HEADER IMMUNE SYSTEM 18-OCT-05 2BC4 TITLE CRYSTAL STRUCTURE OF HLA-DM CAVEAT 2BC4 NAG E 1 HAS WRONG CHIRALITY AT ATOM C1 NAG F 1 HAS WRONG CAVEAT 2 2BC4 CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DM ALPHA CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: MHC CLASS II ANTIGEN DMA; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DM BETA CHAIN; COMPND 8 CHAIN: B, D; COMPND 9 SYNONYM: MHC CLASS II ANTIGEN DMB; COMPND 10 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-DMA, DMA, RING6; SOURCE 6 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FRUIT FLY; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7227; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: STABLE TRANSFECTION PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRMHA-3; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: HLA-DMB, DMB, RING7; SOURCE 16 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 17 EXPRESSION_SYSTEM_COMMON: FRUIT FLY; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 7227; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: STABLE TRANSFECTION PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PRMHA-3 KEYWDS MHC CLASS II, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.J.NICHOLSON,B.MORADI,N.P.SETH,X.XING,G.D.CUNY,R.L.STEIN, AUTHOR 2 K.W.WUCHERPFENNIG REVDAT 7 30-OCT-24 2BC4 1 REMARK REVDAT 6 20-SEP-23 2BC4 1 REMARK REVDAT 5 21-DEC-22 2BC4 1 SEQADV HETSYN REVDAT 4 29-JUL-20 2BC4 1 CAVEAT COMPND REMARK HET REVDAT 4 2 1 HETNAM FORMUL LINK SITE REVDAT 4 3 1 ATOM REVDAT 3 18-OCT-17 2BC4 1 REMARK REVDAT 2 24-FEB-09 2BC4 1 VERSN REVDAT 1 23-MAY-06 2BC4 0 JRNL AUTH M.J.NICHOLSON,B.MORADI,N.P.SETH,X.XING,G.D.CUNY,R.L.STEIN, JRNL AUTH 2 K.W.WUCHERPFENNIG JRNL TITL SMALL MOLECULES THAT ENHANCE THE CATALYTIC EFFICIENCY OF JRNL TITL 2 HLA-DM. JRNL REF J.IMMUNOL. V. 176 4208 2006 JRNL REFN ISSN 0022-1767 JRNL PMID 16547258 REMARK 2 REMARK 2 RESOLUTION. 2.27 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.27 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 54814 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1477 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 6143 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 104 REMARK 3 SOLVENT ATOMS : 420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.13700 REMARK 3 B22 (A**2) : 4.40400 REMARK 3 B33 (A**2) : -2.26700 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.413 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 41.12 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 5 : CNS_TOPPAR:CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : CNS_TOPPAR:PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CNS_TOPPAR:DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : CNS_TOPPAR:WATER.TOP REMARK 3 TOPOLOGY FILE 4 : CNS_TOPPAR:ION.TOP REMARK 3 TOPOLOGY FILE 5 : CNS_TOPPAR:CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2BC4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-OCT-05. REMARK 100 THE DEPOSITION ID IS D_1000034923. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-AUG-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9195 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59797 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.270 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : 0.05700 REMARK 200 FOR THE DATA SET : 12.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.27 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.30900 REMARK 200 R SYM FOR SHELL (I) : 0.31000 REMARK 200 FOR SHELL : 5.020 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 1HDM (ALANINE SUBSTITUTION) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M LITHIUM SULFATE, 0.3M AMMONIUM REMARK 280 SULFATE, 0.1M SODIUM CITRATE BUFFER, PH 5.4, VAPOR DIFFUSION, REMARK 280 HANGING 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 49.03400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.10350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.21000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.10350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 49.03400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.21000 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, 3 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 300 REMARK: THE BIOLOGICAL UNIT IS A HETERODIMER. THERE ARE 2 REMARK 300 BIOLOGICAL UNITS IN THE ASYMMETRIC UNIT (CHAINS A & B AND CHAINS C & REMARK 300 D). 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: 6510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -49.0 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -111.0 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 APPLY THE FOLLOWING TO CHAINS: C, D, F REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 98.06800 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -54.21000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 55.10350 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 VAL A 1 REMARK 465 PRO A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 4 REMARK 465 PRO A 5 REMARK 465 THR A 6 REMARK 465 PRO A 7 REMARK 465 MET A 8 REMARK 465 TRP A 9 REMARK 465 PRO A 10 REMARK 465 ASP A 11 REMARK 465 ASP A 12 REMARK 465 LEU A 201 REMARK 465 LEU A 202 REMARK 465 GLU A 203 REMARK 465 ASP A 204 REMARK 465 TYR A 205 REMARK 465 LYS A 206 REMARK 465 ASP A 207 REMARK 465 ASP A 208 REMARK 465 ASP A 209 REMARK 465 ASP A 210 REMARK 465 LYS A 211 REMARK 465 GLY B 1 REMARK 465 GLY B 2 REMARK 465 SER B 194 REMARK 465 PRO B 195 REMARK 465 MET B 196 REMARK 465 GLN B 197 REMARK 465 THR B 198 REMARK 465 LEU B 199 REMARK 465 LYS B 200 REMARK 465 LYS B 201 REMARK 465 PRO B 202 REMARK 465 PRO B 203 REMARK 465 THR B 204 REMARK 465 PRO B 205 REMARK 465 PRO B 206 REMARK 465 PRO B 207 REMARK 465 GLU B 208 REMARK 465 PRO B 209 REMARK 465 GLU B 210 REMARK 465 THR B 211 REMARK 465 VAL C 1 REMARK 465 PRO C 2 REMARK 465 GLU C 3 REMARK 465 ALA C 4 REMARK 465 PRO C 5 REMARK 465 THR C 6 REMARK 465 PRO C 7 REMARK 465 MET C 8 REMARK 465 TRP C 9 REMARK 465 PRO C 10 REMARK 465 ASP C 11 REMARK 465 ASP C 207 REMARK 465 ASP C 208 REMARK 465 ASP C 209 REMARK 465 ASP C 210 REMARK 465 LYS C 211 REMARK 465 GLY D 1 REMARK 465 GLY D 2 REMARK 465 LYS D 200 REMARK 465 LYS D 201 REMARK 465 PRO D 202 REMARK 465 PRO D 203 REMARK 465 THR D 204 REMARK 465 PRO D 205 REMARK 465 PRO D 206 REMARK 465 PRO D 207 REMARK 465 GLU D 208 REMARK 465 PRO D 209 REMARK 465 GLU D 210 REMARK 465 THR D 211 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 ARG A 98 CD - NE - CZ ANGL. DEV. = 10.5 DEGREES REMARK 500 ARG A 98 NE - CZ - NH1 ANGL. DEV. = -7.3 DEGREES REMARK 500 ARG A 98 NE - CZ - NH2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG C 98 CD - NE - CZ ANGL. DEV. = 10.6 DEGREES REMARK 500 ARG C 98 NE - CZ - NH1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG C 98 NE - CZ - NH2 ANGL. DEV. = -7.2 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 ASP A 38 -123.78 53.07 REMARK 500 ASP A 91 107.44 -58.28 REMARK 500 GLU A 181 128.71 -25.58 REMARK 500 ILE A 182 47.02 80.08 REMARK 500 GLU B 39 31.91 -76.98 REMARK 500 GLU B 40 -18.93 -160.54 REMARK 500 PRO B 124 -173.02 -66.18 REMARK 500 SER B 167 18.58 -143.14 REMARK 500 TYR B 168 -26.81 61.12 REMARK 500 LEU C 13 109.83 64.99 REMARK 500 ASP C 38 -124.31 54.84 REMARK 500 GLU C 65 128.17 -32.56 REMARK 500 ALA C 69 -62.61 -23.62 REMARK 500 GLU C 181 128.69 -24.78 REMARK 500 ILE C 182 47.15 79.89 REMARK 500 GLU D 39 21.67 -72.83 REMARK 500 GLU D 40 -13.67 -145.10 REMARK 500 PRO D 124 -174.50 -66.08 REMARK 500 HIS D 141 35.18 -83.30 REMARK 500 SER D 167 31.89 -143.37 REMARK 500 TYR D 168 -14.20 45.44 REMARK 500 ILE D 179 -9.57 -58.20 REMARK 500 PRO D 184 154.77 -47.08 REMARK 500 SER D 194 -45.19 -29.09 REMARK 500 THR D 198 -157.38 -146.10 REMARK 500 REMARK 500 REMARK: NULL DBREF 2BC4 A 1 203 GB 18765715 NP_006111 27 229 DBREF 2BC4 C 1 203 GB 18765715 NP_006111 27 229 DBREF 2BC4 B 1 200 GB 4504399 NP_002109 19 218 DBREF 2BC4 D 1 200 GB 4504399 NP_002109 19 218 SEQADV 2BC4 ASP A 204 GB 18765715 EXPRESSION TAG SEQADV 2BC4 TYR A 205 GB 18765715 EXPRESSION TAG SEQADV 2BC4 LYS A 206 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP A 207 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP A 208 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP A 209 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP A 210 GB 18765715 EXPRESSION TAG SEQADV 2BC4 LYS A 211 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP C 204 GB 18765715 EXPRESSION TAG SEQADV 2BC4 TYR C 205 GB 18765715 EXPRESSION TAG SEQADV 2BC4 LYS C 206 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP C 207 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP C 208 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP C 209 GB 18765715 EXPRESSION TAG SEQADV 2BC4 ASP C 210 GB 18765715 EXPRESSION TAG SEQADV 2BC4 LYS C 211 GB 18765715 EXPRESSION TAG SEQADV 2BC4 LYS B 201 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO B 202 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO B 203 GB 4504399 EXPRESSION TAG SEQADV 2BC4 THR B 204 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO B 205 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO B 206 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO B 207 GB 4504399 EXPRESSION TAG SEQADV 2BC4 GLU B 208 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO B 209 GB 4504399 EXPRESSION TAG SEQADV 2BC4 GLU B 210 GB 4504399 EXPRESSION TAG SEQADV 2BC4 THR B 211 GB 4504399 EXPRESSION TAG SEQADV 2BC4 LYS D 201 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO D 202 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO D 203 GB 4504399 EXPRESSION TAG SEQADV 2BC4 THR D 204 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO D 205 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO D 206 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO D 207 GB 4504399 EXPRESSION TAG SEQADV 2BC4 GLU D 208 GB 4504399 EXPRESSION TAG SEQADV 2BC4 PRO D 209 GB 4504399 EXPRESSION TAG SEQADV 2BC4 GLU D 210 GB 4504399 EXPRESSION TAG SEQADV 2BC4 THR D 211 GB 4504399 EXPRESSION TAG SEQRES 1 A 211 VAL PRO GLU ALA PRO THR PRO MET TRP PRO ASP ASP LEU SEQRES 2 A 211 GLN ASN HIS THR PHE LEU HIS THR VAL TYR CYS GLN ASP SEQRES 3 A 211 GLY SER PRO SER VAL GLY LEU SER GLU ALA TYR ASP GLU SEQRES 4 A 211 ASP GLN LEU PHE PHE PHE ASP PHE SER GLN ASN THR ARG SEQRES 5 A 211 VAL PRO ARG LEU PRO GLU PHE ALA ASP TRP ALA GLN GLU SEQRES 6 A 211 GLN GLY ASP ALA PRO ALA ILE LEU PHE ASP LYS GLU PHE SEQRES 7 A 211 CYS GLU TRP MET ILE GLN GLN ILE GLY PRO LYS LEU ASP SEQRES 8 A 211 GLY LYS ILE PRO VAL SER ARG GLY PHE PRO ILE ALA GLU SEQRES 9 A 211 VAL PHE THR LEU LYS PRO LEU GLU PHE GLY LYS PRO ASN SEQRES 10 A 211 THR LEU VAL CYS PHE VAL SER ASN LEU PHE PRO PRO MET SEQRES 11 A 211 LEU THR VAL ASN TRP GLN HIS HIS SER VAL PRO VAL GLU SEQRES 12 A 211 GLY PHE GLY PRO THR PHE VAL SER ALA VAL ASP GLY LEU SEQRES 13 A 211 SER PHE GLN ALA PHE SER TYR LEU ASN PHE THR PRO GLU SEQRES 14 A 211 PRO SER ASP ILE PHE SER CYS ILE VAL THR HIS GLU ILE SEQRES 15 A 211 ASP ARG TYR THR ALA ILE ALA TYR TRP VAL PRO ARG ASN SEQRES 16 A 211 ALA LEU PRO SER ASP LEU LEU GLU ASP TYR LYS ASP ASP SEQRES 17 A 211 ASP ASP LYS SEQRES 1 B 211 GLY GLY PHE VAL ALA HIS VAL GLU SER THR CYS LEU LEU SEQRES 2 B 211 ASP ASP ALA GLY THR PRO LYS ASP PHE THR TYR CYS ILE SEQRES 3 B 211 SER PHE ASN LYS ASP LEU LEU THR CYS TRP ASP PRO GLU SEQRES 4 B 211 GLU ASN LYS MET ALA PRO CYS GLU PHE GLY VAL LEU ASN SEQRES 5 B 211 SER LEU ALA ASN VAL LEU SER GLN HIS LEU ASN GLN LYS SEQRES 6 B 211 ASP THR LEU MET GLN ARG LEU ARG ASN GLY LEU GLN ASN SEQRES 7 B 211 CYS ALA THR HIS THR GLN PRO PHE TRP GLY SER LEU THR SEQRES 8 B 211 ASN ARG THR ARG PRO PRO SER VAL GLN VAL ALA LYS THR SEQRES 9 B 211 THR PRO PHE ASN THR ARG GLU PRO VAL MET LEU ALA CYS SEQRES 10 B 211 TYR VAL TRP GLY PHE TYR PRO ALA GLU VAL THR ILE THR SEQRES 11 B 211 TRP ARG LYS ASN GLY LYS LEU VAL MET PRO HIS SER SER SEQRES 12 B 211 ALA HIS LYS THR ALA GLN PRO ASN GLY ASP TRP THR TYR SEQRES 13 B 211 GLN THR LEU SER HIS LEU ALA LEU THR PRO SER TYR GLY SEQRES 14 B 211 ASP THR TYR THR CYS VAL VAL GLU HIS ILE GLY ALA PRO SEQRES 15 B 211 GLU PRO ILE LEU ARG ASP TRP THR PRO GLY LEU SER PRO SEQRES 16 B 211 MET GLN THR LEU LYS LYS PRO PRO THR PRO PRO PRO GLU SEQRES 17 B 211 PRO GLU THR SEQRES 1 C 211 VAL PRO GLU ALA PRO THR PRO MET TRP PRO ASP ASP LEU SEQRES 2 C 211 GLN ASN HIS THR PHE LEU HIS THR VAL TYR CYS GLN ASP SEQRES 3 C 211 GLY SER PRO SER VAL GLY LEU SER GLU ALA TYR ASP GLU SEQRES 4 C 211 ASP GLN LEU PHE PHE PHE ASP PHE SER GLN ASN THR ARG SEQRES 5 C 211 VAL PRO ARG LEU PRO GLU PHE ALA ASP TRP ALA GLN GLU SEQRES 6 C 211 GLN GLY ASP ALA PRO ALA ILE LEU PHE ASP LYS GLU PHE SEQRES 7 C 211 CYS GLU TRP MET ILE GLN GLN ILE GLY PRO LYS LEU ASP SEQRES 8 C 211 GLY LYS ILE PRO VAL SER ARG GLY PHE PRO ILE ALA GLU SEQRES 9 C 211 VAL PHE THR LEU LYS PRO LEU GLU PHE GLY LYS PRO ASN SEQRES 10 C 211 THR LEU VAL CYS PHE VAL SER ASN LEU PHE PRO PRO MET SEQRES 11 C 211 LEU THR VAL ASN TRP GLN HIS HIS SER VAL PRO VAL GLU SEQRES 12 C 211 GLY PHE GLY PRO THR PHE VAL SER ALA VAL ASP GLY LEU SEQRES 13 C 211 SER PHE GLN ALA PHE SER TYR LEU ASN PHE THR PRO GLU SEQRES 14 C 211 PRO SER ASP ILE PHE SER CYS ILE VAL THR HIS GLU ILE SEQRES 15 C 211 ASP ARG TYR THR ALA ILE ALA TYR TRP VAL PRO ARG ASN SEQRES 16 C 211 ALA LEU PRO SER ASP LEU LEU GLU ASP TYR LYS ASP ASP SEQRES 17 C 211 ASP ASP LYS SEQRES 1 D 211 GLY GLY PHE VAL ALA HIS VAL GLU SER THR CYS LEU LEU SEQRES 2 D 211 ASP ASP ALA GLY THR PRO LYS ASP PHE THR TYR CYS ILE SEQRES 3 D 211 SER PHE ASN LYS ASP LEU LEU THR CYS TRP ASP PRO GLU SEQRES 4 D 211 GLU ASN LYS MET ALA PRO CYS GLU PHE GLY VAL LEU ASN SEQRES 5 D 211 SER LEU ALA ASN VAL LEU SER GLN HIS LEU ASN GLN LYS SEQRES 6 D 211 ASP THR LEU MET GLN ARG LEU ARG ASN GLY LEU GLN ASN SEQRES 7 D 211 CYS ALA THR HIS THR GLN PRO PHE TRP GLY SER LEU THR SEQRES 8 D 211 ASN ARG THR ARG PRO PRO SER VAL GLN VAL ALA LYS THR SEQRES 9 D 211 THR PRO PHE ASN THR ARG GLU PRO VAL MET LEU ALA CYS SEQRES 10 D 211 TYR VAL TRP GLY PHE TYR PRO ALA GLU VAL THR ILE THR SEQRES 11 D 211 TRP ARG LYS ASN GLY LYS LEU VAL MET PRO HIS SER SER SEQRES 12 D 211 ALA HIS LYS THR ALA GLN PRO ASN GLY ASP TRP THR TYR SEQRES 13 D 211 GLN THR LEU SER HIS LEU ALA LEU THR PRO SER TYR GLY SEQRES 14 D 211 ASP THR TYR THR CYS VAL VAL GLU HIS ILE GLY ALA PRO SEQRES 15 D 211 GLU PRO ILE LEU ARG ASP TRP THR PRO GLY LEU SER PRO SEQRES 16 D 211 MET GLN THR LEU LYS LYS PRO PRO THR PRO PRO PRO GLU SEQRES 17 D 211 PRO GLU THR MODRES 2BC4 ASN A 15 ASN GLYCOSYLATION SITE MODRES 2BC4 ASN C 15 ASN GLYCOSYLATION SITE HET NAG E 1 14 HET NDG E 2 14 HET BMA E 3 11 HET BMA E 4 11 HET NAG F 1 14 HET NDG F 2 14 HET BMA F 3 11 HET BMA F 4 11 HET CL A 503 1 HET CL B 501 1 HET CL C 504 1 HET CL D 502 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NDG 2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM CL CHLORIDE ION 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 NDG N-ACETYL-ALPHA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 NDG ALPHA-D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2- HETSYN 3 NDG ACETAMIDO-2-DEOXY-GLUCOSE; 2-(ACETYLAMINO)-2-DEOXY-A- HETSYN 4 NDG D-GLUCOPYRANOSE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 5 NAG 2(C8 H15 N O6) FORMUL 5 NDG 2(C8 H15 N O6) FORMUL 5 BMA 4(C6 H12 O6) FORMUL 7 CL 4(CL 1-) FORMUL 11 HOH *420(H2 O) HELIX 1 1 LEU A 56 GLN A 64 5 9 HELIX 2 2 ASP A 68 GLN A 85 1 18 HELIX 3 3 LEU B 51 GLN B 64 1 14 HELIX 4 4 LYS B 65 ASN B 74 1 10 HELIX 5 5 ASN B 74 ASN B 92 1 19 HELIX 6 6 LEU C 56 GLU C 58 5 3 HELIX 7 7 PHE C 59 GLN C 64 1 6 HELIX 8 8 ASP C 68 ILE C 86 1 19 HELIX 9 9 LEU C 202 LYS C 206 5 5 HELIX 10 10 PRO D 38 ASN D 41 5 4 HELIX 11 11 LEU D 51 GLN D 64 1 14 HELIX 12 12 LYS D 65 ASN D 74 1 10 HELIX 13 13 ASN D 74 ASN D 92 1 19 HELIX 14 14 LEU D 193 PRO D 195 5 3 SHEET 1 A 8 THR A 51 PRO A 54 0 SHEET 2 A 8 ASP A 40 ASP A 46 -1 N ASP A 46 O THR A 51 SHEET 3 A 8 VAL A 31 TYR A 37 -1 N GLU A 35 O LEU A 42 SHEET 4 A 8 ASN A 15 GLN A 25 -1 N THR A 21 O SER A 34 SHEET 5 A 8 VAL B 4 ASP B 14 -1 O SER B 9 N HIS A 20 SHEET 6 A 8 PRO B 19 PHE B 28 -1 O LYS B 20 N LEU B 12 SHEET 7 A 8 ASP B 31 ASP B 37 -1 O THR B 34 N ILE B 26 SHEET 8 A 8 LYS B 42 PRO B 45 -1 O ALA B 44 N CYS B 35 SHEET 1 B 4 ILE A 102 THR A 107 0 SHEET 2 B 4 ASN A 117 LEU A 126 -1 O VAL A 120 N PHE A 106 SHEET 3 B 4 SER A 157 PHE A 166 -1 O LEU A 164 N LEU A 119 SHEET 4 B 4 PHE A 149 VAL A 153 -1 N PHE A 149 O PHE A 161 SHEET 1 C 4 VAL A 140 VAL A 142 0 SHEET 2 C 4 LEU A 131 HIS A 137 -1 N HIS A 137 O VAL A 140 SHEET 3 C 4 PHE A 174 HIS A 180 -1 O ILE A 177 N ASN A 134 SHEET 4 C 4 TYR A 185 TRP A 191 -1 O ALA A 187 N VAL A 178 SHEET 1 D 4 SER B 98 LYS B 103 0 SHEET 2 D 4 VAL B 113 PHE B 122 -1 O TYR B 118 N GLN B 100 SHEET 3 D 4 TYR B 156 LEU B 164 -1 O LEU B 164 N VAL B 113 SHEET 4 D 4 GLN B 149 PRO B 150 -1 N GLN B 149 O GLN B 157 SHEET 1 E 4 LYS B 136 VAL B 138 0 SHEET 2 E 4 THR B 128 LYS B 133 -1 N LYS B 133 O LYS B 136 SHEET 3 E 4 TYR B 172 GLU B 177 -1 O THR B 173 N ARG B 132 SHEET 4 E 4 ILE B 185 TRP B 189 -1 O ILE B 185 N VAL B 176 SHEET 1 F 8 THR C 51 PRO C 54 0 SHEET 2 F 8 ASP C 40 ASP C 46 -1 N ASP C 46 O THR C 51 SHEET 3 F 8 VAL C 31 TYR C 37 -1 N GLU C 35 O LEU C 42 SHEET 4 F 8 ASN C 15 GLN C 25 -1 N THR C 21 O SER C 34 SHEET 5 F 8 VAL D 4 ASP D 14 -1 O SER D 9 N HIS C 20 SHEET 6 F 8 PRO D 19 PHE D 28 -1 O LYS D 20 N LEU D 12 SHEET 7 F 8 ASP D 31 TRP D 36 -1 O THR D 34 N ILE D 26 SHEET 8 F 8 MET D 43 PRO D 45 -1 O ALA D 44 N CYS D 35 SHEET 1 G 4 ILE C 102 THR C 107 0 SHEET 2 G 4 ASN C 117 LEU C 126 -1 O VAL C 120 N PHE C 106 SHEET 3 G 4 SER C 157 PHE C 166 -1 O LEU C 164 N LEU C 119 SHEET 4 G 4 PHE C 145 VAL C 153 -1 N PHE C 145 O TYR C 163 SHEET 1 H 4 VAL C 140 VAL C 142 0 SHEET 2 H 4 LEU C 131 HIS C 137 -1 N HIS C 137 O VAL C 140 SHEET 3 H 4 PHE C 174 HIS C 180 -1 O ILE C 177 N ASN C 134 SHEET 4 H 4 TYR C 185 TRP C 191 -1 O ALA C 187 N VAL C 178 SHEET 1 I 2 SER C 199 ASP C 200 0 SHEET 2 I 2 GLN D 197 THR D 198 -1 O THR D 198 N SER C 199 SHEET 1 J 4 SER D 98 LYS D 103 0 SHEET 2 J 4 VAL D 113 PHE D 122 -1 O TYR D 118 N GLN D 100 SHEET 3 J 4 TYR D 156 LEU D 164 -1 O SER D 160 N CYS D 117 SHEET 4 J 4 GLN D 149 PRO D 150 -1 N GLN D 149 O GLN D 157 SHEET 1 K 4 LEU D 137 VAL D 138 0 SHEET 2 K 4 THR D 128 LYS D 133 -1 N TRP D 131 O VAL D 138 SHEET 3 K 4 TYR D 172 GLU D 177 -1 O VAL D 175 N THR D 130 SHEET 4 K 4 ILE D 185 TRP D 189 -1 O ARG D 187 N CYS D 174 SSBOND 1 CYS A 24 CYS A 79 1555 1555 2.04 SSBOND 2 CYS A 121 CYS A 176 1555 1555 2.03 SSBOND 3 CYS B 11 CYS B 79 1555 1555 2.04 SSBOND 4 CYS B 25 CYS B 35 1555 1555 2.04 SSBOND 5 CYS B 117 CYS B 174 1555 1555 2.03 SSBOND 6 CYS C 24 CYS C 79 1555 1555 2.03 SSBOND 7 CYS C 121 CYS C 176 1555 1555 2.03 SSBOND 8 CYS D 11 CYS D 79 1555 1555 2.04 SSBOND 9 CYS D 25 CYS D 35 1555 1555 2.04 SSBOND 10 CYS D 117 CYS D 174 1555 1555 2.03 LINK ND2 ASN A 15 C1 NAG E 1 1555 1555 1.46 LINK ND2 ASN C 15 C1 NAG F 1 1555 1555 1.46 LINK O4 NAG E 1 C1 NDG E 2 1555 1555 1.40 LINK O4 NDG E 2 C1 BMA E 3 1555 1555 1.39 LINK O3 BMA E 3 C1 BMA E 4 1555 1555 1.40 LINK O4 NAG F 1 C1 NDG F 2 1555 1555 1.40 LINK O4 NDG F 2 C1 BMA F 3 1555 1555 1.39 LINK O3 BMA F 3 C1 BMA F 4 1555 1555 1.40 CISPEP 1 SER A 28 PRO A 29 0 -0.33 CISPEP 2 PHE A 127 PRO A 128 0 -0.65 CISPEP 3 TYR B 123 PRO B 124 0 0.35 CISPEP 4 SER C 28 PRO C 29 0 -0.15 CISPEP 5 PHE C 127 PRO C 128 0 0.45 CISPEP 6 TYR D 123 PRO D 124 0 -0.84 CRYST1 98.068 108.420 110.207 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 0.010197 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009223 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009074 0.00000