HEADER IMMUNE SYSTEM 17-JAN-19 6NP9 TITLE PD-L1 IGV DOMAIN V76T WITH FRAGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROGRAMMED CELL DEATH 1 LIGAND 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROGRAMMED DEATH LIGAND 1,B7 HOMOLOG 1,B7-H1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CD274, B7H1, PDCD1L1, PDCD1LG1, PDL1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: K-12 KEYWDS FRAGMENT-BASED SCREENING, STRUCTURE-BASED DESIGN, PD-L1 INHIBITOR, KEYWDS 2 CANCER DRUG DISCOVERY, IMMUNOTHERAPY, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR B.ZHAO,E.PERRY REVDAT 5 13-NOV-24 6NP9 1 REMARK REVDAT 4 11-OCT-23 6NP9 1 REMARK REVDAT 3 27-NOV-19 6NP9 1 REMARK REVDAT 2 27-FEB-19 6NP9 1 JRNL REVDAT 1 20-FEB-19 6NP9 0 JRNL AUTH E.PERRY,J.J.MILLS,B.ZHAO,F.WANG,Q.SUN,P.P.CHRISTOV,J.C.TARR, JRNL AUTH 2 T.A.RIETZ,E.T.OLEJNICZAK,T.LEE,S.FESIK JRNL TITL FRAGMENT-BASED SCREENING OF PROGRAMMED DEATH LIGAND 1 JRNL TITL 2 (PD-L1). JRNL REF BIOORG. MED. CHEM. LETT. V. 29 786 2019 JRNL REFN ESSN 1464-3405 JRNL PMID 30728114 JRNL DOI 10.1016/J.BMCL.2019.01.028 REMARK 2 REMARK 2 RESOLUTION. 1.27 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.27 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.43 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 11.950 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 32914 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.130 REMARK 3 FREE R VALUE TEST SET COUNT : 2016 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 18.5441 - 3.0584 0.90 2269 150 0.1727 0.1878 REMARK 3 2 3.0584 - 2.4292 0.94 2248 147 0.1914 0.2310 REMARK 3 3 2.4292 - 2.1227 0.94 2227 140 0.1953 0.1907 REMARK 3 4 2.1227 - 1.9288 0.94 2233 145 0.2014 0.2174 REMARK 3 5 1.9288 - 1.7907 0.94 2199 147 0.2086 0.2223 REMARK 3 6 1.7907 - 1.6852 0.94 2224 142 0.2139 0.2219 REMARK 3 7 1.6852 - 1.6008 0.94 2201 143 0.2209 0.2195 REMARK 3 8 1.6008 - 1.5312 0.94 2161 144 0.2207 0.2437 REMARK 3 9 1.5312 - 1.4723 0.94 2213 140 0.2272 0.2917 REMARK 3 10 1.4723 - 1.4215 0.94 2187 146 0.2438 0.2748 REMARK 3 11 1.4215 - 1.3770 0.94 2204 141 0.2319 0.2715 REMARK 3 12 1.3770 - 1.3377 0.94 2186 140 0.2500 0.2713 REMARK 3 13 1.3377 - 1.3025 0.94 2147 146 0.2586 0.2793 REMARK 3 14 1.3025 - 1.2707 0.93 2185 145 0.2640 0.2541 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.490 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 : 0.006 1013 REMARK 3 ANGLE : 0.895 1380 REMARK 3 CHIRALITY : 0.086 157 REMARK 3 PLANARITY : 0.005 174 REMARK 3 DIHEDRAL : 8.213 581 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 18 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.2605 -4.3449 22.1422 REMARK 3 T TENSOR REMARK 3 T11: 0.1562 T22: 0.0923 REMARK 3 T33: 0.1096 T12: -0.0437 REMARK 3 T13: -0.0255 T23: 0.0171 REMARK 3 L TENSOR REMARK 3 L11: 1.7036 L22: 1.7076 REMARK 3 L33: 2.8487 L12: 1.1925 REMARK 3 L13: 0.5566 L23: 1.3328 REMARK 3 S TENSOR REMARK 3 S11: 0.2600 S12: -0.1964 S13: -0.1687 REMARK 3 S21: 0.1532 S22: -0.1597 S23: -0.1329 REMARK 3 S31: 0.4338 S32: -0.1825 S33: -0.1736 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 49 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2015 3.8189 17.7726 REMARK 3 T TENSOR REMARK 3 T11: 0.1083 T22: 0.1291 REMARK 3 T33: 0.0635 T12: -0.0043 REMARK 3 T13: -0.0007 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 1.2147 L22: 0.8698 REMARK 3 L33: 1.6754 L12: 0.4990 REMARK 3 L13: 0.8525 L23: 0.9640 REMARK 3 S TENSOR REMARK 3 S11: 0.0798 S12: -0.1105 S13: -0.0454 REMARK 3 S21: -0.0200 S22: -0.0892 S23: 0.1147 REMARK 3 S31: -0.0066 S32: -0.2871 S33: 0.0908 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 50 THROUGH 68 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5890 9.0727 16.5329 REMARK 3 T TENSOR REMARK 3 T11: 0.0955 T22: 0.0668 REMARK 3 T33: 0.0552 T12: 0.0041 REMARK 3 T13: -0.0082 T23: 0.0016 REMARK 3 L TENSOR REMARK 3 L11: 1.5864 L22: 1.1973 REMARK 3 L33: 2.8594 L12: 0.5744 REMARK 3 L13: 1.1070 L23: 1.0263 REMARK 3 S TENSOR REMARK 3 S11: -0.0169 S12: 0.0898 S13: 0.0128 REMARK 3 S21: -0.0929 S22: 0.0334 S23: 0.0222 REMARK 3 S31: -0.0200 S32: 0.0631 S33: -0.0199 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 69 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.3234 17.4389 17.1363 REMARK 3 T TENSOR REMARK 3 T11: 0.1441 T22: 0.1011 REMARK 3 T33: 0.0913 T12: 0.0097 REMARK 3 T13: -0.0109 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 1.2090 L22: 1.1155 REMARK 3 L33: 1.3184 L12: -0.4873 REMARK 3 L13: -0.3473 L23: -0.9135 REMARK 3 S TENSOR REMARK 3 S11: 0.0529 S12: 0.0112 S13: 0.2139 REMARK 3 S21: -0.0616 S22: 0.1292 S23: 0.0280 REMARK 3 S31: -0.2540 S32: -0.2012 S33: -0.0847 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 79 THROUGH 84 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.8148 15.7453 8.3371 REMARK 3 T TENSOR REMARK 3 T11: 0.2536 T22: 0.1444 REMARK 3 T33: 0.1760 T12: 0.0061 REMARK 3 T13: -0.0731 T23: 0.0451 REMARK 3 L TENSOR REMARK 3 L11: 6.3018 L22: 3.8679 REMARK 3 L33: 4.3748 L12: 1.5894 REMARK 3 L13: -2.4480 L23: -2.6672 REMARK 3 S TENSOR REMARK 3 S11: -0.0926 S12: 0.3238 S13: 0.8720 REMARK 3 S21: 0.0989 S22: -0.0610 S23: -0.0606 REMARK 3 S31: -0.7300 S32: -0.1038 S33: 0.1195 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 85 THROUGH 94 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.8701 10.4170 25.2412 REMARK 3 T TENSOR REMARK 3 T11: 0.1498 T22: 0.1655 REMARK 3 T33: 0.0947 T12: 0.0153 REMARK 3 T13: -0.0061 T23: -0.0428 REMARK 3 L TENSOR REMARK 3 L11: 2.5242 L22: 4.0923 REMARK 3 L33: 6.0911 L12: 0.5434 REMARK 3 L13: -0.4814 L23: -3.1979 REMARK 3 S TENSOR REMARK 3 S11: 0.0193 S12: -0.3145 S13: 0.1348 REMARK 3 S21: 0.2359 S22: -0.0607 S23: 0.3270 REMARK 3 S31: -0.4526 S32: -0.6042 S33: -0.0611 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 95 THROUGH 101 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.4295 7.4052 19.5186 REMARK 3 T TENSOR REMARK 3 T11: 0.1167 T22: 0.1112 REMARK 3 T33: 0.0593 T12: 0.0171 REMARK 3 T13: 0.0032 T23: -0.0152 REMARK 3 L TENSOR REMARK 3 L11: 4.0559 L22: 2.3756 REMARK 3 L33: 3.2015 L12: -0.7817 REMARK 3 L13: 3.3887 L23: -1.5596 REMARK 3 S TENSOR REMARK 3 S11: -0.0549 S12: -0.2996 S13: 0.0841 REMARK 3 S21: 0.0710 S22: 0.0948 S23: 0.0732 REMARK 3 S31: -0.2515 S32: -0.5839 S33: 0.1160 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 109 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.3119 9.6200 5.0167 REMARK 3 T TENSOR REMARK 3 T11: 0.1884 T22: 0.1116 REMARK 3 T33: 0.0835 T12: 0.0145 REMARK 3 T13: -0.0343 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 3.1029 L22: 2.8593 REMARK 3 L33: 5.7969 L12: -1.6095 REMARK 3 L13: 0.2723 L23: 2.6390 REMARK 3 S TENSOR REMARK 3 S11: -0.0921 S12: 0.0399 S13: 0.2552 REMARK 3 S21: -0.2672 S22: -0.0252 S23: 0.0097 REMARK 3 S31: -0.6406 S32: -0.1420 S33: 0.1783 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 110 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.7654 0.6929 15.2154 REMARK 3 T TENSOR REMARK 3 T11: 0.1088 T22: 0.0657 REMARK 3 T33: 0.0602 T12: -0.0111 REMARK 3 T13: -0.0165 T23: 0.0019 REMARK 3 L TENSOR REMARK 3 L11: 2.3596 L22: 0.1883 REMARK 3 L33: 4.1268 L12: 0.2102 REMARK 3 L13: 2.8798 L23: 0.3563 REMARK 3 S TENSOR REMARK 3 S11: 0.0620 S12: -0.0304 S13: -0.1098 REMARK 3 S21: 0.0075 S22: 0.0238 S23: 0.0216 REMARK 3 S31: 0.0754 S32: -0.0884 S33: -0.1827 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 132 THROUGH 141 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8342 9.3134 -6.1423 REMARK 3 T TENSOR REMARK 3 T11: 0.2726 T22: 0.1514 REMARK 3 T33: 0.0646 T12: 0.0461 REMARK 3 T13: -0.0268 T23: 0.0021 REMARK 3 L TENSOR REMARK 3 L11: 3.0659 L22: 2.9471 REMARK 3 L33: 0.9209 L12: -0.6043 REMARK 3 L13: -1.1970 L23: 0.0221 REMARK 3 S TENSOR REMARK 3 S11: 0.1885 S12: 0.0736 S13: 0.0117 REMARK 3 S21: 0.2034 S22: -0.2437 S23: 0.0028 REMARK 3 S31: -0.7624 S32: -0.2231 S33: 0.0061 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 6NP9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000239160. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-AUG-16 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 : 21-ID-F 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 : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32928 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.270 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 9.200 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : 0.04600 REMARK 200 FOR THE DATA SET : 61.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.27 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.29 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.28800 REMARK 200 R SYM FOR SHELL (I) : 0.33600 REMARK 200 FOR SHELL : 7.100 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: 3BIK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, EVAPORATION, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 42.86200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 42.86200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 26.66550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 27.05550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.66550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 27.05550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 42.86200 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.66550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 27.05550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 42.86200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.66550 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 27.05550 REMARK 290 SMTRY3 8 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: 2650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 53.33100 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 42.86200 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 408 LIES ON A SPECIAL POSITION. 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 45 REMARK 465 LYS A 46 REMARK 465 HIS A 142 REMARK 465 HIS A 143 REMARK 465 HIS A 144 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 GLN A 47 CG CD OE1 NE2 REMARK 470 LYS A 75 CD CE NZ REMARK 470 ARG A 82 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 86 CZ NH1 NH2 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 HIS A 69 55.65 39.96 REMARK 500 TYR A 118 87.33 -165.49 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 SO4 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 202 DBREF 6NP9 A 18 134 UNP Q9NZQ7 PD1L1_HUMAN 18 134 SEQADV 6NP9 THR A 76 UNP Q9NZQ7 VAL 76 ENGINEERED MUTATION SEQADV 6NP9 ALA A 135 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 ALA A 136 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 ALA A 137 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 LEU A 138 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 HIS A 139 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 GLU A 140 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 HIS A 141 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 HIS A 142 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 HIS A 143 UNP Q9NZQ7 EXPRESSION TAG SEQADV 6NP9 HIS A 144 UNP Q9NZQ7 EXPRESSION TAG SEQRES 1 A 127 ALA PHE THR VAL THR VAL PRO LYS ASP LEU TYR VAL VAL SEQRES 2 A 127 GLU TYR GLY SER ASN MET THR ILE GLU CYS LYS PHE PRO SEQRES 3 A 127 VAL GLU LYS GLN LEU ASP LEU ALA ALA LEU ILE VAL TYR SEQRES 4 A 127 TRP GLU MET GLU ASP LYS ASN ILE ILE GLN PHE VAL HIS SEQRES 5 A 127 GLY GLU GLU ASP LEU LYS THR GLN HIS SER SER TYR ARG SEQRES 6 A 127 GLN ARG ALA ARG LEU LEU LYS ASP GLN LEU SER LEU GLY SEQRES 7 A 127 ASN ALA ALA LEU GLN ILE THR ASP VAL LYS LEU GLN ASP SEQRES 8 A 127 ALA GLY VAL TYR ARG CYS MET ILE SER TYR GLY GLY ALA SEQRES 9 A 127 ASP TYR LYS ARG ILE THR VAL LYS VAL ASN ALA PRO TYR SEQRES 10 A 127 ALA ALA ALA LEU HIS GLU HIS HIS HIS HIS HET SO4 A 201 5 HET SO4 A 202 5 HETNAM SO4 SULFATE ION FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 HOH *112(H2 O) HELIX 1 AA1 ASP A 49 ALA A 51 5 3 HELIX 2 AA2 HIS A 78 ARG A 82 5 5 HELIX 3 AA3 LEU A 88 SER A 93 1 6 HELIX 4 AA4 LYS A 105 ALA A 109 5 5 HELIX 5 AA5 PRO A 133 GLU A 140 1 8 SHEET 1 AA1 6 LEU A 27 GLU A 31 0 SHEET 2 AA1 6 ALA A 121 ASN A 131 1 O LYS A 129 N TYR A 28 SHEET 3 AA1 6 GLY A 110 TYR A 118 -1 N TYR A 112 O ILE A 126 SHEET 4 AA1 6 LEU A 53 MET A 59 -1 N GLU A 58 O ARG A 113 SHEET 5 AA1 6 LYS A 62 VAL A 68 -1 O ILE A 64 N TRP A 57 SHEET 6 AA1 6 GLU A 71 ASP A 73 -1 O ASP A 73 N GLN A 66 SHEET 1 AA2 3 MET A 36 LYS A 41 0 SHEET 2 AA2 3 ASN A 96 ILE A 101 -1 O ALA A 97 N CYS A 40 SHEET 3 AA2 3 ALA A 85 LEU A 87 -1 N ARG A 86 O GLN A 100 SSBOND 1 CYS A 40 CYS A 114 1555 1555 2.00 SITE 1 AC1 5 LEU A 87 LYS A 89 HOH A 301 HOH A 310 SITE 2 AC1 5 HOH A 343 SITE 1 AC2 4 ARG A 113 TYR A 123 ARG A 125 HOH A 320 CRYST1 53.331 54.111 85.724 90.00 90.00 90.00 C 2 2 21 8 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 0.018751 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018481 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011665 0.00000