HEADER IMMUNE SYSTEM 31-MAR-08 3CPL TITLE CRYSTAL STRUCTURE OF H-2DB IN COMPLEX WITH A VARIANT M6A OF THE NP366 TITLE 2 PEPTIDE FROM INFLUENZA A VIRUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, D-B ALPHA CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: RESIDUES 1-275 (UNIPROT 25-299); COMPND 5 SYNONYM: H-2DB HEAVY CHAIN, H-2D(B); COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 9 CHAIN: B, D; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: NP366 PEPTIDE; COMPND 13 CHAIN: E, F; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: H2-D1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 13 ORGANISM_COMMON: MOUSE; SOURCE 14 ORGANISM_TAXID: 10090; SOURCE 15 GENE: B2M; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET; SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES; SOURCE 23 OTHER_DETAILS: SYNTHETIC PEPTIDE FROM INFLUENZA VIRUS KEYWDS H-2DB, INFLUENZA, NP366, IMMUNOLOGY, GLYCOPROTEIN, IMMUNE RESPONSE, KEYWDS 2 MEMBRANE, MHC I, TRANSMEMBRANE, IMMUNOGLOBULIN DOMAIN, POLYMORPHISM, KEYWDS 3 SECRETED, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR K.KEDZIERSKA,C.GUILLONNEAU,L.A.HATTON,D.STOCKWELL,S.GRAS,R.WEBBY, AUTHOR 2 J.ROSSJOHN,A.W.PURCELL,P.C.DOHERTY,S.J.TURNER REVDAT 5 01-NOV-23 3CPL 1 REMARK REVDAT 4 09-JUN-09 3CPL 1 REVDAT REVDAT 3 24-FEB-09 3CPL 1 VERSN REVDAT 2 23-DEC-08 3CPL 1 JRNL REVDAT 1 18-NOV-08 3CPL 0 JRNL AUTH K.KEDZIERSKA,C.GUILLONNEAU,S.GRAS,L.A.HATTON,R.WEBBY, JRNL AUTH 2 A.W.PURCELL,J.ROSSJOHN,P.C.DOHERTY,S.J.TURNER JRNL TITL COMPLETE MODIFICATION OF TCR SPECIFICITY AND REPERTOIRE JRNL TITL 2 SELECTION DOES NOT PERTURB A CD8+ T CELL IMMUNODOMINANCE JRNL TITL 3 HIERARCHY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 19408 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 19047637 JRNL DOI 10.1073/PNAS.0810274105 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 30430 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3069 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2533 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 315 REMARK 3 BIN FREE R VALUE : 0.3390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6288 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 32 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.36000 REMARK 3 B22 (A**2) : 0.26000 REMARK 3 B33 (A**2) : 0.31000 REMARK 3 B12 (A**2) : 0.25000 REMARK 3 B13 (A**2) : 0.29000 REMARK 3 B23 (A**2) : -0.49000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.364 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.274 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.275 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.875 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.796 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6585 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8956 ; 1.422 ; 1.934 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 779 ; 6.916 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 350 ;35.260 ;23.771 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1089 ;21.113 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 50 ;20.588 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 896 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5216 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3191 ; 0.274 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4408 ; 0.330 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 466 ; 0.240 ; 0.500 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): 64 ; 0.342 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.402 ; 0.500 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): 3973 ; 0.915 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6279 ; 1.601 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3047 ; 1.114 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2677 ; 1.663 ; 4.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 180 2 REMARK 3 1 C 1 C 180 2 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 696 ; 0.050 ; 0.050 REMARK 3 MEDIUM POSITIONAL 1 A (A): 731 ; 0.300 ; 0.500 REMARK 3 TIGHT THERMAL 1 A (A**2): 696 ; 0.100 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 731 ; 0.620 ; 2.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 1 B 99 2 REMARK 3 1 D 1 D 99 2 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 2 B (A): 392 ; 0.050 ; 0.050 REMARK 3 MEDIUM POSITIONAL 2 B (A): 419 ; 0.310 ; 0.500 REMARK 3 TIGHT THERMAL 2 B (A**2): 392 ; 0.100 ; 0.500 REMARK 3 MEDIUM THERMAL 2 B (A**2): 419 ; 0.570 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 3CPL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000047060. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JAN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.514 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30549 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.27300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.000 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: 1YN7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M POTASSIUM THIOCIANATE, 30% PEG REMARK 280 2000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19110 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 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: 4150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, F 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: 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 ND1 HIS A 93 OE2 GLU A 119 2.11 REMARK 500 NE1 TRP C 133 O HOH C 283 2.12 REMARK 500 O TRP A 107 O HOH A 281 2.16 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 NZ LYS D 19 O HOH A 283 1666 1.68 REMARK 500 CE LYS D 19 O HOH A 283 1666 1.72 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 PRO A 2 -178.77 -57.22 REMARK 500 LEU A 17 91.55 -26.16 REMARK 500 GLU A 18 -26.63 -33.97 REMARK 500 ASN A 30 9.22 52.39 REMARK 500 ARG A 48 10.84 -143.52 REMARK 500 GLU A 55 120.18 -29.96 REMARK 500 ASP A 106 45.52 -100.39 REMARK 500 TRP A 107 -9.85 101.42 REMARK 500 TYR A 123 -65.70 -122.14 REMARK 500 ARG A 194 -63.19 -129.60 REMARK 500 SER A 195 -151.78 -164.19 REMARK 500 LYS A 196 92.74 -57.89 REMARK 500 LEU A 219 -79.20 -89.30 REMARK 500 ASN A 220 -106.78 -127.00 REMARK 500 GLU A 222 113.97 -32.05 REMARK 500 GLU A 223 -114.04 -103.31 REMARK 500 LEU A 224 160.69 -25.93 REMARK 500 THR A 225 13.82 175.81 REMARK 500 LYS A 253 76.79 -67.41 REMARK 500 LEU A 266 127.25 -31.64 REMARK 500 PRO A 269 144.80 -37.53 REMARK 500 TYR B 10 149.15 -172.87 REMARK 500 ASN B 42 68.64 32.06 REMARK 500 LYS B 48 75.96 41.82 REMARK 500 TRP B 60 -8.60 73.80 REMARK 500 ASP B 85 -33.28 -33.04 REMARK 500 ALA E 6 -121.19 -102.64 REMARK 500 PRO C 2 177.31 -47.68 REMARK 500 LEU C 17 95.92 -32.13 REMARK 500 GLU C 18 -24.81 -36.10 REMARK 500 ASN C 30 5.07 53.23 REMARK 500 GLU C 55 120.73 -34.01 REMARK 500 TYR C 123 -63.60 -123.96 REMARK 500 ASP C 137 -163.92 -165.22 REMARK 500 LEU C 180 8.93 -61.98 REMARK 500 ARG C 194 -97.27 -122.80 REMARK 500 SER C 195 -144.72 -101.94 REMARK 500 ASN C 220 144.80 -4.75 REMARK 500 GLU C 222 -59.76 -166.20 REMARK 500 THR C 225 -88.95 -92.33 REMARK 500 GLN C 226 65.32 -64.56 REMARK 500 ASP C 227 -27.94 -175.67 REMARK 500 LEU C 251 -96.51 -27.89 REMARK 500 LYS C 253 72.74 -69.22 REMARK 500 LYS D 48 75.92 41.73 REMARK 500 TRP D 60 -7.99 72.95 REMARK 500 ALA F 6 -119.31 -100.78 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THERE IS M6A VARIANT OF NP366 PEPTIDE IN THE CHAINS E AND F DBREF 3CPL A 1 275 UNP P01899 HA11_MOUSE 25 299 DBREF 3CPL B 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 3CPL C 1 275 UNP P01899 HA11_MOUSE 25 299 DBREF 3CPL D 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 3CPL E 1 9 PDB 3CPL 3CPL 1 9 DBREF 3CPL F 1 9 PDB 3CPL 3CPL 1 9 SEQRES 1 A 275 GLY PRO HIS SER MET ARG TYR PHE GLU THR ALA VAL SER SEQRES 2 A 275 ARG PRO GLY LEU GLU GLU PRO ARG TYR ILE SER VAL GLY SEQRES 3 A 275 TYR VAL ASP ASN LYS GLU PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 275 ALA GLU ASN PRO ARG TYR GLU PRO ARG ALA PRO TRP MET SEQRES 5 A 275 GLU GLN GLU GLY PRO GLU TYR TRP GLU ARG GLU THR GLN SEQRES 6 A 275 LYS ALA LYS GLY GLN GLU GLN TRP PHE ARG VAL SER LEU SEQRES 7 A 275 ARG ASN LEU LEU GLY TYR TYR ASN GLN SER ALA GLY GLY SEQRES 8 A 275 SER HIS THR LEU GLN GLN MET SER GLY CYS ASP LEU GLY SEQRES 9 A 275 SER ASP TRP ARG LEU LEU ARG GLY TYR LEU GLN PHE ALA SEQRES 10 A 275 TYR GLU GLY ARG ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 A 275 LYS THR TRP THR ALA ALA ASP MET ALA ALA GLN ILE THR SEQRES 12 A 275 ARG ARG LYS TRP GLU GLN SER GLY ALA ALA GLU HIS TYR SEQRES 13 A 275 LYS ALA TYR LEU GLU GLY GLU CYS VAL GLU TRP LEU HIS SEQRES 14 A 275 ARG TYR LEU LYS ASN GLY ASN ALA THR LEU LEU ARG THR SEQRES 15 A 275 ASP SER PRO LYS ALA HIS VAL THR HIS HIS PRO ARG SER SEQRES 16 A 275 LYS GLY GLU VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 A 275 TYR PRO ALA ASP ILE THR LEU THR TRP GLN LEU ASN GLY SEQRES 18 A 275 GLU GLU LEU THR GLN ASP MET GLU LEU VAL GLU THR ARG SEQRES 19 A 275 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA SER VAL SEQRES 20 A 275 VAL VAL PRO LEU GLY LYS GLU GLN ASN TYR THR CYS ARG SEQRES 21 A 275 VAL TYR HIS GLU GLY LEU PRO GLU PRO LEU THR LEU ARG SEQRES 22 A 275 TRP GLU 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 ASP SER MET ALA GLU PRO LYS SEQRES 8 B 99 THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 E 9 ALA SER ASN GLU ASN ALA GLU THR MET SEQRES 1 C 275 GLY PRO HIS SER MET ARG TYR PHE GLU THR ALA VAL SER SEQRES 2 C 275 ARG PRO GLY LEU GLU GLU PRO ARG TYR ILE SER VAL GLY SEQRES 3 C 275 TYR VAL ASP ASN LYS GLU PHE VAL ARG PHE ASP SER ASP SEQRES 4 C 275 ALA GLU ASN PRO ARG TYR GLU PRO ARG ALA PRO TRP MET SEQRES 5 C 275 GLU GLN GLU GLY PRO GLU TYR TRP GLU ARG GLU THR GLN SEQRES 6 C 275 LYS ALA LYS GLY GLN GLU GLN TRP PHE ARG VAL SER LEU SEQRES 7 C 275 ARG ASN LEU LEU GLY TYR TYR ASN GLN SER ALA GLY GLY SEQRES 8 C 275 SER HIS THR LEU GLN GLN MET SER GLY CYS ASP LEU GLY SEQRES 9 C 275 SER ASP TRP ARG LEU LEU ARG GLY TYR LEU GLN PHE ALA SEQRES 10 C 275 TYR GLU GLY ARG ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 C 275 LYS THR TRP THR ALA ALA ASP MET ALA ALA GLN ILE THR SEQRES 12 C 275 ARG ARG LYS TRP GLU GLN SER GLY ALA ALA GLU HIS TYR SEQRES 13 C 275 LYS ALA TYR LEU GLU GLY GLU CYS VAL GLU TRP LEU HIS SEQRES 14 C 275 ARG TYR LEU LYS ASN GLY ASN ALA THR LEU LEU ARG THR SEQRES 15 C 275 ASP SER PRO LYS ALA HIS VAL THR HIS HIS PRO ARG SER SEQRES 16 C 275 LYS GLY GLU VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 C 275 TYR PRO ALA ASP ILE THR LEU THR TRP GLN LEU ASN GLY SEQRES 18 C 275 GLU GLU LEU THR GLN ASP MET GLU LEU VAL GLU THR ARG SEQRES 19 C 275 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA SER VAL SEQRES 20 C 275 VAL VAL PRO LEU GLY LYS GLU GLN ASN TYR THR CYS ARG SEQRES 21 C 275 VAL TYR HIS GLU GLY LEU PRO GLU PRO LEU THR LEU ARG SEQRES 22 C 275 TRP GLU SEQRES 1 D 99 ILE GLN LYS THR PRO GLN ILE GLN VAL TYR SER ARG HIS SEQRES 2 D 99 PRO PRO GLU ASN GLY LYS PRO ASN ILE LEU ASN CYS TYR SEQRES 3 D 99 VAL THR GLN PHE HIS PRO PRO HIS ILE GLU ILE GLN MET SEQRES 4 D 99 LEU LYS ASN GLY LYS LYS ILE PRO LYS VAL GLU MET SER SEQRES 5 D 99 ASP MET SER PHE SER LYS ASP TRP SER PHE TYR ILE LEU SEQRES 6 D 99 ALA HIS THR GLU PHE THR PRO THR GLU THR ASP THR TYR SEQRES 7 D 99 ALA CYS ARG VAL LYS HIS ASP SER MET ALA GLU PRO LYS SEQRES 8 D 99 THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 F 9 ALA SER ASN GLU ASN ALA GLU THR MET FORMUL 7 HOH *32(H2 O) HELIX 1 1 ALA A 49 GLU A 53 5 5 HELIX 2 2 GLY A 56 TYR A 85 1 30 HELIX 3 3 ASP A 137 GLY A 151 1 15 HELIX 4 4 GLY A 151 GLY A 162 1 12 HELIX 5 5 GLY A 162 GLY A 175 1 14 HELIX 6 6 GLY A 175 LEU A 180 1 6 HELIX 7 7 ALA C 49 GLU C 53 5 5 HELIX 8 8 GLY C 56 TYR C 85 1 30 HELIX 9 9 ASP C 137 GLY C 151 1 15 HELIX 10 10 GLY C 151 GLY C 162 1 12 HELIX 11 11 GLY C 162 GLY C 175 1 14 HELIX 12 12 GLY C 175 LEU C 180 1 6 SHEET 1 A 8 GLU A 46 PRO A 47 0 SHEET 2 A 8 LYS A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 A 8 ARG A 21 VAL A 28 -1 N SER A 24 O PHE A 36 SHEET 4 A 8 HIS A 3 VAL A 12 -1 N THR A 10 O ILE A 23 SHEET 5 A 8 THR A 94 LEU A 103 -1 O SER A 99 N TYR A 7 SHEET 6 A 8 LEU A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 A 8 ARG A 121 LEU A 126 -1 O LEU A 126 N LEU A 114 SHEET 8 A 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 B 4 LYS A 186 SER A 195 0 SHEET 2 B 4 GLU A 198 PHE A 208 -1 O LEU A 206 N LYS A 186 SHEET 3 B 4 PHE A 241 PRO A 250 -1 O LYS A 243 N ALA A 205 SHEET 4 B 4 GLU A 229 LEU A 230 -1 N GLU A 229 O SER A 246 SHEET 1 C 4 LYS A 186 SER A 195 0 SHEET 2 C 4 GLU A 198 PHE A 208 -1 O LEU A 206 N LYS A 186 SHEET 3 C 4 PHE A 241 PRO A 250 -1 O LYS A 243 N ALA A 205 SHEET 4 C 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 D 3 THR A 214 GLN A 218 0 SHEET 2 D 3 THR A 258 TYR A 262 -1 O ARG A 260 N THR A 216 SHEET 3 D 3 LEU A 270 LEU A 272 -1 O LEU A 270 N VAL A 261 SHEET 1 E 4 GLN B 6 SER B 11 0 SHEET 2 E 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 E 4 PHE B 62 PHE B 70 -1 O ALA B 66 N CYS B 25 SHEET 4 E 4 GLU B 50 MET B 51 -1 N GLU B 50 O HIS B 67 SHEET 1 F 4 GLN B 6 SER B 11 0 SHEET 2 F 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 F 4 PHE B 62 PHE B 70 -1 O ALA B 66 N CYS B 25 SHEET 4 F 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 G 4 LYS B 44 LYS B 45 0 SHEET 2 G 4 GLU B 36 LYS B 41 -1 N LYS B 41 O LYS B 44 SHEET 3 G 4 TYR B 78 LYS B 83 -1 O ARG B 81 N GLN B 38 SHEET 4 G 4 LYS B 91 TYR B 94 -1 O VAL B 93 N CYS B 80 SHEET 1 H 8 GLU C 46 PRO C 47 0 SHEET 2 H 8 LYS C 31 ASP C 37 -1 N ARG C 35 O GLU C 46 SHEET 3 H 8 ARG C 21 VAL C 28 -1 N SER C 24 O PHE C 36 SHEET 4 H 8 HIS C 3 VAL C 12 -1 N THR C 10 O ILE C 23 SHEET 5 H 8 THR C 94 LEU C 103 -1 O LEU C 103 N HIS C 3 SHEET 6 H 8 LEU C 109 TYR C 118 -1 O LEU C 110 N ASP C 102 SHEET 7 H 8 ARG C 121 LEU C 126 -1 O LEU C 126 N LEU C 114 SHEET 8 H 8 TRP C 133 ALA C 135 -1 O THR C 134 N ALA C 125 SHEET 1 I 4 LYS C 186 PRO C 193 0 SHEET 2 I 4 GLU C 198 PHE C 208 -1 O THR C 200 N HIS C 192 SHEET 3 I 4 PHE C 241 PRO C 250 -1 O VAL C 249 N VAL C 199 SHEET 4 I 4 GLU C 229 LEU C 230 -1 N GLU C 229 O SER C 246 SHEET 1 J 4 LYS C 186 PRO C 193 0 SHEET 2 J 4 GLU C 198 PHE C 208 -1 O THR C 200 N HIS C 192 SHEET 3 J 4 PHE C 241 PRO C 250 -1 O VAL C 249 N VAL C 199 SHEET 4 J 4 ARG C 234 PRO C 235 -1 N ARG C 234 O GLN C 242 SHEET 1 K 3 THR C 214 LEU C 219 0 SHEET 2 K 3 TYR C 257 TYR C 262 -1 O TYR C 262 N THR C 214 SHEET 3 K 3 LEU C 270 LEU C 272 -1 O LEU C 272 N CYS C 259 SHEET 1 L 4 GLN D 6 SER D 11 0 SHEET 2 L 4 ASN D 21 PHE D 30 -1 O TYR D 26 N GLN D 8 SHEET 3 L 4 PHE D 62 PHE D 70 -1 O ALA D 66 N CYS D 25 SHEET 4 L 4 GLU D 50 MET D 51 -1 N GLU D 50 O HIS D 67 SHEET 1 M 4 GLN D 6 SER D 11 0 SHEET 2 M 4 ASN D 21 PHE D 30 -1 O TYR D 26 N GLN D 8 SHEET 3 M 4 PHE D 62 PHE D 70 -1 O ALA D 66 N CYS D 25 SHEET 4 M 4 SER D 55 PHE D 56 -1 N SER D 55 O TYR D 63 SHEET 1 N 4 LYS D 44 LYS D 45 0 SHEET 2 N 4 ILE D 35 LYS D 41 -1 N LYS D 41 O LYS D 44 SHEET 3 N 4 TYR D 78 HIS D 84 -1 O ALA D 79 N LEU D 40 SHEET 4 N 4 LYS D 91 TYR D 94 -1 O LYS D 91 N VAL D 82 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.04 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.03 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.02 SSBOND 4 CYS C 101 CYS C 164 1555 1555 2.06 SSBOND 5 CYS C 203 CYS C 259 1555 1555 2.02 SSBOND 6 CYS D 25 CYS D 80 1555 1555 2.04 CISPEP 1 TYR A 209 PRO A 210 0 0.27 CISPEP 2 HIS B 31 PRO B 32 0 3.39 CISPEP 3 TYR C 209 PRO C 210 0 -3.19 CISPEP 4 HIS D 31 PRO D 32 0 -1.54 CRYST1 57.710 69.700 72.380 99.95 111.04 110.48 P 1 2 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 0.017328 0.006472 0.009441 0.00000 SCALE2 0.000000 0.015315 0.005561 0.00000 SCALE3 0.000000 0.000000 0.015748 0.00000