HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 24-AUG-05 2ASY TITLE SOLUTION STRUCTURE OF YDHR PROTEIN FROM ESCHERICHIA COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN YDHR PRECURSOR; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: YDHR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS DIMERIC APHA+BETA BARREL, HOMODIMER, STRUCTURAL GENOMICS, ONTARIO KEYWDS 2 CENTRE FOR STRUCTURAL PROTEOMICS, OCSP, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.REVINGTON,A.SEMESI,A.YEE,G.S.SHAW,ONTARIO CENTRE FOR STRUCTURAL AUTHOR 2 PROTEOMICS (OCSP) REVDAT 5 09-MAR-22 2ASY 1 REMARK SEQADV REVDAT 4 24-FEB-09 2ASY 1 VERSN REVDAT 3 27-DEC-05 2ASY 1 AUTHOR KEYWDS REVDAT 2 06-DEC-05 2ASY 1 REMARK REVDAT 1 15-NOV-05 2ASY 0 JRNL AUTH M.REVINGTON,A.SEMESI,A.YEE,G.S.SHAW JRNL TITL SOLUTION STRUCTURE OF THE ESCHERICHIA COLI PROTEIN YDHR: A JRNL TITL 2 PUTATIVE MONO-OXYGENASE. JRNL REF PROTEIN SCI. V. 14 3115 2005 JRNL REFN ISSN 0961-8368 JRNL PMID 16260765 JRNL DOI 10.1110/PS.051809305 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1B, CYANA 2.032.3 REMARK 3 AUTHORS : VARIAN INC. (VNMR), UNTERT, P., MUMENTHALER, C. REMARK 3 AND WUTHRICH, K. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 3461 NOE DISTANCE CONSTRAINTS REMARK 3 200 DIHEDRAL ANGLE CONSTRAINTS REMARK 4 REMARK 4 2ASY COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034276. 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 : 450 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM U-15N,13C; 25 MM MES, 450 REMARK 210 MM NACL, 0.01% SODIUM AZIDE; 0.5 REMARK 210 MM U-15N,13C; 25 MM MES, 450 MM REMARK 210 NACL, 0.01% SODIUM AZIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -ALIPHATIC_REGION-SEPARATED REMARK 210 NOESY; 3D_13C-AROMATIC_REGION- REMARK 210 SEPARATED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.3, NMRVIEW 5.2.2, CNS REMARK 210 1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING,TORSION REMARK 210 ANGLE DYNAMICS, MOLECULAR REMARK 210 DYNAMICS, REFINEMENT IN PRESENCE REMARK 210 OF SOLVENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A -21 REMARK 465 GLY A -20 REMARK 465 THR A -19 REMARK 465 SER A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 SER A -11 REMARK 465 SER A -10 REMARK 465 GLY A -9 REMARK 465 ARG A -8 REMARK 465 GLU A -7 REMARK 465 ASN A -6 REMARK 465 LEU A -5 REMARK 465 TYR A -4 REMARK 465 PHE A -3 REMARK 465 GLN A -2 REMARK 465 GLY A -1 REMARK 465 HIS A 0 REMARK 465 MET B -21 REMARK 465 GLY B -20 REMARK 465 THR B -19 REMARK 465 SER B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 SER B -11 REMARK 465 SER B -10 REMARK 465 GLY B -9 REMARK 465 ARG B -8 REMARK 465 GLU B -7 REMARK 465 ASN B -6 REMARK 465 LEU B -5 REMARK 465 TYR B -4 REMARK 465 PHE B -3 REMARK 465 GLN B -2 REMARK 465 GLY B -1 REMARK 465 HIS B 0 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 GLU A 21 -53.15 -134.23 REMARK 500 1 PHE A 36 -56.25 80.22 REMARK 500 1 TRP A 41 54.44 -107.75 REMARK 500 1 ASP A 58 171.36 179.00 REMARK 500 1 VAL A 78 -85.48 -136.20 REMARK 500 1 GLU A 79 -86.82 -126.69 REMARK 500 1 GLN A 97 27.36 -77.76 REMARK 500 1 ALA A 98 -66.34 -95.09 REMARK 500 1 MET B 19 -63.28 -97.25 REMARK 500 1 GLU B 21 -53.29 -131.72 REMARK 500 1 PHE B 36 -57.97 78.45 REMARK 500 1 TRP B 41 54.85 -108.10 REMARK 500 1 ASP B 58 176.45 178.50 REMARK 500 1 VAL B 78 -92.05 -125.48 REMARK 500 1 GLU B 79 -87.17 -121.47 REMARK 500 2 PHE A 36 -58.57 72.92 REMARK 500 2 TRP A 41 73.72 -115.51 REMARK 500 2 VAL A 78 -89.02 -127.20 REMARK 500 2 GLU A 79 -92.32 -119.44 REMARK 500 2 GLN A 97 24.47 -74.47 REMARK 500 2 ALA A 98 -76.20 -96.30 REMARK 500 2 PHE B 36 -51.83 72.16 REMARK 500 2 LEU B 37 -60.64 -91.60 REMARK 500 2 TRP B 41 73.55 -119.04 REMARK 500 2 VAL B 78 -87.48 -126.44 REMARK 500 2 GLU B 79 -87.43 -124.06 REMARK 500 2 GLN B 97 31.69 -80.04 REMARK 500 2 ALA B 98 -70.81 -100.70 REMARK 500 3 GLU A 21 -49.23 -130.22 REMARK 500 3 PRO A 34 -79.51 -95.98 REMARK 500 3 PHE A 36 -59.29 71.21 REMARK 500 3 VAL A 78 -87.84 -132.54 REMARK 500 3 GLU A 79 -80.43 -119.58 REMARK 500 3 GLN A 97 35.58 -84.00 REMARK 500 3 ALA A 98 -71.62 -94.60 REMARK 500 3 LEU A 100 36.32 -91.15 REMARK 500 3 MET B 19 -62.89 -95.61 REMARK 500 3 PRO B 34 -76.81 -93.15 REMARK 500 3 PHE B 36 -58.31 72.15 REMARK 500 3 GLU B 43 112.36 -165.87 REMARK 500 3 VAL B 78 -89.16 -129.24 REMARK 500 3 GLU B 79 -81.26 -120.38 REMARK 500 3 GLN B 97 39.17 -84.54 REMARK 500 3 ALA B 98 -67.93 -98.60 REMARK 500 4 GLU A 21 -56.39 -137.15 REMARK 500 4 GLN A 32 -12.37 58.51 REMARK 500 4 PRO A 34 -70.11 -71.31 REMARK 500 4 PHE A 36 -57.77 77.91 REMARK 500 4 VAL A 78 -84.01 -141.14 REMARK 500 4 GLU A 79 -86.57 -131.67 REMARK 500 REMARK 500 THIS ENTRY HAS 291 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 15 ARG B 72 0.08 SIDE CHAIN REMARK 500 19 ARG B 72 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WD6 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF SAME PROTEIN DBREF 2ASY A 1 101 UNP P77225 YDHR_ECOLI 1 101 DBREF 2ASY B 1 101 UNP P77225 YDHR_ECOLI 1 101 SEQADV 2ASY MET A -21 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLY A -20 UNP P77225 CLONING ARTIFACT SEQADV 2ASY THR A -19 UNP P77225 CLONING ARTIFACT SEQADV 2ASY SER A -18 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A -17 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A -16 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A -15 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A -14 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A -13 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A -12 UNP P77225 CLONING ARTIFACT SEQADV 2ASY SER A -11 UNP P77225 CLONING ARTIFACT SEQADV 2ASY SER A -10 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLY A -9 UNP P77225 CLONING ARTIFACT SEQADV 2ASY ARG A -8 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLU A -7 UNP P77225 CLONING ARTIFACT SEQADV 2ASY ASN A -6 UNP P77225 CLONING ARTIFACT SEQADV 2ASY LEU A -5 UNP P77225 CLONING ARTIFACT SEQADV 2ASY TYR A -4 UNP P77225 CLONING ARTIFACT SEQADV 2ASY PHE A -3 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLN A -2 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLY A -1 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS A 0 UNP P77225 CLONING ARTIFACT SEQADV 2ASY MET B -21 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLY B -20 UNP P77225 CLONING ARTIFACT SEQADV 2ASY THR B -19 UNP P77225 CLONING ARTIFACT SEQADV 2ASY SER B -18 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B -17 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B -16 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B -15 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B -14 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B -13 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B -12 UNP P77225 CLONING ARTIFACT SEQADV 2ASY SER B -11 UNP P77225 CLONING ARTIFACT SEQADV 2ASY SER B -10 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLY B -9 UNP P77225 CLONING ARTIFACT SEQADV 2ASY ARG B -8 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLU B -7 UNP P77225 CLONING ARTIFACT SEQADV 2ASY ASN B -6 UNP P77225 CLONING ARTIFACT SEQADV 2ASY LEU B -5 UNP P77225 CLONING ARTIFACT SEQADV 2ASY TYR B -4 UNP P77225 CLONING ARTIFACT SEQADV 2ASY PHE B -3 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLN B -2 UNP P77225 CLONING ARTIFACT SEQADV 2ASY GLY B -1 UNP P77225 CLONING ARTIFACT SEQADV 2ASY HIS B 0 UNP P77225 CLONING ARTIFACT SEQRES 1 A 123 MET GLY THR SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 123 ARG GLU ASN LEU TYR PHE GLN GLY HIS MET ALA THR LEU SEQRES 3 A 123 LEU GLN LEU HIS PHE ALA PHE ASN GLY PRO PHE GLY ASP SEQRES 4 A 123 ALA MET ALA GLU GLN LEU LYS PRO LEU ALA GLU SER ILE SEQRES 5 A 123 ASN GLN GLU PRO GLY PHE LEU TRP LYS VAL TRP THR GLU SEQRES 6 A 123 SER GLU LYS ASN HIS GLU ALA GLY GLY ILE TYR LEU PHE SEQRES 7 A 123 THR ASP GLU LYS SER ALA LEU ALA TYR LEU GLU LYS HIS SEQRES 8 A 123 THR ALA ARG LEU LYS ASN LEU GLY VAL GLU GLU VAL VAL SEQRES 9 A 123 ALA LYS VAL PHE ASP VAL ASN GLU PRO LEU SER GLN ILE SEQRES 10 A 123 ASN GLN ALA LYS LEU ALA SEQRES 1 B 123 MET GLY THR SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 123 ARG GLU ASN LEU TYR PHE GLN GLY HIS MET ALA THR LEU SEQRES 3 B 123 LEU GLN LEU HIS PHE ALA PHE ASN GLY PRO PHE GLY ASP SEQRES 4 B 123 ALA MET ALA GLU GLN LEU LYS PRO LEU ALA GLU SER ILE SEQRES 5 B 123 ASN GLN GLU PRO GLY PHE LEU TRP LYS VAL TRP THR GLU SEQRES 6 B 123 SER GLU LYS ASN HIS GLU ALA GLY GLY ILE TYR LEU PHE SEQRES 7 B 123 THR ASP GLU LYS SER ALA LEU ALA TYR LEU GLU LYS HIS SEQRES 8 B 123 THR ALA ARG LEU LYS ASN LEU GLY VAL GLU GLU VAL VAL SEQRES 9 B 123 ALA LYS VAL PHE ASP VAL ASN GLU PRO LEU SER GLN ILE SEQRES 10 B 123 ASN GLN ALA LYS LEU ALA HELIX 1 1 GLY A 16 GLU A 21 1 6 HELIX 2 2 GLN A 22 ASN A 31 1 10 HELIX 3 3 ASP A 58 GLY A 77 1 20 HELIX 4 4 ASN A 89 ASN A 96 5 8 HELIX 5 5 GLY B 16 GLU B 21 1 6 HELIX 6 6 GLN B 22 ASN B 31 1 10 HELIX 7 7 ASP B 58 LYS B 74 1 17 HELIX 8 8 ASN B 89 ASN B 96 5 8 SHEET 1 A 2 THR A 3 ALA A 10 0 SHEET 2 A 2 GLU A 49 PHE A 56 -1 O ALA A 50 N PHE A 9 SHEET 1 B 3 GLU B 49 PHE B 56 0 SHEET 2 B 3 THR B 3 ALA B 10 -1 N LEU B 5 O TYR B 54 SHEET 3 B 3 VAL B 82 VAL B 85 -1 O VAL B 82 N HIS B 8 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