HEADER ONCOPROTEIN, VIRUS/VIRAL PROTEIN 02-DEC-05 2F8B TITLE NMR STRUCTURE OF THE C-TERMINAL DOMAIN (DIMER) OF HPV45 ONCOPROTEIN E7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN E7; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN, RESIDUES 55-106; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN PAPILLOMAVIRUS TYPE 45; SOURCE 3 ORGANISM_TAXID: 10593; SOURCE 4 STRAIN: HPV TYPE 45; SOURCE 5 GENE: E7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS E7, DIMER, HPV, ONCOPROTEIN, ZINC BINDING, VIRUS-VIRAL PROTEIN KEYWDS 2 COMPLEX EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR O.OHLENSCHLAGER,M.GORLACH REVDAT 5 09-MAR-22 2F8B 1 REMARK SEQADV LINK REVDAT 4 24-FEB-09 2F8B 1 VERSN REVDAT 3 10-OCT-06 2F8B 1 JRNL REVDAT 2 05-SEP-06 2F8B 1 JRNL REVDAT 1 08-AUG-06 2F8B 0 JRNL AUTH O.OHLENSCHLAGER,T.SEIBOTH,H.ZENGERLING,L.BRIESE,A.MARCHANKA, JRNL AUTH 2 R.RAMACHANDRAN,M.BAUM,M.KORBAS,W.MEYER-KLAUCKE,M.DURST, JRNL AUTH 3 M.GORLACH JRNL TITL SOLUTION STRUCTURE OF THE PARTIALLY FOLDED HIGH-RISK HUMAN JRNL TITL 2 PAPILLOMA VIRUS 45 ONCOPROTEIN E7. JRNL REF ONCOGENE V. 25 5953 2006 JRNL REFN ISSN 0950-9232 JRNL PMID 16636661 JRNL DOI 10.1038/SJ.ONC.1209584 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1, OPAL 2.6 REMARK 3 AUTHORS : VARIAN INC. (VNMR), LUGINBUHL (OPAL) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2F8B COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1000035576. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM E7 U-15N, 20MM D-TRIS, 100MM REMARK 210 NACL, 90% H2O, 10%D2O; 1MM E7 U- REMARK 210 15N,13C, 20MM D-TRIS, 100MM NACL, REMARK 210 90% H2O, 10%D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNHA; 3D_13C-F1-FILTERED,13C-F3-EDITED_NOESY- REMARK 210 HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY 1.3.9, CYANA 2.1 REMARK 210 METHOD USED : DISTANCE GEOMETRY/SIMULATED REMARK 210 ANNEALING BY CYANA, ENERGY REMARK 210 MINIMISATION BY OPAL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING HETERONUCLEAR TRIPLE REMARK 210 RESONANCE NMR SPECTROSCOPY. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 HG SER B 29 OD2 ASP B 33 1.31 REMARK 500 OE1 GLU A 24 HG1 THR A 26 1.36 REMARK 500 HG SER A 46 OE1 GLU B 28 1.37 REMARK 500 OE1 GLU A 28 HG SER B 46 1.38 REMARK 500 O PRO A 50 HG1 THR A 54 1.54 REMARK 500 O PRO B 50 HG1 THR B 54 1.56 REMARK 500 O GLU A 32 HG1 THR A 36 1.58 REMARK 500 O GLU B 32 HG1 THR B 36 1.58 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 2 VAL B 48 CG1 - CB - CG2 ANGL. DEV. = -10.7 DEGREES REMARK 500 4 CYS A 16 CA - CB - SG ANGL. DEV. = -11.3 DEGREES REMARK 500 4 VAL A 48 CG1 - CB - CG2 ANGL. DEV. = -13.1 DEGREES REMARK 500 4 VAL A 48 CA - CB - CG1 ANGL. DEV. = 13.2 DEGREES REMARK 500 4 CYS B 16 CA - CB - SG ANGL. DEV. = -10.9 DEGREES REMARK 500 4 VAL B 48 CG1 - CB - CG2 ANGL. DEV. = -12.6 DEGREES REMARK 500 4 VAL B 48 CA - CB - CG1 ANGL. DEV. = 13.0 DEGREES REMARK 500 5 CYS B 16 CA - CB - SG ANGL. DEV. = -11.1 DEGREES REMARK 500 5 VAL B 48 CG1 - CB - CG2 ANGL. DEV. = -13.9 DEGREES REMARK 500 5 VAL B 48 CA - CB - CG1 ANGL. DEV. = 14.3 DEGREES REMARK 500 5 CYS B 52 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 8 VAL A 48 CA - CB - CG1 ANGL. DEV. = 11.8 DEGREES REMARK 500 9 VAL B 48 CG1 - CB - CG2 ANGL. DEV. = -10.8 DEGREES REMARK 500 10 VAL A 48 CA - CB - CG1 ANGL. DEV. = 10.4 DEGREES REMARK 500 11 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 14 CYS A 52 CA - CB - SG ANGL. DEV. = 7.6 DEGREES REMARK 500 15 ARG A 9 NE - CZ - NH1 ANGL. DEV. = 3.6 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 1 GLN A 8 -71.46 -129.58 REMARK 500 1 ARG A 9 90.77 -56.52 REMARK 500 1 CYS A 14 -167.71 -112.91 REMARK 500 1 THR A 44 -34.04 -147.38 REMARK 500 1 HIS B 3 -154.68 57.57 REMARK 500 1 GLN B 8 -52.51 -129.47 REMARK 500 1 ARG B 9 93.47 -62.25 REMARK 500 1 CYS B 14 -166.81 -119.82 REMARK 500 1 THR B 44 -28.57 -151.06 REMARK 500 2 SER A 2 85.51 -65.58 REMARK 500 2 HIS A 3 35.46 -147.12 REMARK 500 2 MET A 4 28.23 -162.38 REMARK 500 2 GLN A 8 -52.02 -127.56 REMARK 500 2 ARG A 9 91.75 -63.37 REMARK 500 2 LEU A 25 91.88 -69.03 REMARK 500 2 THR A 44 -18.21 -147.11 REMARK 500 2 MET B 4 38.67 -160.91 REMARK 500 2 GLN B 8 -73.75 -123.93 REMARK 500 2 ARG B 9 93.40 -56.72 REMARK 500 2 LEU B 25 97.80 -68.80 REMARK 500 2 SER B 43 -77.75 -63.62 REMARK 500 2 THR B 44 -26.39 -141.24 REMARK 500 3 GLN A 8 -67.17 -142.50 REMARK 500 3 ARG A 9 91.93 -55.39 REMARK 500 3 CYS A 14 -164.84 -129.88 REMARK 500 3 SER A 43 -82.73 -67.89 REMARK 500 3 SER B 2 -159.17 55.56 REMARK 500 3 ALA B 5 110.91 -177.33 REMARK 500 3 PRO B 7 44.94 -81.64 REMARK 500 3 GLN B 8 -63.42 -128.10 REMARK 500 3 ARG B 9 90.80 -57.41 REMARK 500 3 LEU B 25 98.19 -68.12 REMARK 500 3 GLU B 28 79.63 -110.76 REMARK 500 3 THR B 44 -35.74 -144.99 REMARK 500 4 MET A 4 64.74 -68.71 REMARK 500 4 ALA A 5 34.02 -71.95 REMARK 500 4 PRO A 7 47.03 -78.26 REMARK 500 4 ARG A 9 89.94 -63.90 REMARK 500 4 CYS A 14 -169.69 -124.25 REMARK 500 4 SER A 43 -81.78 -67.19 REMARK 500 4 SER B 2 -172.59 54.23 REMARK 500 4 GLN B 8 -52.26 -128.23 REMARK 500 4 ARG B 9 91.88 -59.47 REMARK 500 4 CYS B 14 -169.54 -123.03 REMARK 500 4 SER B 43 -78.77 -64.31 REMARK 500 4 THR B 44 -22.60 -143.22 REMARK 500 5 GLN A 8 -53.41 -130.28 REMARK 500 5 ARG A 9 93.47 -60.51 REMARK 500 5 ASP A 20 15.07 57.06 REMARK 500 5 THR A 44 -29.97 -145.22 REMARK 500 REMARK 500 THIS ENTRY HAS 169 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 GLY B 1 SER B 2 4 -135.37 REMARK 500 GLY B 1 SER B 2 7 139.65 REMARK 500 GLY A 1 SER A 2 8 139.55 REMARK 500 GLY B 1 SER B 2 8 -131.56 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 ARG B 22 0.08 SIDE CHAIN REMARK 500 10 ARG B 9 0.10 SIDE CHAIN 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 ZN A 57 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 16 SG REMARK 620 2 CYS A 19 SG 116.0 REMARK 620 3 CYS A 49 SG 126.3 105.1 REMARK 620 4 CYS A 52 SG 109.8 104.6 90.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 57 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 16 SG REMARK 620 2 CYS B 19 SG 122.0 REMARK 620 3 CYS B 49 SG 136.3 93.9 REMARK 620 4 CYS B 52 SG 108.9 97.0 88.1 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 57 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 57 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2EWL RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE C-TERMINAL DOMAIN (MONOMER) OF HPV45 REMARK 900 ONCOPROTEIN E7 DBREF 2F8B A 5 56 UNP P21736 VE7_HPV45 55 106 DBREF 2F8B B 5 56 UNP P21736 VE7_HPV45 55 106 SEQADV 2F8B GLY A 1 UNP P21736 CLONING ARTIFACT SEQADV 2F8B SER A 2 UNP P21736 CLONING ARTIFACT SEQADV 2F8B HIS A 3 UNP P21736 CLONING ARTIFACT SEQADV 2F8B MET A 4 UNP P21736 CLONING ARTIFACT SEQADV 2F8B GLY B 1 UNP P21736 CLONING ARTIFACT SEQADV 2F8B SER B 2 UNP P21736 CLONING ARTIFACT SEQADV 2F8B HIS B 3 UNP P21736 CLONING ARTIFACT SEQADV 2F8B MET B 4 UNP P21736 CLONING ARTIFACT SEQRES 1 A 56 GLY SER HIS MET ALA GLU PRO GLN ARG HIS LYS ILE LEU SEQRES 2 A 56 CYS VAL CYS CYS LYS CYS ASP GLY ARG ILE GLU LEU THR SEQRES 3 A 56 VAL GLU SER SER ALA GLU ASP LEU ARG THR LEU GLN GLN SEQRES 4 A 56 LEU PHE LEU SER THR LEU SER PHE VAL CYS PRO TRP CYS SEQRES 5 A 56 ALA THR ASN GLN SEQRES 1 B 56 GLY SER HIS MET ALA GLU PRO GLN ARG HIS LYS ILE LEU SEQRES 2 B 56 CYS VAL CYS CYS LYS CYS ASP GLY ARG ILE GLU LEU THR SEQRES 3 B 56 VAL GLU SER SER ALA GLU ASP LEU ARG THR LEU GLN GLN SEQRES 4 B 56 LEU PHE LEU SER THR LEU SER PHE VAL CYS PRO TRP CYS SEQRES 5 B 56 ALA THR ASN GLN HET ZN A 57 1 HET ZN B 57 1 HETNAM ZN ZINC ION FORMUL 3 ZN 2(ZN 2+) HELIX 1 1 SER A 30 THR A 44 1 15 HELIX 2 2 CYS A 49 GLN A 56 1 8 HELIX 3 3 SER B 30 THR B 44 1 15 HELIX 4 4 CYS B 49 GLN B 56 1 8 SHEET 1 A 3 ARG A 9 VAL A 15 0 SHEET 2 A 3 ARG A 22 GLU A 28 -1 O ILE A 23 N CYS A 14 SHEET 3 A 3 SER B 46 PHE B 47 -1 O SER B 46 N GLU A 28 SHEET 1 B 3 SER A 46 PHE A 47 0 SHEET 2 B 3 ARG B 22 GLU B 28 -1 O GLU B 28 N SER A 46 SHEET 3 B 3 ARG B 9 VAL B 15 -1 N CYS B 14 O ILE B 23 LINK SG CYS A 16 ZN ZN A 57 1555 1555 1.35 LINK SG CYS A 19 ZN ZN A 57 1555 1555 2.47 LINK SG CYS A 49 ZN ZN A 57 1555 1555 2.48 LINK SG CYS A 52 ZN ZN A 57 1555 1555 2.48 LINK SG CYS B 16 ZN ZN B 57 1555 1555 1.35 LINK SG CYS B 19 ZN ZN B 57 1555 1555 2.48 LINK SG CYS B 49 ZN ZN B 57 1555 1555 2.48 LINK SG CYS B 52 ZN ZN B 57 1555 1555 2.49 SITE 1 AC1 4 CYS A 16 CYS A 19 CYS A 49 CYS A 52 SITE 1 AC2 4 CYS B 16 CYS B 19 CYS B 49 CYS B 52 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