 254 GLN C 256 5 3 HELIX 8 AA8 GLN A 81 SER A 85 5 5 HELIX 9 AA9 ALA A 184 PHE A 189 1 6 HELIX 10 AB1 ALA B 83 THR B 87 5 5 HELIX 11 AB2 ASP B 113 VAL B 117 5 5 HELIX 12 AB3 SER B 128 GLN B 136 1 9 HELIX 13 AB4 ALA B 195 ASP B 200 1 6 SHEET 1 AA1 8 GLU C 47 PRO C 48 0 SHEET 2 AA1 8 THR C 32 ASP C 38 -1 N ARG C 36 O GLU C 47 SHEET 3 AA1 8 ARG C 22 VAL C 29 -1 N VAL C 29 O THR C 32 SHEET 4 AA1 8 HIS C 4 VAL C 13 -1 N ARG C 7 O TYR C 28 SHEET 5 AA1 8 THR C 95 VAL C 104 -1 O VAL C 96 N SER C 12 SHEET 6 AA1 8 PHE C 110 TYR C 119 -1 O LEU C 111 N ASP C 103 SHEET 7 AA1 8 LYS C 122 LEU C 127 -1 O LEU C 127 N HIS C 115 SHEET 8 AA1 8 TRP C 134 ALA C 136 -1 O THR C 135 N ALA C 126 SHEET 1 AA2 4 LYS C 187 ALA C 194 0 SHEET 2 AA2 4 GLU C 199 PHE C 209 -1 O THR C 201 N HIS C 193 SHEET 3 AA2 4 PHE C 242 PRO C 251 -1 O VAL C 250 N ALA C 200 SHEET 4 AA2 4 GLU C 230 LEU C 231 -1 N GLU C 230 O ALA C 247 SHEET 1 AA3 4 LYS C 187 ALA C 194 0 SHEET 2 AA3 4 GLU C 199 PHE C 209 -1 O THR C 201 N HIS C 193 SHEET 3 AA3 4 PHE C 242 PRO C 251 -1 O VAL C 250 N ALA C 200 SHEET 4 AA3 4 ARG C 235 PRO C 236 -1 N ARG C 235 O GLN C 243 SHEET 1 AA4 4 GLU C 223 ASP C 224 0 SHEET 2 AA4 4 THR C 215 ARG C 220 -1 N ARG C 220 O GLU C 223 SHEET 3 AA4 4 TYR C 258 GLN C 263 -1 O HIS C 261 N THR C 217 SHEET 4 AA4 4 LEU C 271 LEU C 273 -1 O LEU C 273 N CYS C 260 SHEET 1 AA5 4 LYS D 7 SER D 12 0 SHEET 2 AA5 4 ASN D 22 PHE D 31 -1 O ASN D 25 N TYR D 11 SHEET 3 AA5 4 PHE D 63 PHE D 71 -1 O TYR D 67 N CYS D 26 SHEET 4 AA5 4 GLU D 51 HIS D 52 -1 N GLU D 51 O TYR D 68 SHEET 1 AA6 4 LYS D 7 SER D 12 0 SHEET 2 AA6 4 ASN D 22 PHE D 31 -1 O ASN D 25 N TYR D 11 SHEET 3 AA6 4 PHE D 63 PHE D 71 -1 O TYR D 67 N CYS D 26 SHEET 4 AA6 4 SER D 56 PHE D 57 -1 N SER D 56 O TYR D 64 SHEET 1 AA7 4 GLU D 45 ARG D 46 0 SHEET 2 AA7 4 GLU D 37 LYS D 42 -1 N LYS D 42 O GLU D 45 SHEET 3 AA7 4 TYR D 79 ASN D 84 -1 O ALA D 80 N LEU D 41 SHEET 4 AA7 4 LYS D 92 LYS D 95 -1 O LYS D 92 N VAL D 83 SHEET 1 AA8 5 VAL A 5 GLU A 6 0 SHEET 2 AA8 5 ALA A 20 TYR A 26 -1 O THR A 25 N GLU A 6 SHEET 3 AA8 5 TYR A 72 ILE A 77 -1 O LEU A 75 N LEU A 22 SHEET 4 AA8 5 PHE A 62 ASN A 67 -1 N THR A 63 O LEU A 76 SHEET 5 AA8 5 GLY A 55 ASP A 59 -1 N LYS A 57 O ALA A 64 SHEET 1 AA9 5 LEU A 12 PRO A 15 0 SHEET 2 AA9 5 THR A 106 GLN A 111 1 O GLN A 109 N LEU A 12 SHEET 3 AA9 5 ALA A 86 ARG A 93 -1 N ALA A 86 O LEU A 108 SHEET 4 AA9 5 SER A 33 GLN A 39 -1 N TYR A 37 O LEU A 89 SHEET 5 AA9 5 GLU A 46 ILE A 51 -1 O GLU A 46 N ARG A 38 SHEET 1 AB1 4 LEU A 12 PRO A 15 0 SHEET 2 AB1 4 THR A 106 GLN A 111 1 O GLN A 109 N LEU A 12 SHEET 3 AB1 4 ALA A 86 ARG A 93 -1 N ALA A 86 O LEU A 108 SHEET 4 AB1 4 THR A 101 PHE A 102 -1 O THR A 101 N VAL A 92 SHEET 1 AB2 4 ALA A 120 LEU A 124 0 SHEET 2 AB2 4 VAL A 134 THR A 138 -1 O THR A 138 N ALA A 120 SHEET 3 AB2 4 PHE A 169 SER A 178 -1 O ALA A 176 N CYS A 135 SHEET 4 AB2 4 VAL A 154 ILE A 156 -1 N TYR A 155 O TRP A 177 SHEET 1 AB3 4 ALA A 120 LEU A 124 0 SHEET 2 AB3 4 VAL A 134 THR A 138 -1 O THR A 138 N ALA A 120 SHEET 3 AB3 4 PHE A 169 SER A 178 -1 O ALA A 176 N CYS A 135 SHEET 4 AB3 4 CYS A 160 MET A 164 -1 N MET A 164 O PHE A 169 SHEET 1 AB4 4 VAL B 5 THR B 8 0 SHEET 2 AB4 4 MET B 20 GLN B 26 -1 O ALA B 25 N THR B 6 SHEET 3 AB4 4 LEU B 77 LEU B 79 -1 O LEU B 77 N LEU B 22 SHEET 4 AB4 4 TYR B 65 VAL B 67 -1 N ASN B 66 O ARG B 78 SHEET 1 AB5 6 PHE B 11 LYS B 15 0 SHEET 2 AB5 6 THR B 106 VAL B 111 1 O VAL B 111 N LEU B 14 SHEET 3 AB5 6 SER B 88 SER B 95 -1 N TYR B 90 O THR B 106 SHEET 4 AB5 6 TYR B 32 GLN B 38 -1 N TYR B 36 O PHE B 91 SHEET 5 AB5 6 LEU B 44 GLY B 52 -1 O ILE B 47 N TRP B 35 SHEET 6 AB5 6 ILE B 55 LYS B 58 -1 O ASP B 57 N TYR B 49 SHEET 1 AB6 4 PHE B 11 LYS B 15 0 SHEET 2 AB6 4 THR B 106 VAL B 111 1 O VAL B 111 N LEU B 14 SHEET 3 AB6 4 SER B 88 SER B 95 -1 N TYR B 90 O THR B 106 SHEET 4 AB6 4 PHE B 101 PHE B 102 -1 O PHE B 101 N SER B 94 SHEET 1 AB7 4 GLU B 121 PHE B 125 0 SHEET 2 AB7 4 LYS B 137 PHE B 147 -1 O VAL B 141 N PHE B 125 SHEET 3 AB7 4 TYR B 185 SER B 194 -1 O LEU B 187 N ALA B 144 SHEET 4 AB7 4 VAL B 167 THR B 169 -1 N CYS B 168 O ARG B 190 SHEET 1 AB8 4 GLU B 121 PHE B 125 0 SHEET 2 AB8 4 LYS B 137 PHE B 147 -1 O VAL B 141 N PHE B 125 SHEET 3 AB8 4 TYR B 185 SER B 194 -1 O LEU B 187 N ALA B 144 SHEET 4 AB8 4 LEU B 174 LYS B 175 -1 N LEU B 174 O ALA B 186 SHEET 1 AB9 4 LYS B 161 VAL B 163 0 SHEET 2 AB9 4 VAL B 152 VAL B 158 -1 N VAL B 158 O LYS B 161 SHEET 3 AB9 4 HIS B 204 PHE B 211 -1 O GLN B 208 N SER B 155 SHEET 4 AB9 4 GLN B 230 TRP B 237 -1 O ALA B 236 N PHE B 205 SSBOND 1 CYS C 102 CYS C 165 1555 1555 2.15 SSBOND 2 CYS C 204 CYS C 260 1555 1555 2.01 SSBOND 3 CYS D 26 CYS D 81 1555 1555 1.99 SSBOND 4 CYS A 24 CYS A 90 1555 1555 2.04 SSBOND 5 CYS A 135 CYS A 185 1555 1555 2.09 SSBOND 6 CYS A 160 CYS B 168 1555 1555 2.04 SSBOND 7 CYS B 24 CYS B 92 1555 1555 2.01 SSBOND 8 CYS B 142 CYS B 207 1555 1555 1.99 CISPEP 1 TYR C 210 PRO C 211 0 -2.98 CISPEP 2 HIS D 32 PRO D 33 0 0.19 CISPEP 3 GLY A 10 PRO A 11 0 9.54 CISPEP 4 THR B 8 PRO B 9 0 -4.15 CISPEP 5 TYR B 148 PRO B 149 0 -2.51 CRYST1 54.197 77.446 116.682 90.00 102.70 90.00 P 1 21 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 0.018451 0.000000 0.004158 0.00000 SCALE2 0.000000 0.012912 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008785 0.00000