HEADER IMMUNE SYSTEM 07-OCT-21 7SH4 TITLE CD1A-PHOSPHATIDYLGLYCEROL BINARY STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: T-CELL SURFACE GLYCOPROTEIN CD1A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: T-CELL SURFACE ANTIGEN T6/LEU-6,HTA1 THYMOCYTE ANTIGEN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 8 CHAIN: B; COMPND 9 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: CD1A; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: B2M, CDABP0092, HDCMA22P; SOURCE 14 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 15 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS CD1, ANTIGEN PRESENTATION, LIPID, IMMUNE SYSTEM, PHOSPHOLIPID EXPDTA X-RAY DIFFRACTION AUTHOR M.WEGRECKI,J.ROSSJOHN REVDAT 3 25-OCT-23 7SH4 1 REMARK REVDAT 2 18-JAN-23 7SH4 1 JRNL REVDAT 1 05-OCT-22 7SH4 0 JRNL AUTH G.C.MONNOT,M.WEGRECKI,T.Y.CHENG,Y.L.CHEN,B.N.SALLEE, JRNL AUTH 2 R.CHAKRAVARTHY,I.M.KARANTZA,S.Y.TIN,A.E.KHALEEL,I.MONGA, JRNL AUTH 3 L.N.UWAKWE,A.TILLMAN,B.CHENG,S.YOUSSEF,S.W.NG,A.SHAHINE, JRNL AUTH 4 J.A.GARCIA-VILAS,A.C.UHLEMANN,L.A.BORDONE,A.HAN,C.H.ROHDE, JRNL AUTH 5 G.OGG,D.B.MOODY,J.ROSSJOHN,A.DE JONG JRNL TITL STAPHYLOCOCCAL PHOSPHATIDYLGLYCEROL ANTIGENS ACTIVATE HUMAN JRNL TITL 2 T CELLS VIA CD1A. JRNL REF NAT.IMMUNOL. V. 24 110 2023 JRNL REFN ESSN 1529-2916 JRNL PMID 36550321 JRNL DOI 10.1038/S41590-022-01375-Z REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.37 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 27791 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.880 REMARK 3 FREE R VALUE TEST SET COUNT : 1079 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 45.3700 - 4.0000 1.00 3523 155 0.1717 0.2161 REMARK 3 2 4.0000 - 3.1700 1.00 3383 133 0.1720 0.1857 REMARK 3 3 3.1700 - 2.7700 1.00 3322 142 0.1942 0.2385 REMARK 3 4 2.7700 - 2.5200 1.00 3320 141 0.2120 0.2942 REMARK 3 5 2.5200 - 2.3400 1.00 3290 122 0.2169 0.2417 REMARK 3 6 2.3400 - 2.2000 1.00 3314 120 0.2202 0.2495 REMARK 3 7 2.2000 - 2.0900 1.00 3294 132 0.2314 0.2796 REMARK 3 8 2.0900 - 2.0000 1.00 3266 134 0.2534 0.2880 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.247 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.963 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.61 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 : 0.005 3252 REMARK 3 ANGLE : 0.808 4398 REMARK 3 CHIRALITY : 0.053 449 REMARK 3 PLANARITY : 0.006 557 REMARK 3 DIHEDRAL : 21.497 1187 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 9 THROUGH 181 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.9348 30.7214 34.2455 REMARK 3 T TENSOR REMARK 3 T11: 0.2737 T22: 0.2418 REMARK 3 T33: 0.2342 T12: 0.0127 REMARK 3 T13: -0.0111 T23: -0.0734 REMARK 3 L TENSOR REMARK 3 L11: 6.2532 L22: 2.3779 REMARK 3 L33: 3.6646 L12: -0.5909 REMARK 3 L13: -0.2879 L23: -0.0359 REMARK 3 S TENSOR REMARK 3 S11: 0.3437 S12: 0.6264 S13: -0.4190 REMARK 3 S21: -0.2731 S22: -0.1600 S23: 0.0578 REMARK 3 S31: 0.1472 S32: -0.0754 S33: -0.1467 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 182 THROUGH 285 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.6350 62.2888 50.3817 REMARK 3 T TENSOR REMARK 3 T11: 0.1050 T22: 0.1387 REMARK 3 T33: 0.1697 T12: 0.0060 REMARK 3 T13: 0.0135 T23: 0.0181 REMARK 3 L TENSOR REMARK 3 L11: 2.5377 L22: 2.5957 REMARK 3 L33: 2.0512 L12: -0.0130 REMARK 3 L13: 0.8511 L23: 0.3739 REMARK 3 S TENSOR REMARK 3 S11: 0.0086 S12: -0.1050 S13: 0.2304 REMARK 3 S21: 0.0734 S22: 0.0732 S23: -0.0695 REMARK 3 S31: 0.0029 S32: -0.0402 S33: -0.0594 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 20 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7809 46.5152 54.6962 REMARK 3 T TENSOR REMARK 3 T11: 0.1738 T22: 0.1459 REMARK 3 T33: 0.1353 T12: -0.0075 REMARK 3 T13: -0.0291 T23: -0.0280 REMARK 3 L TENSOR REMARK 3 L11: 8.6216 L22: 2.4616 REMARK 3 L33: 2.6302 L12: -2.0338 REMARK 3 L13: 0.1949 L23: -0.5773 REMARK 3 S TENSOR REMARK 3 S11: -0.3066 S12: -0.1759 S13: -0.2085 REMARK 3 S21: 0.2261 S22: 0.2667 S23: 0.0536 REMARK 3 S31: -0.0469 S32: 0.1371 S33: -0.0315 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 21 THROUGH 72 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.6547 38.4348 52.7257 REMARK 3 T TENSOR REMARK 3 T11: 0.2228 T22: 0.1719 REMARK 3 T33: 0.1679 T12: 0.0096 REMARK 3 T13: -0.0257 T23: 0.0240 REMARK 3 L TENSOR REMARK 3 L11: 5.9338 L22: 1.6674 REMARK 3 L33: 1.3735 L12: -0.4285 REMARK 3 L13: -2.3660 L23: 1.1606 REMARK 3 S TENSOR REMARK 3 S11: -0.0895 S12: -0.0461 S13: -0.2417 REMARK 3 S21: 0.0490 S22: 0.0244 S23: 0.1210 REMARK 3 S31: 0.1125 S32: 0.0040 S33: 0.1159 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 73 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.6711 46.6066 64.7056 REMARK 3 T TENSOR REMARK 3 T11: 0.5032 T22: 0.5552 REMARK 3 T33: 0.4695 T12: 0.1025 REMARK 3 T13: 0.0795 T23: -0.0696 REMARK 3 L TENSOR REMARK 3 L11: 4.1099 L22: 3.4965 REMARK 3 L33: 2.4757 L12: -3.4196 REMARK 3 L13: 2.6490 L23: -2.3370 REMARK 3 S TENSOR REMARK 3 S11: -0.1662 S12: -1.9602 S13: 1.3531 REMARK 3 S21: 0.3968 S22: 0.6068 S23: 0.5635 REMARK 3 S31: -1.3680 S32: -1.3297 S33: -0.2424 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 79 THROUGH 95 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.7223 39.5526 63.2188 REMARK 3 T TENSOR REMARK 3 T11: 0.3319 T22: 0.6295 REMARK 3 T33: 0.1705 T12: 0.1098 REMARK 3 T13: -0.0118 T23: 0.0893 REMARK 3 L TENSOR REMARK 3 L11: 4.1247 L22: 1.6433 REMARK 3 L33: 0.1970 L12: -2.1865 REMARK 3 L13: 0.4284 L23: -0.1299 REMARK 3 S TENSOR REMARK 3 S11: -0.4501 S12: -1.8914 S13: -0.5118 REMARK 3 S21: 0.6936 S22: 0.3058 S23: 0.1944 REMARK 3 S31: 0.4720 S32: 0.4095 S33: 0.1172 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 96 THROUGH 107 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.2548 56.8069 65.9031 REMARK 3 T TENSOR REMARK 3 T11: 0.6217 T22: 0.4882 REMARK 3 T33: 0.8461 T12: 0.1535 REMARK 3 T13: 0.2547 T23: -0.1183 REMARK 3 L TENSOR REMARK 3 L11: 2.2216 L22: 0.7046 REMARK 3 L33: 0.4537 L12: -1.2569 REMARK 3 L13: 0.5582 L23: -0.4778 REMARK 3 S TENSOR REMARK 3 S11: -0.3418 S12: -0.5542 S13: 1.0696 REMARK 3 S21: 0.8208 S22: 1.0559 S23: 0.6942 REMARK 3 S31: -1.0643 S32: -0.2499 S33: -0.2199 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 7SH4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-OCT-21. REMARK 100 THE DEPOSITION ID IS D_1000260201. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27852 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 45.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: 7KOZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20-25% PEG 1500, 0.1M MMT PH 5.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 21.11250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.58000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.89500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.58000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.11250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.89500 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 ALA A 1 REMARK 465 THR A 2 REMARK 465 GLY A 3 REMARK 465 LEU A 4 REMARK 465 LYS A 5 REMARK 465 GLU A 6 REMARK 465 PRO A 7 REMARK 465 LEU A 8 REMARK 465 SER A 106 REMARK 465 GLY A 107 REMARK 465 LYS A 108 REMARK 465 VAL A 109 REMARK 465 SER A 110 REMARK 465 GLY B 1 REMARK 465 SER B 108 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 ASN A 43 CG OD1 ND2 REMARK 470 LEU A 104 CG CD1 CD2 REMARK 470 HIS A 105 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 76 CG CD CE NZ REMARK 470 ARG B 106 CG CD NE CZ NH1 NH2 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 B 386 O HOH B 391 1.84 REMARK 500 O HOH A 517 O HOH A 564 2.00 REMARK 500 O HOH A 451 O HOH A 577 2.00 REMARK 500 O HOH B 320 O HOH B 378 2.04 REMARK 500 O HOH A 568 O HOH A 589 2.06 REMARK 500 O HOH A 459 O HOH A 560 2.10 REMARK 500 O HOH B 329 O HOH B 400 2.12 REMARK 500 O HOH A 547 O HOH A 556 2.13 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 B 310 O HOH B 315 1455 1.77 REMARK 500 O HOH A 431 O HOH A 567 4466 1.94 REMARK 500 O HOH A 413 O HOH A 563 1655 2.10 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 SER A 33 -126.71 52.23 REMARK 500 SER A 44 -8.60 71.64 REMARK 500 ASN A 128 -87.36 57.76 REMARK 500 TRP B 61 -0.57 80.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 590 DISTANCE = 6.96 ANGSTROMS DBREF 7SH4 A 1 278 UNP P06126 CD1A_HUMAN 18 295 DBREF 7SH4 B 2 100 UNP P61769 B2MG_HUMAN 21 119 SEQADV 7SH4 THR A 2 UNP P06126 ASP 19 CONFLICT SEQADV 7SH4 ILE A 13 UNP P06126 THR 30 CONFLICT SEQADV 7SH4 TRP A 51 UNP P06126 CYS 68 CONFLICT SEQADV 7SH4 GLY A 279 UNP P06126 EXPRESSION TAG SEQADV 7SH4 SER A 280 UNP P06126 EXPRESSION TAG SEQADV 7SH4 LEU A 281 UNP P06126 EXPRESSION TAG SEQADV 7SH4 VAL A 282 UNP P06126 EXPRESSION TAG SEQADV 7SH4 PRO A 283 UNP P06126 EXPRESSION TAG SEQADV 7SH4 ARG A 284 UNP P06126 EXPRESSION TAG SEQADV 7SH4 GLY A 285 UNP P06126 EXPRESSION TAG SEQADV 7SH4 GLY B 1 UNP P61769 EXPRESSION TAG SEQADV 7SH4 GLY B 101 UNP P61769 EXPRESSION TAG SEQADV 7SH4 SER B 102 UNP P61769 EXPRESSION TAG SEQADV 7SH4 LEU B 103 UNP P61769 EXPRESSION TAG SEQADV 7SH4 VAL B 104 UNP P61769 EXPRESSION TAG SEQADV 7SH4 PRO B 105 UNP P61769 EXPRESSION TAG SEQADV 7SH4 ARG B 106 UNP P61769 EXPRESSION TAG SEQADV 7SH4 GLY B 107 UNP P61769 EXPRESSION TAG SEQADV 7SH4 SER B 108 UNP P61769 EXPRESSION TAG SEQRES 1 A 285 ALA THR GLY LEU LYS GLU PRO LEU SER PHE HIS VAL ILE SEQRES 2 A 285 TRP ILE ALA SER PHE TYR ASN HIS SER TRP LYS GLN ASN SEQRES 3 A 285 LEU VAL SER GLY TRP LEU SER ASP LEU GLN THR HIS THR SEQRES 4 A 285 TRP ASP SER ASN SER SER THR ILE VAL PHE LEU TRP PRO SEQRES 5 A 285 TRP SER ARG GLY ASN PHE SER ASN GLU GLU TRP LYS GLU SEQRES 6 A 285 LEU GLU THR LEU PHE ARG ILE ARG THR ILE ARG SER PHE SEQRES 7 A 285 GLU GLY ILE ARG ARG TYR ALA HIS GLU LEU GLN PHE GLU SEQRES 8 A 285 TYR PRO PHE GLU ILE GLN VAL THR GLY GLY CYS GLU LEU SEQRES 9 A 285 HIS SER GLY LYS VAL SER GLY SER PHE LEU GLN LEU ALA SEQRES 10 A 285 TYR GLN GLY SER ASP PHE VAL SER PHE GLN ASN ASN SER SEQRES 11 A 285 TRP LEU PRO TYR PRO VAL ALA GLY ASN MET ALA LYS HIS SEQRES 12 A 285 PHE CYS LYS VAL LEU ASN GLN ASN GLN HIS GLU ASN ASP SEQRES 13 A 285 ILE THR HIS ASN LEU LEU SER ASP THR CYS PRO ARG PHE SEQRES 14 A 285 ILE LEU GLY LEU LEU ASP ALA GLY LYS ALA HIS LEU GLN SEQRES 15 A 285 ARG GLN VAL LYS PRO GLU ALA TRP LEU SER HIS GLY PRO SEQRES 16 A 285 SER PRO GLY PRO GLY HIS LEU GLN LEU VAL CYS HIS VAL SEQRES 17 A 285 SER GLY PHE TYR PRO LYS PRO VAL TRP VAL MET TRP MET SEQRES 18 A 285 ARG GLY GLU GLN GLU GLN GLN GLY THR GLN ARG GLY ASP SEQRES 19 A 285 ILE LEU PRO SER ALA ASP GLY THR TRP TYR LEU ARG ALA SEQRES 20 A 285 THR LEU GLU VAL ALA ALA GLY GLU ALA ALA ASP LEU SER SEQRES 21 A 285 CYS ARG VAL LYS HIS SER SER LEU GLU GLY GLN ASP ILE SEQRES 22 A 285 VAL LEU TYR TRP GLU GLY SER LEU VAL PRO ARG GLY SEQRES 1 B 108 GLY ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 B 108 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 B 108 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 B 108 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 B 108 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 B 108 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 B 108 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 B 108 LYS ILE VAL LYS TRP ASP ARG ASP MET GLY SER LEU VAL SEQRES 9 B 108 PRO ARG GLY SER HET NAG A 301 14 HET MW9 A 302 53 HET EDO A 303 4 HET MES A 304 12 HET EDO A 305 4 HET PEG B 201 7 HET PEG B 202 7 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MW9 (21R,24R,27S)-24,27,28-TRIHYDROXY-18,24-DIOXO-19,23,25- HETNAM 2 MW9 TRIOXA-24LAMBDA~5~-PHOSPHAOCTACOSAN-21-YL (9Z)- HETNAM 3 MW9 OCTADEC-9-ENOATE HETNAM EDO 1,2-ETHANEDIOL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER 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 MW9 1-STEAROYL-2-OLEOYL-SN-GLYCERO-3-PHOSPHO-(1'-RAC- HETSYN 2 MW9 GLYCEROL) HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NAG C8 H15 N O6 FORMUL 4 MW9 C42 H81 O10 P FORMUL 5 EDO 2(C2 H6 O2) FORMUL 6 MES C6 H13 N O4 S FORMUL 8 PEG 2(C4 H10 O3) FORMUL 10 HOH *307(H2 O) HELIX 1 AA1 SER A 42 SER A 45 5 4 HELIX 2 AA2 TRP A 51 GLY A 56 5 6 HELIX 3 AA3 SER A 59 ALA A 85 1 27 HELIX 4 AA4 PRO A 135 ALA A 137 5 3 HELIX 5 AA5 GLY A 138 ASN A 149 1 12 HELIX 6 AA6 ASN A 151 ASP A 164 1 14 HELIX 7 AA7 ASP A 164 LEU A 171 1 8 HELIX 8 AA8 LEU A 173 GLN A 182 1 10 HELIX 9 AA9 GLY A 254 ALA A 256 5 3 HELIX 10 AB1 HIS A 265 GLU A 269 5 5 HELIX 11 AB2 GLU A 278 VAL A 282 5 5 SHEET 1 AA1 8 THR A 46 PHE A 49 0 SHEET 2 AA1 8 LEU A 35 ASP A 41 -1 N THR A 39 O VAL A 48 SHEET 3 AA1 8 TRP A 23 LEU A 32 -1 N GLY A 30 O THR A 37 SHEET 4 AA1 8 PHE A 10 ASN A 20 -1 N ILE A 15 O LEU A 27 SHEET 5 AA1 8 PHE A 94 CYS A 102 -1 O GLY A 100 N VAL A 12 SHEET 6 AA1 8 PHE A 113 TYR A 118 -1 O ALA A 117 N GLN A 97 SHEET 7 AA1 8 SER A 121 GLN A 127 -1 O VAL A 124 N LEU A 116 SHEET 8 AA1 8 SER A 130 PRO A 133 -1 O LEU A 132 N SER A 125 SHEET 1 AA2 4 GLU A 188 HIS A 193 0 SHEET 2 AA2 4 HIS A 201 PHE A 211 -1 O HIS A 207 N TRP A 190 SHEET 3 AA2 4 TRP A 243 ALA A 252 -1 O VAL A 251 N LEU A 202 SHEET 4 AA2 4 GLN A 231 ARG A 232 -1 N GLN A 231 O THR A 248 SHEET 1 AA3 4 GLU A 188 HIS A 193 0 SHEET 2 AA3 4 HIS A 201 PHE A 211 -1 O HIS A 207 N TRP A 190 SHEET 3 AA3 4 TRP A 243 ALA A 252 -1 O VAL A 251 N LEU A 202 SHEET 4 AA3 4 LEU A 236 PRO A 237 -1 N LEU A 236 O TYR A 244 SHEET 1 AA4 4 GLN A 225 GLU A 226 0 SHEET 2 AA4 4 TRP A 217 ARG A 222 -1 N ARG A 222 O GLN A 225 SHEET 3 AA4 4 LEU A 259 LYS A 264 -1 O SER A 260 N MET A 221 SHEET 4 AA4 4 ILE A 273 TYR A 276 -1 O ILE A 273 N VAL A 263 SHEET 1 AA5 4 LYS B 7 SER B 12 0 SHEET 2 AA5 4 ASN B 22 PHE B 31 -1 O SER B 29 N LYS B 7 SHEET 3 AA5 4 PHE B 63 PHE B 71 -1 O PHE B 71 N ASN B 22 SHEET 4 AA5 4 GLU B 51 HIS B 52 -1 N GLU B 51 O TYR B 68 SHEET 1 AA6 4 LYS B 7 SER B 12 0 SHEET 2 AA6 4 ASN B 22 PHE B 31 -1 O SER B 29 N LYS B 7 SHEET 3 AA6 4 PHE B 63 PHE B 71 -1 O PHE B 71 N ASN B 22 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 45 ARG B 46 0 SHEET 2 AA7 4 GLU B 37 LYS B 42 -1 N LYS B 42 O GLU B 45 SHEET 3 AA7 4 TYR B 79 ASN B 84 -1 O ARG B 82 N ASP B 39 SHEET 4 AA7 4 LYS B 92 LYS B 95 -1 O VAL B 94 N CYS B 81 SSBOND 1 CYS A 102 CYS A 166 1555 1555 2.03 SSBOND 2 CYS A 206 CYS A 261 1555 1555 2.04 SSBOND 3 CYS B 26 CYS B 81 1555 1555 2.02 LINK ND2 ASN A 57 C1 NAG A 301 1555 1555 1.44 CISPEP 1 TYR A 92 PRO A 93 0 -2.77 CISPEP 2 TYR A 212 PRO A 213 0 -0.50 CISPEP 3 VAL A 282 PRO A 283 0 -4.98 CISPEP 4 HIS B 32 PRO B 33 0 3.89 CRYST1 42.225 89.790 105.160 90.00 90.00 90.00 P 21 21 21 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 0.023683 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011137 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009509 0.00000