HEADER IMMUNE SYSTEM 13-MAR-14 4P4R TITLE STRUCTURAL BASIS OF CHRONIC BERYLLIUM DISEASE: BRIDGING THE GAP TITLE 2 BETWEEN ALLERGIC HYPERSENSITIVITY AND AUTOIMMUNITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DP ALPHA 1 CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: UNP RESIDUES 32-214; COMPND 5 SYNONYM: DP(W3),DP(W4),HLA-SB ALPHA CHAIN,MHC CLASS II DP3-ALPHA,MHC COMPND 6 CLASS II DPA1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: MIM2 PEPTIDE,HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DP COMPND 10 BETA 1 CHAIN; COMPND 11 CHAIN: B, D; COMPND 12 FRAGMENT: UNP RESIDUES 32-218; COMPND 13 SYNONYM: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN,DP(W4) BETA CHAIN, COMPND 14 MHC CLASS II ANTIGEN DPB1; COMPND 15 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: HLA-DPA1, HLA-DP1A, HLASB; SOURCE 6 EXPRESSION_SYSTEM: UNIDENTIFIED BACULOVIRUS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10469; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: HLA-DPB1, HLA-DP1B; SOURCE 13 EXPRESSION_SYSTEM: UNIDENTIFIED BACULOVIRUS; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 10469 KEYWDS HLA-DP2, IMMUNE SYSTEM, ALLERGY, BERYLLIOSIS EXPDTA X-RAY DIFFRACTION AUTHOR G.M.CLAYTON,F.CRAWFORD,J.W.KAPPLER REVDAT 4 27-DEC-23 4P4R 1 HETSYN REVDAT 3 29-JUL-20 4P4R 1 COMPND SOURCE REMARK SEQADV REVDAT 3 2 1 HETNAM LINK SITE REVDAT 2 07-JAN-15 4P4R 1 DBREF REVDAT 1 16-JUL-14 4P4R 0 JRNL AUTH G.M.CLAYTON,Y.WANG,F.CRAWFORD,A.NOVIKOV,B.T.WIMBERLY, JRNL AUTH 2 J.S.KIEFT,M.T.FALTA,N.A.BOWERMAN,P.MARRACK,A.P.FONTENOT, JRNL AUTH 3 S.DAI,J.W.KAPPLER JRNL TITL STRUCTURAL BASIS OF CHRONIC BERYLLIUM DISEASE: LINKING JRNL TITL 2 ALLERGIC HYPERSENSITIVITY AND AUTOIMMUNITY. JRNL REF CELL V. 158 132 2014 JRNL REFN ISSN 1097-4172 JRNL PMID 24995984 JRNL DOI 10.1016/J.CELL.2014.04.048 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.9 REMARK 3 NUMBER OF REFLECTIONS : 18022 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.090 REMARK 3 FREE R VALUE TEST SET COUNT : 917 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 9 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.18 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.91 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2730 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2436 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2575 REMARK 3 BIN R VALUE (WORKING SET) : 0.2386 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.68 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 155 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6057 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 119 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 78.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -15.75310 REMARK 3 B22 (A**2) : 18.73150 REMARK 3 B33 (A**2) : -2.97840 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.508 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.462 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.892 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.836 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6308 ; 1.500 ; HARMONIC REMARK 3 BOND ANGLES : 8620 ; 1.500 ; HARMONIC REMARK 3 TORSION ANGLES : 2072 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 183 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 919 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6308 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 806 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 6825 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.34 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 22.10 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4P4R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000200689. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 273 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 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 : 18043 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 90.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.2 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.7700 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: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NH4TARTRATE DIBASIC, 20% PEG REMARK 280 -3350, VAPOR DIFFUSION, SITTING 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 38.62500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.43900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.22000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.43900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.62500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.22000 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 ILE A 1 REMARK 465 ALA A 180 REMARK 465 GLN A 181 REMARK 465 GLU A 182 REMARK 465 PRO A 183 REMARK 465 GLY B -13 REMARK 465 GLY B -12 REMARK 465 SER B -11 REMARK 465 LEU B -10 REMARK 465 VAL B -9 REMARK 465 PRO B -8 REMARK 465 ARG B -7 REMARK 465 GLY B -6 REMARK 465 SER B -5 REMARK 465 GLY B -4 REMARK 465 GLY B -3 REMARK 465 GLY B -2 REMARK 465 GLY B -1 REMARK 465 ILE C 1 REMARK 465 ALA C 180 REMARK 465 GLN C 181 REMARK 465 GLU C 182 REMARK 465 PRO C 183 REMARK 465 GLY D -13 REMARK 465 GLY D -12 REMARK 465 SER D -11 REMARK 465 LEU D -10 REMARK 465 VAL D -9 REMARK 465 PRO D -8 REMARK 465 ARG D -7 REMARK 465 GLY D -6 REMARK 465 SER D -5 REMARK 465 GLY D -4 REMARK 465 GLY D -3 REMARK 465 GLY D -2 REMARK 465 GLY D -1 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 2 CG CD CE NZ REMARK 470 ARG A 17 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 38 CG CD CE NZ REMARK 470 GLU A 40 CG CD OE1 OE2 REMARK 470 LEU A 99 CG CD1 CD2 REMARK 470 GLN A 172 CG CD OE1 NE2 REMARK 470 GLN B -25 CG CD OE1 NE2 REMARK 470 LYS B 63 CG CD CE NZ REMARK 470 ARG B 75 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 89 CG CD1 CD2 REMARK 470 GLN B 90 CG CD OE1 NE2 REMARK 470 ARG B 96 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 103 CG CD CE NZ REMARK 470 LYS B 104 CG CD CE NZ REMARK 470 LEU B 107 CG CD1 CD2 REMARK 470 GLN B 108 CG CD OE1 NE2 REMARK 470 GLN B 134 CG CD OE1 NE2 REMARK 470 GLN B 165 CG CD OE1 NE2 REMARK 470 LYS B 187 CG CD CE NZ REMARK 470 GLN B 189 CG CD OE1 NE2 REMARK 470 LYS C 2 CG CD CE NZ REMARK 470 ARG C 17 CG CD NE CZ NH1 NH2 REMARK 470 LEU C 99 CG CD1 CD2 REMARK 470 GLU C 158 CG CD OE1 OE2 REMARK 470 GLN C 172 CG CD OE1 NE2 REMARK 470 GLN D -25 CG CD OE1 NE2 REMARK 470 LYS D 63 CG CD CE NZ REMARK 470 GLN D 90 CG CD OE1 NE2 REMARK 470 ARG D 96 CG CD NE CZ NH1 NH2 REMARK 470 LYS D 103 CG CD CE NZ REMARK 470 LYS D 104 CG CD CE NZ REMARK 470 LEU D 107 CG CD1 CD2 REMARK 470 HIS D 109 CG ND1 CD2 CE1 NE2 REMARK 470 ASN D 144 CG OD1 ND2 REMARK 470 GLN D 165 CG CD OE1 NE2 REMARK 470 LYS D 187 CG CD CE NZ REMARK 470 GLN D 189 CG CD OE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MET B 76 N - CA - CB ANGL. DEV. = 19.2 DEGREES 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 GLU A 134 149.93 -172.18 REMARK 500 GLU A 158 37.59 -91.46 REMARK 500 ASN B 31 -104.76 59.21 REMARK 500 ARG B 75 -71.29 -91.45 REMARK 500 GLN B 108 -38.72 -151.77 REMARK 500 ASP B 119 75.31 57.79 REMARK 500 ASP B 150 29.82 -141.69 REMARK 500 ASN C 124 17.33 58.33 REMARK 500 GLU C 158 35.46 -90.42 REMARK 500 ASN D 31 -109.00 59.11 REMARK 500 ARG D 75 -84.32 -103.92 REMARK 500 LEU D 83 -73.22 -60.51 REMARK 500 PRO D 86 70.23 -68.70 REMARK 500 MET D 87 -30.29 -157.45 REMARK 500 THR D 88 -50.60 -138.76 REMARK 500 GLN D 108 -42.47 -152.05 REMARK 500 ASP D 119 70.89 58.20 REMARK 500 PRO D 122 -170.25 -65.62 REMARK 500 SER D 124 104.25 -53.12 REMARK 500 ASN D 144 -164.48 72.88 REMARK 500 ASP D 150 30.98 -141.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4P4K RELATED DB: PDB REMARK 900 RELATED ID: 4P57 RELATED DB: PDB REMARK 900 RELATED ID: 4P5M RELATED DB: PDB REMARK 900 RELATED ID: 4P5K RELATED DB: PDB DBREF 4P4R A 1 183 UNP P20036 DPA1_HUMAN 32 214 DBREF 4P4R B -25 -15 PDB 4P4R 4P4R -25 -15 DBREF 4P4R B 3 189 UNP P04440 DPB1_HUMAN 32 218 DBREF 4P4R C 1 183 UNP P20036 DPA1_HUMAN 32 214 DBREF 4P4R D -25 -15 PDB 4P4R 4P4R -25 -15 DBREF 4P4R D 3 189 UNP P04440 DPB1_HUMAN 32 218 SEQADV 4P4R GLY B -14 UNP P04440 LINKER SEQADV 4P4R GLY B -13 UNP P04440 LINKER SEQADV 4P4R GLY B -12 UNP P04440 LINKER SEQADV 4P4R SER B -11 UNP P04440 LINKER SEQADV 4P4R LEU B -10 UNP P04440 LINKER SEQADV 4P4R VAL B -9 UNP P04440 LINKER SEQADV 4P4R PRO B -8 UNP P04440 LINKER SEQADV 4P4R ARG B -7 UNP P04440 LINKER SEQADV 4P4R GLY B -6 UNP P04440 LINKER SEQADV 4P4R SER B -5 UNP P04440 LINKER SEQADV 4P4R GLY B -4 UNP P04440 LINKER SEQADV 4P4R GLY B -3 UNP P04440 LINKER SEQADV 4P4R GLY B -2 UNP P04440 LINKER SEQADV 4P4R GLY B -1 UNP P04440 LINKER SEQADV 4P4R SER B 3 UNP P04440 THR 32 VARIANT SEQADV 4P4R VAL B 36 UNP P04440 ALA 65 VARIANT SEQADV 4P4R ASP B 55 UNP P04440 ALA 84 VARIANT SEQADV 4P4R GLU B 56 UNP P04440 ALA 85 VARIANT SEQADV 4P4R GLU B 69 UNP P04440 LYS 98 VARIANT SEQADV 4P4R GLY D -14 UNP P04440 LINKER SEQADV 4P4R GLY D -13 UNP P04440 LINKER SEQADV 4P4R GLY D -12 UNP P04440 LINKER SEQADV 4P4R SER D -11 UNP P04440 LINKER SEQADV 4P4R LEU D -10 UNP P04440 LINKER SEQADV 4P4R VAL D -9 UNP P04440 LINKER SEQADV 4P4R PRO D -8 UNP P04440 LINKER SEQADV 4P4R ARG D -7 UNP P04440 LINKER SEQADV 4P4R GLY D -6 UNP P04440 LINKER SEQADV 4P4R SER D -5 UNP P04440 LINKER SEQADV 4P4R GLY D -4 UNP P04440 LINKER SEQADV 4P4R GLY D -3 UNP P04440 LINKER SEQADV 4P4R GLY D -2 UNP P04440 LINKER SEQADV 4P4R GLY D -1 UNP P04440 LINKER SEQADV 4P4R SER D 3 UNP P04440 THR 32 VARIANT SEQADV 4P4R VAL D 36 UNP P04440 ALA 65 VARIANT SEQADV 4P4R ASP D 55 UNP P04440 ALA 84 VARIANT SEQADV 4P4R GLU D 56 UNP P04440 ALA 85 VARIANT SEQADV 4P4R GLU D 69 UNP P04440 LYS 98 VARIANT SEQRES 1 A 183 ILE LYS ALA ASP HIS VAL SER THR TYR ALA ALA PHE VAL SEQRES 2 A 183 GLN THR HIS ARG PRO THR GLY GLU PHE MET PHE GLU PHE SEQRES 3 A 183 ASP GLU ASP GLU MET PHE TYR VAL ASP LEU ASP LYS LYS SEQRES 4 A 183 GLU THR VAL TRP HIS LEU GLU GLU PHE GLY GLN ALA PHE SEQRES 5 A 183 SER PHE GLU ALA GLN GLY GLY LEU ALA ASN ILE ALA ILE SEQRES 6 A 183 LEU ASN ASN ASN LEU ASN THR LEU ILE GLN ARG SER ASN SEQRES 7 A 183 HIS THR GLN ALA THR ASN ASP PRO PRO GLU VAL THR VAL SEQRES 8 A 183 PHE PRO LYS GLU PRO VAL GLU LEU GLY GLN PRO ASN THR SEQRES 9 A 183 LEU ILE CYS HIS ILE ASP LYS PHE PHE PRO PRO VAL LEU SEQRES 10 A 183 ASN VAL THR TRP LEU CYS ASN GLY GLU LEU VAL THR GLU SEQRES 11 A 183 GLY VAL ALA GLU SER LEU PHE LEU PRO ARG THR ASP TYR SEQRES 12 A 183 SER PHE HIS LYS PHE HIS TYR LEU THR PHE VAL PRO SER SEQRES 13 A 183 ALA GLU ASP PHE TYR ASP CYS ARG VAL GLU HIS TRP GLY SEQRES 14 A 183 LEU ASP GLN PRO LEU LEU LYS HIS TRP GLU ALA GLN GLU SEQRES 15 A 183 PRO SEQRES 1 B 212 GLN ALA PHE TRP ILE ASP LEU PHE GLU THR ILE GLY GLY SEQRES 2 B 212 GLY SER LEU VAL PRO ARG GLY SER GLY GLY GLY GLY SER SEQRES 3 B 212 PRO GLU ASN TYR LEU PHE GLN GLY ARG GLN GLU CYS TYR SEQRES 4 B 212 ALA PHE ASN GLY THR GLN ARG PHE LEU GLU ARG TYR ILE SEQRES 5 B 212 TYR ASN ARG GLU GLU PHE VAL ARG PHE ASP SER ASP VAL SEQRES 6 B 212 GLY GLU PHE ARG ALA VAL THR GLU LEU GLY ARG PRO ASP SEQRES 7 B 212 GLU GLU TYR TRP ASN SER GLN LYS ASP ILE LEU GLU GLU SEQRES 8 B 212 GLU ARG ALA VAL PRO ASP ARG MET CYS ARG HIS ASN TYR SEQRES 9 B 212 GLU LEU GLY GLY PRO MET THR LEU GLN ARG ARG VAL GLN SEQRES 10 B 212 PRO ARG VAL ASN VAL SER PRO SER LYS LYS GLY PRO LEU SEQRES 11 B 212 GLN HIS HIS ASN LEU LEU VAL CYS HIS VAL THR ASP PHE SEQRES 12 B 212 TYR PRO GLY SER ILE GLN VAL ARG TRP PHE LEU ASN GLY SEQRES 13 B 212 GLN GLU GLU THR ALA GLY VAL VAL SER THR ASN LEU ILE SEQRES 14 B 212 ARG ASN GLY ASP TRP THR PHE GLN ILE LEU VAL MET LEU SEQRES 15 B 212 GLU MET THR PRO GLN GLN GLY ASP VAL TYR THR CYS GLN SEQRES 16 B 212 VAL GLU HIS THR SER LEU ASP SER PRO VAL THR VAL GLU SEQRES 17 B 212 TRP LYS ALA GLN SEQRES 1 C 183 ILE LYS ALA ASP HIS VAL SER THR TYR ALA ALA PHE VAL SEQRES 2 C 183 GLN THR HIS ARG PRO THR GLY GLU PHE MET PHE GLU PHE SEQRES 3 C 183 ASP GLU ASP GLU MET PHE TYR VAL ASP LEU ASP LYS LYS SEQRES 4 C 183 GLU THR VAL TRP HIS LEU GLU GLU PHE GLY GLN ALA PHE SEQRES 5 C 183 SER PHE GLU ALA GLN GLY GLY LEU ALA ASN ILE ALA ILE SEQRES 6 C 183 LEU ASN ASN ASN LEU ASN THR LEU ILE GLN ARG SER ASN SEQRES 7 C 183 HIS THR GLN ALA THR ASN ASP PRO PRO GLU VAL THR VAL SEQRES 8 C 183 PHE PRO LYS GLU PRO VAL GLU LEU GLY GLN PRO ASN THR SEQRES 9 C 183 LEU ILE CYS HIS ILE ASP LYS PHE PHE PRO PRO VAL LEU SEQRES 10 C 183 ASN VAL THR TRP LEU CYS ASN GLY GLU LEU VAL THR GLU SEQRES 11 C 183 GLY VAL ALA GLU SER LEU PHE LEU PRO ARG THR ASP TYR SEQRES 12 C 183 SER PHE HIS LYS PHE HIS TYR LEU THR PHE VAL PRO SER SEQRES 13 C 183 ALA GLU ASP PHE TYR ASP CYS ARG VAL GLU HIS TRP GLY SEQRES 14 C 183 LEU ASP GLN PRO LEU LEU LYS HIS TRP GLU ALA GLN GLU SEQRES 15 C 183 PRO SEQRES 1 D 212 GLN ALA PHE TRP ILE ASP LEU PHE GLU THR ILE GLY GLY SEQRES 2 D 212 GLY SER LEU VAL PRO ARG GLY SER GLY GLY GLY GLY SER SEQRES 3 D 212 PRO GLU ASN TYR LEU PHE GLN GLY ARG GLN GLU CYS TYR SEQRES 4 D 212 ALA PHE ASN GLY THR GLN ARG PHE LEU GLU ARG TYR ILE SEQRES 5 D 212 TYR ASN ARG GLU GLU PHE VAL ARG PHE ASP SER ASP VAL SEQRES 6 D 212 GLY GLU PHE ARG ALA VAL THR GLU LEU GLY ARG PRO ASP SEQRES 7 D 212 GLU GLU TYR TRP ASN SER GLN LYS ASP ILE LEU GLU GLU SEQRES 8 D 212 GLU ARG ALA VAL PRO ASP ARG MET CYS ARG HIS ASN TYR SEQRES 9 D 212 GLU LEU GLY GLY PRO MET THR LEU GLN ARG ARG VAL GLN SEQRES 10 D 212 PRO ARG VAL ASN VAL SER PRO SER LYS LYS GLY PRO LEU SEQRES 11 D 212 GLN HIS HIS ASN LEU LEU VAL CYS HIS VAL THR ASP PHE SEQRES 12 D 212 TYR PRO GLY SER ILE GLN VAL ARG TRP PHE LEU ASN GLY SEQRES 13 D 212 GLN GLU GLU THR ALA GLY VAL VAL SER THR ASN LEU ILE SEQRES 14 D 212 ARG ASN GLY ASP TRP THR PHE GLN ILE LEU VAL MET LEU SEQRES 15 D 212 GLU MET THR PRO GLN GLN GLY ASP VAL TYR THR CYS GLN SEQRES 16 D 212 VAL GLU HIS THR SER LEU ASP SER PRO VAL THR VAL GLU SEQRES 17 D 212 TRP LYS ALA GLN HET NAG A 201 14 HET NAG A 202 14 HET NAG C 201 14 HET NAG C 202 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 FORMUL 5 NAG 4(C8 H15 N O6) FORMUL 9 HOH *119(H2 O) HELIX 1 AA1 LEU A 45 PHE A 52 1 8 HELIX 2 AA2 GLU A 55 SER A 77 1 23 HELIX 3 AA3 THR B 49 LEU B 51 5 3 HELIX 4 AA4 GLY B 52 GLN B 62 1 11 HELIX 5 AA5 GLN B 62 GLY B 84 1 23 HELIX 6 AA6 LEU C 45 PHE C 52 1 8 HELIX 7 AA7 GLU C 55 SER C 77 1 23 HELIX 8 AA8 THR D 49 LEU D 51 5 3 HELIX 9 AA9 GLY D 52 GLN D 62 1 11 HELIX 10 AB1 GLN D 62 VAL D 72 1 11 HELIX 11 AB2 ARG D 75 GLY D 84 1 10 SHEET 1 AA1 8 GLU A 40 TRP A 43 0 SHEET 2 AA1 8 ASP A 29 ASP A 35 -1 N ASP A 35 O GLU A 40 SHEET 3 AA1 8 GLY A 20 PHE A 26 -1 N PHE A 24 O PHE A 32 SHEET 4 AA1 8 HIS A 5 GLN A 14 -1 N THR A 8 O GLU A 25 SHEET 5 AA1 8 LEU B 8 PHE B 18 -1 O CYS B 15 N SER A 7 SHEET 6 AA1 8 THR B 21 TYR B 30 -1 O ILE B 29 N GLN B 10 SHEET 7 AA1 8 GLU B 33 ASP B 39 -1 O GLU B 33 N TYR B 30 SHEET 8 AA1 8 PHE B 45 ALA B 47 -1 O ARG B 46 N ARG B 37 SHEET 1 AA2 4 GLU A 88 PRO A 93 0 SHEET 2 AA2 4 ASN A 103 PHE A 112 -1 O ASP A 110 N GLU A 88 SHEET 3 AA2 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 SHEET 4 AA2 4 VAL A 132 GLU A 134 -1 N ALA A 133 O TYR A 150 SHEET 1 AA3 4 GLU A 88 PRO A 93 0 SHEET 2 AA3 4 ASN A 103 PHE A 112 -1 O ASP A 110 N GLU A 88 SHEET 3 AA3 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 SHEET 4 AA3 4 LEU A 138 PRO A 139 -1 N LEU A 138 O HIS A 146 SHEET 1 AA4 4 GLU A 126 LEU A 127 0 SHEET 2 AA4 4 ASN A 118 CYS A 123 -1 N CYS A 123 O GLU A 126 SHEET 3 AA4 4 TYR A 161 GLU A 166 -1 O ARG A 164 N THR A 120 SHEET 4 AA4 4 LEU A 174 TRP A 178 -1 O LEU A 174 N VAL A 165 SHEET 1 AA5 4 ARG B 96 PRO B 101 0 SHEET 2 AA5 4 ASN B 111 PHE B 120 -1 O HIS B 116 N ASN B 98 SHEET 3 AA5 4 PHE B 153 MET B 161 -1 O MET B 161 N ASN B 111 SHEET 4 AA5 4 VAL B 140 SER B 142 -1 N VAL B 141 O MET B 158 SHEET 1 AA6 4 ARG B 96 PRO B 101 0 SHEET 2 AA6 4 ASN B 111 PHE B 120 -1 O HIS B 116 N ASN B 98 SHEET 3 AA6 4 PHE B 153 MET B 161 -1 O MET B 161 N ASN B 111 SHEET 4 AA6 4 ILE B 146 ARG B 147 -1 N ILE B 146 O GLN B 154 SHEET 1 AA7 4 GLN B 134 GLU B 136 0 SHEET 2 AA7 4 GLN B 126 LEU B 131 -1 N TRP B 129 O GLU B 136 SHEET 3 AA7 4 VAL B 168 GLU B 174 -1 O THR B 170 N PHE B 130 SHEET 4 AA7 4 VAL B 182 LYS B 187 -1 O VAL B 182 N VAL B 173 SHEET 1 AA8 8 GLU C 40 TRP C 43 0 SHEET 2 AA8 8 ASP C 29 ASP C 35 -1 N ASP C 35 O GLU C 40 SHEET 3 AA8 8 GLY C 20 PHE C 26 -1 N PHE C 24 O PHE C 32 SHEET 4 AA8 8 HIS C 5 GLN C 14 -1 N THR C 8 O GLU C 25 SHEET 5 AA8 8 LEU D 8 PHE D 18 -1 O CYS D 15 N SER C 7 SHEET 6 AA8 8 THR D 21 TYR D 30 -1 O ILE D 29 N GLN D 10 SHEET 7 AA8 8 GLU D 33 ASP D 39 -1 O GLU D 33 N TYR D 30 SHEET 8 AA8 8 PHE D 45 ALA D 47 -1 O ARG D 46 N ARG D 37 SHEET 1 AA9 4 GLU C 88 PRO C 93 0 SHEET 2 AA9 4 ASN C 103 PHE C 112 -1 O ILE C 106 N PHE C 92 SHEET 3 AA9 4 PHE C 145 PHE C 153 -1 O LEU C 151 N LEU C 105 SHEET 4 AA9 4 VAL C 132 GLU C 134 -1 N ALA C 133 O TYR C 150 SHEET 1 AB1 4 GLU C 88 PRO C 93 0 SHEET 2 AB1 4 ASN C 103 PHE C 112 -1 O ILE C 106 N PHE C 92 SHEET 3 AB1 4 PHE C 145 PHE C 153 -1 O LEU C 151 N LEU C 105 SHEET 4 AB1 4 LEU C 138 PRO C 139 -1 N LEU C 138 O HIS C 146 SHEET 1 AB2 4 GLU C 126 LEU C 127 0 SHEET 2 AB2 4 ASN C 118 CYS C 123 -1 N CYS C 123 O GLU C 126 SHEET 3 AB2 4 TYR C 161 GLU C 166 -1 O ARG C 164 N THR C 120 SHEET 4 AB2 4 LEU C 174 TRP C 178 -1 O LYS C 176 N CYS C 163 SHEET 1 AB3 4 ARG D 96 PRO D 101 0 SHEET 2 AB3 4 ASN D 111 PHE D 120 -1 O HIS D 116 N ASN D 98 SHEET 3 AB3 4 PHE D 153 MET D 161 -1 O MET D 161 N ASN D 111 SHEET 4 AB3 4 VAL D 140 SER D 142 -1 N VAL D 141 O MET D 158 SHEET 1 AB4 4 ARG D 96 PRO D 101 0 SHEET 2 AB4 4 ASN D 111 PHE D 120 -1 O HIS D 116 N ASN D 98 SHEET 3 AB4 4 PHE D 153 MET D 161 -1 O MET D 161 N ASN D 111 SHEET 4 AB4 4 ILE D 146 ARG D 147 -1 N ILE D 146 O GLN D 154 SHEET 1 AB5 4 GLN D 134 GLU D 135 0 SHEET 2 AB5 4 GLN D 126 LEU D 131 -1 N LEU D 131 O GLN D 134 SHEET 3 AB5 4 VAL D 168 GLU D 174 -1 O THR D 170 N PHE D 130 SHEET 4 AB5 4 VAL D 182 LYS D 187 -1 O VAL D 182 N VAL D 173 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.02 SSBOND 2 CYS B 15 CYS B 77 1555 1555 2.04 SSBOND 3 CYS B 115 CYS B 171 1555 1555 2.04 SSBOND 4 CYS C 107 CYS C 163 1555 1555 2.02 SSBOND 5 CYS D 15 CYS D 77 1555 1555 2.06 SSBOND 6 CYS D 115 CYS D 171 1555 1555 2.03 LINK ND2 ASN A 78 C1 NAG A 202 1555 1555 1.44 LINK ND2 ASN A 118 C1 NAG A 201 1555 1555 1.43 LINK ND2 ASN C 78 C1 NAG C 202 1555 1555 1.43 LINK ND2 ASN C 118 C1 NAG C 201 1555 1555 1.44 CISPEP 1 ARG A 17 PRO A 18 0 3.64 CISPEP 2 PHE A 113 PRO A 114 0 2.41 CISPEP 3 ILE B -15 GLY B -14 0 5.55 CISPEP 4 TYR B 121 PRO B 122 0 -0.41 CISPEP 5 ARG C 17 PRO C 18 0 -0.28 CISPEP 6 PHE C 113 PRO C 114 0 2.82 CISPEP 7 TYR D 121 PRO D 122 0 0.32 CRYST1 77.250 102.440 120.878 90.00 90.00 90.00 P 21 21 21 8 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 0.012945 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009762 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008273 0.00000