PDB Short entry for 2OQS HEADER PEPTIDE BINDING PROTEIN 01-FEB-07 2OQS TITLE STRUCTURE OF THE HDLG/SAP97 PDZ2 IN COMPLEX WITH HPV-18 PAPILLOMAVIRUS TITLE 2 E6 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISKS LARGE HOMOLOG 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SECOND PDZ DOMAIN, RESIDUES 318-406; COMPND 5 SYNONYM: SYNAPSE-ASSOCIATED PROTEIN 97, SAP-97, HDLG; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: C-TERMINAL HPV-18 E6 PEPTIDE; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DLG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET30A(+); SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN HOMO SAPIENS SOURCE 14 (HUMAN) KEYWDS HPV E6, HDLG PDZ DOMAIN, PROTEIN-PEPTIDE COMPLEX, PEPTIDE-BINDING KEYWDS 2 PROTEIN, PEPTIDE BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR Y.LIU,J.D.BALEJA,G.D.HENRY,R.S.HEGDE REVDAT 5 27-DEC-23 2OQS 1 REMARK REVDAT 4 16-MAR-22 2OQS 1 KEYWDS REMARK SEQADV REVDAT 3 24-FEB-09 2OQS 1 VERSN REVDAT 2 23-OCT-07 2OQS 1 JRNL REVDAT 1 04-SEP-07 2OQS 0 JRNL AUTH Y.LIU,G.D.HENRY,R.S.HEGDE,J.D.BALEJA JRNL TITL SOLUTION STRUCTURE OF THE HDLG/SAP97 PDZ2 DOMAIN AND ITS JRNL TITL 2 MECHANISM OF INTERACTION WITH HPV-18 PAPILLOMAVIRUS E6 JRNL TITL 3 PROTEIN. JRNL REF BIOCHEMISTRY V. 46 10864 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17713926 JRNL DOI 10.1021/BI700879K REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CNS 1.1 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 1426 RESTRAINTS, 1126 ARE REMARK 3 NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS, 163 DIHEDRAL ANGLE RESTRAINTS, 50 DISTANCE REMARK 3 RESTRAINTS REMARK 3 FROM HYDROGEN BONDS AND 87 NH RESIDUAL DIPOLAR COUPLINGS. REMARK 4 REMARK 4 2OQS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000041472. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293; 293; 293; 293; 293; 293 REMARK 210 PH : 6.5; 6.5; 6.5; 6.5; 6.5; 6.5 REMARK 210 IONIC STRENGTH : 28.2 MM; 28.2 MM; 28.2 MM; 28.2 REMARK 210 MM; 28.2 MM; 28.2 MM REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT; REMARK 210 AMBIENT; AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM HDLG/SAP97 PDZ2 DOMAIN, 3MM REMARK 210 HPV-18 E6 PEPTIDE, 4 MM TCEP, 20 REMARK 210 UM DSS, 20MM PHOSPHATE BUFFER, REMARK 210 PH 6.5, 99.5% D2O; 2MM HDLG/ REMARK 210 SAP97 PDZ2 DOMAIN U-15N, 3MM HPV- REMARK 210 18 E6 PEPTIDE, 4 MM TCEP, 20 UM REMARK 210 DSS, 20MM PHOSPHATE BUFFER, PH REMARK 210 6.5, 90% H2O, 10% D2O; 2 MM HDLG/ REMARK 210 SAP97 PDZ2 DOMAIN U-15N, 13C, 3 REMARK 210 MM HPV-18 E6 PEPTIDE, 4 MM TCEP, REMARK 210 20 UM DSS, 20 MM PHOSPHATE REMARK 210 BUFFER, PH 6.5, 90% H2O, 10% D2O; REMARK 210 2 MM HDLG/SAP97 PDZ2 DOMAIN, U- REMARK 210 15N, U-10%13C, 3 MM HPV-18 E6 REMARK 210 PEPTIDE, 4 MM TCEP, 20 UM DSS, REMARK 210 20MM PHOSPHATE BUFFER, PH 6.5; 2 REMARK 210 MM HDLG/SAP97 PDZ2 DOMAIN, U-15N, REMARK 210 3 MM HPV-18 E6 PEPTIDE, 5% C8E5, REMARK 210 C8E5/N-OCTANOL 0.87, 4 MM TCEP, REMARK 210 20 UM DSS, 20MM PHOSPHATE BUFFER, REMARK 210 PH 6.5, 90% H2O, 10% D2O; 2 MM REMARK 210 HDLG/SAP97 PDZ2 DOMAIN, U-15N, 3 REMARK 210 MM HPV-18 E6 PEPTIDE, 10 MG/ML REMARK 210 PF1 PHAGE, 4 MM TCEP, 20 UM DSS, REMARK 210 20MM PHOSPHATE BUFFER, PH 6.5,90% REMARK 210 H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; HCCH-TOCSY; REMARK 210 HNCACB; CBCACONH; HBHA(CO)NH; CT- REMARK 210 13C/1H-HSQC; HSQC-DSSE (IPAP) REMARK 210 FOR HN RDC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, SPARKY 3.112, CNS REMARK 210 1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-30 REMARK 465 RES C SSSEQI REMARK 465 HIS A 93 REMARK 465 HIS A 94 REMARK 465 HIS A 95 REMARK 465 HIS A 96 REMARK 465 HIS A 97 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 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 SER A 30 -179.61 -69.99 REMARK 500 1 ASN A 59 -13.38 82.66 REMARK 500 1 SER A 78 -86.09 -91.31 REMARK 500 1 THR A 89 -64.00 -132.42 REMARK 500 2 PRO A 9 -83.22 -72.65 REMARK 500 2 ASN A 59 -17.82 90.05 REMARK 500 2 SER A 78 -79.98 -128.67 REMARK 500 3 SER A 30 -179.40 -67.16 REMARK 500 3 ASN A 59 -12.79 77.58 REMARK 500 3 SER A 78 -75.43 -129.83 REMARK 500 4 ASN A 59 -14.50 80.72 REMARK 500 4 GLU A 63 -102.65 -97.46 REMARK 500 4 GLU A 64 55.74 -63.56 REMARK 500 4 THR A 66 -169.66 -65.86 REMARK 500 4 SER A 78 -84.86 -102.41 REMARK 500 4 THR A 89 -62.40 -140.96 REMARK 500 5 ASN A 22 26.64 -140.72 REMARK 500 5 SER A 30 -178.38 -69.18 REMARK 500 5 ASN A 59 -16.71 84.13 REMARK 500 5 THR A 66 -179.70 -68.34 REMARK 500 5 SER A 78 -82.18 -116.72 REMARK 500 5 THR A 89 87.94 -156.24 REMARK 500 6 SER A 30 -179.35 -69.42 REMARK 500 6 ASN A 59 -14.80 81.61 REMARK 500 6 SER A 78 -80.58 -121.38 REMARK 500 6 THR A 89 -62.66 -130.12 REMARK 500 7 ASN A 22 26.66 -140.32 REMARK 500 7 ASN A 59 -20.15 85.53 REMARK 500 7 SER A 78 -80.61 -110.04 REMARK 500 8 LYS A 10 -123.78 -79.96 REMARK 500 8 SER A 30 -179.36 -66.29 REMARK 500 8 ASN A 59 -19.12 76.00 REMARK 500 8 GLU A 64 50.46 -116.81 REMARK 500 8 THR A 66 -170.63 -68.89 REMARK 500 8 SER A 78 -91.16 -88.54 REMARK 500 8 THR A 89 -58.48 -126.80 REMARK 500 9 LYS A 10 -70.08 -62.61 REMARK 500 9 LYS A 35 133.52 -172.10 REMARK 500 9 ASN A 59 -21.20 65.40 REMARK 500 9 THR A 66 -171.13 -65.03 REMARK 500 9 SER A 78 -80.50 -135.26 REMARK 500 10 PRO A 9 -80.05 -73.10 REMARK 500 10 LYS A 10 -73.05 -59.30 REMARK 500 10 ASN A 59 -20.12 88.29 REMARK 500 10 SER A 78 -123.67 -136.40 REMARK 500 11 PRO A 9 -76.62 -73.34 REMARK 500 11 ASN A 59 -16.40 85.23 REMARK 500 11 SER A 78 -75.95 -125.25 REMARK 500 11 THR A 89 -74.84 -146.14 REMARK 500 12 LYS A 10 -67.13 -160.95 REMARK 500 REMARK 500 THIS ENTRY HAS 149 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2OQS A 1 89 UNP Q12959 DLG1_HUMAN 318 405 DBREF 2OQS B 301 306 PDB 2OQS 2OQS 301 306 SEQADV 2OQS GLY A 90 UNP Q12959 EXPRESSION TAG SEQADV 2OQS SER A 91 UNP Q12959 EXPRESSION TAG SEQADV 2OQS HIS A 92 UNP Q12959 EXPRESSION TAG SEQADV 2OQS HIS A 93 UNP Q12959 EXPRESSION TAG SEQADV 2OQS HIS A 94 UNP Q12959 EXPRESSION TAG SEQADV 2OQS HIS A 95 UNP Q12959 EXPRESSION TAG SEQADV 2OQS HIS A 96 UNP Q12959 EXPRESSION TAG SEQADV 2OQS HIS A 97 UNP Q12959 EXPRESSION TAG SEQRES 1 A 97 MET GLU ILE LYS LEU ILE LYS GLY PRO LYS GLY LEU GLY SEQRES 2 A 97 PHE SER ILE ALA GLY GLY VAL GLY ASN GLN HIS ILE PRO SEQRES 3 A 97 GLY ASP ASN SER ILE TYR VAL THR LYS ILE ILE GLU GLY SEQRES 4 A 97 GLY ALA ALA HIS LYS ASP GLY LYS LEU GLN ILE GLY ASP SEQRES 5 A 97 LYS LEU LEU ALA VAL ASN ASN VAL CYS LEU GLU GLU VAL SEQRES 6 A 97 THR HIS GLU GLU ALA VAL THR ALA LEU LYS ASN THR SER SEQRES 7 A 97 ASP PHE VAL TYR LEU LYS VAL ALA LYS PRO THR GLY SER SEQRES 8 A 97 HIS HIS HIS HIS HIS HIS SEQRES 1 B 6 ARG ARG GLU THR GLN VAL HELIX 1 1 GLY A 40 GLY A 46 1 7 HELIX 2 2 THR A 66 ASN A 76 1 11 SHEET 1 A 4 GLU A 2 ILE A 6 0 SHEET 2 A 4 PHE A 80 ALA A 86 -1 O VAL A 81 N LEU A 5 SHEET 3 A 4 LYS A 53 VAL A 57 -1 N ALA A 56 O LYS A 84 SHEET 4 A 4 ILE A 31 TYR A 32 -1 N ILE A 31 O LEU A 54 SHEET 1 B 4 GLU A 2 ILE A 6 0 SHEET 2 B 4 PHE A 80 ALA A 86 -1 O VAL A 81 N LEU A 5 SHEET 3 B 4 LYS A 53 VAL A 57 -1 N ALA A 56 O LYS A 84 SHEET 4 B 4 VAL A 60 CYS A 61 -1 O VAL A 60 N VAL A 57 SHEET 1 C 2 SER A 15 ALA A 17 0 SHEET 2 C 2 GLU B 303 GLN B 305 -1 O THR B 304 N ILE A 16 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