HEADER IMMUNE SYSTEM 18-OCT-15 5FKP TITLE CRYSTAL STRUCTURE OF THE MOUSE CD1D IN COMPLEX WITH THE P99 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTIGEN-PRESENTING GLYCOPROTEIN CD1D1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CD1D.1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: BETA 2 MICROGLOBULIN; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: P99; COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: N-TERMINAL BIOTIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 12 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 13 ORGANISM_TAXID: 10090; SOURCE 14 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 15 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 19 MOL_ID: 3; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 22 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 23 ORGANISM_TAXID: 10090 KEYWDS IMMUNE SYSTEM, CD1D, ANTIGEN PRESENTATION, ALPHA-HELICAL EXPDTA X-RAY DIFFRACTION AUTHOR E.GIRARDI,J.WANG,D.M.ZAJONC REVDAT 5 10-JAN-24 5FKP 1 HETSYN REVDAT 4 29-JUL-20 5FKP 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 01-JUN-16 5FKP 1 JRNL REVDAT 2 06-APR-16 5FKP 1 JRNL REVDAT 1 30-MAR-16 5FKP 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 NON-CLASSICAL MHC CLASS I MOLECULE CD1D JRNL REF J.BIOL.CHEM. V. 291 10677 2016 JRNL REFN ISSN 0021-9258 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) : 49.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 44833 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2374 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) : 3260 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.99 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 181 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3007 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 154 REMARK 3 SOLVENT ATOMS : 272 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.127 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.120 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.390 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3313 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2958 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4516 ; 1.267 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6800 ; 0.899 ; 3.008 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 387 ; 5.871 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;34.408 ;23.767 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 462 ;11.770 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;16.478 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 497 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3665 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 803 ; 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): 1551 ; 0.528 ; 1.786 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1550 ; 0.528 ; 1.785 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1937 ; 0.928 ; 2.669 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1938 ; 0.927 ; 2.670 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1762 ; 0.566 ; 1.945 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1759 ; 0.553 ; 1.938 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2578 ; 0.905 ; 2.859 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3743 ; 6.042 ;16.048 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3739 ; 6.044 ;15.989 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 : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 180 REMARK 3 RESIDUE RANGE : A 1280 A 1286 REMARK 3 RESIDUE RANGE : C 0 C 17 REMARK 3 RESIDUE RANGE : A 1287 A 1287 REMARK 3 ORIGIN FOR THE GROUP (A): 28.0392 2.2555 33.3455 REMARK 3 T TENSOR REMARK 3 T11: 0.3246 T22: 0.0696 REMARK 3 T33: 0.1601 T12: -0.0012 REMARK 3 T13: -0.0346 T23: 0.0921 REMARK 3 L TENSOR REMARK 3 L11: 4.5509 L22: 1.9188 REMARK 3 L33: 0.2940 L12: -0.7276 REMARK 3 L13: 0.5413 L23: -0.6802 REMARK 3 S TENSOR REMARK 3 S11: 0.1536 S12: -0.3870 S13: -0.5457 REMARK 3 S21: 0.0458 S22: -0.0674 S23: 0.1310 REMARK 3 S31: 0.0992 S32: 0.0019 S33: -0.0862 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 280 REMARK 3 ORIGIN FOR THE GROUP (A): 9.9871 22.3731 5.9278 REMARK 3 T TENSOR REMARK 3 T11: 0.0282 T22: 0.0525 REMARK 3 T33: 0.0031 T12: 0.0124 REMARK 3 T13: -0.0055 T23: 0.0061 REMARK 3 L TENSOR REMARK 3 L11: 3.0318 L22: 2.4527 REMARK 3 L33: 4.8190 L12: 0.3548 REMARK 3 L13: -0.4117 L23: -1.9408 REMARK 3 S TENSOR REMARK 3 S11: 0.0622 S12: 0.3717 S13: 0.0552 REMARK 3 S21: -0.1013 S22: -0.0557 S23: 0.0085 REMARK 3 S31: 0.0173 S32: 0.1203 S33: -0.0065 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): 13.2405 27.4203 26.7413 REMARK 3 T TENSOR REMARK 3 T11: 0.1262 T22: 0.0339 REMARK 3 T33: 0.0507 T12: -0.0112 REMARK 3 T13: 0.0008 T23: -0.0294 REMARK 3 L TENSOR REMARK 3 L11: 4.9208 L22: 1.7649 REMARK 3 L33: 2.0208 L12: -1.3832 REMARK 3 L13: 1.1911 L23: -0.1604 REMARK 3 S TENSOR REMARK 3 S11: -0.1744 S12: -0.3560 S13: 0.3893 REMARK 3 S21: 0.1873 S22: 0.0119 S23: -0.0749 REMARK 3 S31: -0.2382 S32: -0.0650 S33: 0.1625 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. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 5FKP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1290065326. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-12 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 : 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) : 0.97945 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47272 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 55.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.83000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3G08 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM TARTRATE AND 20% PEG4000 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 21.08500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.30500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.78500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.30500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.08500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.78500 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: 9100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 MET A 88 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 ASP A 201 REMARK 465 GLY A 202 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 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 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 LYS A 65 CG CD CE NZ 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 GLU A 105 CD OE1 OE2 REMARK 470 ASN A 110 CG OD1 ND2 REMARK 470 GLU A 113 CG CD OE1 OE2 REMARK 470 LEU A 145 CG CD1 CD2 REMARK 470 LYS A 148 CD CE NZ REMARK 470 GLU A 177 CG CD OE1 OE2 REMARK 470 SER A 199 OG REMARK 470 ASP A 226 CG OD1 OD2 REMARK 470 GLU A 254 CG CD OE1 OE2 REMARK 470 ILE B 1 CG1 CG2 CD1 REMARK 470 GLU B 16 CG CD OE1 OE2 REMARK 470 LYS B 19 CG CD CE NZ REMARK 470 GLU B 36 CG CD OE1 OE2 REMARK 470 LYS B 44 CG CD CE NZ REMARK 470 LYS B 48 CG CD CE NZ REMARK 470 LYS B 58 CG CD CE NZ REMARK 470 GLU B 69 CD OE1 OE2 REMARK 470 LYS B 83 CG CD CE NZ REMARK 470 MET B 99 CG SD CE REMARK 470 GLU C 6 CG CD OE1 OE2 REMARK 470 LYS C 12 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 OD2 ASP A 153 OG1 THR A 156 2.14 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 ASP A 166 -58.37 -120.77 REMARK 500 SER A 199 -176.84 -176.98 REMARK 500 TRP B 60 -10.38 83.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 6UL A 1287 DBREF 5FKP A 1 279 UNP P11609 CD1D1_MOUSE 19 297 DBREF 5FKP B 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 5FKP C -3 18 PDB 5FKP 5FKP -3 18 SEQADV 5FKP HIS A 280 UNP P11609 EXPRESSION TAG SEQADV 5FKP HIS A 281 UNP P11609 EXPRESSION TAG SEQADV 5FKP HIS A 282 UNP P11609 EXPRESSION TAG SEQADV 5FKP HIS A 283 UNP P11609 EXPRESSION TAG SEQADV 5FKP HIS A 284 UNP P11609 EXPRESSION TAG SEQADV 5FKP 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 TRP GLY ASN SEQRES 2 C 22 HIS TRP LYS ASN PHE LEU ALA VAL MET MODRES 5FKP ASN A 20 ASN GLYCOSYLATION SITE MODRES 5FKP ASN A 42 ASN GLYCOSYLATION SITE MODRES 5FKP ASN A 165 ASN GLYCOSYLATION SITE HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET MAN D 4 11 HET FUC D 5 10 HET NAG A1280 14 HET NAG A1286 14 HET 6UL A1287 32 HET GOL A1288 6 HET GOL A1289 6 HET GOL A1290 6 HET GOL B1100 6 HET TAR B1101 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 6UL TETRACOSYL PALMITATE HETNAM GOL GLYCEROL HETNAM TAR D(-)-TARTARIC 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 HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 NAG 4(C8 H15 N O6) FORMUL 4 BMA C6 H12 O6 FORMUL 4 MAN C6 H12 O6 FORMUL 4 FUC C6 H12 O5 FORMUL 7 6UL C40 H80 O2 FORMUL 8 GOL 4(C3 H8 O3) FORMUL 12 TAR C4 H6 O6 FORMUL 13 HOH *272(H2 O) HELIX 1 1 SER A 59 MET A 87 1 29 HELIX 2 2 PRO A 140 TRP A 142 5 3 HELIX 3 3 LEU A 143 ALA A 152 1 10 HELIX 4 4 ASP A 153 ASP A 166 1 14 HELIX 5 5 ASP A 166 GLY A 179 1 14 HELIX 6 6 GLY A 179 GLU A 184 1 6 HELIX 7 7 HIS A 267 GLY A 271 5 5 HELIX 8 8 PHE C 1 VAL C 17 1 17 SHEET 1 AA 8 SER A 48 PHE A 49 0 SHEET 2 AA 8 LEU A 35 TRP A 40 -1 O ARG A 39 N SER A 48 SHEET 3 AA 8 TRP A 23 LEU A 32 -1 O SER A 28 N TRP A 40 SHEET 4 AA 8 THR A 9 ASN A 20 -1 O ARG A 11 N TRP A 31 SHEET 5 AA 8 ILE A 96 MET A 106 -1 O ILE A 96 N PHE A 18 SHEET 6 AA 8 SER A 112 PHE A 120 -1 O GLU A 113 N GLU A 105 SHEET 7 AA 8 LYS A 123 TRP A 129 -1 O LYS A 123 N PHE A 120 SHEET 8 AA 8 SER A 132 THR A 135 -1 O SER A 132 N TRP A 129 SHEET 1 AB 4 VAL A 190 PRO A 197 0 SHEET 2 AB 4 ARG A 204 PHE A 213 -1 O GLN A 205 N VAL A 196 SHEET 3 AB 4 TRP A 245 VAL A 253 -1 O TRP A 245 N GLY A 212 SHEET 4 AB 4 LEU A 238 PRO A 239 1 O LEU A 238 N TYR A 246 SHEET 1 AC 4 VAL A 190 PRO A 197 0 SHEET 2 AC 4 ARG A 204 PHE A 213 -1 O GLN A 205 N VAL A 196 SHEET 3 AC 4 TRP A 245 VAL A 253 -1 O TRP A 245 N GLY A 212 SHEET 4 AC 4 HIS A 233 ARG A 234 -1 O HIS A 233 N THR A 250 SHEET 1 AD 2 LEU A 238 PRO A 239 0 SHEET 2 AD 2 TRP A 245 VAL A 253 1 O TYR A 246 N LEU A 238 SHEET 1 AE 4 GLN A 227 GLU A 228 0 SHEET 2 AE 4 TRP A 219 ARG A 224 -1 O ARG A 224 N GLN A 227 SHEET 3 AE 4 LEU A 261 LYS A 266 -1 O ALA A 262 N MET A 223 SHEET 4 AE 4 ILE A 275 TYR A 278 -1 O ILE A 275 N VAL A 265 SHEET 1 BA 4 GLN B 6 SER B 11 0 SHEET 2 BA 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 BA 4 PHE B 62 PHE B 70 -1 O PHE B 62 N PHE B 30 SHEET 4 BA 4 SER B 55 PHE B 56 1 O SER B 55 N TYR B 63 SHEET 1 BB 4 GLN B 6 SER B 11 0 SHEET 2 BB 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 BB 4 PHE B 62 PHE B 70 -1 O PHE B 62 N PHE B 30 SHEET 4 BB 4 GLU B 50 MET B 51 -1 O GLU B 50 N HIS B 67 SHEET 1 BC 2 SER B 55 PHE B 56 0 SHEET 2 BC 2 PHE B 62 PHE B 70 1 O TYR B 63 N SER B 55 SHEET 1 BD 4 LYS B 44 LYS B 45 0 SHEET 2 BD 4 GLU B 36 LYS B 41 -1 O LYS B 41 N LYS B 44 SHEET 3 BD 4 TYR B 78 LYS B 83 -1 O ALA B 79 N LEU B 40 SHEET 4 BD 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 2.09 SSBOND 2 CYS A 208 CYS A 263 1555 1555 2.03 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.03 LINK ND2 ASN A 20 C1 NAG A1286 1555 1555 1.45 LINK ND2 ASN A 42 C1 NAG A1280 1555 1555 1.44 LINK ND2 ASN A 165 C1 NAG D 1 1555 1555 1.45 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 LINK O6 NAG D 1 C1 FUC D 5 1555 1555 1.45 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.45 LINK O6 BMA D 3 C1 MAN D 4 1555 1555 1.45 CISPEP 1 TYR A 94 PRO A 95 0 1.12 CISPEP 2 TYR A 214 PRO A 215 0 5.47 CISPEP 3 HIS B 31 PRO B 32 0 2.10 CRYST1 42.170 107.570 110.610 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 0.023714 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009296 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009041 0.00000