HEADER IMMUNE SYSTEM 23-OCT-15 5EFI TITLE CRYSTAL STRUCTURE OF MOUSE CD1D IN COMPLEX WITH THE P99P LIPOPEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTIGEN-PRESENTING GLYCOPROTEIN CD1D1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: P99P; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: PALMITATE RESIDUE COVALENTLY LINKED TO LYS 12 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CD1D1, CD1.1; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SF9; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 11 ORGANISM_COMMON: MOUSE; SOURCE 12 ORGANISM_TAXID: 10090; SOURCE 13 GENE: B2M; SOURCE 14 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: SF9; SOURCE 17 MOL_ID: 3; SOURCE 18 SYNTHETIC: YES; SOURCE 19 ORGANISM_SCIENTIFIC: MUS; SOURCE 20 ORGANISM_TAXID: 10088 KEYWDS CD1D, LIPOPEPTIDE, ALPHA-HELICAL PEPTIDE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR E.GIRARDI,J.WANG,D.M.ZAJONC REVDAT 8 13-NOV-24 5EFI 1 REMARK REVDAT 7 27-SEP-23 5EFI 1 HETSYN LINK REVDAT 6 29-JUL-20 5EFI 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE ATOM REVDAT 5 11-DEC-19 5EFI 1 REMARK REVDAT 4 20-SEP-17 5EFI 1 JRNL REMARK REVDAT 3 01-JUN-16 5EFI 1 JRNL REVDAT 2 06-APR-16 5EFI 1 JRNL REVDAT 1 30-MAR-16 5EFI 0 JRNL AUTH E.GIRARDI,J.WANG,D.M.ZAJONC JRNL TITL STRUCTURE OF AN ALPHA-HELICAL PEPTIDE AND LIPOPEPTIDE BOUND JRNL TITL 2 TO THE NONCLASSICAL MAJOR HISTOCOMPATIBILITY COMPLEX (MHC) JRNL TITL 3 CLASS I MOLECULE CD1D. JRNL REF J.BIOL.CHEM. V. 291 10677 2016 JRNL REFN ESSN 1083-351X JRNL PMID 27006394 JRNL DOI 10.1074/JBC.M115.702118 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.12 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 43789 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2345 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3235 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE SET COUNT : 142 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2980 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 154 REMARK 3 SOLVENT ATOMS : 204 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.61000 REMARK 3 B22 (A**2) : 0.20000 REMARK 3 B33 (A**2) : 1.41000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.135 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.108 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.029 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3264 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2919 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4447 ; 1.334 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6729 ; 0.847 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 378 ; 6.448 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;34.069 ;23.759 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 479 ;12.120 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;16.734 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 490 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3579 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 774 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1521 ; 0.426 ; 1.490 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1520 ; 0.426 ; 1.489 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1896 ; 0.758 ; 2.225 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1897 ; 0.758 ; 2.226 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1743 ; 0.365 ; 1.572 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1741 ; 0.364 ; 1.569 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2551 ; 0.639 ; 2.330 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3650 ; 5.149 ;13.007 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3651 ; 5.149 ;13.014 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 180 REMARK 3 RESIDUE RANGE : A 301 A 309 REMARK 3 RESIDUE RANGE : C 0 C 15 REMARK 3 RESIDUE RANGE : C 101 C 101 REMARK 3 RESIDUE RANGE : C 102 C 102 REMARK 3 RESIDUE RANGE : A 310 A 310 REMARK 3 ORIGIN FOR THE GROUP (A): 28.2544 1.9566 33.0568 REMARK 3 T TENSOR REMARK 3 T11: 0.3445 T22: 0.1619 REMARK 3 T33: 0.2193 T12: 0.0154 REMARK 3 T13: -0.0948 T23: 0.1105 REMARK 3 L TENSOR REMARK 3 L11: 4.9663 L22: 2.0683 REMARK 3 L33: 0.2657 L12: -0.4219 REMARK 3 L13: 0.9577 L23: -0.2106 REMARK 3 S TENSOR REMARK 3 S11: 0.2473 S12: -0.5630 S13: -0.5027 REMARK 3 S21: 0.1730 S22: -0.0999 S23: 0.1121 REMARK 3 S31: 0.1804 S32: -0.0566 S33: -0.1473 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 181 A 279 REMARK 3 ORIGIN FOR THE GROUP (A): 9.9827 21.8624 5.8703 REMARK 3 T TENSOR REMARK 3 T11: 0.0113 T22: 0.0423 REMARK 3 T33: 0.0991 T12: 0.0150 REMARK 3 T13: -0.0048 T23: 0.0195 REMARK 3 L TENSOR REMARK 3 L11: 2.5746 L22: 1.9352 REMARK 3 L33: 4.6751 L12: 0.5752 REMARK 3 L13: -0.2791 L23: -1.6905 REMARK 3 S TENSOR REMARK 3 S11: 0.0649 S12: 0.2857 S13: 0.1056 REMARK 3 S21: -0.1092 S22: -0.0665 S23: 0.0083 REMARK 3 S31: 0.0673 S32: 0.1338 S33: 0.0016 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 99 REMARK 3 ORIGIN FOR THE GROUP (A): 13.2529 26.9112 26.6570 REMARK 3 T TENSOR REMARK 3 T11: 0.0752 T22: 0.0485 REMARK 3 T33: 0.1229 T12: -0.0244 REMARK 3 T13: 0.0109 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 4.1227 L22: 1.8923 REMARK 3 L33: 1.8288 L12: -1.1064 REMARK 3 L13: 1.0514 L23: -0.1714 REMARK 3 S TENSOR REMARK 3 S11: -0.1267 S12: -0.3109 S13: 0.3305 REMARK 3 S21: 0.1752 S22: -0.0239 S23: -0.0384 REMARK 3 S31: -0.1633 S32: -0.0893 S33: 0.1506 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5EFI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214635. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JAN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46178 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 49.120 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 STARTING MODEL: 3G08 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM CITRATE, PEG4000, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 21.09500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.17000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.92500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.17000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.09500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.92500 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: 8380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 SER A 1 REMARK 465 GLU A 2 REMARK 465 ALA A 3 REMARK 465 GLN A 4 REMARK 465 GLN A 5 REMARK 465 SER A 89 REMARK 465 PRO A 90 REMARK 465 LYS A 91 REMARK 465 GLU A 92 REMARK 465 PRO A 108 REMARK 465 GLY A 109 REMARK 465 ASN A 110 REMARK 465 PRO A 197 REMARK 465 SER A 198 REMARK 465 SER A 199 REMARK 465 ALA A 200 REMARK 465 HIS A 280 REMARK 465 HIS A 281 REMARK 465 HIS A 282 REMARK 465 HIS A 283 REMARK 465 HIS A 284 REMARK 465 HIS A 285 REMARK 465 TYR C -3 REMARK 465 GLU C -2 REMARK 465 HIS C -1 REMARK 465 ALA C 16 REMARK 465 VAL C 17 REMARK 465 MET C 18 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 LYS A 6 CG CD CE NZ REMARK 470 ASN A 7 CG OD1 ND2 REMARK 470 ARG A 21 CG CD NE CZ NH1 NH2 REMARK 470 SER A 22 OG REMARK 470 GLN A 61 CG CD OE1 NE2 REMARK 470 GLU A 64 CG CD OE1 OE2 REMARK 470 VAL A 75 CG1 CG2 REMARK 470 ARG A 79 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 86 CG CD CE NZ REMARK 470 MET A 87 CG SD CE REMARK 470 ASP A 93 CG OD1 OD2 REMARK 470 TYR A 107 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 113 CG CD OE1 OE2 REMARK 470 LEU A 145 CG CD1 CD2 REMARK 470 VAL A 196 CG1 CG2 REMARK 470 ASP A 201 CG OD1 OD2 REMARK 470 GLU A 254 CG CD OE1 OE2 REMARK 470 GLU A 257 CG CD OE1 OE2 REMARK 470 GLN A 273 CG CD OE1 NE2 REMARK 470 ILE B 1 CG1 CG2 CD1 REMARK 470 LYS B 44 CG CD CE NZ REMARK 470 LYS B 48 CG CD CE NZ REMARK 470 MET B 99 CG SD CE REMARK 470 ASP C 0 CG OD1 OD2 REMARK 470 ARG C 5 CZ NH1 NH2 REMARK 470 GLU C 6 CG CD OE1 OE2 REMARK 470 ASN C 9 CG OD1 ND2 REMARK 470 HIS C 10 CG ND1 CD2 CE1 NE2 REMARK 470 LYS C 12 CG CD CE NZ REMARK 470 ASN C 13 CG OD1 ND2 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 A 166 -61.28 -107.84 REMARK 500 LYS B 48 37.68 -99.45 REMARK 500 TRP B 60 -10.31 81.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 311 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 26 O REMARK 620 2 TRP A 40 O 98.3 REMARK 620 N 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FKP RELATED DB: PDB REMARK 900 5FKP CONTAINS THE SAME STRUCTURE COMPLEXED WITH THE P99 PEPTIDE DBREF 5EFI A 1 279 UNP P11609 CD1D1_MOUSE 19 297 DBREF 5EFI B 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 5EFI C -3 18 PDB 5EFI 5EFI -3 18 SEQADV 5EFI HIS A 280 UNP P11609 EXPRESSION TAG SEQADV 5EFI HIS A 281 UNP P11609 EXPRESSION TAG SEQADV 5EFI HIS A 282 UNP P11609 EXPRESSION TAG SEQADV 5EFI HIS A 283 UNP P11609 EXPRESSION TAG SEQADV 5EFI HIS A 284 UNP P11609 EXPRESSION TAG SEQADV 5EFI HIS A 285 UNP P11609 EXPRESSION TAG SEQRES 1 A 285 SER GLU ALA GLN GLN LYS ASN TYR THR PHE ARG CYS LEU SEQRES 2 A 285 GLN MET SER SER PHE ALA ASN ARG SER TRP SER ARG THR SEQRES 3 A 285 ASP SER VAL VAL TRP LEU GLY ASP LEU GLN THR HIS ARG SEQRES 4 A 285 TRP SER ASN ASP SER ALA THR ILE SER PHE THR LYS PRO SEQRES 5 A 285 TRP SER GLN GLY LYS LEU SER ASN GLN GLN TRP GLU LYS SEQRES 6 A 285 LEU GLN HIS MET PHE GLN VAL TYR ARG VAL SER PHE THR SEQRES 7 A 285 ARG ASP ILE GLN GLU LEU VAL LYS MET MET SER PRO LYS SEQRES 8 A 285 GLU ASP TYR PRO ILE GLU ILE GLN LEU SER ALA GLY CYS SEQRES 9 A 285 GLU MET TYR PRO GLY ASN ALA SER GLU SER PHE LEU HIS SEQRES 10 A 285 VAL ALA PHE GLN GLY LYS TYR VAL VAL ARG PHE TRP GLY SEQRES 11 A 285 THR SER TRP GLN THR VAL PRO GLY ALA PRO SER TRP LEU SEQRES 12 A 285 ASP LEU PRO ILE LYS VAL LEU ASN ALA ASP GLN GLY THR SEQRES 13 A 285 SER ALA THR VAL GLN MET LEU LEU ASN ASP THR CYS PRO SEQRES 14 A 285 LEU PHE VAL ARG GLY LEU LEU GLU ALA GLY LYS SER ASP SEQRES 15 A 285 LEU GLU LYS GLN GLU LYS PRO VAL ALA TRP LEU SER SER SEQRES 16 A 285 VAL PRO SER SER ALA ASP GLY HIS ARG GLN LEU VAL CYS SEQRES 17 A 285 HIS VAL SER GLY PHE TYR PRO LYS PRO VAL TRP VAL MET SEQRES 18 A 285 TRP MET ARG GLY ASP GLN GLU GLN GLN GLY THR HIS ARG SEQRES 19 A 285 GLY ASP PHE LEU PRO ASN ALA ASP GLU THR TRP TYR LEU SEQRES 20 A 285 GLN ALA THR LEU ASP VAL GLU ALA GLY GLU GLU ALA GLY SEQRES 21 A 285 LEU ALA CYS ARG VAL LYS HIS SER SER LEU GLY GLY GLN SEQRES 22 A 285 ASP ILE ILE LEU TYR TRP HIS HIS HIS HIS HIS HIS SEQRES 1 B 99 ILE GLN LYS THR PRO GLN ILE GLN VAL TYR SER ARG HIS SEQRES 2 B 99 PRO PRO GLU ASN GLY LYS PRO ASN ILE LEU ASN CYS TYR SEQRES 3 B 99 VAL THR GLN PHE HIS PRO PRO HIS ILE GLU ILE GLN MET SEQRES 4 B 99 LEU LYS ASN GLY LYS LYS ILE PRO LYS VAL GLU MET SER SEQRES 5 B 99 ASP MET SER PHE SER LYS ASP TRP SER PHE TYR ILE LEU SEQRES 6 B 99 ALA HIS THR GLU PHE THR PRO THR GLU THR ASP THR TYR SEQRES 7 B 99 ALA CYS ARG VAL LYS HIS ALA SER MET ALA GLU PRO LYS SEQRES 8 B 99 THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 C 22 TYR GLU HIS ASP PHE HIS HIS ILE ARG GLU LYS GLY ASN SEQRES 2 C 22 HIS TRP LYS ASN PHE LEU ALA VAL MET HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET BMA E 3 11 HET MAN E 4 11 HET MAN E 5 11 HET FUC E 6 10 HET NAG A 309 14 HET CIT A 310 13 HET NA A 311 1 HET PLM C 101 17 HET OCA C 102 10 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM CIT CITRIC ACID HETNAM NA SODIUM ION HETNAM PLM PALMITIC ACID HETNAM OCA OCTANOIC ACID (CAPRYLIC ACID) 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 MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 4 NAG 5(C8 H15 N O6) FORMUL 5 BMA C6 H12 O6 FORMUL 5 MAN 2(C6 H12 O6) FORMUL 5 FUC C6 H12 O5 FORMUL 7 CIT C6 H8 O7 FORMUL 8 NA NA 1+ FORMUL 9 PLM C16 H32 O2 FORMUL 10 OCA C8 H16 O2 FORMUL 11 HOH *204(H2 O) HELIX 1 AA1 SER A 59 MET A 88 1 30 HELIX 2 AA2 PRO A 140 TRP A 142 5 3 HELIX 3 AA3 LEU A 143 ALA A 152 1 10 HELIX 4 AA4 ASP A 153 ASP A 166 1 14 HELIX 5 AA5 ASP A 166 GLY A 179 1 14 HELIX 6 AA6 GLY A 179 GLU A 184 1 6 HELIX 7 AA7 HIS A 267 GLY A 271 5 5 HELIX 8 AA8 PHE C 1 TRP C 11 1 11 SHEET 1 AA1 8 SER A 48 PHE A 49 0 SHEET 2 AA1 8 LEU A 35 TRP A 40 -1 N ARG A 39 O SER A 48 SHEET 3 AA1 8 TRP A 23 LEU A 32 -1 N SER A 28 O TRP A 40 SHEET 4 AA1 8 THR A 9 ASN A 20 -1 N LEU A 13 O VAL A 29 SHEET 5 AA1 8 ILE A 96 GLU A 105 -1 O ALA A 102 N CYS A 12 SHEET 6 AA1 8 GLU A 113 PHE A 120 -1 O GLU A 113 N GLU A 105 SHEET 7 AA1 8 LYS A 123 TRP A 129 -1 O VAL A 126 N VAL A 118 SHEET 8 AA1 8 SER A 132 THR A 135 -1 O GLN A 134 N ARG A 127 SHEET 1 AA2 4 VAL A 190 VAL A 196 0 SHEET 2 AA2 4 ARG A 204 PHE A 213 -1 O VAL A 207 N SER A 194 SHEET 3 AA2 4 TRP A 245 VAL A 253 -1 O VAL A 253 N ARG A 204 SHEET 4 AA2 4 HIS A 233 ARG A 234 -1 N HIS A 233 O THR A 250 SHEET 1 AA3 4 VAL A 190 VAL A 196 0 SHEET 2 AA3 4 ARG A 204 PHE A 213 -1 O VAL A 207 N SER A 194 SHEET 3 AA3 4 TRP A 245 VAL A 253 -1 O VAL A 253 N ARG A 204 SHEET 4 AA3 4 LEU A 238 PRO A 239 -1 N LEU A 238 O TYR A 246 SHEET 1 AA4 4 GLN A 227 GLU A 228 0 SHEET 2 AA4 4 TRP A 219 ARG A 224 -1 N ARG A 224 O GLN A 227 SHEET 3 AA4 4 LEU A 261 LYS A 266 -1 O ALA A 262 N MET A 223 SHEET 4 AA4 4 ILE A 275 TYR A 278 -1 O LEU A 277 N CYS A 263 SHEET 1 AA5 4 GLN B 6 SER B 11 0 SHEET 2 AA5 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AA5 4 PHE B 62 PHE B 70 -1 O ALA B 66 N CYS B 25 SHEET 4 AA5 4 GLU B 50 MET B 51 -1 N GLU B 50 O HIS B 67 SHEET 1 AA6 4 GLN B 6 SER B 11 0 SHEET 2 AA6 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AA6 4 PHE B 62 PHE B 70 -1 O ALA B 66 N CYS B 25 SHEET 4 AA6 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 AA7 4 LYS B 44 LYS B 45 0 SHEET 2 AA7 4 GLU B 36 LYS B 41 -1 N LYS B 41 O LYS B 44 SHEET 3 AA7 4 TYR B 78 LYS B 83 -1 O ARG B 81 N GLN B 38 SHEET 4 AA7 4 LYS B 91 TYR B 94 -1 O LYS B 91 N VAL B 82 SSBOND 1 CYS A 104 CYS A 168 1555 1555 2.04 SSBOND 2 CYS A 208 CYS A 263 1555 1555 2.04 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.03 LINK ND2 ASN A 20 C1 NAG A 309 1555 1555 1.45 LINK ND2 ASN A 42 C1 NAG D 1 1555 1555 1.44 LINK ND2 ASN A 165 C1 NAG E 1 1555 1555 1.44 LINK NZ LYS C 7 C1 PLM C 101 1555 1555 1.35 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.45 LINK O6 NAG E 1 C1 FUC E 6 1555 1555 1.46 LINK O4 NAG E 2 C1 BMA E 3 1555 1555 1.44 LINK O3 BMA E 3 C1 MAN E 4 1555 1555 1.44 LINK O6 BMA E 3 C1 MAN E 5 1555 1555 1.44 LINK O THR A 26 NA NA A 311 1555 1555 2.86 LINK O TRP A 40 NA NA A 311 1555 1555 2.63 CISPEP 1 TYR A 94 PRO A 95 0 1.01 CISPEP 2 TYR A 214 PRO A 215 0 0.21 CISPEP 3 HIS B 31 PRO B 32 0 3.28 CRYST1 42.190 107.850 110.340 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 0.023702 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009272 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009063 0.00000