HEADER IMMUNE SYSTEM 29-NOV-21 7T0H TITLE CRYSTAL STRUCTURE OF S25-39 FAB UNLIGANDED 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: S25-39 FAB HEAVY CHAIN; COMPND 3 CHAIN: H; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: S25-39 FAB LIGHT CHAIN; COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 STRAIN: BALB/C; SOURCE 5 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 7 OTHER_DETAILS: HYBRIDOMA; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 10 ORGANISM_TAXID: 10090; SOURCE 11 STRAIN: BALB/C; SOURCE 12 EXPRESSION_SYSTEM: MUS MUSCULUS; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 10090; SOURCE 14 OTHER_DETAILS: HYBRIDOMA KEYWDS ANTIBODY, FAB, CARBOHYDRATE, INDUCED FIT, CONFORMATIONAL SELECTION, KEYWDS 2 IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.S.G.LEGG,R.J.BLACKLER,S.V.EVANS REVDAT 3 18-OCT-23 7T0H 1 REMARK REVDAT 2 25-MAY-22 7T0H 1 JRNL REVDAT 1 20-APR-22 7T0H 0 JRNL AUTH R.J.BLACKLER,S.MULLER-LOENNIES,B.POKORNY-LEHRER,M.S.G.LEGG, JRNL AUTH 2 L.BRADE,H.BRADE,P.KOSMA,S.V.EVANS JRNL TITL ANTIGEN BINDING BY CONFORMATIONAL SELECTION IN NEAR-GERMLINE JRNL TITL 2 ANTIBODIES. JRNL REF J.BIOL.CHEM. V. 298 01901 2022 JRNL REFN ESSN 1083-351X JRNL PMID 35395245 JRNL DOI 10.1016/J.JBC.2022.101901 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.4 REMARK 3 NUMBER OF REFLECTIONS : 90448 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4735 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2391 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 32.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.2300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3341 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 591 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : 0.07000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.19000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.056 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.058 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.885 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.957 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3590 ; 0.036 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3239 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4913 ; 2.995 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7519 ; 1.406 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 471 ; 7.640 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 138 ;37.572 ;23.841 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 578 ;14.371 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;21.138 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 544 ; 0.211 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4155 ; 0.018 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 820 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 6828 ; 7.431 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 382 ;18.506 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6941 ; 9.492 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7T0H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-DEC-21. REMARK 100 THE DEPOSITION ID IS D_1000261442. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : OTHER REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 103442 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.54700 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3OKD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15 M POTASSIUM BROMIDE, 30% PEG MME REMARK 280 2000, 5 MM 4-O-METHOXYMETHYL-KDOOME, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 289K 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 31.56750 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: 4150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L 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 GLY H 127 REMARK 465 SER H 128 REMARK 465 ALA H 129 REMARK 465 ALA H 130 REMARK 465 GLN H 131 REMARK 465 THR H 132 REMARK 465 ASN H 133 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 ARG H 213 CG CD NE CZ NH1 NH2 REMARK 470 ASP L 1 CG OD1 OD2 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 N GLU H 100A O HOH H 401 1.71 REMARK 500 OD1 ASN L 137 O HOH L 401 1.75 REMARK 500 O HOH L 563 O HOH L 660 1.81 REMARK 500 OG1 THR H 194 O HOH H 402 1.85 REMARK 500 OE2 GLU L 81 O HOH L 402 1.92 REMARK 500 BR BR H 303 O HOH H 471 1.92 REMARK 500 O HOH H 538 O HOH H 684 2.02 REMARK 500 O HOH H 432 O HOH H 472 2.03 REMARK 500 OE1 GLU L 17 O HOH L 403 2.06 REMARK 500 CG2 VAL H 169 O HOH L 465 2.08 REMARK 500 O HOH H 419 O HOH H 659 2.09 REMARK 500 O HOH L 402 O HOH L 547 2.15 REMARK 500 OE2 GLU L 185 NH2 ARG L 188 2.16 REMARK 500 O GLY H 157 OG SER H 160 2.16 REMARK 500 O HOH H 529 O HOH H 541 2.16 REMARK 500 N SER H 156 OD1 ASN H 196 2.18 REMARK 500 O GLU H 100A O HOH H 401 2.19 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 CYS H 22 CB CYS H 22 SG -0.101 REMARK 500 ASP H 31 CG ASP H 31 OD2 0.149 REMARK 500 TYR H 33 CD1 TYR H 33 CE1 0.105 REMARK 500 SER H 74 CA SER H 74 CB 0.094 REMARK 500 GLY H 98 N GLY H 98 CA 0.133 REMARK 500 SER H 158 CB SER H 158 OG -0.097 REMARK 500 SER H 180 CB SER H 180 OG -0.084 REMARK 500 TRP H 188 CB TRP H 188 CG 0.131 REMARK 500 LYS H 208 C LYS H 208 O 0.125 REMARK 500 MET L 4 CG MET L 4 SD -0.271 REMARK 500 GLU L 17 CD GLU L 17 OE1 0.071 REMARK 500 GLN L 27 CB GLN L 27 CG 0.165 REMARK 500 GLN L 27 CG GLN L 27 CD 0.162 REMARK 500 GLN L 27 CD GLN L 27 OE1 0.208 REMARK 500 TYR L 32 CZ TYR L 32 CE2 -0.091 REMARK 500 TYR L 36 CE1 TYR L 36 CZ 0.100 REMARK 500 ASP L 60 CB ASP L 60 CG -0.150 REMARK 500 ARG L 61 CZ ARG L 61 NH2 0.081 REMARK 500 PHE L 71 CG PHE L 71 CD2 0.100 REMARK 500 SER L 76 CB SER L 76 OG -0.086 REMARK 500 GLU L 105 CD GLU L 105 OE2 0.066 REMARK 500 ASN L 137 CG ASN L 137 ND2 -0.242 REMARK 500 SER L 191 CA SER L 191 CB -0.092 REMARK 500 TYR L 192 CE1 TYR L 192 CZ -0.083 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 H 18 CB - CG - CD1 ANGL. DEV. = 11.1 DEGREES REMARK 500 ARG H 19 CD - NE - CZ ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG H 19 NE - CZ - NH1 ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG H 19 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 CYS H 22 CA - CB - SG ANGL. DEV. = 6.8 DEGREES REMARK 500 TYR H 33 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG H 38 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG H 52 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG H 52 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG H 66 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 PHE H 67 CB - CG - CD1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ASN H 73 O - C - N ANGL. DEV. = -10.0 DEGREES REMARK 500 ARG H 83 NE - CZ - NH2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ARG H 94 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ASP H 97 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 PHE H 100C CB - CG - CD1 ANGL. DEV. = 4.8 DEGREES REMARK 500 TYR H 122 CB - CG - CD2 ANGL. DEV. = 4.4 DEGREES REMARK 500 THR H 153 CA - CB - CG2 ANGL. DEV. = 8.9 DEGREES REMARK 500 TRP H 154 CA - C - N ANGL. DEV. = -13.9 DEGREES REMARK 500 TRP H 154 O - C - N ANGL. DEV. = 12.7 DEGREES REMARK 500 LEU H 159 C - N - CA ANGL. DEV. = -20.4 DEGREES REMARK 500 PHE H 166 CB - CG - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 VAL H 183 CA - CB - CG2 ANGL. DEV. = 9.8 DEGREES REMARK 500 THR H 194 O - C - N ANGL. DEV. = 12.0 DEGREES REMARK 500 CYS H 195 CA - CB - SG ANGL. DEV. = 12.9 DEGREES REMARK 500 ASP H 207 CB - CG - OD1 ANGL. DEV. = 8.4 DEGREES REMARK 500 MET L 21 CG - SD - CE ANGL. DEV. = 17.3 DEGREES REMARK 500 GLN L 27 CA - CB - CG ANGL. DEV. = 20.4 DEGREES REMARK 500 ARG L 29 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG L 54 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG L 61 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 TYR L 87 CB - CG - CD2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG L 108 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ASP L 143 CB - CG - OD2 ANGL. DEV. = -8.5 DEGREES REMARK 500 MET L 175 CG - SD - CE ANGL. DEV. = -24.8 DEGREES REMARK 500 MET L 175 CG - SD - CE ANGL. DEV. = 12.4 DEGREES REMARK 500 TYR L 186 CB - CG - CD2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG L 188 NE - CZ - NH1 ANGL. DEV. = 7.4 DEGREES REMARK 500 HIS L 198 CB - CA - C ANGL. DEV. = 14.1 DEGREES REMARK 500 HIS L 198 CB - CG - CD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 HIS L 198 CG - ND1 - CE1 ANGL. DEV. = 7.6 DEGREES REMARK 500 SER L 201 C - N - CA ANGL. DEV. = -15.7 DEGREES REMARK 500 VAL L 206 CA - CB - CG1 ANGL. DEV. = 9.1 DEGREES REMARK 500 PHE L 209 CB - CG - CD1 ANGL. DEV. = 5.1 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 ASP H 95 -154.36 -97.51 REMARK 500 TYR H 99 -66.30 -123.14 REMARK 500 ASN H 155 44.54 84.72 REMARK 500 SER H 160 -43.07 -145.11 REMARK 500 GLN H 171 -77.83 -112.76 REMARK 500 SER H 172 68.42 -112.25 REMARK 500 ALA L 51 -35.90 70.02 REMARK 500 ALA L 84 167.82 176.73 REMARK 500 LEU L 94 -152.01 59.76 REMARK 500 THR L 200 -6.70 -52.52 REMARK 500 SER L 201 141.61 172.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY H 9 14.30 REMARK 500 ASN H 73 14.88 REMARK 500 THR H 194 13.60 REMARK 500 SER L 25 -10.11 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 H 714 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH H 715 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH H 716 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH H 717 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH H 718 DISTANCE = 7.39 ANGSTROMS REMARK 525 HOH L 673 DISTANCE = 6.84 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7T0F RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S25-39 FAB IN COMPLEX WITH 4-MEO-KDOOALL REMARK 900 RELATED ID: 7T0G RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S25-39 FAB UNLIGANDED 1 REMARK 900 RELATED ID: 7T0I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S25-39 FAB UNLIGANDED 3 REMARK 900 RELATED ID: 7T0J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S25-2 FAB UNLIGANDED 3 REMARK 900 RELATED ID: 7T0K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF S25-2 FAB UNLIGANDED 4 DBREF 7T0H H 1 213 PDB 7T0H 7T0H 1 213 DBREF 7T0H L 1 214 PDB 7T0H 7T0H 1 214 SEQRES 1 H 222 GLU VAL LYS LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 H 222 PRO GLY GLY SER LEU ARG LEU ALA CYS ALA THR SER GLY SEQRES 3 H 222 PHE THR PHE THR ASP TYR TYR MET SER TRP VAL ARG GLN SEQRES 4 H 222 PRO PRO GLY LYS ALA LEU GLU TRP LEU GLY PHE ILE ARG SEQRES 5 H 222 ASN LYS ALA LYS GLY TYR THR THR GLU TYR SER ALA SER SEQRES 6 H 222 VAL LYS GLY ARG PHE THR ILE SER ARG ASP ASN SER GLN SEQRES 7 H 222 SER SER LEU TYR LEU GLN MET ASN THR LEU ARG ALA GLU SEQRES 8 H 222 ASP SER ALA THR TYR TYR CYS ALA ARG ASP HIS ASP GLY SEQRES 9 H 222 TYR TYR GLU ARG PHE ALA TYR TRP GLY GLN GLY THR LEU SEQRES 10 H 222 VAL THR VAL SER ALA ALA LYS THR THR PRO PRO SER VAL SEQRES 11 H 222 TYR PRO LEU ALA PRO GLY SER ALA ALA GLN THR ASN SER SEQRES 12 H 222 MET VAL THR LEU GLY CYS LEU VAL LYS GLY TYR PHE PRO SEQRES 13 H 222 GLU PRO VAL THR VAL THR TRP ASN SER GLY SER LEU SER SEQRES 14 H 222 SER GLY VAL HIS THR PHE PRO ALA VAL LEU GLN SER ASP SEQRES 15 H 222 LEU TYR THR LEU SER SER SER VAL THR VAL PRO SER SER SEQRES 16 H 222 THR TRP PRO SER GLU THR VAL THR CYS ASN VAL ALA HIS SEQRES 17 H 222 PRO ALA SER SER THR LYS VAL ASP LYS LYS ILE VAL PRO SEQRES 18 H 222 ARG SEQRES 1 L 219 ASP ILE VAL MET THR GLN SER PRO SER SER LEU ALA VAL SEQRES 2 L 219 SER ALA GLY GLU LYS VAL THR MET ASN CYS LYS SER SER SEQRES 3 L 219 GLN SER LEU LEU ASN SER ARG THR ARG LYS ASN TYR LEU SEQRES 4 L 219 ALA TRP TYR GLN GLN LYS PRO GLY GLN SER PRO LYS LEU SEQRES 5 L 219 LEU ILE TYR TRP ALA SER THR ARG GLU SER GLY VAL PRO SEQRES 6 L 219 ASP ARG PHE THR GLY SER GLY SER GLY THR ASP PHE ALA SEQRES 7 L 219 LEU THR ILE SER SER VAL GLN ALA GLU ASP LEU ALA VAL SEQRES 8 L 219 TYR TYR CYS LYS GLN SER TYR ASN LEU ARG THR PHE GLY SEQRES 9 L 219 GLY GLY THR LYS LEU GLU ILE LYS ARG ALA ASP ALA ALA SEQRES 10 L 219 PRO THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU SEQRES 11 L 219 THR SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN SEQRES 12 L 219 PHE TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP SEQRES 13 L 219 GLY SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR SEQRES 14 L 219 ASP GLN ASP SER LYS ASP SER THR TYR SER MET SER SER SEQRES 15 L 219 THR LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SEQRES 16 L 219 SER TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER SEQRES 17 L 219 PRO ILE VAL LYS SER PHE ASN ARG ASN GLU CYS HET BR H 301 1 HET BR H 302 1 HET BR H 303 1 HET BR L 301 1 HET BR L 302 1 HETNAM BR BROMIDE ION FORMUL 3 BR 5(BR 1-) FORMUL 8 HOH *591(H2 O) HELIX 1 AA1 THR H 28 TYR H 32 5 5 HELIX 2 AA2 ASN H 52A GLY H 54 5 5 HELIX 3 AA3 ARG H 83 SER H 87 5 5 HELIX 4 AA4 SER H 186 TRP H 188 5 3 HELIX 5 AA5 PRO H 200 SER H 203 5 4 HELIX 6 AA6 GLN L 79 LEU L 83 5 5 HELIX 7 AA7 SER L 121 SER L 127 1 7 HELIX 8 AA8 LYS L 183 ARG L 188 1 6 HELIX 9 AA9 ASN L 212 CYS L 214 5 3 SHEET 1 AA1 4 LYS H 3 SER H 7 0 SHEET 2 AA1 4 LEU H 18 SER H 25 -1 O ALA H 21 N SER H 7 SHEET 3 AA1 4 SER H 77 MET H 82 -1 O MET H 82 N LEU H 18 SHEET 4 AA1 4 PHE H 67 ASP H 72 -1 N THR H 68 O GLN H 81 SHEET 1 AA2 6 GLY H 10 VAL H 12 0 SHEET 2 AA2 6 THR H 107 VAL H 111 1 O LEU H 108 N GLY H 10 SHEET 3 AA2 6 ALA H 88 ARG H 94 -1 N ALA H 88 O VAL H 109 SHEET 4 AA2 6 MET H 34 GLN H 39 -1 N VAL H 37 O TYR H 91 SHEET 5 AA2 6 GLU H 46 ILE H 51 -1 O LEU H 48 N TRP H 36 SHEET 6 AA2 6 THR H 57 TYR H 59 -1 O GLU H 58 N PHE H 50 SHEET 1 AA3 4 GLY H 10 VAL H 12 0 SHEET 2 AA3 4 THR H 107 VAL H 111 1 O LEU H 108 N GLY H 10 SHEET 3 AA3 4 ALA H 88 ARG H 94 -1 N ALA H 88 O VAL H 109 SHEET 4 AA3 4 TYR H 102 TRP H 103 -1 O TYR H 102 N ARG H 94 SHEET 1 AA4 4 SER H 120 LEU H 124 0 SHEET 2 AA4 4 MET H 135 TYR H 145 -1 O LYS H 143 N SER H 120 SHEET 3 AA4 4 LEU H 174 PRO H 184 -1 O TYR H 175 N TYR H 145 SHEET 4 AA4 4 VAL H 163 THR H 165 -1 N HIS H 164 O SER H 180 SHEET 1 AA5 4 SER H 120 LEU H 124 0 SHEET 2 AA5 4 MET H 135 TYR H 145 -1 O LYS H 143 N SER H 120 SHEET 3 AA5 4 LEU H 174 PRO H 184 -1 O TYR H 175 N TYR H 145 SHEET 4 AA5 4 VAL H 169 GLN H 171 -1 N GLN H 171 O LEU H 174 SHEET 1 AA6 3 THR H 151 TRP H 154 0 SHEET 2 AA6 3 THR H 194 HIS H 199 -1 O ASN H 196 N THR H 153 SHEET 3 AA6 3 THR H 204 LYS H 209 -1 O VAL H 206 N VAL H 197 SHEET 1 AA7 4 MET L 4 SER L 7 0 SHEET 2 AA7 4 VAL L 19 SER L 25 -1 O ASN L 22 N SER L 7 SHEET 3 AA7 4 ASP L 70 ILE L 75 -1 O PHE L 71 N CYS L 23 SHEET 4 AA7 4 PHE L 62 SER L 67 -1 N THR L 63 O THR L 74 SHEET 1 AA8 6 SER L 10 SER L 14 0 SHEET 2 AA8 6 THR L 102 LYS L 107 1 O GLU L 105 N LEU L 11 SHEET 3 AA8 6 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AA8 6 LEU L 33 GLN L 38 -1 N GLN L 38 O VAL L 85 SHEET 5 AA8 6 LYS L 45 TYR L 49 -1 O LEU L 47 N TRP L 35 SHEET 6 AA8 6 THR L 53 ARG L 54 -1 O THR L 53 N TYR L 49 SHEET 1 AA9 4 SER L 10 SER L 14 0 SHEET 2 AA9 4 THR L 102 LYS L 107 1 O GLU L 105 N LEU L 11 SHEET 3 AA9 4 ALA L 84 GLN L 90 -1 N ALA L 84 O LEU L 104 SHEET 4 AA9 4 THR L 97 PHE L 98 -1 O THR L 97 N GLN L 90 SHEET 1 AB1 4 THR L 114 PHE L 118 0 SHEET 2 AB1 4 GLY L 129 PHE L 139 -1 O ASN L 137 N THR L 114 SHEET 3 AB1 4 TYR L 173 THR L 182 -1 O LEU L 181 N ALA L 130 SHEET 4 AB1 4 VAL L 159 TRP L 163 -1 N SER L 162 O SER L 176 SHEET 1 AB2 4 SER L 153 ARG L 155 0 SHEET 2 AB2 4 ASN L 145 ILE L 150 -1 N TRP L 148 O ARG L 155 SHEET 3 AB2 4 SER L 191 THR L 197 -1 O GLU L 195 N LYS L 147 SHEET 4 AB2 4 ILE L 205 ASN L 210 -1 O ILE L 205 N ALA L 196 SSBOND 1 CYS H 22 CYS H 92 1555 1555 2.09 SSBOND 2 CYS H 140 CYS H 195 1555 1555 2.11 SSBOND 3 CYS L 23 CYS L 88 1555 1555 2.18 SSBOND 4 CYS L 134 CYS L 194 1555 1555 1.96 CISPEP 1 PHE H 146 PRO H 147 0 -8.66 CISPEP 2 GLU H 148 PRO H 149 0 0.00 CISPEP 3 TRP H 188 PRO H 189 0 -3.06 CISPEP 4 SER L 7 PRO L 8 0 -14.24 CISPEP 5 TYR L 140 PRO L 141 0 4.65 CRYST1 55.593 63.135 61.885 90.00 99.36 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 0.017988 0.000000 0.002966 0.00000 SCALE2 0.000000 0.015839 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016377 0.00000