HEADER IMMUNE SYSTEM 27-OCT-20 7DCV TITLE STRUCTURE OF THE TRANSMEMBRANE DOMAIN OF HUMAN PD-L1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROGRAMMED CELL DEATH 1 LIGAND 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HPD-L1,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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE2) KEYWDS TRANSMEMBRANE DOMAIN, PD-L1, IMMUNE SYSTEM EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR W.MAORONG,C.YUNLEI,O.Y.BO REVDAT 2 15-MAY-24 7DCV 1 REMARK REVDAT 1 31-AUG-22 7DCV 0 JRNL AUTH W.MAORONG,O.BO JRNL TITL STRUCTURE OF THE TRANSMEMBRANE DOMAIN OF HUMAN PD-L1 JRNL REF SCI ADV 2022 JRNL REFN ESSN 2375-2548 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7DCV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-OCT-20. REMARK 100 THE DEPOSITION ID IS D_1300019129. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 20 MM MES, 30 MM DMPC, 60 MM REMARK 210 DHPC, 90% H2O/10% D2O; 20 MM MES, REMARK 210 30 MM [U-2H] DMPC, 60 MM [U-2H] REMARK 210 DHPC, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D HNCA; 3D HN(CO)CA; REMARK 210 3D HNCACB; 3D HN(CA)CO; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH, XEASY, TOPSPIN, REMARK 210 NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 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 1 HIS A 233 82.15 55.85 REMARK 500 1 PRO A 235 94.74 -68.28 REMARK 500 1 ASN A 236 28.74 -146.83 REMARK 500 1 LEU A 267 96.53 -57.92 REMARK 500 1 ASP A 268 86.86 55.94 REMARK 500 1 LYS A 270 -34.45 -179.22 REMARK 500 1 LYS A 271 99.22 57.29 REMARK 500 1 GLN A 275 51.17 -101.62 REMARK 500 1 LYS A 280 85.31 -173.81 REMARK 500 1 LYS A 281 40.13 -94.65 REMARK 500 1 GLU A 288 -44.60 -139.31 REMARK 500 1 GLU A 289 -55.97 -145.97 REMARK 500 2 LEU A 267 91.62 -61.80 REMARK 500 2 ASP A 268 -59.13 -178.15 REMARK 500 2 LYS A 271 145.19 64.02 REMARK 500 2 ILE A 274 73.03 -111.76 REMARK 500 2 ASP A 276 39.80 -172.23 REMARK 500 2 THR A 277 165.29 59.71 REMARK 500 2 ASP A 284 90.41 52.50 REMARK 500 2 HIS A 286 91.02 51.47 REMARK 500 2 GLU A 288 -83.06 62.23 REMARK 500 3 HIS A 233 76.37 55.27 REMARK 500 3 PRO A 235 -171.22 -67.56 REMARK 500 3 LEU A 267 -31.03 -39.34 REMARK 500 3 ASP A 268 96.40 -164.08 REMARK 500 3 LYS A 270 156.03 63.34 REMARK 500 3 GLN A 275 -59.01 -171.31 REMARK 500 3 SER A 279 38.94 -144.87 REMARK 500 3 SER A 283 -44.67 -148.91 REMARK 500 3 ASP A 284 177.61 56.42 REMARK 500 3 HIS A 286 -41.84 -131.66 REMARK 500 3 GLU A 289 97.32 56.79 REMARK 500 4 HIS A 233 -57.33 -175.45 REMARK 500 4 ASN A 236 -8.26 -146.07 REMARK 500 4 LYS A 263 41.41 -103.03 REMARK 500 4 ASP A 268 98.09 57.00 REMARK 500 4 SER A 272 91.69 58.24 REMARK 500 4 ILE A 274 95.21 56.41 REMARK 500 4 ASP A 276 -41.69 -134.11 REMARK 500 4 ASN A 278 -58.27 -122.44 REMARK 500 4 GLN A 282 154.10 61.91 REMARK 500 4 GLU A 289 -78.82 64.50 REMARK 500 5 ASN A 236 35.71 -167.33 REMARK 500 5 ARG A 265 -49.17 83.69 REMARK 500 5 VAL A 269 89.01 43.67 REMARK 500 5 ILE A 274 58.63 -173.94 REMARK 500 5 LYS A 280 95.42 57.75 REMARK 500 5 GLN A 282 -58.31 -169.75 REMARK 500 5 HIS A 286 101.96 57.92 REMARK 500 5 GLU A 289 108.07 -172.34 REMARK 500 REMARK 500 THIS ENTRY HAS 137 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 50525 RELATED DB: BMRB DBREF 7DCV A 232 290 UNP Q9NZQ7 PD1L1_HUMAN 232 290 SEQADV 7DCV ALA A 250 UNP Q9NZQ7 CYS 250 ENGINEERED MUTATION SEQADV 7DCV LEU A 266 UNP Q9NZQ7 MET 266 ENGINEERED MUTATION SEQADV 7DCV LEU A 267 UNP Q9NZQ7 MET 267 ENGINEERED MUTATION SEQADV 7DCV SER A 272 UNP Q9NZQ7 CYS 272 ENGINEERED MUTATION SEQRES 1 A 59 ALA HIS PRO PRO ASN GLU ARG THR HIS LEU VAL ILE LEU SEQRES 2 A 59 GLY ALA ILE LEU LEU ALA LEU GLY VAL ALA LEU THR PHE SEQRES 3 A 59 ILE PHE ARG LEU ARG LYS GLY ARG LEU LEU ASP VAL LYS SEQRES 4 A 59 LYS SER GLY ILE GLN ASP THR ASN SER LYS LYS GLN SER SEQRES 5 A 59 ASP THR HIS LEU GLU GLU THR HELIX 1 AA1 ASN A 236 LEU A 266 1 31 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1