PDB Short entry for 2FEJ HEADER TRANSCRIPTION 16-DEC-05 2FEJ TITLE SOLUTION STRUCTURE OF HUMAN P53 DNA BINDING DOMAIN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELLULAR TUMOR ANTIGEN P53; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DNA BINDING DOMAIN; COMPND 5 SYNONYM: TUMOR SUPPRESSOR P53, PHOSPHOPROTEIN P53, ANTIGEN NY-CO-13; COMPND 6 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: TP53, P53; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSET KEYWDS BETA SANDWICH, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 36 AUTHOR J.M.PEREZ-CANADILLAS,H.TIDOW,S.M.FREUND,T.J.RUTHERFORD,H.C.ANG, AUTHOR 2 A.R.FERSHT REVDAT 4 09-MAR-22 2FEJ 1 REMARK REVDAT 3 24-FEB-09 2FEJ 1 VERSN REVDAT 2 07-MAR-06 2FEJ 1 JRNL REVDAT 1 31-JAN-06 2FEJ 0 JRNL AUTH J.M.PEREZ-CANADILLAS,H.TIDOW,S.M.FREUND,T.J.RUTHERFORD, JRNL AUTH 2 H.C.ANG,A.R.FERSHT JRNL TITL SOLUTION STRUCTURE OF P53 CORE DOMAIN: STRUCTURAL BASIS FOR JRNL TITL 2 ITS INSTABILITY JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 2109 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16461916 JRNL DOI 10.1073/PNAS.0510941103 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER ET AL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2FEJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000035782. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.1 REMARK 210 IONIC STRENGTH : 150 MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4 MM P53 CORE U-15N,13C, 2H; REMARK 210 25 MM TRIS-HCL PH 7.1; 150 MM REMARK 210 NACL; 90% H2O, 10% D2O; 0.3 MM REMARK 210 P53 CORE U-15N,13C, 2H + REVERSE REMARK 210 ILV 13CH3 ; 25 MM TRIS-HCL PH REMARK 210 7.1; 150 MM NACL; 90% H2O, 10% REMARK 210 D2O; 0.3 MM P53 CORE U-15N,13C, REMARK 210 2H + REVERSE ILV 13CH3 + REVERSE REMARK 210 TYR ; 25 MM TRIS-HCL PH 7.1; 150 REMARK 210 MM NACL; 100% D2O; 0.3 MM P53 REMARK 210 CORE U-15N,13C, 2H + MET AND PHE REMARK 210 (1H); 25 MM TRIS-HCL PH 7.1; 150 REMARK 210 MM NACL; 90% H2O, 10% D2O; 0.3 REMARK 210 MM P53 CORE U-15N,13C, 2H + MET REMARK 210 AND ARG (1H); 25 MM TRIS-HCL PH REMARK 210 7.1; 150 MM NACL; 90% H2O, 10% REMARK 210 D2O; 0.4 MM P53 CORE U-15N,13C, REMARK 210 2H (50%); 25 MM TRIS-HCL PH 7.1; REMARK 210 150 MM NACL; 90% H2O, 10% D2O; REMARK 210 0.4 MM P53 CORE N/A; 25 MM TRIS- REMARK 210 HCL PH 7.1; 150 MM NACL; 90% H2O, REMARK 210 10% D2O; 0.4 MM P53 CORE N/A; REMARK 210 25 MM TRIS-HCL PH 7.1; 150 MM REMARK 210 NACL; 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX; AVANCE; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 36 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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: 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: 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 O PRO A 152 HG1 THR A 155 1.59 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 96 -70.92 -67.11 REMARK 500 1 TYR A 103 -80.25 -80.68 REMARK 500 1 LYS A 120 -36.00 -175.73 REMARK 500 1 SER A 121 109.42 -163.54 REMARK 500 1 THR A 123 -72.49 -79.02 REMARK 500 1 PRO A 152 128.84 -36.66 REMARK 500 1 GLN A 165 97.36 -61.36 REMARK 500 1 HIS A 168 28.18 -147.76 REMARK 500 1 ASP A 184 -52.05 -121.07 REMARK 500 1 ASP A 186 -77.58 -136.73 REMARK 500 1 LEU A 188 -3.31 78.49 REMARK 500 1 LEU A 201 -55.12 -122.97 REMARK 500 1 ASP A 207 64.06 -177.88 REMARK 500 1 PRO A 222 140.84 -35.61 REMARK 500 1 VAL A 225 94.26 -53.77 REMARK 500 1 MET A 237 43.98 -99.78 REMARK 500 1 CYS A 238 115.04 -172.61 REMARK 500 1 CYS A 242 88.80 -56.96 REMARK 500 1 ASN A 247 52.18 71.44 REMARK 500 1 CYS A 275 30.67 -165.52 REMARK 500 1 ALA A 276 24.02 49.92 REMARK 500 1 CYS A 277 72.19 -152.55 REMARK 500 1 LYS A 292 72.64 56.17 REMARK 500 1 GLU A 294 -63.33 -174.35 REMARK 500 1 PRO A 295 -87.37 -67.10 REMARK 500 1 HIS A 296 166.48 56.91 REMARK 500 2 SER A 99 172.83 -58.03 REMARK 500 2 SER A 116 -161.08 -178.87 REMARK 500 2 SER A 121 93.24 175.40 REMARK 500 2 SER A 149 -148.23 -118.81 REMARK 500 2 PRO A 152 119.09 -34.62 REMARK 500 2 PRO A 153 90.36 -60.25 REMARK 500 2 CYS A 182 152.58 -40.73 REMARK 500 2 ASP A 184 -174.90 49.39 REMARK 500 2 SER A 185 -177.04 -67.77 REMARK 500 2 LEU A 188 -47.43 -162.33 REMARK 500 2 LEU A 201 26.50 -154.60 REMARK 500 2 ARG A 202 35.94 -177.69 REMARK 500 2 PRO A 222 156.46 -35.19 REMARK 500 2 VAL A 225 93.70 -56.66 REMARK 500 2 MET A 237 50.83 -112.65 REMARK 500 2 CYS A 238 111.15 -164.18 REMARK 500 2 CYS A 242 93.43 -51.93 REMARK 500 2 CYS A 275 34.54 -161.26 REMARK 500 2 CYS A 277 72.59 -174.80 REMARK 500 2 PRO A 295 -170.11 -54.86 REMARK 500 3 SER A 95 -74.48 -163.17 REMARK 500 3 SER A 96 -175.24 60.95 REMARK 500 3 PRO A 98 -170.80 -54.32 REMARK 500 3 GLN A 104 -63.98 70.32 REMARK 500 REMARK 500 THIS ENTRY HAS 880 RAMACHANDRAN OUTLIERS. 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 1 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 176 SG REMARK 620 2 HIS A 179 ND1 115.8 REMARK 620 3 CYS A 238 SG 131.0 96.8 REMARK 620 4 CYS A 242 SG 96.1 106.9 108.9 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 1 DBREF 2FEJ A 94 297 UNP Q9NP68 P53_HUMAN 94 297 SEQRES 1 A 204 SER SER SER VAL PRO SER GLN LYS THR TYR GLN GLY SER SEQRES 2 A 204 TYR GLY PHE ARG LEU GLY PHE LEU HIS SER GLY THR ALA SEQRES 3 A 204 LYS SER VAL THR CYS THR TYR SER PRO ALA LEU ASN LYS SEQRES 4 A 204 MET PHE CYS GLN LEU ALA LYS THR CYS PRO VAL GLN LEU SEQRES 5 A 204 TRP VAL ASP SER THR PRO PRO PRO GLY THR ARG VAL ARG SEQRES 6 A 204 ALA MET ALA ILE TYR LYS GLN SER GLN HIS MET THR GLU SEQRES 7 A 204 VAL VAL ARG ARG CYS PRO HIS HIS GLU ARG CYS SER ASP SEQRES 8 A 204 SER ASP GLY LEU ALA PRO PRO GLN HIS LEU ILE ARG VAL SEQRES 9 A 204 GLU GLY ASN LEU ARG VAL GLU TYR LEU ASP ASP ARG ASN SEQRES 10 A 204 THR PHE ARG HIS SER VAL VAL VAL PRO TYR GLU PRO PRO SEQRES 11 A 204 GLU VAL GLY SER ASP CYS THR THR ILE HIS TYR ASN TYR SEQRES 12 A 204 MET CYS ASN SER SER CYS MET GLY GLY MET ASN ARG ARG SEQRES 13 A 204 PRO ILE LEU THR ILE ILE THR LEU GLU ASP SER SER GLY SEQRES 14 A 204 ASN LEU LEU GLY ARG ASN SER PHE GLU VAL ARG VAL CYS SEQRES 15 A 204 ALA CYS PRO GLY ARG ASP ARG ARG THR GLU GLU GLU ASN SEQRES 16 A 204 LEU ARG LYS LYS GLY GLU PRO HIS HIS HET ZN A 1 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 GLN A 165 MET A 169 5 5 HELIX 2 2 CYS A 176 SER A 183 1 8 HELIX 3 3 CYS A 277 LYS A 292 1 16 SHEET 1 A 4 ARG A 110 GLY A 112 0 SHEET 2 A 4 THR A 140 TRP A 146 -1 O TRP A 146 N ARG A 110 SHEET 3 A 4 THR A 230 TYR A 236 -1 O THR A 230 N LEU A 145 SHEET 4 A 4 ILE A 195 GLU A 198 -1 N ARG A 196 O ASN A 235 SHEET 1 B 7 THR A 125 SER A 127 0 SHEET 2 B 7 LYS A 132 CYS A 135 -1 O LYS A 132 N SER A 127 SHEET 3 B 7 LEU A 264 VAL A 274 1 O ARG A 273 N CYS A 135 SHEET 4 B 7 ILE A 251 GLU A 258 -1 N LEU A 257 O LEU A 265 SHEET 5 B 7 ARG A 156 ILE A 162 -1 N ARG A 156 O GLU A 258 SHEET 6 B 7 SER A 215 PRO A 219 -1 O VAL A 216 N ALA A 159 SHEET 7 B 7 GLU A 204 TYR A 205 -1 N GLU A 204 O VAL A 217 LINK ZN ZN A 1 SG CYS A 176 1555 1555 2.35 LINK ZN ZN A 1 ND1 HIS A 179 1555 1555 2.33 LINK ZN ZN A 1 SG CYS A 238 1555 1555 2.41 LINK ZN ZN A 1 SG CYS A 242 1555 1555 2.41 SITE 1 AC1 4 CYS A 176 HIS A 179 CYS A 238 CYS A 242 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