HEADER IMMUNE SYSTEM 10-NOV-15 5EOC TITLE CRYSTAL STRUCTURE OF FAB C2 IN COMPLEX WITH A CYCLIC VARIANT OF TITLE 2 HEPATITIS C VIRUS E2 EPITOPE I COMPND MOL_ID: 1; COMPND 2 MOLECULE: FAB FRAGMENT (HEAVY CHAIN); COMPND 3 CHAIN: H; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: FAB FRAGMENT (LIGHT CHAIN); COMPND 6 CHAIN: L, M; COMPND 7 MOL_ID: 3; COMPND 8 MOLECULE: FAB FRAGMENT (HEAVY CHAIN); COMPND 9 CHAIN: J; COMPND 10 MOL_ID: 4; COMPND 11 MOLECULE: ALA-CYS-GLN-LEU-ILE-ASN-THR-ASN-GLY-SER-TRP-HIS-ILE-CYS; COMPND 12 CHAIN: P, Q; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 6 ORGANISM_TAXID: 10090; SOURCE 7 MOL_ID: 3; SOURCE 8 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 9 ORGANISM_TAXID: 10090; SOURCE 10 MOL_ID: 4; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HEPATITIS C VIRUS; SOURCE 13 ORGANISM_TAXID: 11103 KEYWDS COMPLEX, MONOCLONAL ANTIBODIES, HCV, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR R.BERISIO,A.RUGGIERO,A.SANDOMENICO,A.H.PATEL,M.RUVO,L.VITAGLIANO REVDAT 3 10-JAN-24 5EOC 1 REMARK REVDAT 2 23-MAR-16 5EOC 1 JRNL REVDAT 1 10-FEB-16 5EOC 0 JRNL AUTH A.SANDOMENICO,A.LEONARDI,R.BERISIO,L.SANGUIGNO,G.FOCA, JRNL AUTH 2 A.FOCA,A.RUGGIERO,N.DOTI,L.MUSCARIELLO,D.BARONE,C.FARINA, JRNL AUTH 3 A.OWSIANKA,L.VITAGLIANO,A.H.PATEL,M.RUVO JRNL TITL GENERATION AND CHARACTERIZATION OF MONOCLONAL ANTIBODIES JRNL TITL 2 AGAINST A CYCLIC VARIANT OF HEPATITIS C VIRUS E2 EPITOPE JRNL TITL 3 412-422. JRNL REF J.VIROL. V. 90 3745 2016 JRNL REFN ESSN 1098-5514 JRNL PMID 26819303 JRNL DOI 10.1128/JVI.02397-15 REMARK 2 REMARK 2 RESOLUTION. 1.98 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 3 NUMBER OF REFLECTIONS : 56256 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) : 0.234 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.98 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3528 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 79.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE SET COUNT : 188 REMARK 3 BIN FREE R VALUE : 0.3800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6732 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 476 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.91 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): 0.248 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.197 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.149 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.460 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.938 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6914 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4593 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9428 ; 1.568 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11241 ; 0.946 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 876 ; 7.789 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 267 ;34.732 ;23.933 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1091 ;17.376 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;22.662 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1063 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7657 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1354 ; 0.001 ; 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): 4398 ; 0.879 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1770 ; 0.164 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7134 ; 1.587 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2516 ; 2.041 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2293 ; 3.253 ; 4.500 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): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 4 REMARK 4 5EOC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215259. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59746 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.980 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.7 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 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: 2Y5T AND 2Y6S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULPHATE AND 25% (W/V) REMARK 280 PEG 3,350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: J, M, Q 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 133 REMARK 465 SER H 134 REMARK 465 ALA H 135 REMARK 465 ALA H 136 REMARK 465 ASN H 137 REMARK 465 GLU J 1 REMARK 465 ALA J 135 REMARK 465 ALA J 136 REMARK 465 HIS M 80 REMARK 465 ALA P 410 REMARK 465 ALA Q 410 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 13 CG CD NE CZ NH1 NH2 REMARK 470 LYS H 121 CG CD CE NZ REMARK 470 GLU H 195 CG CD OE1 OE2 REMARK 470 LYS H 213 CG CD CE NZ REMARK 470 THR L 31 OG1 CG2 REMARK 470 HIS L 80 CB CG ND1 CD2 CE1 NE2 REMARK 470 ILE L 95 CG1 CG2 CD1 REMARK 470 ARG J 13 CG CD NE CZ NH1 NH2 REMARK 470 LYS J 121 CG CD CE NZ REMARK 470 GLN M 17 CG CD OE1 NE2 REMARK 470 ASN M 216 CB CG OD1 ND2 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 -0.127 REMARK 500 CYS H 144 CB CYS H 144 SG -0.098 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 181 CA - CB - CG ANGL. DEV. = 13.8 DEGREES REMARK 500 ARG J 98 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 LEU J 181 CA - CB - CG ANGL. DEV. = 16.6 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 THR H 30 41.56 -88.66 REMARK 500 TYR H 32 -168.54 71.27 REMARK 500 GLN H 43 -168.98 -109.19 REMARK 500 SER H 85 60.96 38.88 REMARK 500 ALA H 104 -103.31 -103.98 REMARK 500 SER H 160 16.95 51.37 REMARK 500 SER H 176 48.10 91.37 REMARK 500 GLN L 17 -167.04 -66.00 REMARK 500 SER L 32 -143.75 50.16 REMARK 500 SER L 56 12.62 -147.04 REMARK 500 HIS L 80 -111.12 -32.02 REMARK 500 THR L 99 85.28 70.87 REMARK 500 SER L 175 14.73 56.41 REMARK 500 THR J 30 32.13 -93.52 REMARK 500 TYR J 32 -172.62 57.35 REMARK 500 GLN J 43 -169.97 -107.90 REMARK 500 SER J 56 16.51 53.38 REMARK 500 SER J 85 54.76 34.81 REMARK 500 ALA J 92 174.75 178.42 REMARK 500 ALA J 104 -97.29 -86.06 REMARK 500 ALA J 205 4.83 -65.40 REMARK 500 GLN M 17 -159.27 -76.64 REMARK 500 SER M 32 -134.37 56.17 REMARK 500 TYR M 53 116.60 171.20 REMARK 500 SER M 56 -9.23 -146.08 REMARK 500 PRO M 63 151.99 -47.33 REMARK 500 ALA M 88 171.05 169.68 REMARK 500 ARG M 215 147.22 148.19 REMARK 500 ASN P 417 -22.84 167.81 REMARK 500 THR Q 416 -62.17 -94.28 REMARK 500 ASN Q 417 -27.51 -170.84 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 LEU L 98 THR L 99 -148.76 REMARK 500 GLY M 16 GLN M 17 -149.95 REMARK 500 ASN P 417 GLY P 418 140.71 REMARK 500 ASN Q 417 GLY Q 418 142.79 REMARK 500 REMARK 500 REMARK: NULL DBREF 5EOC H 1 217 PDB 5EOC 5EOC 1 217 DBREF 5EOC L 1 216 PDB 5EOC 5EOC 1 216 DBREF 5EOC J 1 217 PDB 5EOC 5EOC 1 217 DBREF 5EOC M 1 216 PDB 5EOC 5EOC 1 216 DBREF 5EOC P 410 423 PDB 5EOC 5EOC 410 423 DBREF 5EOC Q 410 423 PDB 5EOC 5EOC 410 423 SEQRES 1 H 217 GLU VAL GLN LEU GLN GLN PRO GLY ALA GLU LEU VAL ARG SEQRES 2 H 217 PRO GLY GLY SER VAL LYS LEU SER CYS LYS ALA SER GLY SEQRES 3 H 217 TYR SER PHE THR THR TYR TRP MET ASN TRP VAL LYS GLN SEQRES 4 H 217 ARG PRO GLY GLN GLY LEU GLU TRP ILE GLY MET ILE GLN SEQRES 5 H 217 PRO SER ASP SER GLU THR ARG LEU ASN GLN LYS PHE LYS SEQRES 6 H 217 ASP LYS ALA THR LEU THR LEU ASP ARG SER SER SER THR SEQRES 7 H 217 VAL TYR MET GLN LEU SER SER PRO THR SER ASP ASP SER SEQRES 8 H 217 ALA VAL TYR TYR CYS ALA ARG THR GLY ARG GLY ASP ALA SEQRES 9 H 217 TRP LEU THR TYR TRP GLY GLN GLY THR SER VAL THR VAL SEQRES 10 H 217 SER SER ALA LYS THR THR PRO PRO SER VAL TYR PRO LEU SEQRES 11 H 217 ALA PRO GLY SER ALA ALA ASN SER MET VAL THR LEU GLY SEQRES 12 H 217 CYS LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL THR VAL SEQRES 13 H 217 THR TRP ASN SER GLY SER LEU SER SER GLY VAL HIS THR SEQRES 14 H 217 PHE PRO ALA VAL LEU GLN SER ASP LEU TYR THR LEU SER SEQRES 15 H 217 SER SER VAL THR VAL PRO SER SER THR TRP PRO SER GLU SEQRES 16 H 217 THR VAL THR CYS ASN VAL ALA HIS PRO ALA SER SER THR SEQRES 17 H 217 LYS VAL ASP LYS LYS ILE VAL PRO ARG SEQRES 1 L 216 ASN ILE VAL LEU THR GLN SER PRO VAL SER LEU ALA VAL SEQRES 2 L 216 SER LEU GLY GLN ARG ALA THR ILE SER CYS ARG ALA SER SEQRES 3 L 216 LYS SER VAL SER THR SER GLY TYR SER TYR MET HIS TRP SEQRES 4 L 216 TYR GLN GLN LYS PRO GLY GLN PRO PRO ARG LEU LEU LEU SEQRES 5 L 216 TYR LEU GLY SER ASN LEU GLU SER GLY VAL PRO ALA ARG SEQRES 6 L 216 PHE SER GLY SER GLY SER GLY THR ASP PHE THR LEU ASN SEQRES 7 L 216 ILE HIS PRO VAL GLU GLU GLU ASP ALA ALA THR TYR TYR SEQRES 8 L 216 CYS GLN HIS ILE ARG GLU LEU THR ARG SER PHE GLY GLY SEQRES 9 L 216 GLY THR LYS LEU GLU ILE LYS ARG ALA ASP ALA ALA PRO SEQRES 10 L 216 THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU THR SEQRES 11 L 216 SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN PHE SEQRES 12 L 216 TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP GLY SEQRES 13 L 216 SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR ASP SEQRES 14 L 216 GLN ASP SER LYS ASP SER THR TYR SER MET SER SER THR SEQRES 15 L 216 LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SER SEQRES 16 L 216 TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER PRO SEQRES 17 L 216 ILE VAL LYS SER PHE ASN ARG ASN SEQRES 1 J 217 GLU VAL GLN LEU GLN GLN PRO GLY ALA GLU LEU VAL ARG SEQRES 2 J 217 PRO GLY GLY SER VAL LYS LEU SER CYS LYS ALA SER GLY SEQRES 3 J 217 TYR SER PHE THR THR TYR TRP MET MET TRP VAL LYS GLN SEQRES 4 J 217 ARG PRO GLY GLN GLY LEU GLU TRP ILE GLY MET ILE GLN SEQRES 5 J 217 PRO SER ASP SER GLU THR ARG LEU ASN GLN LYS PHE LYS SEQRES 6 J 217 ASP LYS ALA THR LEU THR LEU ASP ARG SER SER SER THR SEQRES 7 J 217 VAL TYR MET GLN LEU SER SER PRO THR SER ASP ASP SER SEQRES 8 J 217 ALA VAL TYR TYR CYS ALA ARG THR GLY ARG GLY ASP ALA SEQRES 9 J 217 TRP LEU THR TYR TRP GLY GLN GLY THR SER VAL THR VAL SEQRES 10 J 217 SER SER ALA LYS THR THR PRO PRO SER VAL TYR PRO LEU SEQRES 11 J 217 ALA PRO GLY SER ALA ALA ASN SER MET VAL THR LEU GLY SEQRES 12 J 217 CYS LEU VAL LYS GLY TYR PHE PRO GLU PRO VAL THR VAL SEQRES 13 J 217 THR TRP ASN SER GLY SER LEU SER SER GLY VAL HIS THR SEQRES 14 J 217 PHE PRO ALA VAL LEU GLN SER ASP LEU TYR THR LEU SER SEQRES 15 J 217 SER SER VAL THR VAL PRO SER SER THR TRP PRO SER GLU SEQRES 16 J 217 THR VAL THR CYS ASN VAL ALA HIS PRO ALA SER SER THR SEQRES 17 J 217 LYS VAL ASP LYS LYS ILE VAL PRO ARG SEQRES 1 M 216 ASN ILE VAL LEU THR GLN SER PRO VAL SER LEU ALA VAL SEQRES 2 M 216 SER LEU GLY GLN ARG ALA THR ILE SER CYS ARG ALA SER SEQRES 3 M 216 LYS SER VAL SER THR SER GLY TYR SER TYR MET HIS TRP SEQRES 4 M 216 TYR GLN GLN LYS PRO GLY GLN PRO PRO ARG LEU LEU LEU SEQRES 5 M 216 TYR LEU GLY SER ASN LEU GLU SER GLY VAL PRO ALA ARG SEQRES 6 M 216 PHE SER GLY SER GLY SER GLY THR ASP PHE THR LEU ASN SEQRES 7 M 216 ILE HIS PRO VAL GLU GLU GLU ASP ALA ALA THR TYR TYR SEQRES 8 M 216 CYS GLN HIS ILE ARG GLU LEU THR ARG SER PHE GLY GLY SEQRES 9 M 216 GLY THR LYS LEU GLU ILE LYS ARG ALA ASP ALA ALA PRO SEQRES 10 M 216 THR VAL SER ILE PHE PRO PRO SER SER GLU GLN LEU THR SEQRES 11 M 216 SER GLY GLY ALA SER VAL VAL CYS PHE LEU ASN ASN PHE SEQRES 12 M 216 TYR PRO LYS ASP ILE ASN VAL LYS TRP LYS ILE ASP GLY SEQRES 13 M 216 SER GLU ARG GLN ASN GLY VAL LEU ASN SER TRP THR ASP SEQRES 14 M 216 GLN ASP SER LYS ASP SER THR TYR SER MET SER SER THR SEQRES 15 M 216 LEU THR LEU THR LYS ASP GLU TYR GLU ARG HIS ASN SER SEQRES 16 M 216 TYR THR CYS GLU ALA THR HIS LYS THR SER THR SER PRO SEQRES 17 M 216 ILE VAL LYS SER PHE ASN ARG ASN SEQRES 1 P 14 ALA CYS GLN LEU ILE ASN THR ASN GLY SER TRP HIS ILE SEQRES 2 P 14 CYS SEQRES 1 Q 14 ALA CYS GLN LEU ILE ASN THR ASN GLY SER TRP HIS ILE SEQRES 2 Q 14 CYS FORMUL 7 HOH *476(H2 O) HELIX 1 AA1 GLN H 62 LYS H 65 5 4 HELIX 2 AA2 ARG H 74 SER H 76 5 3 HELIX 3 AA3 THR H 87 SER H 91 5 5 HELIX 4 AA4 SER H 160 SER H 162 5 3 HELIX 5 AA5 SER H 190 TRP H 192 5 3 HELIX 6 AA6 PRO H 204 SER H 207 5 4 HELIX 7 AA7 GLU L 83 ALA L 87 5 5 HELIX 8 AA8 SER L 125 THR L 130 1 6 HELIX 9 AA9 LYS L 187 HIS L 193 1 7 HELIX 10 AB1 GLN J 62 LYS J 65 5 4 HELIX 11 AB2 THR J 87 SER J 91 5 5 HELIX 12 AB3 SER J 160 SER J 162 5 3 HELIX 13 AB4 SER J 190 TRP J 192 5 3 HELIX 14 AB5 PRO J 204 SER J 207 5 4 HELIX 15 AB6 GLU M 83 ALA M 87 5 5 HELIX 16 AB7 SER M 125 THR M 130 1 6 HELIX 17 AB8 LYS M 187 ARG M 192 1 6 SHEET 1 AA1 4 GLN H 3 GLN H 5 0 SHEET 2 AA1 4 VAL H 18 SER H 25 -1 O LYS H 23 N GLN H 5 SHEET 3 AA1 4 THR H 78 LEU H 83 -1 O MET H 81 N LEU H 20 SHEET 4 AA1 4 ALA H 68 ASP H 73 -1 N THR H 71 O TYR H 80 SHEET 1 AA2 6 ALA H 9 VAL H 12 0 SHEET 2 AA2 6 THR H 113 VAL H 117 1 O THR H 116 N GLU H 10 SHEET 3 AA2 6 ALA H 92 THR H 99 -1 N ALA H 92 O VAL H 115 SHEET 4 AA2 6 MET H 34 GLN H 39 -1 N ASN H 35 O ALA H 97 SHEET 5 AA2 6 GLU H 46 ILE H 51 -1 O GLU H 46 N LYS H 38 SHEET 6 AA2 6 THR H 58 LEU H 60 -1 O ARG H 59 N MET H 50 SHEET 1 AA3 4 ALA H 9 VAL H 12 0 SHEET 2 AA3 4 THR H 113 VAL H 117 1 O THR H 116 N GLU H 10 SHEET 3 AA3 4 ALA H 92 THR H 99 -1 N ALA H 92 O VAL H 115 SHEET 4 AA3 4 LEU H 106 TRP H 109 -1 O TYR H 108 N ARG H 98 SHEET 1 AA4 4 SER H 126 LEU H 130 0 SHEET 2 AA4 4 MET H 139 TYR H 149 -1 O LYS H 147 N SER H 126 SHEET 3 AA4 4 TYR H 179 PRO H 188 -1 O TYR H 179 N TYR H 149 SHEET 4 AA4 4 VAL H 167 THR H 169 -1 N HIS H 168 O SER H 184 SHEET 1 AA5 4 SER H 126 LEU H 130 0 SHEET 2 AA5 4 MET H 139 TYR H 149 -1 O LYS H 147 N SER H 126 SHEET 3 AA5 4 TYR H 179 PRO H 188 -1 O TYR H 179 N TYR H 149 SHEET 4 AA5 4 VAL H 173 LEU H 174 -1 N VAL H 173 O THR H 180 SHEET 1 AA6 3 THR H 155 TRP H 158 0 SHEET 2 AA6 3 THR H 198 HIS H 203 -1 O ASN H 200 N THR H 157 SHEET 3 AA6 3 THR H 208 LYS H 213 -1 O VAL H 210 N VAL H 201 SHEET 1 AA7 4 LEU L 4 SER L 7 0 SHEET 2 AA7 4 ALA L 19 ALA L 25 -1 O ARG L 24 N THR L 5 SHEET 3 AA7 4 ASP L 74 ILE L 79 -1 O LEU L 77 N ILE L 21 SHEET 4 AA7 4 PHE L 66 SER L 71 -1 N SER L 69 O THR L 76 SHEET 1 AA8 6 SER L 10 SER L 14 0 SHEET 2 AA8 6 THR L 106 LYS L 111 1 O GLU L 109 N LEU L 11 SHEET 3 AA8 6 ALA L 88 HIS L 94 -1 N ALA L 88 O LEU L 108 SHEET 4 AA8 6 MET L 37 GLN L 42 -1 N HIS L 38 O GLN L 93 SHEET 5 AA8 6 ARG L 49 TYR L 53 -1 O LEU L 52 N TRP L 39 SHEET 6 AA8 6 ASN L 57 LEU L 58 -1 O ASN L 57 N TYR L 53 SHEET 1 AA9 2 SER L 30 THR L 31 0 SHEET 2 AA9 2 TYR L 34 SER L 35 -1 O TYR L 34 N THR L 31 SHEET 1 AB1 4 THR L 118 PHE L 122 0 SHEET 2 AB1 4 GLY L 133 PHE L 143 -1 O ASN L 141 N THR L 118 SHEET 3 AB1 4 TYR L 177 THR L 186 -1 O LEU L 185 N ALA L 134 SHEET 4 AB1 4 VAL L 163 TRP L 167 -1 N SER L 166 O SER L 180 SHEET 1 AB2 4 SER L 157 ARG L 159 0 SHEET 2 AB2 4 ASN L 149 ILE L 154 -1 N ILE L 154 O SER L 157 SHEET 3 AB2 4 SER L 195 THR L 201 -1 O GLU L 199 N LYS L 151 SHEET 4 AB2 4 ILE L 209 ASN L 214 -1 O ILE L 209 N ALA L 200 SHEET 1 AB3 4 GLN J 3 GLN J 5 0 SHEET 2 AB3 4 VAL J 18 SER J 25 -1 O LYS J 23 N GLN J 5 SHEET 3 AB3 4 THR J 78 LEU J 83 -1 O MET J 81 N LEU J 20 SHEET 4 AB3 4 ALA J 68 ASP J 73 -1 N ASP J 73 O THR J 78 SHEET 1 AB4 6 ALA J 9 VAL J 12 0 SHEET 2 AB4 6 THR J 113 VAL J 117 1 O THR J 116 N VAL J 12 SHEET 3 AB4 6 ALA J 92 THR J 99 -1 N ALA J 92 O VAL J 115 SHEET 4 AB4 6 MET J 34 GLN J 39 -1 N MET J 35 O ALA J 97 SHEET 5 AB4 6 GLU J 46 ILE J 51 -1 O ILE J 48 N TRP J 36 SHEET 6 AB4 6 THR J 58 LEU J 60 -1 O ARG J 59 N MET J 50 SHEET 1 AB5 4 ALA J 9 VAL J 12 0 SHEET 2 AB5 4 THR J 113 VAL J 117 1 O THR J 116 N VAL J 12 SHEET 3 AB5 4 ALA J 92 THR J 99 -1 N ALA J 92 O VAL J 115 SHEET 4 AB5 4 LEU J 106 TRP J 109 -1 O TYR J 108 N ARG J 98 SHEET 1 AB6 4 SER J 126 LEU J 130 0 SHEET 2 AB6 4 MET J 139 TYR J 149 -1 O LYS J 147 N SER J 126 SHEET 3 AB6 4 LEU J 178 PRO J 188 -1 O TYR J 179 N TYR J 149 SHEET 4 AB6 4 VAL J 167 THR J 169 -1 N HIS J 168 O SER J 184 SHEET 1 AB7 4 SER J 126 LEU J 130 0 SHEET 2 AB7 4 MET J 139 TYR J 149 -1 O LYS J 147 N SER J 126 SHEET 3 AB7 4 LEU J 178 PRO J 188 -1 O TYR J 179 N TYR J 149 SHEET 4 AB7 4 VAL J 173 GLN J 175 -1 N GLN J 175 O LEU J 178 SHEET 1 AB8 3 THR J 155 TRP J 158 0 SHEET 2 AB8 3 THR J 198 HIS J 203 -1 O ALA J 202 N THR J 155 SHEET 3 AB8 3 THR J 208 LYS J 213 -1 O VAL J 210 N VAL J 201 SHEET 1 AB9 4 LEU M 4 SER M 7 0 SHEET 2 AB9 4 ARG M 18 ALA M 25 -1 O ARG M 24 N THR M 5 SHEET 3 AB9 4 ASP M 74 ILE M 79 -1 O PHE M 75 N CYS M 23 SHEET 4 AB9 4 SER M 67 GLY M 70 -1 N SER M 67 O ASN M 78 SHEET 1 AC1 5 SER M 10 SER M 14 0 SHEET 2 AC1 5 THR M 106 LYS M 111 1 O LYS M 111 N VAL M 13 SHEET 3 AC1 5 ALA M 88 HIS M 94 -1 N ALA M 88 O LEU M 108 SHEET 4 AC1 5 SER M 35 GLN M 42 -1 N GLN M 42 O THR M 89 SHEET 5 AC1 5 ARG M 49 LEU M 54 -1 O ARG M 49 N GLN M 41 SHEET 1 AC2 4 SER M 10 SER M 14 0 SHEET 2 AC2 4 THR M 106 LYS M 111 1 O LYS M 111 N VAL M 13 SHEET 3 AC2 4 ALA M 88 HIS M 94 -1 N ALA M 88 O LEU M 108 SHEET 4 AC2 4 SER M 101 PHE M 102 -1 O SER M 101 N HIS M 94 SHEET 1 AC3 4 THR M 118 PHE M 122 0 SHEET 2 AC3 4 GLY M 133 PHE M 143 -1 O ASN M 141 N THR M 118 SHEET 3 AC3 4 TYR M 177 THR M 186 -1 O MET M 179 N LEU M 140 SHEET 4 AC3 4 VAL M 163 TRP M 167 -1 N LEU M 164 O THR M 182 SHEET 1 AC4 4 SER M 157 ARG M 159 0 SHEET 2 AC4 4 ASN M 149 ILE M 154 -1 N ILE M 154 O SER M 157 SHEET 3 AC4 4 SER M 195 THR M 201 -1 O THR M 201 N ASN M 149 SHEET 4 AC4 4 ILE M 209 ASN M 214 -1 O LYS M 211 N CYS M 198 SHEET 1 AC5 2 GLN P 412 ILE P 414 0 SHEET 2 AC5 2 TRP P 420 ILE P 422 -1 O TRP P 420 N ILE P 414 SHEET 1 AC6 2 GLN Q 412 ASN Q 415 0 SHEET 2 AC6 2 SER Q 419 ILE Q 422 -1 O TRP Q 420 N ILE Q 414 SSBOND 1 CYS H 22 CYS H 96 1555 1555 2.12 SSBOND 2 CYS H 144 CYS H 199 1555 1555 2.04 SSBOND 3 CYS L 23 CYS L 92 1555 1555 2.09 SSBOND 4 CYS L 138 CYS L 198 1555 1555 2.05 SSBOND 5 CYS J 22 CYS J 96 1555 1555 2.06 SSBOND 6 CYS J 144 CYS J 199 1555 1555 2.03 SSBOND 7 CYS M 23 CYS M 92 1555 1555 2.10 SSBOND 8 CYS M 138 CYS M 198 1555 1555 2.04 SSBOND 9 CYS P 411 CYS P 423 1555 1555 2.02 SSBOND 10 CYS Q 411 CYS Q 423 1555 1555 2.04 CISPEP 1 PHE H 150 PRO H 151 0 -8.31 CISPEP 2 GLU H 152 PRO H 153 0 -6.15 CISPEP 3 TRP H 192 PRO H 193 0 5.97 CISPEP 4 SER L 7 PRO L 8 0 -0.86 CISPEP 5 TYR L 144 PRO L 145 0 -4.44 CISPEP 6 PHE J 150 PRO J 151 0 -18.30 CISPEP 7 GLU J 152 PRO J 153 0 -0.57 CISPEP 8 TRP J 192 PRO J 193 0 9.35 CISPEP 9 SER M 7 PRO M 8 0 -0.54 CISPEP 10 TYR M 53 LEU M 54 0 26.39 CISPEP 11 LEU M 98 THR M 99 0 20.51 CISPEP 12 TYR M 144 PRO M 145 0 2.44 CRYST1 54.972 56.191 77.153 90.35 90.18 94.98 P 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 0.018191 0.001586 0.000067 0.00000 SCALE2 0.000000 0.017864 0.000113 0.00000 SCALE3 0.000000 0.000000 0.012962 0.00000