PDB Short entry for 1D6V HEADER IMMUNE SYSTEM 15-OCT-99 1D6V TITLE CONFORMATION EFFECTS IN BIOLOGICAL CATALYSIS INTRODUCED BY OXY-COPE TITLE 2 ANTIBODY MATURATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHIMERIC GERMLINE PRECURSOR OF OXY-COPE CATALYTIC ANTIBODY COMPND 3 AZ-28 (LIGHT CHAIN); COMPND 4 CHAIN: L; COMPND 5 FRAGMENT: CHIMERIC FAB FRAGMENT (UNP Q7TS98 REISUES 23-129, P01834 COMPND 6 RESIDUES 1-104); COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: THE PROTEIN WAS PRODUCED AS A CHIMERIC FAB FRAGMENT. COMPND 9 THE VARIABLE DOMAINS (CHAINS A,L 1-107, CHAINS B,H 1-113) ARE MURINE. COMPND 10 THE CONSTANT DOMAINS (CHAINS A, L 108-211 AND CHAINS B,H 113-214) ARE COMPND 11 HUMAN.; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: CHIMERIC GERMLINE PRECURSOR OF OXY-COPE CATALYTIC ANTIBODY COMPND 14 AZ-28 (HEAVY CHAIN); COMPND 15 CHAIN: H; COMPND 16 FRAGMENT: CHIMERIC FAB FRAGMENT (UNP K7T9I5 RESIDUES 1-112, P0DOX5 COMPND 17 RESIDUES 120-220); COMPND 18 ENGINEERED: YES; COMPND 19 OTHER_DETAILS: THE PROTEIN WAS PRODUCED AS A CHIMERIC FAB FRAGMENT. COMPND 20 THE VARIABLE DOMAINS (CHAINS A,L 1-107, CHAINS B,H 1-113) ARE MURINE. COMPND 21 THE CONSTANT DOMAINS (CHAINS A, L 108-211 AND CHAINS B,H 113-214) ARE COMPND 22 HUMAN. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS, HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: MOUSE, HUMAN; SOURCE 4 ORGANISM_TAXID: 10090, 9606; SOURCE 5 GENE: IGKC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MUS MUSCULUS, HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: MOUSE, HUMAN; SOURCE 11 ORGANISM_TAXID: 10090, 9606; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR E.C.MUNDORFF,M.A.HANSON,P.G.SCHULTZ,R.C.STEVENS REVDAT 4 21-JUN-17 1D6V 1 SOURCE DBREF SEQADV REVDAT 3 24-FEB-09 1D6V 1 VERSN REVDAT 2 04-OCT-00 1D6V 3 ATOM REMARK SHEET REVDAT 1 09-FEB-00 1D6V 0 JRNL AUTH E.C.MUNDORFF,M.A.HANSON,A.VARVAK,H.ULRICH,P.G.SCHULTZ, JRNL AUTH 2 R.C.STEVENS JRNL TITL CONFORMATIONAL EFFECTS IN BIOLOGICAL CATALYSIS: AN JRNL TITL 2 ANTIBODY-CATALYZED OXY-COPE REARRANGEMENT. JRNL REF BIOCHEMISTRY V. 39 627 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10651626 JRNL DOI 10.1021/BI9924314 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.4 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1265132.970 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 83.1 REMARK 3 NUMBER OF REFLECTIONS : 27361 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 SET) : 0.224 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2726 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.12 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3824 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 442 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.012 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3316 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 138 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.77000 REMARK 3 B22 (A**2) : 0.44000 REMARK 3 B33 (A**2) : 0.33000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.70000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.24 REMARK 3 ESD FROM SIGMAA (A) : -0.0 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.03 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.023 REMARK 3 BOND ANGLES (DEGREES) : 2.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 28.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.380 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 : FLAT MODEL REMARK 3 KSOL : 0.46 REMARK 3 BSOL : 64.28 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CPH.PAR REMARK 3 PARAMETER FILE 3 : PAR.LIB REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CPH.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : TOP.LIB REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1D6V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-OCT-99. REMARK 100 THE DEPOSITION ID IS D_1000009847. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 193 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SCALEPACK, DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66483 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 12.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 85.2 REMARK 200 DATA REDUNDANCY : 2.400 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.0000 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9% POLYETHYLENE GLYCOL 4000 250MM REMARK 280 AMMONIUM SULFATE 80MM CADMIUM CHLORIDE 75MM HEPES 20% 1,4 REMARK 280 BUTANEDIOL, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 19K, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 32.22300 REMARK 290 SMTRY3 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H 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 O HOH L 509 O HOH L 535 2.03 REMARK 500 OE2 GLU H 46 O HOH H 416 2.08 REMARK 500 O HOH L 546 O HOH L 562 2.09 REMARK 500 O VAL L 150 O VAL L 191 2.11 REMARK 500 NE2 HIS H 96 O HOH H 454 2.17 REMARK 500 OE2 GLU L 165 O HOH L 523 2.18 REMARK 500 O SER H 54 N SER H 56 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ALA H 88 CA ALA H 88 CB 0.144 REMARK 500 REMARK 500 REMARK: NULL 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 CYS L 23 CA - CB - SG ANGL. DEV. = 8.1 DEGREES REMARK 500 CYS L 194 CA - CB - SG ANGL. DEV. = 7.3 DEGREES REMARK 500 LYS H 38 CD - CE - NZ ANGL. DEV. = -13.9 DEGREES REMARK 500 THR H 57 N - CA - C ANGL. DEV. = 17.0 DEGREES REMARK 500 PRO H 202 C - N - CA ANGL. DEV. = -9.1 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 ALA L 51 -33.41 69.06 REMARK 500 ASN L 52 11.79 -146.76 REMARK 500 ASP L 151 -56.79 -131.67 REMARK 500 ASN L 152 -13.35 -147.81 REMARK 500 LYS L 188 -7.04 -59.65 REMARK 500 SER H 56 -86.77 24.59 REMARK 500 LYS H 62 -39.65 158.68 REMARK 500 ALA H 88 169.33 176.58 REMARK 500 ASP H 100B 32.53 -159.50 REMARK 500 SER H 128 -57.64 -171.96 REMARK 500 LYS H 129 34.31 37.36 REMARK 500 SER H 130 -159.30 -163.52 REMARK 500 THR H 131 100.08 38.16 REMARK 500 SER H 132 75.87 -15.99 REMARK 500 PRO H 147 -168.66 -102.00 REMARK 500 SER H 156 23.88 45.58 REMARK 500 SER H 187 -43.16 -22.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR L 173 0.08 SIDE CHAIN REMARK 500 TYR H 90 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD L 501 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU L 79 OE1 REMARK 620 2 GLU L 79 OE2 43.8 REMARK 620 3 HOH L 554 O 150.5 108.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD L 502 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS H 164 NE2 REMARK 620 2 HOH L 556 O 108.1 REMARK 620 3 ASN L 138 OD1 92.5 101.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD L 503 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH L 568 O REMARK 620 2 HOH L 507 O 91.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD L 504 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU L 81 OE2 REMARK 620 2 HOH L 517 O 86.4 REMARK 620 3 HOH L 566 O 57.9 52.7 REMARK 620 4 GLU L 81 OE1 50.7 135.3 101.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD L 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD L 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD L 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD L 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HOP H 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AXS RELATED DB: PDB REMARK 900 AZ-28 HAPTEN BOUND REMARK 900 RELATED ID: 1D5I RELATED DB: PDB REMARK 900 AZ-28 GERMLINE UNLIGANDED REMARK 900 RELATED ID: 1D5B RELATED DB: PDB REMARK 900 AZ-28 UNLIGANDED DBREF 1D6V L 1 107 UNP Q7TS98 Q7TS98_MOUSE 23 129 DBREF 1D6V L 108 211 UNP P01834 IGKC_HUMAN 1 104 DBREF 1D6V H 9 113 UNP K7T9I5 K7T9I5_MOUSE 1 112 DBREF 1D6V H 114 214 UNP P0DOX5 IGG1_HUMAN 120 220 SEQADV 1D6V TYR L 96 UNP Q7TS98 ARG 118 CONFLICT SEQADV 1D6V SER L 100 UNP Q7TS98 GLY 122 CONFLICT SEQADV 1D6V GLN H 1 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V VAL H 2 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V GLN H 3 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V LEU H 4 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V GLN H 5 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V GLN H 6 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V SER H 7 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V GLY H 8 UNP K7T9I5 EXPRESSION TAG SEQADV 1D6V GLY H 95 UNP K7T9I5 GLU 91 CONFLICT SEQADV 1D6V HIS H 96 UNP K7T9I5 VAL 92 CONFLICT SEQADV 1D6V SER H 97 UNP K7T9I5 ARG 93 CONFLICT SEQADV 1D6V TYR H 98 UNP K7T9I5 ARG 94 CONFLICT SEQADV 1D6V TYR H 99 UNP K7T9I5 ARG 95 CONFLICT SEQADV 1D6V PHE H 100 UNP K7T9I5 TYR 96 CONFLICT SEQADV 1D6V ASP H 100B UNP K7T9I5 ALA 98 CONFLICT SEQADV 1D6V GLY H 100C UNP K7T9I5 MET 99 CONFLICT SEQRES 1 L 211 ASP ILE LYS MET THR GLN SER PRO SER SER MET TYR ALA SEQRES 2 L 211 SER LEU GLY GLU ARG VAL THR ILE THR CYS LYS ALA SER SEQRES 3 L 211 GLN ASP ILE ASN SER TYR LEU SER TRP PHE GLN GLN LYS SEQRES 4 L 211 PRO GLY LYS SER PRO LYS THR LEU ILE TYR ARG ALA ASN SEQRES 5 L 211 ARG LEU VAL ASP GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 211 GLY SER GLY GLN ASP TYR SER LEU THR ILE SER SER LEU SEQRES 7 L 211 GLU TYR GLU ASP MET GLY ILE TYR TYR CYS LEU GLN TYR SEQRES 8 L 211 ASP GLU PHE PRO TYR THR PHE GLY SER GLY THR LYS LEU SEQRES 9 L 211 GLU ILE LYS ARG THR VAL ALA ALA PRO SER VAL PHE ILE SEQRES 10 L 211 PHE PRO PRO SER ASP GLU GLN LEU LYS SER GLY THR ALA SEQRES 11 L 211 SER VAL VAL CYS LEU LEU ASN ASN PHE TYR PRO ARG GLU SEQRES 12 L 211 ALA LYS VAL GLN TRP LYS VAL ASP ASN ALA LEU GLN SER SEQRES 13 L 211 GLY ASN SER GLN GLU SER VAL THR GLU GLN ASP SER LYS SEQRES 14 L 211 ASP SER THR TYR SER LEU SER SER THR LEU THR LEU SER SEQRES 15 L 211 LYS ALA ASP TYR GLU LYS HIS LYS VAL TYR ALA CYS GLU SEQRES 16 L 211 VAL THR HIS GLN GLY LEU SER SER PRO VAL THR LYS SER SEQRES 17 L 211 PHE ASN ARG SEQRES 1 H 221 GLN VAL GLN LEU GLN GLN SER GLY ALA GLU LEU MET LYS SEQRES 2 H 221 PRO GLY ALA SER VAL LYS ILE SER CYS LYS ALA THR GLY SEQRES 3 H 221 TYR THR PHE SER SER TYR TRP ILE GLU TRP VAL LYS GLN SEQRES 4 H 221 ARG PRO GLY HIS GLY LEU GLU TRP ILE GLY GLU ILE LEU SEQRES 5 H 221 PRO GLY SER GLY SER THR ASN TYR ASN GLU LYS PHE LYS SEQRES 6 H 221 GLY LYS ALA THR PHE THR ALA ASP THR SER SER ASN THR SEQRES 7 H 221 ALA TYR MET GLN LEU SER SER LEU THR SER GLU ASP SER SEQRES 8 H 221 ALA VAL TYR TYR CYS ALA ARG GLY HIS SER TYR TYR PHE SEQRES 9 H 221 TYR ASP GLY ASP TYR TRP GLY GLN GLY THR SER VAL THR SEQRES 10 H 221 VAL SER SER ALA SER THR LYS GLY PRO SER VAL PHE PRO SEQRES 11 H 221 LEU ALA PRO SER SER LYS SER THR SER GLY GLY THR ALA SEQRES 12 H 221 ALA LEU GLY CYS LEU VAL LYS ASP TYR PHE PRO GLU PRO SEQRES 13 H 221 VAL THR VAL SER TRP ASN SER GLY ALA LEU THR SER GLY SEQRES 14 H 221 VAL HIS THR PHE PRO ALA VAL LEU GLN SER SER GLY LEU SEQRES 15 H 221 TYR SER LEU SER SER VAL VAL THR VAL PRO SER SER SER SEQRES 16 H 221 LEU GLY THR GLN THR TYR ILE CYS ASN VAL ASN HIS LYS SEQRES 17 H 221 PRO SER ASN THR LYS VAL ASP LYS LYS VAL GLU PRO LYS HET CD L 501 1 HET CD L 502 1 HET CD L 503 1 HET CD L 504 1 HET HOP H 401 28 HETNAM CD CADMIUM ION HETNAM HOP (1S,2S,5S)2-(4-GLUTARIDYLBENZYL)-5-PHENYL-1- HETNAM 2 HOP CYCLOHEXANOL HETSYN HOP OXY-COPE-HAPTEN FORMUL 3 CD 4(CD 2+) FORMUL 7 HOP C23 H27 N O4 FORMUL 8 HOH *138(H2 O) HELIX 1 1 GLU L 79 MET L 83 5 5 HELIX 2 2 SER L 121 SER L 127 1 7 HELIX 3 3 LYS L 183 LYS L 188 1 6 HELIX 4 4 THR H 28 SER H 30 5 3 HELIX 5 5 THR H 83 SER H 87 5 5 HELIX 6 6 SER H 156 ALA H 158 5 3 HELIX 7 7 SER H 187 GLN H 192 1 6 HELIX 8 8 LYS H 201 ASN H 204 5 4 SHEET 1 A 4 MET L 4 SER L 7 0 SHEET 2 A 4 VAL L 19 ALA L 25 -1 N THR L 22 O SER L 7 SHEET 3 A 4 ASP L 70 ILE L 75 -1 O TYR L 71 N CYS L 23 SHEET 4 A 4 PHE L 62 SER L 67 -1 O SER L 63 N THR L 74 SHEET 1 B 5 ARG L 53 LEU L 54 0 SHEET 2 B 5 LYS L 45 TYR L 49 -1 O TYR L 49 N ARG L 53 SHEET 3 B 5 LEU L 33 GLN L 38 -1 O TRP L 35 N LEU L 47 SHEET 4 B 5 GLY L 84 GLN L 90 -1 O ILE L 85 N GLN L 38 SHEET 5 B 5 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 C 6 ARG L 53 LEU L 54 0 SHEET 2 C 6 LYS L 45 TYR L 49 -1 O TYR L 49 N ARG L 53 SHEET 3 C 6 LEU L 33 GLN L 38 -1 O TRP L 35 N LEU L 47 SHEET 4 C 6 GLY L 84 GLN L 90 -1 O ILE L 85 N GLN L 38 SHEET 5 C 6 THR L 102 ILE L 106 -1 O THR L 102 N TYR L 86 SHEET 6 C 6 SER L 10 ALA L 13 1 N MET L 11 O LYS L 103 SHEET 1 D 4 SER L 114 PHE L 118 0 SHEET 2 D 4 THR L 129 PHE L 139 -1 O VAL L 133 N PHE L 118 SHEET 3 D 4 TYR L 173 SER L 182 -1 N TYR L 173 O PHE L 139 SHEET 4 D 4 SER L 159 VAL L 163 -1 O GLN L 160 N THR L 178 SHEET 1 E 3 LYS L 145 LYS L 149 0 SHEET 2 E 3 VAL L 191 THR L 197 -1 O ALA L 193 N LYS L 149 SHEET 3 E 3 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SHEET 1 F 4 GLN H 3 GLN H 6 0 SHEET 2 F 4 VAL H 18 THR H 25 -1 N LYS H 23 O GLN H 5 SHEET 3 F 4 THR H 77 LEU H 82 -1 N ALA H 78 O CYS H 22 SHEET 4 F 4 ALA H 67 ASP H 72 -1 O THR H 68 N GLN H 81 SHEET 1 G 5 SER H 56 TYR H 59 0 SHEET 2 G 5 LEU H 45 LEU H 52 -1 O GLU H 50 N ASN H 58 SHEET 3 G 5 TYR H 32 GLN H 39 -1 N ILE H 34 O ILE H 51 SHEET 4 G 5 ALA H 88 SER H 97 -1 N VAL H 89 O GLN H 39 SHEET 5 G 5 TYR H 102 TRP H 103 -1 O TYR H 102 N ARG H 94 SHEET 1 H 6 SER H 56 TYR H 59 0 SHEET 2 H 6 LEU H 45 LEU H 52 -1 O GLU H 50 N ASN H 58 SHEET 3 H 6 TYR H 32 GLN H 39 -1 N ILE H 34 O ILE H 51 SHEET 4 H 6 ALA H 88 SER H 97 -1 N VAL H 89 O GLN H 39 SHEET 5 H 6 THR H 107 VAL H 111 -1 O THR H 107 N TYR H 90 SHEET 6 H 6 GLU H 10 MET H 12 1 O GLU H 10 N THR H 110 SHEET 1 I 4 SER H 120 LEU H 124 0 SHEET 2 I 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 I 4 TYR H 176 PRO H 185 -1 N TYR H 176 O TYR H 145 SHEET 4 I 4 VAL H 163 THR H 165 -1 O HIS H 164 N VAL H 181 SHEET 1 J 4 SER H 120 LEU H 124 0 SHEET 2 J 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 J 4 TYR H 176 PRO H 185 -1 N TYR H 176 O TYR H 145 SHEET 4 J 4 VAL H 169 LEU H 170 -1 N VAL H 169 O SER H 177 SHEET 1 K 3 THR H 151 TRP H 154 0 SHEET 2 K 3 ILE H 195 HIS H 200 -1 N ASN H 197 O SER H 153 SHEET 3 K 3 THR H 205 LYS H 210 -1 O THR H 205 N HIS H 200 SSBOND 1 CYS L 23 CYS L 88 1555 1555 2.11 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.08 SSBOND 3 CYS H 22 CYS H 92 1555 1555 2.06 SSBOND 4 CYS H 140 CYS H 196 1555 1555 2.07 LINK CD CD L 501 OE1 GLU L 79 1555 1555 3.15 LINK CD CD L 501 OE2 GLU L 79 1555 1555 2.16 LINK CD CD L 501 O HOH L 554 1555 1555 2.64 LINK CD CD L 502 NE2 HIS H 164 1555 1555 2.39 LINK CD CD L 502 O HOH L 556 1555 1555 2.36 LINK CD CD L 502 OD1 ASN L 138 1555 1555 2.44 LINK CD CD L 503 O HOH L 568 1555 1555 2.72 LINK CD CD L 503 O HOH L 507 1555 1555 2.48 LINK CD CD L 504 OE2 GLU L 81 1555 1555 2.30 LINK CD CD L 504 O HOH L 517 1555 1555 2.46 LINK CD CD L 504 O HOH L 566 1555 1555 2.73 LINK CD CD L 504 OE1 GLU L 81 1555 1555 2.81 CISPEP 1 SER L 7 PRO L 8 0 0.02 CISPEP 2 PHE L 94 PRO L 95 0 -0.76 CISPEP 3 TYR L 140 PRO L 141 0 1.16 CISPEP 4 PHE H 146 PRO H 147 0 -0.46 CISPEP 5 GLU H 148 PRO H 149 0 0.43 SITE 1 AC1 2 GLU L 79 HOH L 554 SITE 1 AC2 3 HIS H 164 ASN L 138 HOH L 556 SITE 1 AC3 3 LYS L 45 HOH L 507 HOH L 568 SITE 1 AC4 3 GLU L 81 HOH L 517 HOH L 566 SITE 1 AC5 7 GLU H 35 HIS H 96 TYR H 100A ASP H 101 SITE 2 AC5 7 TRP H 103 LEU L 89 TYR L 91 CRYST1 52.718 64.446 73.870 90.00 99.09 90.00 P 1 21 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 0.018969 0.000000 0.003035 0.00000 SCALE2 0.000000 0.015517 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013709 0.00000