HEADER DEHYDROGENASE INHIBITOR 20-NOV-08 2KB3 TITLE NMR STRUCTURE OF THE PHOSPHORYLATED FORM OF ODHI, PODHI. COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXOGLUTARATE DEHYDROGENASE INHIBITOR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CORYNEBACTERIUM GLUTAMICUM; SOURCE 3 ORGANISM_COMMON: BREVIBACTERIUM FLAVUM; SOURCE 4 ORGANISM_TAXID: 1718; SOURCE 5 GENE: CG1630, CGL1441, ODHI; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET15B-TEV KEYWDS FORKHEAD-ASSOCIATED DOMAIN, KINASE SUBSTRATE, GARA, FHA, CYTOPLASM, KEYWDS 2 PHOSPHOPROTEIN, DEHYDROGENASE INHIBITOR EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR P.BARTHE,C.ROUMESTAND,M.CANOVA,C.HURARD,V.MOLLE,M.COHEN-GONSAUD REVDAT 3 14-JUN-23 2KB3 1 REMARK REVDAT 2 19-FEB-20 2KB3 1 REMARK LINK REVDAT 1 05-MAY-09 2KB3 0 JRNL AUTH P.BARTHE,C.ROUMESTAND,M.J.CANOVA,L.KREMER,C.HURARD,V.MOLLE, JRNL AUTH 2 M.COHEN-GONSAUD JRNL TITL DYNAMIC AND STRUCTURAL CHARACTERIZATION OF A BACTERIAL FHA JRNL TITL 2 PROTEIN REVEALS A NEW AUTOINHIBITION MECHANISM. JRNL REF STRUCTURE V. 17 568 2009 JRNL REFN ISSN 0969-2126 JRNL PMID 19368890 JRNL DOI 10.1016/J.STR.2009.02.012 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RECOORD PROCEDURE REMARK 4 REMARK 4 2KB3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000100900. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : 0.15 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3 MM [U-100% 13C; U-100% 15N] REMARK 210 PODHI, 95% H2O/5% D2O; 0.3 MM [U- REMARK 210 100% 15N] PODHI, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-15N REMARK 210 TOCSY; 3D HNCA; 3D CBCA(CO)NH; REMARK 210 3D HNCO; 3D HNCACO REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 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 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 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 2 -43.92 -150.10 REMARK 500 1 LEU A 42 90.96 56.55 REMARK 500 1 THR A 84 -167.42 -114.37 REMARK 500 2 PRO A 43 -70.62 -51.27 REMARK 500 2 HIS A 73 161.26 79.03 REMARK 500 2 ARG A 88 119.93 -168.90 REMARK 500 2 ALA A 142 88.92 -154.49 REMARK 500 3 ASP A 3 -70.73 -76.20 REMARK 500 3 ALA A 20 -20.93 82.84 REMARK 500 3 HIS A 73 150.07 81.53 REMARK 500 3 ARG A 88 116.44 -170.24 REMARK 500 3 SER A 106 5.14 -69.33 REMARK 500 3 LYS A 132 25.94 -163.93 REMARK 500 3 ALA A 142 48.31 -82.05 REMARK 500 4 ALA A 20 -152.07 -78.28 REMARK 500 4 LEU A 42 78.71 56.12 REMARK 500 4 HIS A 73 156.54 144.77 REMARK 500 5 ASN A 4 94.77 64.70 REMARK 500 5 ASN A 5 -53.23 -140.81 REMARK 500 5 ALA A 20 -165.84 -79.57 REMARK 500 5 ASP A 21 9.76 -61.09 REMARK 500 5 LEU A 42 94.82 68.38 REMARK 500 5 PRO A 43 -74.00 -70.21 REMARK 500 5 HIS A 73 151.39 168.10 REMARK 500 5 ASP A 82 -162.19 -160.69 REMARK 500 5 LYS A 132 16.53 -145.44 REMARK 500 6 ALA A 20 -168.44 -64.40 REMARK 500 6 ASP A 21 2.89 -68.41 REMARK 500 6 THR A 37 36.41 -92.09 REMARK 500 6 LEU A 42 85.49 57.37 REMARK 500 6 PRO A 43 -73.81 -83.10 REMARK 500 6 HIS A 73 153.80 176.88 REMARK 500 6 ASP A 82 -155.91 -128.78 REMARK 500 6 THR A 84 89.44 -153.99 REMARK 500 6 ARG A 114 18.62 59.15 REMARK 500 6 ALA A 142 43.39 -97.08 REMARK 500 7 SER A 2 -64.36 70.66 REMARK 500 7 THR A 30 101.75 67.29 REMARK 500 7 LEU A 42 81.33 48.06 REMARK 500 7 HIS A 73 142.87 82.57 REMARK 500 7 PRO A 74 -6.77 -52.63 REMARK 500 7 ALA A 142 83.59 -156.69 REMARK 500 8 ASP A 64 61.10 -168.59 REMARK 500 8 HIS A 73 151.55 85.05 REMARK 500 9 ALA A 20 -37.56 -170.91 REMARK 500 9 LEU A 42 74.07 60.87 REMARK 500 9 HIS A 73 151.00 166.87 REMARK 500 9 ASP A 82 -161.42 -162.37 REMARK 500 9 SER A 106 11.16 -65.56 REMARK 500 9 ALA A 142 73.71 179.76 REMARK 500 REMARK 500 THIS ENTRY HAS 161 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 7 ARG A 114 0.11 SIDE CHAIN REMARK 500 8 ARG A 114 0.07 SIDE CHAIN REMARK 500 13 ARG A 88 0.09 SIDE CHAIN REMARK 500 15 ARG A 87 0.15 SIDE CHAIN REMARK 500 16 ARG A 114 0.07 SIDE CHAIN REMARK 500 17 ARG A 114 0.08 SIDE CHAIN REMARK 500 19 ARG A 87 0.20 SIDE CHAIN REMARK 500 20 ARG A 87 0.07 SIDE CHAIN REMARK 500 21 ARG A 87 0.17 SIDE CHAIN REMARK 500 23 ARG A 87 0.09 SIDE CHAIN REMARK 500 23 ARG A 114 0.08 SIDE CHAIN REMARK 500 25 ARG A 87 0.11 SIDE CHAIN REMARK 500 30 ARG A 114 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KB4 RELATED DB: PDB REMARK 900 RELATED ID: 16038 RELATED DB: BMRB DBREF 2KB3 A 1 143 UNP Q8NQJ3 ODHI_CORGL 1 143 SEQRES 1 A 143 MET SER ASP ASN ASN GLY THR PRO GLU PRO GLN VAL GLU SEQRES 2 A 143 THR TPO SER VAL PHE ARG ALA ASP LEU LEU LYS GLU MET SEQRES 3 A 143 GLU SER SER THR GLY THR ALA PRO ALA SER THR GLY ALA SEQRES 4 A 143 GLU ASN LEU PRO ALA GLY SER ALA LEU LEU VAL VAL LYS SEQRES 5 A 143 ARG GLY PRO ASN ALA GLY ALA ARG PHE LEU LEU ASP GLN SEQRES 6 A 143 PRO THR THR THR ALA GLY ARG HIS PRO GLU SER ASP ILE SEQRES 7 A 143 PHE LEU ASP ASP VAL THR VAL SER ARG ARG HIS ALA GLU SEQRES 8 A 143 PHE ARG ILE ASN GLU GLY GLU PHE GLU VAL VAL ASP VAL SEQRES 9 A 143 GLY SER LEU ASN GLY THR TYR VAL ASN ARG GLU PRO ARG SEQRES 10 A 143 ASN ALA GLN VAL MET GLN THR GLY ASP GLU ILE GLN ILE SEQRES 11 A 143 GLY LYS PHE ARG LEU VAL PHE LEU ALA GLY PRO ALA GLU MODRES 2KB3 TPO A 15 THR PHOSPHOTHREONINE HET TPO A 15 17 HETNAM TPO PHOSPHOTHREONINE HETSYN TPO PHOSPHONOTHREONINE FORMUL 1 TPO C4 H10 N O6 P HELIX 1 1 ASP A 21 SER A 29 1 9 SHEET 1 A 6 ARG A 60 LEU A 63 0 SHEET 2 A 6 ALA A 47 ARG A 53 -1 N ALA A 47 O LEU A 63 SHEET 3 A 6 PHE A 133 ALA A 139 -1 O LEU A 138 N LEU A 48 SHEET 4 A 6 ASP A 126 ILE A 130 -1 N ILE A 128 O LEU A 135 SHEET 5 A 6 TYR A 111 VAL A 112 -1 N TYR A 111 O GLN A 129 SHEET 6 A 6 GLU A 115 PRO A 116 -1 O GLU A 115 N VAL A 112 SHEET 1 B 4 THR A 67 ALA A 70 0 SHEET 2 B 4 ALA A 90 ASN A 95 -1 O PHE A 92 N THR A 68 SHEET 3 B 4 GLU A 98 ASP A 103 -1 O VAL A 102 N GLU A 91 SHEET 4 B 4 ALA A 119 VAL A 121 -1 O GLN A 120 N VAL A 101 LINK C THR A 14 N TPO A 15 1555 1555 1.31 LINK C TPO A 15 N SER A 16 1555 1555 1.31 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