HEADER ANTITUMOR PROTEIN/IMMUNE SYSTEM 23-SEP-24 9DQ4 TITLE CRYSTAL STRUCTURE OF ENGINEERED IPILIMUMAB (MIPI.4) FAB IN COMPLEX TITLE 2 WITH MOUSE CTLA-4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOTOXIC T-LYMPHOCYTE PROTEIN 4; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYTOTOXIC T-LYMPHOCYTE-ASSOCIATED ANTIGEN 4,CTLA-4; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: MIPI.4 HEAVY CHAIN; COMPND 8 CHAIN: H; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: MIPI.4 LIGHT CHAIN; COMPND 12 CHAIN: L; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 CELL_LINE: EXPI293F; SOURCE 6 GENE: CTLA4, CD152; SOURCE 7 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 8 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 10 EXPRESSION_SYSTEM_CELL_LINE: EXPI293F; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 CELL_LINE: EXPI293F; SOURCE 16 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 17 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 19 EXPRESSION_SYSTEM_CELL_LINE: EXPI293F; SOURCE 20 MOL_ID: 3; SOURCE 21 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 22 ORGANISM_COMMON: HUMAN; SOURCE 23 ORGANISM_TAXID: 9606; SOURCE 24 CELL_LINE: EXPI293F; SOURCE 25 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 26 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 27 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 28 EXPRESSION_SYSTEM_CELL_LINE: EXPI293F; SOURCE 29 EXPRESSION_SYSTEM_ATCC_NUMBER: EXPI293F KEYWDS ANTIBODY, CTLA-4, ANTITUMOR PROTEIN-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.J.DIONG,P.S.LEE REVDAT 1 05-FEB-25 9DQ4 0 JRNL AUTH B.ROBISON,S.J.DIONG,A.KUMAR,T.M.MOON,O.CHANG,B.CHAU,C.BEE, JRNL AUTH 2 I.BARMAN,A.RAJPAL,A.J.KORMAN,S.WEST,P.STROP,P.S.LEE JRNL TITL ENGINEERED IPILIMUMAB VARIANTS THAT BIND HUMAN AND MOUSE JRNL TITL 2 CTLA-4. JRNL REF MABS V. 17 51296 2025 JRNL REFN ESSN 1942-0870 JRNL PMID 39849917 JRNL DOI 10.1080/19420862.2025.2451296 REMARK 2 REMARK 2 RESOLUTION. 1.57 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.57 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 78.9 REMARK 3 NUMBER OF REFLECTIONS : 68048 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 3449 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 40.0200 - 4.5700 0.99 3491 188 0.1876 0.2205 REMARK 3 2 4.5700 - 3.6300 0.98 3301 191 0.1649 0.1812 REMARK 3 3 3.6300 - 3.1700 0.98 3235 205 0.1962 0.2246 REMARK 3 4 3.1700 - 2.8800 0.99 3289 175 0.2103 0.2409 REMARK 3 5 2.8800 - 2.6800 0.99 3218 198 0.2156 0.2388 REMARK 3 6 2.6800 - 2.5200 0.99 3263 179 0.2116 0.2250 REMARK 3 7 2.5200 - 2.3900 0.99 3256 175 0.2066 0.2309 REMARK 3 8 2.3900 - 2.2900 0.99 3265 155 0.2074 0.2589 REMARK 3 9 2.2900 - 2.2000 0.73 2399 117 0.2174 0.2388 REMARK 3 10 2.2000 - 2.1200 1.00 3232 200 0.2045 0.2588 REMARK 3 11 2.1200 - 2.0800 0.98 2261 118 0.2082 0.2605 REMARK 3 12 2.0500 - 2.0000 0.99 2992 181 0.2118 0.2209 REMARK 3 13 2.0000 - 1.9500 1.00 3295 140 0.2113 0.2677 REMARK 3 14 1.9500 - 1.9000 0.76 2516 93 0.2239 0.2901 REMARK 3 15 1.9000 - 1.8600 1.00 3241 168 0.2260 0.2525 REMARK 3 16 1.8600 - 1.8200 1.00 3259 170 0.2422 0.2726 REMARK 3 17 1.8200 - 1.7800 0.98 3125 157 0.2484 0.2802 REMARK 3 18 1.7800 - 1.7500 0.87 2858 156 0.2475 0.2474 REMARK 3 19 1.7500 - 1.7100 0.78 2483 139 0.2567 0.2794 REMARK 3 20 1.7100 - 1.6900 0.61 1985 106 0.2544 0.2784 REMARK 3 21 1.6900 - 1.6600 0.48 1543 83 0.2482 0.2686 REMARK 3 22 1.6600 - 1.6300 0.37 1202 58 0.2498 0.2791 REMARK 3 23 1.6300 - 1.6100 0.28 911 44 0.2561 0.3069 REMARK 3 24 1.6100 - 1.5900 0.18 578 31 0.2477 0.2505 REMARK 3 25 1.5900 - 1.5700 0.12 401 22 0.2509 0.2847 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 NULL REMARK 3 ANGLE : 1.257 NULL REMARK 3 CHIRALITY : 0.075 659 REMARK 3 PLANARITY : 0.011 723 REMARK 3 DIHEDRAL : 15.109 1477 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9DQ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1000288035. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-OCT-22 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 : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68048 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.570 REMARK 200 RESOLUTION RANGE LOW (A) : 82.163 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.8 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.12600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.57 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.67500 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.25 M SODIUM ACETATE TRIHYDRATE, 25% REMARK 280 PEG3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 300K 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 41.15700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 76.38900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.15700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 76.38900 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H, L, 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 GLU A -1 REMARK 465 ALA A 0 REMARK 465 THR A 40 REMARK 465 ASN A 41 REMARK 465 ASP A 42 REMARK 465 GLN A 43 REMARK 465 GLU A 54 REMARK 465 LYS A 55 REMARK 465 ASN A 56 REMARK 465 THR A 57 REMARK 465 GLY A 117 REMARK 465 HIS A 118 REMARK 465 HIS A 119 REMARK 465 HIS A 120 REMARK 465 HIS A 121 REMARK 465 HIS A 122 REMARK 465 HIS A 123 REMARK 465 SER H 132 REMARK 465 SER H 133 REMARK 465 LYS H 134 REMARK 465 SER H 135 REMARK 465 THR H 136 REMARK 465 SER H 137 REMARK 465 GLY H 138 REMARK 465 SER H 220 REMARK 465 CYS H 221 REMARK 465 GLY H 222 REMARK 465 GLY H 223 REMARK 465 HIS H 224 REMARK 465 HIS H 225 REMARK 465 HIS H 226 REMARK 465 HIS H 227 REMARK 465 HIS H 228 REMARK 465 HIS H 229 REMARK 465 GLU L 214 REMARK 465 CYS L 215 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 GLU A 22 CG CD OE1 OE2 REMARK 470 GLN A 80 CG CD OE1 NE2 REMARK 470 GLN H 1 CG CD OE1 NE2 REMARK 470 GLN H 3 CG CD OE1 NE2 REMARK 470 ARG H 16 CG CD NE CZ NH1 NH2 REMARK 470 LYS H 43 CD CE NZ REMARK 470 LYS H 65 CG CD CE NZ REMARK 470 LYS H 76 NZ REMARK 470 GLN H 110 CG CD OE1 NE2 REMARK 470 SER H 117 OG REMARK 470 LYS H 122 CE NZ REMARK 470 LYS H 214 CE NZ REMARK 470 ARG L 46 CG CD NE CZ NH1 NH2 REMARK 470 GLU L 124 OE1 OE2 REMARK 470 LYS L 146 CG CD CE NZ REMARK 470 GLN L 148 CG CD OE1 NE2 REMARK 470 ASN L 153 CG OD1 ND2 REMARK 470 LYS L 170 CG CD CE NZ 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 O HOH H 343 O HOH H 419 2.10 REMARK 500 OH TYR H 80 O HOH H 301 2.13 REMARK 500 O HOH L 416 O HOH L 432 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 O HOH A 203 O HOH L 323 1554 2.13 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 VAL H 186 CB VAL H 186 CG1 -0.148 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS H 96 CA - CB - SG ANGL. DEV. = 8.0 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 GLU A 72 -101.97 66.67 REMARK 500 ASP H 149 61.80 63.39 REMARK 500 ALA L 52 -40.15 77.05 REMARK 500 ASP L 152 16.53 57.14 REMARK 500 ASN L 153 -1.54 95.41 REMARK 500 REMARK 500 REMARK: NULL DBREF 9DQ4 A -1 116 UNP P09793 CTLA4_MOUSE 36 153 DBREF 9DQ4 H 1 229 PDB 9DQ4 9DQ4 1 229 DBREF 9DQ4 L 1 215 PDB 9DQ4 9DQ4 1 215 SEQADV 9DQ4 GLY A 117 UNP P09793 EXPRESSION TAG SEQADV 9DQ4 HIS A 118 UNP P09793 EXPRESSION TAG SEQADV 9DQ4 HIS A 119 UNP P09793 EXPRESSION TAG SEQADV 9DQ4 HIS A 120 UNP P09793 EXPRESSION TAG SEQADV 9DQ4 HIS A 121 UNP P09793 EXPRESSION TAG SEQADV 9DQ4 HIS A 122 UNP P09793 EXPRESSION TAG SEQADV 9DQ4 HIS A 123 UNP P09793 EXPRESSION TAG SEQRES 1 A 125 GLU ALA ILE GLN VAL THR GLN PRO SER VAL VAL LEU ALA SEQRES 2 A 125 SER SER HIS GLY VAL ALA SER PHE PRO CYS GLU TYR SER SEQRES 3 A 125 PRO SER HIS ASN THR ASP GLU VAL ARG VAL THR VAL LEU SEQRES 4 A 125 ARG GLN THR ASN ASP GLN MET THR GLU VAL CYS ALA THR SEQRES 5 A 125 THR PHE THR GLU LYS ASN THR VAL GLY PHE LEU ASP TYR SEQRES 6 A 125 PRO PHE CYS SER GLY THR PHE ASN GLU SER ARG VAL ASN SEQRES 7 A 125 LEU THR ILE GLN GLY LEU ARG ALA VAL ASP THR GLY LEU SEQRES 8 A 125 TYR LEU CYS LYS VAL GLU LEU MET TYR PRO PRO PRO TYR SEQRES 9 A 125 PHE VAL GLY MET GLY ASN GLY THR GLN ILE TYR VAL ILE SEQRES 10 A 125 ASP GLY HIS HIS HIS HIS HIS HIS SEQRES 1 H 229 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY VAL VAL GLN SEQRES 2 H 229 PRO GLY ARG SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 H 229 PHE THR PHE SER LYS TYR VAL MET HIS TRP VAL ARG GLN SEQRES 4 H 229 ALA PRO GLY LYS GLY LEU GLU TRP VAL THR GLY ILE SER SEQRES 5 H 229 TYR ASP GLY ARG HIS LYS TYR TYR ALA ASP SER VAL LYS SEQRES 6 H 229 GLY ARG PHE THR ILE SER ARG ASP ASN SER LYS ASN THR SEQRES 7 H 229 LEU TYR LEU GLN MET ASN SER LEU ARG ALA GLU ASP THR SEQRES 8 H 229 ALA ILE TYR TYR CYS ALA ARG THR GLY TRP LEU GLY PRO SEQRES 9 H 229 PHE ASP TYR TRP GLY GLN GLY THR LEU VAL THR VAL SER SEQRES 10 H 229 SER ALA SER THR LYS GLY PRO SER VAL PHE PRO LEU ALA SEQRES 11 H 229 PRO SER SER LYS SER THR SER GLY GLY THR ALA ALA LEU SEQRES 12 H 229 GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO VAL THR SEQRES 13 H 229 VAL SER TRP ASN SER GLY ALA LEU THR SER GLY VAL HIS SEQRES 14 H 229 THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU TYR SER SEQRES 15 H 229 LEU SER SER VAL VAL THR VAL PRO SER SER SER LEU GLY SEQRES 16 H 229 THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS PRO SER SEQRES 17 H 229 ASN THR LYS VAL ASP LYS ARG VAL GLU PRO LYS SER CYS SEQRES 18 H 229 GLY GLY HIS HIS HIS HIS HIS HIS SEQRES 1 L 215 GLU ILE VAL LEU THR GLN SER PRO GLY THR LEU SER LEU SEQRES 2 L 215 SER PRO GLY GLU ARG ALA THR LEU SER CYS ARG GLN SER SEQRES 3 L 215 GLN SER VAL GLY TRP SER PRO LEU ALA TRP TYR GLN GLN SEQRES 4 L 215 LYS PRO GLY GLN ALA PRO ARG LEU LEU ILE TYR GLY ALA SEQRES 5 L 215 PHE SER ARG ALA THR GLY ILE PRO ASP ARG PHE SER GLY SEQRES 6 L 215 SER GLY SER GLY THR ASP PHE THR LEU THR ILE SER ARG SEQRES 7 L 215 LEU GLU PRO GLU ASP PHE ALA VAL TYR TYR CYS GLN GLN SEQRES 8 L 215 TYR GLY GLN SER PRO TRP THR PHE GLY GLN GLY THR LYS SEQRES 9 L 215 VAL GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE SEQRES 10 L 215 ILE PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR SEQRES 11 L 215 ALA SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG SEQRES 12 L 215 GLU ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SEQRES 13 L 215 SER GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER SEQRES 14 L 215 LYS ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SEQRES 15 L 215 SER LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS SEQRES 16 L 215 GLU VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SEQRES 17 L 215 SER PHE ASN ARG GLY GLU CYS HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET FUC B 4 10 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 4 NAG 2(C8 H15 N O6) FORMUL 4 BMA C6 H12 O6 FORMUL 4 FUC C6 H12 O5 FORMUL 5 HOH *395(H2 O) HELIX 1 AA1 ARG A 83 THR A 87 5 5 HELIX 2 AA2 THR H 28 TYR H 32 5 5 HELIX 3 AA3 ARG H 87 THR H 91 5 5 HELIX 4 AA4 SER H 161 ALA H 163 5 3 HELIX 5 AA5 SER H 192 GLY H 195 5 4 HELIX 6 AA6 LYS H 206 ASN H 209 5 4 HELIX 7 AA7 GLU L 80 PHE L 84 5 5 HELIX 8 AA8 SER L 122 SER L 128 1 7 HELIX 9 AA9 LYS L 184 HIS L 190 1 7 SHEET 1 AA1 4 GLN A 2 THR A 4 0 SHEET 2 AA1 4 ALA A 17 SER A 24 -1 O GLU A 22 N THR A 4 SHEET 3 AA1 4 ARG A 74 ILE A 79 -1 O ILE A 79 N ALA A 17 SHEET 4 AA1 4 CYS A 66 ASN A 71 -1 N THR A 69 O ASN A 76 SHEET 1 AA2 5 VAL A 8 LEU A 10 0 SHEET 2 AA2 5 THR A 110 TYR A 113 1 O GLN A 111 N VAL A 9 SHEET 3 AA2 5 GLY A 88 TYR A 98 -1 N GLY A 88 O ILE A 112 SHEET 4 AA2 5 GLU A 31 ARG A 38 -1 N LEU A 37 O LEU A 91 SHEET 5 AA2 5 THR A 45 PHE A 52 -1 O PHE A 52 N VAL A 32 SHEET 1 AA3 4 VAL A 8 LEU A 10 0 SHEET 2 AA3 4 THR A 110 TYR A 113 1 O GLN A 111 N VAL A 9 SHEET 3 AA3 4 GLY A 88 TYR A 98 -1 N GLY A 88 O ILE A 112 SHEET 4 AA3 4 PHE A 103 MET A 106 -1 O GLY A 105 N VAL A 94 SHEET 1 AA4 4 GLN H 3 SER H 7 0 SHEET 2 AA4 4 LEU H 18 SER H 25 -1 O SER H 25 N GLN H 3 SHEET 3 AA4 4 THR H 78 MET H 83 -1 O MET H 83 N LEU H 18 SHEET 4 AA4 4 PHE H 68 ASP H 73 -1 N THR H 69 O GLN H 82 SHEET 1 AA5 6 VAL H 11 VAL H 12 0 SHEET 2 AA5 6 THR H 112 VAL H 116 1 O THR H 115 N VAL H 12 SHEET 3 AA5 6 ALA H 92 THR H 99 -1 N TYR H 94 O THR H 112 SHEET 4 AA5 6 MET H 34 GLN H 39 -1 N VAL H 37 O TYR H 95 SHEET 5 AA5 6 GLU H 46 ILE H 51 -1 O GLU H 46 N ARG H 38 SHEET 6 AA5 6 LYS H 58 TYR H 60 -1 O TYR H 59 N GLY H 50 SHEET 1 AA6 4 VAL H 11 VAL H 12 0 SHEET 2 AA6 4 THR H 112 VAL H 116 1 O THR H 115 N VAL H 12 SHEET 3 AA6 4 ALA H 92 THR H 99 -1 N TYR H 94 O THR H 112 SHEET 4 AA6 4 PHE H 105 TRP H 108 -1 O TYR H 107 N ARG H 98 SHEET 1 AA7 4 SER H 125 LEU H 129 0 SHEET 2 AA7 4 THR H 140 TYR H 150 -1 O LEU H 146 N PHE H 127 SHEET 3 AA7 4 TYR H 181 PRO H 190 -1 O LEU H 183 N VAL H 147 SHEET 4 AA7 4 VAL H 168 THR H 170 -1 N HIS H 169 O VAL H 186 SHEET 1 AA8 4 SER H 125 LEU H 129 0 SHEET 2 AA8 4 THR H 140 TYR H 150 -1 O LEU H 146 N PHE H 127 SHEET 3 AA8 4 TYR H 181 PRO H 190 -1 O LEU H 183 N VAL H 147 SHEET 4 AA8 4 VAL H 174 LEU H 175 -1 N VAL H 174 O SER H 182 SHEET 1 AA9 3 THR H 156 TRP H 159 0 SHEET 2 AA9 3 ILE H 200 HIS H 205 -1 O ASN H 202 N SER H 158 SHEET 3 AA9 3 THR H 210 ARG H 215 -1 O VAL H 212 N VAL H 203 SHEET 1 AB1 4 LEU L 4 SER L 7 0 SHEET 2 AB1 4 ALA L 19 GLN L 25 -1 O SER L 22 N SER L 7 SHEET 3 AB1 4 ASP L 71 ILE L 76 -1 O PHE L 72 N CYS L 23 SHEET 4 AB1 4 PHE L 63 SER L 68 -1 N SER L 64 O THR L 75 SHEET 1 AB2 6 THR L 10 LEU L 13 0 SHEET 2 AB2 6 THR L 103 ILE L 107 1 O LYS L 104 N LEU L 11 SHEET 3 AB2 6 ALA L 85 GLN L 91 -1 N ALA L 85 O VAL L 105 SHEET 4 AB2 6 LEU L 34 GLN L 39 -1 N GLN L 39 O VAL L 86 SHEET 5 AB2 6 ARG L 46 TYR L 50 -1 O LEU L 48 N TRP L 36 SHEET 6 AB2 6 SER L 54 ARG L 55 -1 O SER L 54 N TYR L 50 SHEET 1 AB3 4 THR L 10 LEU L 13 0 SHEET 2 AB3 4 THR L 103 ILE L 107 1 O LYS L 104 N LEU L 11 SHEET 3 AB3 4 ALA L 85 GLN L 91 -1 N ALA L 85 O VAL L 105 SHEET 4 AB3 4 THR L 98 PHE L 99 -1 O THR L 98 N GLN L 91 SHEET 1 AB4 4 SER L 115 PHE L 119 0 SHEET 2 AB4 4 THR L 130 PHE L 140 -1 O LEU L 136 N PHE L 117 SHEET 3 AB4 4 TYR L 174 SER L 183 -1 O LEU L 176 N LEU L 137 SHEET 4 AB4 4 SER L 160 VAL L 164 -1 N SER L 163 O SER L 177 SHEET 1 AB5 4 ALA L 154 LEU L 155 0 SHEET 2 AB5 4 LYS L 146 VAL L 151 -1 N VAL L 151 O ALA L 154 SHEET 3 AB5 4 VAL L 192 THR L 198 -1 O GLU L 196 N GLN L 148 SHEET 4 AB5 4 VAL L 206 ASN L 211 -1 O LYS L 208 N CYS L 195 SSBOND 1 CYS A 21 CYS A 92 1555 1555 2.03 SSBOND 2 CYS A 48 CYS A 66 1555 1555 2.07 SSBOND 3 CYS H 22 CYS H 96 1555 1555 2.06 SSBOND 4 CYS H 145 CYS H 201 1555 1555 2.03 SSBOND 5 CYS L 23 CYS L 89 1555 1555 2.11 SSBOND 6 CYS L 135 CYS L 195 1555 1555 2.01 LINK ND2 ASN A 108 C1 NAG B 1 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.43 LINK O6 NAG B 1 C1 FUC B 4 1555 1555 1.43 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.45 CISPEP 1 SER A 24 PRO A 25 0 -5.15 CISPEP 2 TYR A 98 PRO A 99 0 -0.38 CISPEP 3 PRO A 100 PRO A 101 0 2.30 CISPEP 4 PHE H 151 PRO H 152 0 -7.78 CISPEP 5 GLU H 153 PRO H 154 0 5.20 CISPEP 6 SER L 7 PRO L 8 0 -7.98 CISPEP 7 SER L 95 PRO L 96 0 -7.37 CISPEP 8 TYR L 141 PRO L 142 0 0.93 CRYST1 82.314 152.778 48.012 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 0.012149 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006545 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020828 0.00000