HEADER GENE REGULATION 23-FEB-05 1WZ4 TITLE SOLUTION CONFORMATION OF ADR SUBTYPE HBV PRE-S2 EPITOPE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAJOR SURFACE ANTIGEN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE SEQUENCE OCCURS NATURALLY IN PRES2(123-145) SOURCE 4 REGION OF SURFACE ENVELOPE PROTEIN OF HEPATITIS B VIRUS KEYWDS HELIX TURN HELIX, GENE REGULATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.W.CHI,K.H.HAN REVDAT 5 29-MAY-24 1WZ4 1 REMARK REVDAT 4 02-MAR-22 1WZ4 1 REMARK REVDAT 3 19-JAN-10 1WZ4 1 JRNL REVDAT 2 24-FEB-09 1WZ4 1 VERSN REVDAT 1 16-MAY-06 1WZ4 0 JRNL AUTH S.W.CHI,D.H.KIM,J.S.KIM,M.K.LEE,K.H.HAN JRNL TITL SOLUTION CONFORMATION OF AN IMMUNODOMINANT EPITOPE IN THE JRNL TITL 2 HEPATITIS B VIRUS PRES2 SURFACE ANTIGEN. JRNL REF ANTIVIRAL RES. V. 72 207 2006 JRNL REFN ISSN 0166-3542 JRNL PMID 16872688 JRNL DOI 10.1016/J.ANTIVIRAL.2006.06.009 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1B, DISCOVER 2.98 REMARK 3 AUTHORS : MOLECULAR SIMULATIONS INC. (DISCOVER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WZ4 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-FEB-05. REMARK 100 THE DEPOSITION ID IS D_1000024175. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288; 298 REMARK 210 PH : 3.85; 3.85 REMARK 210 IONIC STRENGTH : 0; 0 REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 5MM ADR123; 5MM ADR123 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; DQF-COSY; PE REMARK 210 -COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 98.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY, MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE WITH REMARK 210 EXPERIMENTAL NOESY SPECTRUM REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 2 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES. REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: 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 1 TYR A 18 CB - CG - CD2 ANGL. DEV. = -7.9 DEGREES REMARK 500 2 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 3 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 4 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 5 TYR A 18 CB - CG - CD2 ANGL. DEV. = -8.4 DEGREES REMARK 500 6 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 7 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 8 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 9 TYR A 18 CB - CG - CD2 ANGL. DEV. = -7.3 DEGREES REMARK 500 10 TYR A 18 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 10 TYR A 18 CB - CG - CD1 ANGL. DEV. = -7.0 DEGREES REMARK 500 11 TYR A 18 CB - CG - CD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 12 TYR A 18 CB - CG - CD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 13 TYR A 18 CB - CG - CD1 ANGL. DEV. = -7.5 DEGREES REMARK 500 14 TYR A 18 CB - CG - CD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 15 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 16 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.3 DEGREES REMARK 500 17 TYR A 18 CB - CG - CD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 18 TYR A 18 CB - CG - CD2 ANGL. DEV. = -5.3 DEGREES REMARK 500 19 TYR A 18 CB - CG - CD2 ANGL. DEV. = -8.3 DEGREES REMARK 500 20 TYR A 18 CB - CG - CD2 ANGL. DEV. = -8.5 DEGREES REMARK 500 20 TYR A 18 CB - CG - CD1 ANGL. DEV. = -3.7 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 1 ALA A 8 36.66 -96.33 REMARK 500 1 ASP A 11 143.74 166.50 REMARK 500 1 PRO A 12 -0.88 -50.48 REMARK 500 1 ARG A 13 44.40 -150.15 REMARK 500 1 ARG A 15 -59.54 -29.40 REMARK 500 1 TYR A 18 30.45 -160.20 REMARK 500 2 GLN A 7 -40.34 -29.36 REMARK 500 2 LEU A 10 -2.52 -140.84 REMARK 500 2 ASP A 11 144.40 168.90 REMARK 500 2 ARG A 13 47.54 -144.72 REMARK 500 2 TYR A 18 25.80 -146.46 REMARK 500 3 ASP A 11 136.86 171.74 REMARK 500 3 PRO A 12 -36.88 -32.21 REMARK 500 3 ARG A 13 49.20 -147.72 REMARK 500 3 LEU A 17 21.04 -76.01 REMARK 500 3 TYR A 18 24.59 -146.62 REMARK 500 4 ASP A 11 134.57 167.92 REMARK 500 4 PRO A 12 -35.18 -33.45 REMARK 500 4 ARG A 13 47.65 -145.01 REMARK 500 4 TYR A 18 19.74 -145.83 REMARK 500 5 ALA A 8 35.74 -94.85 REMARK 500 5 ASP A 11 148.09 166.68 REMARK 500 5 PRO A 12 8.98 -61.26 REMARK 500 5 ARG A 13 41.47 -151.23 REMARK 500 5 ARG A 15 -49.09 -29.94 REMARK 500 5 TYR A 18 16.90 -145.38 REMARK 500 6 ALA A 8 31.25 -95.32 REMARK 500 6 ASP A 11 137.60 168.52 REMARK 500 6 PRO A 12 -39.65 -31.90 REMARK 500 6 ARG A 13 50.71 -143.06 REMARK 500 6 LEU A 17 20.92 -74.24 REMARK 500 6 TYR A 18 25.26 -146.87 REMARK 500 7 ASP A 11 159.82 173.68 REMARK 500 7 ARG A 13 53.51 -153.84 REMARK 500 7 TYR A 18 22.42 -145.72 REMARK 500 8 ALA A 8 31.35 -99.44 REMARK 500 8 ASP A 11 136.22 171.96 REMARK 500 8 PRO A 12 -34.25 -33.65 REMARK 500 8 ARG A 13 48.75 -147.41 REMARK 500 8 LEU A 17 20.98 -73.20 REMARK 500 8 TYR A 18 25.36 -145.62 REMARK 500 9 ASP A 11 151.58 168.03 REMARK 500 9 ARG A 13 47.54 -144.68 REMARK 500 9 TYR A 18 23.16 -141.38 REMARK 500 10 ASP A 11 135.45 178.32 REMARK 500 10 PRO A 12 -32.52 -36.15 REMARK 500 10 ARG A 13 49.44 -147.04 REMARK 500 10 TYR A 18 36.76 -147.80 REMARK 500 11 GLN A 7 -37.12 -37.02 REMARK 500 11 ASP A 11 139.65 166.71 REMARK 500 REMARK 500 THIS ENTRY HAS 93 RAMACHANDRAN OUTLIERS. 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 ARG A 13 VAL A 14 7 149.83 REMARK 500 LEU A 17 TYR A 18 10 -144.19 REMARK 500 ARG A 13 VAL A 14 13 145.99 REMARK 500 PRO A 12 ARG A 13 14 149.41 REMARK 500 ARG A 13 VAL A 14 17 147.52 REMARK 500 ARG A 13 VAL A 14 18 149.68 REMARK 500 ASP A 11 PRO A 12 19 143.89 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 1 PHE A 5 0.17 SIDE CHAIN REMARK 500 1 TYR A 18 0.24 SIDE CHAIN REMARK 500 2 PHE A 5 0.17 SIDE CHAIN REMARK 500 2 TYR A 18 0.19 SIDE CHAIN REMARK 500 2 PHE A 19 0.08 SIDE CHAIN REMARK 500 3 PHE A 5 0.12 SIDE CHAIN REMARK 500 3 TYR A 18 0.18 SIDE CHAIN REMARK 500 3 PHE A 19 0.09 SIDE CHAIN REMARK 500 4 PHE A 5 0.15 SIDE CHAIN REMARK 500 4 TYR A 18 0.07 SIDE CHAIN REMARK 500 4 PHE A 19 0.12 SIDE CHAIN REMARK 500 5 PHE A 5 0.17 SIDE CHAIN REMARK 500 5 TYR A 18 0.29 SIDE CHAIN REMARK 500 5 PHE A 19 0.08 SIDE CHAIN REMARK 500 6 PHE A 5 0.11 SIDE CHAIN REMARK 500 6 TYR A 18 0.18 SIDE CHAIN REMARK 500 6 PHE A 19 0.09 SIDE CHAIN REMARK 500 7 PHE A 5 0.16 SIDE CHAIN REMARK 500 7 TYR A 18 0.08 SIDE CHAIN REMARK 500 7 PHE A 19 0.11 SIDE CHAIN REMARK 500 8 PHE A 5 0.11 SIDE CHAIN REMARK 500 8 TYR A 18 0.18 SIDE CHAIN REMARK 500 8 PHE A 19 0.09 SIDE CHAIN REMARK 500 9 PHE A 5 0.11 SIDE CHAIN REMARK 500 9 TYR A 18 0.14 SIDE CHAIN REMARK 500 9 PHE A 19 0.11 SIDE CHAIN REMARK 500 10 PHE A 5 0.16 SIDE CHAIN REMARK 500 10 TYR A 18 0.25 SIDE CHAIN REMARK 500 10 PHE A 19 0.09 SIDE CHAIN REMARK 500 11 PHE A 5 0.18 SIDE CHAIN REMARK 500 11 TYR A 18 0.14 SIDE CHAIN REMARK 500 11 PHE A 19 0.11 SIDE CHAIN REMARK 500 12 PHE A 5 0.11 SIDE CHAIN REMARK 500 12 TYR A 18 0.14 SIDE CHAIN REMARK 500 12 PHE A 19 0.09 SIDE CHAIN REMARK 500 13 PHE A 5 0.18 SIDE CHAIN REMARK 500 13 TYR A 18 0.08 SIDE CHAIN REMARK 500 13 PHE A 19 0.09 SIDE CHAIN REMARK 500 14 PHE A 5 0.17 SIDE CHAIN REMARK 500 14 TYR A 18 0.24 SIDE CHAIN REMARK 500 15 PHE A 5 0.15 SIDE CHAIN REMARK 500 15 TYR A 18 0.09 SIDE CHAIN REMARK 500 15 PHE A 19 0.12 SIDE CHAIN REMARK 500 16 PHE A 5 0.12 SIDE CHAIN REMARK 500 16 TYR A 18 0.19 SIDE CHAIN REMARK 500 17 PHE A 5 0.12 SIDE CHAIN REMARK 500 17 TYR A 18 0.25 SIDE CHAIN REMARK 500 18 PHE A 5 0.15 SIDE CHAIN REMARK 500 18 TYR A 18 0.19 SIDE CHAIN REMARK 500 18 PHE A 19 0.12 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 55 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1WZ4 A 1 23 UNP P03140 VMSA_HPBVR 123 145 SEQRES 1 A 23 ASN SER THR THR PHE HIS GLN ALA LEU LEU ASP PRO ARG SEQRES 2 A 23 VAL ARG GLY LEU TYR PHE PRO ALA GLY GLY HELIX 1 1 ASN A 1 GLN A 7 1 7 HELIX 2 2 VAL A 14 TYR A 18 5 5 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1