PDB Short entry for 1D5I HEADER IMMUNE SYSTEM 07-OCT-99 1D5I TITLE UNLIGANDED GERMLINE PRECURSOR OF AN OXY-COPE CATALYTIC ANTIBODY 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 SYNONYM: IG KAPPA CHAIN C REGION,IG KAPPA CHAIN C REGION AG,IG KAPPA COMPND 8 CHAIN C REGION CUM,IG KAPPA CHAIN C REGION EU,IG KAPPA CHAIN C REGION COMPND 9 OU,IG KAPPA CHAIN C REGION ROY,IG KAPPA CHAIN C REGION TI; COMPND 10 ENGINEERED: YES; COMPND 11 OTHER_DETAILS: THE PROTEIN WAS PRODUCED AS A CHIMERIC FAB FRAGMENT. COMPND 12 THE VARIABLE DOMAINS (CHAINS A,L 1-107, CHAINS B,H 1-113) ARE MURINE. COMPND 13 THE CONSTANT DOMAINS (CHAINS A, L 108-211 AND CHAINS B,H 113-214) ARE COMPND 14 HUMAN.; COMPND 15 MOL_ID: 2; COMPND 16 MOLECULE: CHIMERIC GERMLINE PRECURSOR OF OXY-COPE CATALYTIC ANTIBODY COMPND 17 AZ-28 (HEAVY CHAIN); COMPND 18 CHAIN: H; COMPND 19 FRAGMENT: CHIMERIC FAB FRAGMENT (UNP K7T9I5 RESIDUES 1-112, P0DOX5 COMPND 20 RESIDUES 120-220); COMPND 21 SYNONYM: IMMUNOGLOBULIN GAMMA-1 HEAVY CHAIN NIE; COMPND 22 ENGINEERED: YES; COMPND 23 OTHER_DETAILS: THE PROTEIN WAS PRODUCED AS A CHIMERIC FAB FRAGMENT. COMPND 24 THE VARIABLE DOMAINS (CHAINS A,L 1-107, CHAINS B,H 1-113) ARE MURINE. COMPND 25 THE CONSTANT DOMAINS (CHAINS A, L 108-211 AND CHAINS B,H 113-214) ARE COMPND 26 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 EXPRESSION_SYSTEM_PLASMID: PAZ-28; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS, HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: MOUSE, HUMAN; SOURCE 12 ORGANISM_TAXID: 10090, 9606; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 EXPRESSION_SYSTEM_PLASMID: PAZ-28 KEYWDS IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR E.C.MUNDORFF,M.A.HANSON,P.G.SCHULTZ,R.C.STEVENS REVDAT 3 21-JUN-17 1D5I 1 SOURCE DBREF SEQADV REVDAT 2 24-FEB-09 1D5I 1 VERSN REVDAT 1 09-FEB-00 1D5I 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 940911.210 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 84.2 REMARK 3 NUMBER OF REFLECTIONS : 28789 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) : 0.216 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2852 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1748 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 194 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 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 : 3 REMARK 3 SOLVENT ATOMS : 182 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.79000 REMARK 3 B22 (A**2) : 1.10000 REMARK 3 B33 (A**2) : 5.69000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.42000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.27 REMARK 3 LOW RESOLUTION CUTOFF (A) : 7.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.39 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.33 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.020 REMARK 3 BOND ANGLES (DEGREES) : 2.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 28.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.270 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : GROUP 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 : 0.32 REMARK 3 BSOL : 37.45 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 : CIS_PEPTIDE.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : PAR.LIB REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : TOP.LIB REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1D5I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-OCT-99. REMARK 100 THE DEPOSITION ID IS D_1000009808. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-FEB-98 REMARK 200 TEMPERATURE (KELVIN) : 200.0 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) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SCALEPACK, DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30863 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.3 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.14000 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 (%): 54.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 75MM HEPES PH 7.0 9% PEG 4000 150 MM REMARK 280 AMMONIUM SULFATE 20% 1,4 BUTANEDIOL 100 MM CADMIUM CHLORIDE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 32.06500 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: 3670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 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 OD2 ASP H 208 O HOH H 237 1.94 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 O HOH L 305 O HOH H 286 2655 2.07 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 LEU L 33 CA - CB - CG ANGL. DEV. = 19.1 DEGREES REMARK 500 CYS H 22 CA - CB - SG ANGL. DEV. = 8.0 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 -35.78 64.56 REMARK 500 ASN L 52 17.06 -145.24 REMARK 500 ASN L 152 -5.65 76.14 REMARK 500 SER L 171 17.99 58.30 REMARK 500 PHE H 29 -42.46 -26.61 REMARK 500 TYR H 98 113.46 -30.85 REMARK 500 TYR H 99 86.73 36.84 REMARK 500 PHE H 100 150.63 166.32 REMARK 500 TYR H 100A 102.36 172.42 REMARK 500 SER H 127 106.62 45.61 REMARK 500 SER H 128 -79.38 -40.77 REMARK 500 THR H 131 -31.54 -148.29 REMARK 500 SER H 156 20.46 47.04 REMARK 500 SER H 173 -9.64 -58.76 REMARK 500 SER H 186 -6.78 -51.44 REMARK 500 SER H 187 48.57 -105.82 REMARK 500 SER H 188 -25.77 -140.40 REMARK 500 LEU H 189 26.65 -55.22 REMARK 500 PRO H 213 154.82 -36.52 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 87 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH L 231 DISTANCE = 10.80 ANGSTROMS REMARK 525 HOH H 250 DISTANCE = 7.44 ANGSTROMS 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 212 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH L 241 O REMARK 620 2 HOH L 243 O 88.4 REMARK 620 3 HOH L 242 O 170.5 87.7 REMARK 620 4 ASN L 138 ND2 102.6 162.9 79.3 REMARK 620 5 HIS H 164 NE2 115.8 86.3 72.6 100.3 REMARK 620 6 HOH L 304 O 101.2 68.7 69.3 96.0 134.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD L 214 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH L 293 O REMARK 620 2 GLU L 81 OE2 84.5 REMARK 620 3 HOH L 313 O 82.6 90.6 REMARK 620 4 GLU L 81 OE1 138.5 55.5 106.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD L 213 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU L 93 OE1 REMARK 620 2 HOH L 312 O 104.8 REMARK 620 N 1 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 212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD L 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD L 214 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AXS RELATED DB: PDB REMARK 900 MATURE OXY-COPE CATALYTIC ANTIBODY WITH HAPTEN BOUND REMARK 900 RELATED ID: 1D5B RELATED DB: PDB REMARK 900 UNLIGANDED MATURE OXY-COPE CATALYTIC ANTIBODY REMARK 900 RELATED ID: 1D6V RELATED DB: PDB REMARK 900 AZ-28 GERMLINE WITH HOP DBREF 1D5I L 1 107 UNP Q7TS98 Q7TS98_MOUSE 23 129 DBREF 1D5I L 108 211 UNP P01834 IGKC_HUMAN 1 104 DBREF 1D5I H 9 113 UNP K7T9I5 K7T9I5_MOUSE 1 112 DBREF 1D5I H 114 214 UNP P0DOX5 IGG1_HUMAN 120 220 SEQADV 1D5I TYR L 96 UNP Q7TS98 ARG 118 CONFLICT SEQADV 1D5I SER L 100 UNP Q7TS98 GLY 122 CONFLICT SEQADV 1D5I GLN H 1 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I VAL H 2 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I GLN H 3 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I LEU H 4 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I GLN H 5 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I GLN H 6 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I SER H 7 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I GLY H 8 UNP K7T9I5 EXPRESSION TAG SEQADV 1D5I GLY H 95 UNP K7T9I5 GLU 91 CONFLICT SEQADV 1D5I HIS H 96 UNP K7T9I5 VAL 92 CONFLICT SEQADV 1D5I SER H 97 UNP K7T9I5 ARG 93 CONFLICT SEQADV 1D5I TYR H 98 UNP K7T9I5 ARG 94 CONFLICT SEQADV 1D5I TYR H 99 UNP K7T9I5 ARG 95 CONFLICT SEQADV 1D5I PHE H 100 UNP K7T9I5 TYR 96 CONFLICT SEQADV 1D5I ASP H 100B UNP K7T9I5 ALA 98 CONFLICT SEQADV 1D5I 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 212 1 HET CD L 213 1 HET CD L 214 1 HETNAM CD CADMIUM ION FORMUL 3 CD 3(CD 2+) FORMUL 6 HOH *182(H2 O) HELIX 1 1 GLU L 79 MET L 83 5 5 HELIX 2 2 SER L 121 GLY L 128 1 8 HELIX 3 3 LYS L 183 HIS L 189 1 7 HELIX 4 4 THR H 28 SER H 30 5 3 HELIX 5 5 GLU H 61 LYS H 64 5 4 HELIX 6 6 THR H 83 SER H 87 5 5 HELIX 7 7 SER H 156 ALA H 158 5 3 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 N TYR L 71 O 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 N TYR L 49 O 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 B1 6 ARG L 53 LEU L 54 0 SHEET 2 B1 6 LYS L 45 TYR L 49 -1 N TYR L 49 O ARG L 53 SHEET 3 B1 6 LEU L 33 GLN L 38 -1 O TRP L 35 N LEU L 47 SHEET 4 B1 6 GLY L 84 GLN L 90 -1 O ILE L 85 N GLN L 38 SHEET 5 B1 6 THR L 102 ILE L 106 -1 O THR L 102 N TYR L 86 SHEET 6 B1 6 SER L 10 ALA L 13 1 O MET L 11 N GLU L 105 SHEET 1 C 4 SER L 114 PHE L 118 0 SHEET 2 C 4 THR L 129 PHE L 139 -1 O VAL L 133 N PHE L 118 SHEET 3 C 4 TYR L 173 SER L 182 -1 N TYR L 173 O PHE L 139 SHEET 4 C 4 SER L 159 VAL L 163 -1 O GLN L 160 N THR L 178 SHEET 1 D 4 ALA L 153 LEU L 154 0 SHEET 2 D 4 LYS L 145 VAL L 150 -1 N VAL L 150 O ALA L 153 SHEET 3 D 4 VAL L 191 THR L 197 -1 N ALA L 193 O LYS L 149 SHEET 4 D 4 VAL L 205 ASN L 210 -1 O VAL L 205 N VAL L 196 SHEET 1 E 4 GLN H 3 GLN H 6 0 SHEET 2 E 4 VAL H 18 THR H 25 -1 N LYS H 23 O GLN H 5 SHEET 3 E 4 THR H 77 LEU H 82 -1 N ALA H 78 O CYS H 22 SHEET 4 E 4 ALA H 67 ASP H 72 -1 O THR H 68 N GLN H 81 SHEET 1 F 5 THR H 57 TYR H 59 0 SHEET 2 F 5 LEU H 45 ILE H 51 -1 O GLU H 50 N ASN H 58 SHEET 3 F 5 TYR H 32 GLN H 39 -1 N ILE H 34 O ILE H 51 SHEET 4 F 5 ALA H 88 SER H 97 -1 N VAL H 89 O GLN H 39 SHEET 5 F 5 TYR H 102 TRP H 103 -1 O TYR H 102 N ARG H 94 SHEET 1 F1 6 THR H 57 TYR H 59 0 SHEET 2 F1 6 LEU H 45 ILE H 51 -1 O GLU H 50 N ASN H 58 SHEET 3 F1 6 TYR H 32 GLN H 39 -1 N ILE H 34 O ILE H 51 SHEET 4 F1 6 ALA H 88 SER H 97 -1 N VAL H 89 O GLN H 39 SHEET 5 F1 6 THR H 107 VAL H 111 -1 O THR H 107 N TYR H 90 SHEET 6 F1 6 GLU H 10 MET H 12 1 N GLU H 10 O SER H 108 SHEET 1 G 4 SER H 120 LEU H 124 0 SHEET 2 G 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 G 4 TYR H 176 PRO H 185 -1 N TYR H 176 O TYR H 145 SHEET 4 G 4 VAL H 163 THR H 165 -1 N HIS H 164 O VAL H 181 SHEET 1 G1 4 SER H 120 LEU H 124 0 SHEET 2 G1 4 THR H 135 TYR H 145 -1 O GLY H 139 N LEU H 124 SHEET 3 G1 4 TYR H 176 PRO H 185 -1 N TYR H 176 O TYR H 145 SHEET 4 G1 4 VAL H 169 LEU H 170 -1 N VAL H 169 O SER H 177 SHEET 1 H 3 THR H 151 TRP H 154 0 SHEET 2 H 3 ILE H 195 HIS H 200 -1 N ASN H 197 O SER H 153 SHEET 3 H 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 2.10 SSBOND 2 CYS L 134 CYS L 194 1555 1555 2.06 SSBOND 3 CYS H 22 CYS H 92 1555 1555 2.06 SSBOND 4 CYS H 140 CYS H 196 1555 1555 2.08 LINK CD CD L 212 O HOH L 241 1555 1555 2.44 LINK CD CD L 212 O HOH L 243 1555 1555 2.33 LINK CD CD L 212 O HOH L 242 1555 1555 2.40 LINK CD CD L 214 O HOH L 293 1555 1555 2.25 LINK CD CD L 212 ND2 ASN L 138 1555 1555 2.24 LINK CD CD L 212 NE2 HIS H 164 1555 1555 2.99 LINK CD CD L 212 O HOH L 304 1555 1555 2.68 LINK CD CD L 213 OE1 GLU L 93 1555 1555 2.44 LINK CD CD L 213 O HOH L 312 1555 1555 1.62 LINK CD CD L 214 OE2 GLU L 81 1555 1555 2.31 LINK CD CD L 214 O HOH L 313 1555 1555 1.59 LINK CD CD L 214 OE1 GLU L 81 1555 1555 2.48 CISPEP 1 SER L 7 PRO L 8 0 -1.18 CISPEP 2 PHE L 94 PRO L 95 0 -2.45 CISPEP 3 TYR L 140 PRO L 141 0 1.11 CISPEP 4 PHE H 146 PRO H 147 0 -3.01 CISPEP 5 GLU H 148 PRO H 149 0 -0.21 SITE 1 AC1 6 HIS H 164 ASN L 138 HOH L 241 HOH L 242 SITE 2 AC1 6 HOH L 243 HOH L 304 SITE 1 AC2 2 GLU L 93 HOH L 312 SITE 1 AC3 3 GLU L 81 HOH L 293 HOH L 313 CRYST1 53.170 64.130 75.950 90.00 99.53 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 0.018808 0.000000 0.003157 0.00000 SCALE2 0.000000 0.015593 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013351 0.00000