HEADER TRANSFERASE 27-MAY-25 9RCA TITLE SOLUTION NMR STRUCTURE OF THE LIPOYL DOMAIN OF THE E2 SUBUNIT IN THE TITLE 2 HUMAN ALPHA-KETOGLUTARATE DEHYDROGENASE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROLIPOYLLYSINE-RESIDUE SUCCINYLTRANSFERASE COMPONENT COMPND 3 OF 2-OXOGLUTARATE DEHYDROGENASE COMPLEX, MITOCHONDRIAL; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: 2-OXOGLUTARATE DEHYDROGENASE COMPLEX COMPONENT E2,OGDC-E2, COMPND 6 DIHYDROLIPOAMIDE SUCCINYLTRANSFERASE COMPONENT OF 2-OXOGLUTARATE COMPND 7 DEHYDROGENASE COMPLEX,E2K; COMPND 8 EC: 2.3.1.61; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: N-TERMINAL TWIN-STREP (AFFINITY) TAG WITH PROTEOLYTIC COMPND 11 CLEAVAGE SITE FOR HRV 3C PROTEASE AND LINKERS: COMPND 12 MASWSHPQFEKGGGSGGGSGGSAWSHPQFEKLEVLFQGPG (THE CLEAVAGE LEFT THE LAST COMPND 13 THREE RESIDUES [GPG] ON THE PROTEIN N-TERMINUS) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DLST, DLTS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET52B+ KEYWDS LIPOYL DOMAIN; ALPHA-KETOGLUTARATE DEHYDROGENASE COMPLEX; 2- KEYWDS 2 OXOGLUTARATE DEHYDROGENASE COMPLEX; DIHYDROLIPOAMIDE KEYWDS 3 SUCCINYLTRANSFERASE; E2 SUBUNIT, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.CZAJLIK,G.BATTA,A.AMBRUS REVDAT 1 10-JUN-26 9RCA 0 JRNL AUTH A.CZAJLIK,G.BATTA,A.AMBRUS JRNL TITL NMR STRUCTURAL ANALYSIS OF THE LIPOYL DOMAIN OF THE JRNL TITL 2 HKGDHC-E2 PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH 3.8 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9RCA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-MAY-25. REMARK 100 THE DEPOSITION ID IS D_1292146485. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 0.02 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 7 MM [U-100% 13C; U-100% 15N] REMARK 210 LIPOYL DOMAIN OF THE E2 SUBUNIT REMARK 210 IN THE HUMAN ALPHA-KETOGLUTARATE REMARK 210 DEHYDROGENASE COMPLEX, 90 % H2O, REMARK 210 10 % [U-100% 2H] D2O, 20 MM REMARK 210 POTASSIUM PHOSPHATE, 90% H2O/10% REMARK 210 D2O; 3 MM [U-100% 15N] LIPOYL REMARK 210 DOMAIN OF THE E2 SUBUNIT IN THE REMARK 210 HUMAN ALPHA-KETOGLUTARATE REMARK 210 DEHYDROGENASE COMPLEX, 90 % H2O, REMARK 210 10 % [U-100% 2H] D2O, 20 MM REMARK 210 POTASSIUM PHOSPHATE, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 3D HNHA; 3D HNHB; 3D 1H-15N REMARK 210 NOESY; 3D 1H-15N TOCSY; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 HN(COCA)CB; 3D HNCO; 3D HCACO; REMARK 210 3D H(CCO)NH; 3D HCCH-TOCSY; 3D REMARK 210 1H-13C NOESY ALIPHATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE NEO REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.1, CCPNMR ANALYSIS REMARK 210 2.5.2, TOPSPIN 3.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 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 3 ASP A 4 -1.80 73.21 REMARK 500 4 ASP A 4 -88.71 -97.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34997 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF THE LIPOYL DOMAIN OF THE E2 SUBUNIT IN REMARK 900 THE HUMAN ALPHA-KETOGLUTARATE DEHYDROGENASE COMPLEX DBREF 9RCA A 4 84 UNP P36957 ODO2_HUMAN 68 148 SEQADV 9RCA GLY A 1 UNP P36957 EXPRESSION TAG SEQADV 9RCA PRO A 2 UNP P36957 EXPRESSION TAG SEQADV 9RCA GLY A 3 UNP P36957 EXPRESSION TAG SEQRES 1 A 84 GLY PRO GLY ASP ASP LEU VAL THR VAL LYS THR PRO ALA SEQRES 2 A 84 PHE ALA GLU SER VAL THR GLU GLY ASP VAL ARG TRP GLU SEQRES 3 A 84 LYS ALA VAL GLY ASP THR VAL ALA GLU ASP GLU VAL VAL SEQRES 4 A 84 CYS GLU ILE GLU THR ASP LYS THR SER VAL GLN VAL PRO SEQRES 5 A 84 SER PRO ALA ASN GLY VAL ILE GLU ALA LEU LEU VAL PRO SEQRES 6 A 84 ASP GLY GLY LYS VAL GLU GLY GLY THR PRO LEU PHE THR SEQRES 7 A 84 LEU ARG LYS THR GLY ALA HELIX 1 AA1 PRO A 2 ASP A 4 5 3 SHEET 1 AA1 4 LEU A 6 LYS A 10 0 SHEET 2 AA1 4 PRO A 75 LYS A 81 -1 O PHE A 77 N VAL A 9 SHEET 3 AA1 4 GLY A 57 LEU A 62 -1 N VAL A 58 O ARG A 80 SHEET 4 AA1 4 THR A 32 VAL A 33 -1 N VAL A 33 O GLY A 57 SHEET 1 AA2 4 VAL A 49 PRO A 52 0 SHEET 2 AA2 4 VAL A 38 GLU A 43 -1 N CYS A 40 O VAL A 51 SHEET 3 AA2 4 GLY A 21 TRP A 25 -1 N ASP A 22 O GLU A 43 SHEET 4 AA2 4 LYS A 69 VAL A 70 -1 O VAL A 70 N GLY A 21 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 ENDMDL MODEL 2 ENDMDL MODEL 3 ENDMDL MODEL 4 ENDMDL MODEL 5 ENDMDL MODEL 6 ENDMDL MODEL 7 ENDMDL MODEL 8 ENDMDL MODEL 9 ENDMDL MODEL 10 ENDMDL MASTER 110 0 0 1 8 0 0 6 608 1 0 7 END