PDB Short entry for 1E4W HEADER IMMUNE SYSTEM 12-JUL-00 1E4W TITLE CROSSREACTIVE BINDING OF A CIRCULARIZED PEPTIDE TO AN ANTI-TGFALPHA TITLE 2 ANTIBODY FAB-FRAGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: TAB2; COMPND 3 CHAIN: H; COMPND 4 FRAGMENT: IG KAPPA HEAVY CHAIN; COMPND 5 OTHER_DETAILS: MURINE FAB-FRAGMENT; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TAB2; COMPND 8 CHAIN: L; COMPND 9 FRAGMENT: IG KAPPA LIGHT CHAIN; COMPND 10 OTHER_DETAILS: MURINE FAB-FRAGMENT; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: CYCLIC PEPTIDE; COMPND 13 CHAIN: P; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 CELL_LINE: MOUSE HYBRIDOMA; SOURCE 6 ORGAN: SPLEEN; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 10 ORGANISM_TAXID: 10090; SOURCE 11 STRAIN: BALB/C; SOURCE 12 CELL_LINE: MOUSE HYBRIDOMA; SOURCE 13 ORGAN: SPLEEN; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 17 ORGANISM_TAXID: 32630 KEYWDS IMMUNE SYSTEM, COMPLEX (ANTIBODY-ANTIGEN), CROSS-REACTIVITY, PROTEIN- KEYWDS 2 PEPTIDE RECOGNITION EXPDTA X-RAY DIFFRACTION AUTHOR M.HAHN,D.WINKLER,R.MISSELWITZ,H.WESSNER,K.WELFLE,G.ZAHN,J.SCHNEIDER- AUTHOR 2 MERGENER,W.HOEHNE REVDAT 5 13-DEC-23 1E4W 1 REMARK LINK REVDAT 4 09-OCT-19 1E4W 1 SOURCE REVDAT 3 24-FEB-09 1E4W 1 VERSN REVDAT 2 05-APR-05 1E4W 1 JRNL REVDAT 1 12-JUL-01 1E4W 0 JRNL AUTH M.HAHN,D.WINKLER,K.WELFLE,R.MISSELWITZ,H.WELFLE,H.WESSNER, JRNL AUTH 2 G.ZAHN,C.SCHOLZ,M.SEIFERT,R.HARKINS,J.SCHNEIDER-MERGENER, JRNL AUTH 3 W.HOEHNE JRNL TITL CROSS-REACTIVE BINDING OF CYCLIC PEPTIDES TO AN ANTI-TGF JRNL TITL 2 ALPHA ANTIBODY FAB FRAGMENT: AN X-RAY STRUCTURAL AND JRNL TITL 3 THERMODYNAMIC ANALYSIS JRNL REF J.MOL.BIOL. V. 314 293 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11718562 JRNL DOI 10.1006/JMBI.2001.5135 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 41695 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2099 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3331 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 409 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.024 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.045 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.066 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.028 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.288 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.188 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.259 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : 0.000 ; 15.000 REMARK 3 PLANAR (DEGREES) : 8.200 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 18.400; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 21.600; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.508 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.317 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.148 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.378 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1E4W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1290005074. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.3 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : XRAY RESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39968 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 74.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 54.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.28800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1FBI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN IN TRIS-HCL, 8.5 11-14 MG/ML REMARK 280 PRECIPITANT: 12% PEG MME 2000, 5 MM NICL2, 0.1 M TRIS-HCL, PH REMARK 280 8.5, PH 8.50 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 24.61000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.89500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.17500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.89500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.61000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.17500 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, L, P 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 400 REMARK 400 COMPOUND REMARK 400 CHAIN P IS A CIRCULAR CLOSED HEPTAMER OF THE SEQUENCE REMARK 400 SER-HIS-PHE-ASN-GLU-TYR-GLU. THE N-ATOM OF SER-1 IS REMARK 400 COVALENTLY CONNECTED WITH CD OF GLU-7. REMARK 400 CHAIN L: THE C-TERMINAL REGION IS THE CONSTANT REGION REMARK 400 OF THE IG KAPPA LIGHT CHAIN, THE N-TERMINAL REGION REMARK 400 IS THE VARIABLE REGION OF THE IG KAPPA LIGHT CHAIN REMARK 400 THE VARIABLE REGION IS AUTOANTIBODY REACTIVE WITH SPECTRIN, REMARK 400 (4-HYRDOXY-3-NITROPHENYL) ACETYL, AND FLUORESCEIN, REMARK 400 WHICH PROMOTES CENTRAL NERVOUS SYSTEM REMYELINATION 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 GLU P 7 OE2 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 SER P 1 CD GLU P 7 1.32 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 PRO H 209 CD PRO H 209 N 0.094 REMARK 500 SER L 168 CA SER L 168 CB 0.094 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 VAL H 2 N - CA - CB ANGL. DEV. = 16.1 DEGREES REMARK 500 VAL H 37 CA - CB - CG1 ANGL. DEV. = 10.4 DEGREES REMARK 500 VAL H 37 CA - CB - CG2 ANGL. DEV. = 10.6 DEGREES REMARK 500 ARG H 56 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 SER H 95 CA - C - O ANGL. DEV. = -12.9 DEGREES REMARK 500 PRO H 96 CA - N - CD ANGL. DEV. = -9.4 DEGREES REMARK 500 PRO H 96 N - CA - CB ANGL. DEV. = 11.0 DEGREES REMARK 500 VAL H 147 N - CA - CB ANGL. DEV. = -14.9 DEGREES REMARK 500 SER H 157 CA - C - O ANGL. DEV. = -13.6 DEGREES REMARK 500 SER H 157 CA - C - N ANGL. DEV. = 20.6 DEGREES REMARK 500 VAL H 166 CG1 - CB - CG2 ANGL. DEV. = 9.9 DEGREES REMARK 500 ASP H 170 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 LEU H 174 CA - CB - CG ANGL. DEV. = 19.1 DEGREES REMARK 500 VAL H 178 CB - CA - C ANGL. DEV. = -17.4 DEGREES REMARK 500 ASP H 204 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ASP L 1 OD1 - CG - OD2 ANGL. DEV. = -12.5 DEGREES REMARK 500 ASP L 1 CB - CG - OD1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ASP L 1 O - C - N ANGL. DEV. = -13.0 DEGREES REMARK 500 LEU L 11 CA - CB - CG ANGL. DEV. = 16.1 DEGREES REMARK 500 ARG L 18 CD - NE - CZ ANGL. DEV. = 37.2 DEGREES REMARK 500 ARG L 18 NE - CZ - NH1 ANGL. DEV. = -8.9 DEGREES REMARK 500 ARG L 18 NE - CZ - NH2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP L 28 CB - CG - OD1 ANGL. DEV. = 8.5 DEGREES REMARK 500 ASP L 41 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP L 41 CB - CG - OD2 ANGL. DEV. = -9.1 DEGREES REMARK 500 ARG L 61 CD - NE - CZ ANGL. DEV. = 8.7 DEGREES REMARK 500 THR L 69 N - CA - CB ANGL. DEV. = -11.7 DEGREES REMARK 500 ARG L 108 CD - NE - CZ ANGL. DEV. = 45.0 DEGREES REMARK 500 ARG L 108 NH1 - CZ - NH2 ANGL. DEV. = -14.7 DEGREES REMARK 500 ARG L 108 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG L 108 NE - CZ - NH2 ANGL. DEV. = 11.6 DEGREES REMARK 500 ASP L 110 CB - CG - OD1 ANGL. DEV. = 7.5 DEGREES REMARK 500 ASP L 143 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP L 165 CB - CG - OD2 ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG L 188 NE - CZ - NH2 ANGL. DEV. = -8.3 DEGREES REMARK 500 HIS L 189 CE1 - NE2 - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG L 211 NE - CZ - NH2 ANGL. DEV. = -3.4 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 VAL H 2 80.62 82.36 REMARK 500 ALA H 88 172.58 178.35 REMARK 500 ASP H 127 126.54 163.60 REMARK 500 SER H 158 109.64 76.66 REMARK 500 SER H 169 -129.36 83.55 REMARK 500 HIS L 31 -2.99 72.41 REMARK 500 THR L 51 -52.15 72.45 REMARK 500 ALA L 84 -171.51 -171.10 REMARK 500 GLU L 213 106.86 -43.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER H 95 PRO H 96 40.67 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 SER H 95 18.95 REMARK 500 ARG L 188 11.13 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 NI L 901 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP L 1 O REMARK 620 2 ASP L 1 N 76.5 REMARK 620 3 ASP L 1 OD1 86.5 87.4 REMARK 620 4 HIS L 189 NE2 173.5 105.9 87.7 REMARK 620 5 HOH L2003 O 82.8 97.8 166.6 102.6 REMARK 620 6 HOH L2009 O 84.4 160.0 97.2 93.7 73.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI L 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL P 901 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1E4X RELATED DB: PDB REMARK 900 CROSSREACTIVE BINDING OF A CIRCULARIZED PEPTIDE TO AN ANTI-TGFALPHA REMARK 900 ANTIBODY FAB-FRAGMENT REMARK 900 RELATED ID: 1FBI RELATED DB: PDB REMARK 900 FAB FRAGMENT OF THE MONOCLONAL ANTIBODY F9.13.7 (IGG1) COMPLEXED REMARK 900 WITH LYSOZYME DBREF 1E4W L 1 214 PDB 1E4W 1E4W 1 214 DBREF 1E4W H 1 209 PDB 1E4W 1E4W 1 209 DBREF 1E4W P 1 7 PDB 1E4W 1E4W 1 7 SEQRES 1 H 213 GLN VAL GLN LEU GLN GLN PRO GLY ALA GLU LEU VAL LYS SEQRES 2 H 213 PRO GLY ALA SER VAL LYS LEU SER CYS LYS ALA SER GLY SEQRES 3 H 213 PHE THR PHE THR ASN TYR TRP MET HIS TRP VAL LYS GLN SEQRES 4 H 213 ARG PRO GLY GLN GLY LEU GLU TRP ILE GLY GLU ILE LEU SEQRES 5 H 213 PRO SER ASN GLY ARG THR ASN TYR ASN GLU LYS PHE LYS SEQRES 6 H 213 THR LYS ALA THR LEU THR VAL ASP LYS SER SER ASN THR SEQRES 7 H 213 ALA TYR MET GLN LEU SER SER LEU THR SER GLU ASP SER SEQRES 8 H 213 ALA VAL TYR TYR CYS ALA ARG SER PRO SER ASP TYR TRP SEQRES 9 H 213 GLY GLN GLY THR THR LEU THR VAL SER SER ALA LYS THR SEQRES 10 H 213 THR ALA PRO SER VAL TYR PRO LEU ALA PRO VAL CYS GLY SEQRES 11 H 213 ASP THR THR GLY SER SER VAL THR LEU GLY CYS LEU VAL SEQRES 12 H 213 LYS GLY TYR PHE PRO GLU PRO VAL THR LEU THR TRP ASN SEQRES 13 H 213 SER GLY SER LEU SER SER GLY VAL HIS THR PHE PRO ALA SEQRES 14 H 213 VAL LEU GLN SER ASP LEU TYR THR LEU SER SER SER VAL SEQRES 15 H 213 THR VAL THR SER SER THR TRP PRO SER GLN SER ILE THR SEQRES 16 H 213 CYS ASN VAL ALA HIS PRO ALA SER SER THR LYS VAL ASP SEQRES 17 H 213 LYS LYS ILE GLU PRO SEQRES 1 L 214 ASP ILE GLN MET THR GLN THR PRO SER SER LEU SER ALA SEQRES 2 L 214 SER LEU GLY ASP ARG VAL THR ILE SER CYS ARG ALA SER SEQRES 3 L 214 GLN ASP ILE SER HIS TYR LEU ASN TRP PHE GLN GLN LYS SEQRES 4 L 214 PRO ASP GLY THR VAL LYS LEU LEU ILE TYR TYR THR SER SEQRES 5 L 214 THR LEU HIS SER GLY VAL PRO SER ARG PHE SER GLY SER SEQRES 6 L 214 GLY SER GLY THR ASP TYR SER LEU THR ILE SER ASN LEU SEQRES 7 L 214 GLU GLU GLU ASP ILE ALA PHE TYR PHE CYS GLN GLN GLY SEQRES 8 L 214 GLY ALA LEU PRO PHE THR PHE GLY SER GLY THR LYS LEU SEQRES 9 L 214 ALA ILE LYS ARG ALA ASP ALA ALA PRO THR VAL SER ILE SEQRES 10 L 214 PHE PRO PRO SER SER GLU GLN LEU THR SER GLY GLY ALA SEQRES 11 L 214 SER VAL VAL CYS PHE LEU ASN ASN PHE TYR PRO LYS ASP SEQRES 12 L 214 ILE ASN VAL LYS TRP LYS ILE ASP GLY SER GLU ARG GLN SEQRES 13 L 214 ASN GLY VAL LEU ASP SER TRP THR ASP GLN ASP SER LYS SEQRES 14 L 214 ASP SER THR TYR SER MET SER SER THR LEU THR LEU THR SEQRES 15 L 214 LYS ASP GLU TYR GLU ARG HIS ASN SER TYR THR CYS GLU SEQRES 16 L 214 ALA THR HIS LYS THR SER THR SER PRO ILE VAL LYS SER SEQRES 17 L 214 PHE ASN ARG ASN GLU CYS SEQRES 1 P 7 SER HIS PHE ASN GLU TYR GLU HET NI L 901 1 HET CL P 901 1 HETNAM NI NICKEL (II) ION HETNAM CL CHLORIDE ION FORMUL 4 NI NI 2+ FORMUL 5 CL CL 1- FORMUL 6 HOH *409(H2 O) HELIX 1 4 GLU H 61 LYS H 64 5 4 HELIX 2 5 LYS H 73 SER H 75 5 3 HELIX 3 6 THR H 83 SER H 87 5 5 HELIX 4 7 SER H 153 SER H 155 5 3 HELIX 5 8 PRO H 197 SER H 200 5 4 HELIX 6 1 GLU L 79 ILE L 83 5 5 HELIX 7 2 SER L 121 SER L 127 1 7 HELIX 8 3 LYS L 183 ARG L 188 1 6 SHEET 1 A 4 MET L 4 THR L 7 0 SHEET 2 A 4 VAL L 19 ALA L 25 -1 N ARG L 24 O THR L 5 SHEET 3 A 4 ASP L 70 ILE L 75 -1 N ILE L 75 O VAL L 19 SHEET 4 A 4 PHE L 62 SER L 67 -1 N SER L 67 O ASP L 70 SHEET 1 B 2 SER L 10 ALA L 13 0 SHEET 2 B 2 LYS L 103 ILE L 106 1 N LYS L 103 O LEU L 11 SHEET 1 C 3 PHE L 85 GLN L 90 0 SHEET 2 C 3 LEU L 33 GLN L 38 -1 N GLN L 38 O PHE L 85 SHEET 3 C 3 VAL L 44 ILE L 48 -1 N ILE L 48 O TRP L 35 SHEET 1 D 4 THR L 114 PHE L 118 0 SHEET 2 D 4 GLY L 129 ASN L 137 -1 N ASN L 137 O THR L 114 SHEET 3 D 4 MET L 175 THR L 182 -1 N LEU L 181 O ALA L 130 SHEET 4 D 4 VAL L 159 TRP L 163 -1 N SER L 162 O SER L 176 SHEET 1 E 4 SER L 153 ARG L 155 0 SHEET 2 E 4 ILE L 144 ILE L 150 -1 N ILE L 150 O SER L 153 SHEET 3 E 4 SER L 191 HIS L 198 -1 N THR L 197 O ASN L 145 SHEET 4 E 4 ILE L 205 ASN L 210 -1 N PHE L 209 O TYR L 192 SHEET 1 F 4 GLN H 3 GLN H 5 0 SHEET 2 F 4 VAL H 18 SER H 25 -1 N SER H 25 O GLN H 3 SHEET 3 F 4 THR H 77 LEU H 82 -1 N LEU H 82 O VAL H 18 SHEET 4 F 4 ALA H 67 ASP H 72 -1 N ASP H 72 O THR H 77 SHEET 1 G 6 ALA H 9 VAL H 12 0 SHEET 2 G 6 THR H 104 VAL H 108 1 N THR H 105 O GLU H 10 SHEET 3 G 6 ALA H 88 SER H 95 -1 N TYR H 90 O THR H 104 SHEET 4 G 6 TRP H 33 GLN H 39 -1 N GLN H 39 O VAL H 89 SHEET 5 G 6 GLU H 46 LEU H 52 -1 N ILE H 51 O MET H 34 SHEET 6 G 6 THR H 57 TYR H 59 -1 N ASN H 58 O GLU H 50 SHEET 1 H 4 SER H 117 LEU H 121 0 SHEET 2 H 4 SER H 132 TYR H 142 -1 N LYS H 140 O SER H 117 SHEET 3 H 4 TYR H 172 THR H 181 -1 N VAL H 180 O VAL H 133 SHEET 4 H 4 VAL H 160 THR H 162 -1 N HIS H 161 O SER H 177 SHEET 1 I 3 THR H 148 TRP H 151 0 SHEET 2 I 3 THR H 191 HIS H 196 -1 N ALA H 195 O THR H 148 SHEET 3 I 3 THR H 201 LYS H 206 -1 N LYS H 205 O CYS H 192 SSBOND 1 CYS H 22 CYS H 92 1555 1555 2.09 SSBOND 2 CYS H 125 CYS L 214 1555 1555 2.04 SSBOND 3 CYS H 137 CYS H 192 1555 1555 2.04 SSBOND 4 CYS L 23 CYS L 88 1555 1555 2.06 SSBOND 5 CYS L 134 CYS L 194 1555 1555 2.07 LINK O ASP L 1 NI NI L 901 4554 1555 2.46 LINK N ASP L 1 NI NI L 901 4554 1555 2.57 LINK OD1 ASP L 1 NI NI L 901 4554 1555 2.41 LINK NE2 HIS L 189 NI NI L 901 1555 1555 2.49 LINK NI NI L 901 O HOH L2003 1555 4554 2.46 LINK NI NI L 901 O HOH L2009 1555 4554 2.58 CISPEP 1 PHE H 143 PRO H 144 0 -2.82 CISPEP 2 GLU H 145 PRO H 146 0 2.43 CISPEP 3 TRP H 185 PRO H 186 0 7.32 CISPEP 4 THR L 7 PRO L 8 0 -7.47 CISPEP 5 LEU L 94 PRO L 95 0 -6.15 CISPEP 6 TYR L 140 PRO L 141 0 4.47 SITE 1 AC1 4 ASP L 1 HIS L 189 HOH L2003 HOH L2009 SITE 1 AC2 4 ARG H 56 ASN H 58 HOH H2017 ASN P 4 CRYST1 49.220 94.350 121.790 90.00 90.00 90.00 P 21 21 21 4 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 0.020317 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010599 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008211 0.00000