HEADER CELL ADHESION 03-NOV-08 2KA9 TITLE SOLUTION STRUCTURE OF PSD-95 PDZ12 COMPLEXED WITH CYPIN PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISKS LARGE HOMOLOG 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL PDZ12 DOMAIN; COMPND 5 SYNONYM: POSTSYNAPTIC DENSITY PROTEIN 95, PSD-95, SYNAPSE-ASSOCIATED COMPND 6 PROTEIN 90, SAP90; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: CYPIN PEPTIDE; COMPND 10 CHAIN: B, C; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: DLG4, DLGH4, PSD95; 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: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET14B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SYNTHETIC PEPTIDE KEYWDS PDZ-CYPIN PEPTIDE COMPLEX, TANDEM PDZ DOMAIN, ALTERNATIVE SPLICING, KEYWDS 2 CELL JUNCTION, CELL MEMBRANE, LIPOPROTEIN, MEMBRANE, PALMITATE, KEYWDS 3 PHOSPHOPROTEIN, POSTSYNAPTIC CELL MEMBRANE, SH3 DOMAIN, SYNAPSE, KEYWDS 4 CELL ADHESION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.N.WANG,J.W.WENG,X.ZHANG,M.L.LIU,M.J.ZHANG REVDAT 3 29-MAY-24 2KA9 1 REMARK REVDAT 2 16-MAR-22 2KA9 1 REMARK REVDAT 1 23-JUN-09 2KA9 0 JRNL AUTH W.N.WANG,J.W.WENG,X.ZHANG,M.L.LIU,M.J.ZHANG JRNL TITL CREATING CONFORMATIONAL ENTROPY BY INCREASING INTERDOMAIN JRNL TITL 2 MOBILITY IN LIGAND BINDING REGULATION: A REVISIT TO JRNL TITL 3 N-TERMINAL TANDEM PDZ DOMAINS OF PSD-95 JRNL REF J.AM.CHEM.SOC. V. 131 787 2009 JRNL REFN ISSN 0002-7863 JRNL PMID 19072119 JRNL DOI 10.1021/JA8076022 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE REMARK 3 -KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ,RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THIS STRUCTURE IS NOT SUPERIMPOSED REMARK 3 BECAUSE THE RELATIVE DOMAIN ORIENTATION IS NOT DEFINED DUE TO REMARK 3 ITS INTRINSIC CONFORMATIONAL FLEXIBILITY. REMARK 4 REMARK 4 2KA9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000100872. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM [U-15N] PSD95 PDZ12, 1MM REMARK 210 CYPIN PEPTIDE, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 H SER A 113 O LYS A 133 1.57 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 ARG A 10 103.74 -56.29 REMARK 500 1 ASN A 12 -86.38 -166.07 REMARK 500 1 ASN A 25 79.56 -119.50 REMARK 500 1 ASP A 30 40.62 -179.01 REMARK 500 1 ASP A 31 98.82 -162.15 REMARK 500 1 PRO A 41 63.13 -66.76 REMARK 500 1 ASN A 54 11.41 -69.53 REMARK 500 1 ILE A 57 94.97 -57.43 REMARK 500 1 GLU A 67 47.10 -169.93 REMARK 500 1 THR A 69 154.77 -49.74 REMARK 500 1 SER A 82 -52.32 -152.65 REMARK 500 1 PRO A 94 -161.77 -67.35 REMARK 500 1 ALA A 95 28.31 -158.70 REMARK 500 1 ASN A 120 69.03 -163.71 REMARK 500 1 HIS A 122 -58.10 72.48 REMARK 500 1 PRO A 124 62.21 -68.71 REMARK 500 1 ASP A 126 99.30 -174.44 REMARK 500 1 ILE A 148 106.46 -46.57 REMARK 500 1 ALA A 154 141.92 170.35 REMARK 500 1 ASN A 156 -58.48 69.27 REMARK 500 1 SER A 157 25.03 -163.10 REMARK 500 1 LEU A 160 20.47 -69.95 REMARK 500 1 GLU A 161 56.49 -163.56 REMARK 500 1 ASP A 162 28.46 -158.58 REMARK 500 1 VAL A 163 -74.98 -151.86 REMARK 500 1 MET A 164 164.71 173.78 REMARK 500 1 THR A 175 -175.09 -54.10 REMARK 500 1 PRO A 186 107.96 -57.30 REMARK 500 1 VAL B 2 -51.29 -131.15 REMARK 500 1 SER C 6 136.58 -178.50 REMARK 500 2 ILE A 6 -168.05 -128.68 REMARK 500 2 ARG A 10 96.53 -38.94 REMARK 500 2 ASN A 12 -84.76 -176.47 REMARK 500 2 ASN A 25 78.37 -117.86 REMARK 500 2 ASP A 30 37.19 -176.84 REMARK 500 2 ASP A 31 95.34 -167.46 REMARK 500 2 PRO A 41 84.04 -57.06 REMARK 500 2 ARG A 50 32.00 -96.42 REMARK 500 2 LEU A 51 -156.79 38.48 REMARK 500 2 ASP A 55 171.69 -59.18 REMARK 500 2 ILE A 57 94.94 -63.16 REMARK 500 2 ASN A 61 -50.54 -22.38 REMARK 500 2 GLU A 62 25.42 -162.79 REMARK 500 2 VAL A 65 30.77 -94.83 REMARK 500 2 GLU A 67 49.79 179.25 REMARK 500 2 PRO A 93 60.46 -103.21 REMARK 500 2 PRO A 94 -157.84 -80.84 REMARK 500 2 ALA A 95 43.31 77.91 REMARK 500 2 GLU A 96 134.05 73.36 REMARK 500 2 ASN A 120 82.13 163.80 REMARK 500 REMARK 500 THIS ENTRY HAS 604 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2KA9 A 1 189 UNP P31016 DLG4_RAT 61 249 DBREF 2KA9 B 1 9 PDB 2KA9 2KA9 1 9 DBREF 2KA9 C 1 9 PDB 2KA9 2KA9 1 9 SEQRES 1 A 189 MET GLU TYR GLU GLU ILE THR LEU GLU ARG GLY ASN SER SEQRES 2 A 189 GLY LEU GLY PHE SER ILE ALA GLY GLY THR ASP ASN PRO SEQRES 3 A 189 HIS ILE GLY ASP ASP PRO SER ILE PHE ILE THR LYS ILE SEQRES 4 A 189 ILE PRO GLY GLY ALA ALA ALA GLN ASP GLY ARG LEU ARG SEQRES 5 A 189 VAL ASN ASP SER ILE LEU PHE VAL ASN GLU VAL ASP VAL SEQRES 6 A 189 ARG GLU VAL THR HIS SER ALA ALA VAL GLU ALA LEU LYS SEQRES 7 A 189 GLU ALA GLY SER ILE VAL ARG LEU TYR VAL MET ARG ARG SEQRES 8 A 189 LYS PRO PRO ALA GLU LYS VAL MET GLU ILE LYS LEU ILE SEQRES 9 A 189 LYS GLY PRO LYS GLY LEU GLY PHE SER ILE ALA GLY GLY SEQRES 10 A 189 VAL GLY ASN GLN HIS ILE PRO GLY ASP ASN SER ILE TYR SEQRES 11 A 189 VAL THR LYS ILE ILE GLU GLY GLY ALA ALA HIS LYS ASP SEQRES 12 A 189 GLY ARG LEU GLN ILE GLY ASP LYS ILE LEU ALA VAL ASN SEQRES 13 A 189 SER VAL GLY LEU GLU ASP VAL MET HIS GLU ASP ALA VAL SEQRES 14 A 189 ALA ALA LEU LYS ASN THR TYR ASP VAL VAL TYR LEU LYS SEQRES 15 A 189 VAL ALA LYS PRO SER ASN ALA SEQRES 1 B 9 GLN VAL VAL PRO PHE SER SER SER VAL SEQRES 1 C 9 GLN VAL VAL PRO PHE SER SER SER VAL HELIX 1 1 GLY A 43 GLY A 49 1 7 HELIX 2 2 THR A 69 GLU A 79 1 11 HELIX 3 3 GLY A 138 ASP A 143 1 6 HELIX 4 4 MET A 164 ASN A 174 1 11 SHEET 1 A 4 GLU A 4 LEU A 8 0 SHEET 2 A 4 VAL A 84 MET A 89 -1 O LEU A 86 N ILE A 6 SHEET 3 A 4 SER A 56 VAL A 60 -1 N PHE A 59 O TYR A 87 SHEET 4 A 4 VAL A 63 ASP A 64 -1 O VAL A 63 N VAL A 60 SHEET 1 B 3 PHE A 35 ILE A 39 0 SHEET 2 B 3 PHE A 17 ALA A 20 -1 N SER A 18 O THR A 37 SHEET 3 B 3 SER B 7 VAL B 9 -1 O VAL B 9 N PHE A 17 SHEET 1 C 6 VAL A 98 ILE A 104 0 SHEET 2 C 6 VAL A 178 ALA A 184 -1 O VAL A 179 N LEU A 103 SHEET 3 C 6 LYS A 151 VAL A 155 -1 N ALA A 154 O LYS A 182 SHEET 4 C 6 ILE A 129 LYS A 133 -1 N ILE A 129 O ILE A 152 SHEET 5 C 6 PHE A 112 ALA A 115 -1 N SER A 113 O LYS A 133 SHEET 6 C 6 SER C 7 VAL C 9 -1 O VAL C 9 N PHE A 112 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