HEADER TRANSFERASE 08-JUL-05 2CYU TITLE NMR STRUCTURE OF A DOWNHILL FOLDING PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-OXOGLUTARATE DEHYDROGENASE MULTIENZYME COMPLEX; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: E3-BINDING DOMAIN; COMPND 5 SYNONYM: DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT OF COMPND 6 2- OXOGLUTARATE DEHYDROGENASE COMPLEX; COMPND 7 EC: 2.3.1.61; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE SOURCE 4 OF THE PEPTIDE IS NATURALLY FOUND IN E COLI. KEYWDS HELIX BUNDLE, DOWNHILL FOLDING PROTEIN, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR V.MUNOZ,M.SADQI REVDAT 4 09-MAR-22 2CYU 1 REMARK REVDAT 3 24-FEB-09 2CYU 1 VERSN REVDAT 2 15-AUG-06 2CYU 1 JRNL REVDAT 1 15-JUL-06 2CYU 0 JRNL AUTH M.SADQI,D.FUSHMAN,V.MUNOZ JRNL TITL ATOM-BY-ATOM ANALYSIS OF GLOBAL DOWNHILL PROTEIN FOLDING. JRNL REF NATURE V. 442 317 2006 JRNL REFN ISSN 0028-0836 JRNL PMID 16799571 JRNL DOI 10.1038/NATURE04859 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.1, XPLOR-NIH 2.11 REMARK 3 AUTHORS : BRUKER (XWINNMR), REMARK 3 C.D.SCHWIETERS,J.J.KUSZEWSKI,N.TJANDRA,G.M.CLORE REMARK 3 (XPLOR-NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE FIRST THREE RESIDUES OF OUR PROTEIN REMARK 3 VARIANT ARE NOT STRUCTURED (NO DISTANCE RESTRAINTS). ACCORDINGLY, REMARK 3 THE COORDINATES FOR THE N-TERMINAL NAPHTHYLALANINE ARE NOT SHOWN REMARK 4 REMARK 4 2CYU COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-JUL-05. REMARK 100 THE DEPOSITION ID IS D_1000024776. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278 REMARK 210 PH : 5.3 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 90% H2O, 10% D2O, TRACE AMOUNTS REMARK 210 OF DSS FOR NMR CALIBRATION REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D COSY; 2D TOCSY; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE SGI6X, NMRVIEW 5.0.4 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 300 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: 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 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 NAL A 1 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 PRO A 4 88.86 -65.45 REMARK 500 1 ALA A 17 -17.88 -44.68 REMARK 500 1 SER A 18 35.60 -87.89 REMARK 500 1 VAL A 25 113.84 54.46 REMARK 500 1 ASP A 33 -60.40 -92.56 REMARK 500 1 LEU A 38 -108.29 -67.35 REMARK 500 1 ALA A 39 29.73 49.95 REMARK 500 2 SER A 3 68.92 -166.47 REMARK 500 2 PRO A 4 0.51 -64.23 REMARK 500 2 ASN A 14 74.18 80.68 REMARK 500 2 ALA A 17 -15.94 -45.12 REMARK 500 2 ASP A 33 -65.66 -91.69 REMARK 500 2 VAL A 34 -28.19 -38.37 REMARK 500 2 HIS A 37 -79.23 -68.52 REMARK 500 2 LEU A 38 -88.03 -48.11 REMARK 500 2 ALA A 39 159.50 -45.15 REMARK 500 3 SER A 3 68.91 -171.54 REMARK 500 3 ASN A 14 75.31 84.76 REMARK 500 3 ALA A 17 -12.29 -47.88 REMARK 500 3 HIS A 37 -75.04 -67.32 REMARK 500 3 LEU A 38 -106.43 -62.41 REMARK 500 3 ALA A 39 17.29 49.60 REMARK 500 4 SER A 3 -52.26 -178.36 REMARK 500 4 PRO A 4 1.44 -63.53 REMARK 500 4 ASN A 14 71.48 80.05 REMARK 500 4 ALA A 17 -18.17 -45.21 REMARK 500 4 ALA A 19 20.65 -76.56 REMARK 500 4 ILE A 20 -136.10 -143.48 REMARK 500 4 LYS A 21 134.23 -170.84 REMARK 500 4 THR A 23 -23.26 61.69 REMARK 500 4 ASP A 33 -63.47 -90.68 REMARK 500 4 HIS A 37 -71.84 -67.99 REMARK 500 4 LEU A 38 -105.46 -62.09 REMARK 500 5 SER A 3 69.82 -166.65 REMARK 500 5 PRO A 4 85.98 -63.40 REMARK 500 5 ALA A 17 -14.27 -47.37 REMARK 500 5 SER A 18 32.51 -87.01 REMARK 500 5 LYS A 21 -138.16 -83.32 REMARK 500 5 THR A 23 -20.91 62.88 REMARK 500 5 ARG A 28 -108.31 -87.50 REMARK 500 5 ASP A 33 -60.72 -91.05 REMARK 500 5 LEU A 38 -105.40 -62.50 REMARK 500 6 SER A 3 -51.95 -178.37 REMARK 500 6 PRO A 4 2.74 -63.91 REMARK 500 6 ASN A 14 70.77 80.77 REMARK 500 6 ALA A 17 -15.32 -46.26 REMARK 500 6 LYS A 21 -139.14 -102.70 REMARK 500 6 THR A 23 -21.22 62.45 REMARK 500 6 LEU A 38 -109.13 -71.31 REMARK 500 7 SER A 3 70.03 -173.04 REMARK 500 REMARK 500 THIS ENTRY HAS 145 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BBL RELATED DB: PDB REMARK 900 MINIMIZED AVERAGE STRUCTURE OF E3 BINDING DOMAIN OF 2-OXOGLUTARATE REMARK 900 DEHYDROGENASE COMPLEX OF E COLI REMARK 900 RELATED ID: 1BAL RELATED DB: PDB REMARK 900 FAMILY OF 56 STRUCTURES OF E3 BINDING DOMAIN OF 2-OXOGLUTARATE REMARK 900 DEHYDROGENASE COMPLEX OF E COLI WITH 10 EXTRA UNSTRUCTURED RESIDUES REMARK 900 IN N-TERMINUS DBREF 2CYU A 2 40 UNP P0AFG7 ODO2_ECO57 113 151 SEQRES 1 A 40 NAL LEU SER PRO ALA ILE ARG ARG LEU LEU ALA GLU HIS SEQRES 2 A 40 ASN LEU ASP ALA SER ALA ILE LYS GLY THR GLY VAL GLY SEQRES 3 A 40 GLY ARG LEU THR ARG GLU ASP VAL GLU LYS HIS LEU ALA SEQRES 4 A 40 LYS HELIX 1 1 ALA A 5 ASN A 14 1 10 HELIX 2 2 ASP A 16 ILE A 20 5 5 HELIX 3 3 THR A 30 LEU A 38 1 9 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