HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 01-JUN-06 2H7A TITLE NMR STRUCTURE OF THE CONSERVED PROTEIN YCGL FROM ESCHERICHIA COLI TITLE 2 REPRESENTING THE DUF709 FAMILY REVEALS A NOVEL A/B/A SANDWICH FOLD COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN YCGL; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 199310; SOURCE 4 STRAIN: CFT073; SOURCE 5 GENE: YCGL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS MIXED ALPHA/BETA/ALPHA SANDWICH STRUCTURE, 3-LAYER (ALPHA/BETA/ALPHA) KEYWDS 2 SANDWICH, BETA-SHEET LAYER ANTIPARALLEL 3124 TOPOLOGY, STRUCTURAL KEYWDS 3 GENOMICS, MONTREAL-KINGSTON BACTERIAL STRUCTURAL GENOMICS KEYWDS 4 INITIATIVE, BSGI, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR O.M.MINAILIUC,O.VAVELYUK,I.EKIEL,M.-NI.HUNG,M.CYGLER,S.GANDHI, AUTHOR 2 MONTREAL-KINGSTON BACTERIAL STRUCTURAL GENOMICS INITIATIVE (BSGI) REVDAT 4 01-MAY-24 2H7A 1 REMARK SEQADV REVDAT 3 13-JUL-11 2H7A 1 VERSN REVDAT 2 24-FEB-09 2H7A 1 VERSN REVDAT 1 17-APR-07 2H7A 0 JRNL AUTH O.M.MINAILIUC,O.VAVELYUK,S.GANDHI,M.N.HUNG,M.CYGLER,I.EKIEL JRNL TITL NMR STRUCTURE OF YCGL, A CONSERVED PROTEIN FROM ESCHERICHIA JRNL TITL 2 COLI REPRESENTING THE DUF709 FAMILY, WITH A NOVEL JRNL TITL 3 ALPHA/BETA/ALPHA SANDWICH FOLD. JRNL REF PROTEINS V. 66 1004 2007 JRNL REFN ISSN 0887-3585 JRNL PMID 17221885 JRNL DOI 10.1002/PROT.21198 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR, XPLOR-NIH 2112 REMARK 3 AUTHORS : C.D.SCHWIETERS,J.J.KUSZEWSKI,N.TJANDRA,G.M.CLORE REMARK 3 (XPLOR-NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2H7A COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000038018. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 150MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 50MM PHOSPHATE BUFFER, PH 6.8, REMARK 210 150MM NACL, 15MM DTT, 0.02% (W/V) REMARK 210 SODIUM AZIDE, 10% D2O, 90% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY; 2D TOCSY; HNHA; REMARK 210 HNCACB; CBCA(CO)NH; HN(CA)CO; REMARK 210 HBHA(CO)NH; 3D HCCH-TOCSY; 1H- REMARK 210 15N TOCSY-HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, CARA 135, XEASY, CYANA REMARK 210 2.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 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: THE STRUCTURE WAS DETERMINED USING STANDARD HOMONUCLEAR REMARK 210 AND HETERONUCLEAR NMR EXPERIMENTS 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 -144.66 -138.01 REMARK 500 1 LYS A 5 144.93 -173.58 REMARK 500 1 PRO A 6 -89.57 -73.17 REMARK 500 1 MET A 14 -163.88 -169.70 REMARK 500 1 ASP A 25 -73.90 -60.19 REMARK 500 1 GLN A 26 54.04 -152.13 REMARK 500 1 ASP A 35 -72.99 -101.38 REMARK 500 1 LEU A 59 58.18 -116.87 REMARK 500 1 PRO A 90 -96.36 -72.68 REMARK 500 1 GLU A 91 147.72 166.82 REMARK 500 1 LEU A 93 175.19 53.54 REMARK 500 1 LEU A 94 -163.86 -174.69 REMARK 500 1 LYS A 95 68.99 -118.25 REMARK 500 1 GLN A 96 -28.56 -143.85 REMARK 500 1 LEU A 98 -156.70 55.83 REMARK 500 1 SER A 99 98.51 -162.52 REMARK 500 1 MET A 101 76.49 44.03 REMARK 500 1 ASP A 106 136.57 63.90 REMARK 500 2 SER A 2 -65.23 -169.91 REMARK 500 2 LYS A 5 149.76 68.80 REMARK 500 2 LEU A 9 -65.13 -175.90 REMARK 500 2 LYS A 10 99.44 55.53 REMARK 500 2 SER A 11 69.32 -169.21 REMARK 500 2 LYS A 12 128.19 173.57 REMARK 500 2 SER A 13 -58.37 -128.57 REMARK 500 2 MET A 14 -170.35 61.15 REMARK 500 2 GLN A 26 55.63 -174.99 REMARK 500 2 ASP A 35 -72.03 -97.94 REMARK 500 2 ASP A 60 -67.40 -126.29 REMARK 500 2 GLU A 91 -75.95 -68.97 REMARK 500 2 LEU A 93 166.48 -47.85 REMARK 500 2 LEU A 94 -3.10 -143.58 REMARK 500 2 LYS A 95 -155.91 -83.16 REMARK 500 2 SER A 99 165.04 -44.47 REMARK 500 2 ASP A 107 76.79 -116.10 REMARK 500 2 THR A 108 -86.40 -178.84 REMARK 500 3 LYS A 5 134.62 178.41 REMARK 500 3 ILE A 8 88.55 42.46 REMARK 500 3 SER A 11 165.42 65.20 REMARK 500 3 SER A 13 -91.70 54.62 REMARK 500 3 MET A 14 178.68 62.81 REMARK 500 3 ASP A 35 -72.00 -96.28 REMARK 500 3 LEU A 59 50.07 -116.54 REMARK 500 3 GLU A 91 -83.36 -73.74 REMARK 500 3 ASP A 92 -41.05 173.08 REMARK 500 3 LEU A 94 -82.69 -164.20 REMARK 500 3 LYS A 95 -159.03 -84.64 REMARK 500 3 SER A 99 -115.66 -170.21 REMARK 500 3 ASP A 106 51.15 -164.73 REMARK 500 3 ASP A 107 67.60 -69.07 REMARK 500 REMARK 500 THIS ENTRY HAS 306 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 1 ARG A 20 0.21 SIDE CHAIN REMARK 500 1 ARG A 24 0.14 SIDE CHAIN REMARK 500 1 ARG A 39 0.24 SIDE CHAIN REMARK 500 1 ARG A 62 0.22 SIDE CHAIN REMARK 500 2 ARG A 20 0.22 SIDE CHAIN REMARK 500 2 ARG A 24 0.12 SIDE CHAIN REMARK 500 2 ARG A 39 0.28 SIDE CHAIN REMARK 500 2 ARG A 62 0.31 SIDE CHAIN REMARK 500 3 ARG A 20 0.08 SIDE CHAIN REMARK 500 3 ARG A 24 0.08 SIDE CHAIN REMARK 500 3 ARG A 39 0.25 SIDE CHAIN REMARK 500 3 ARG A 62 0.22 SIDE CHAIN REMARK 500 4 ARG A 20 0.28 SIDE CHAIN REMARK 500 4 ARG A 24 0.20 SIDE CHAIN REMARK 500 4 ARG A 39 0.27 SIDE CHAIN REMARK 500 4 ARG A 62 0.30 SIDE CHAIN REMARK 500 5 ARG A 20 0.30 SIDE CHAIN REMARK 500 5 ARG A 24 0.31 SIDE CHAIN REMARK 500 5 ARG A 39 0.27 SIDE CHAIN REMARK 500 5 ARG A 62 0.24 SIDE CHAIN REMARK 500 6 ARG A 20 0.32 SIDE CHAIN REMARK 500 6 ARG A 24 0.19 SIDE CHAIN REMARK 500 6 ARG A 39 0.20 SIDE CHAIN REMARK 500 6 ARG A 62 0.19 SIDE CHAIN REMARK 500 7 ARG A 20 0.27 SIDE CHAIN REMARK 500 7 ARG A 24 0.31 SIDE CHAIN REMARK 500 7 ARG A 39 0.30 SIDE CHAIN REMARK 500 7 ARG A 62 0.22 SIDE CHAIN REMARK 500 8 ARG A 20 0.20 SIDE CHAIN REMARK 500 8 ARG A 24 0.29 SIDE CHAIN REMARK 500 8 ARG A 39 0.26 SIDE CHAIN REMARK 500 8 ARG A 62 0.27 SIDE CHAIN REMARK 500 9 ARG A 20 0.26 SIDE CHAIN REMARK 500 9 ARG A 24 0.24 SIDE CHAIN REMARK 500 9 ARG A 39 0.27 SIDE CHAIN REMARK 500 9 ARG A 62 0.19 SIDE CHAIN REMARK 500 10 ARG A 20 0.16 SIDE CHAIN REMARK 500 10 ARG A 24 0.31 SIDE CHAIN REMARK 500 10 ARG A 39 0.32 SIDE CHAIN REMARK 500 10 ARG A 62 0.29 SIDE CHAIN REMARK 500 11 ARG A 20 0.31 SIDE CHAIN REMARK 500 11 ARG A 24 0.30 SIDE CHAIN REMARK 500 11 ARG A 39 0.31 SIDE CHAIN REMARK 500 11 ARG A 62 0.14 SIDE CHAIN REMARK 500 12 ARG A 20 0.20 SIDE CHAIN REMARK 500 12 ARG A 24 0.29 SIDE CHAIN REMARK 500 12 ARG A 39 0.12 SIDE CHAIN REMARK 500 12 ARG A 62 0.31 SIDE CHAIN REMARK 500 13 ARG A 20 0.20 SIDE CHAIN REMARK 500 13 ARG A 24 0.21 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 79 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: YCGL_ECOL6 RELATED DB: TARGETDB DBREF 2H7A A 3 110 UNP Q2LD68 Q2LD68_ECOLI 1 108 SEQADV 2H7A GLY A 1 UNP Q2LD68 CLONING ARTIFACT SEQADV 2H7A SER A 2 UNP Q2LD68 CLONING ARTIFACT SEQRES 1 A 110 GLY SER MET PRO LYS PRO GLY ILE LEU LYS SER LYS SER SEQRES 2 A 110 MET PHE CYS VAL ILE TYR ARG SER SER LYS ARG ASP GLN SEQRES 3 A 110 THR TYR LEU TYR VAL GLU LYS LYS ASP ASP PHE SER ARG SEQRES 4 A 110 VAL PRO GLU GLU LEU MET LYS GLY PHE GLY GLN PRO GLN SEQRES 5 A 110 LEU ALA MET ILE LEU PRO LEU ASP GLY ARG LYS LYS LEU SEQRES 6 A 110 VAL ASN ALA ASP ILE GLU LYS VAL LYS GLN ALA LEU THR SEQRES 7 A 110 GLU GLN GLY TYR TYR LEU GLN LEU PRO PRO PRO PRO GLU SEQRES 8 A 110 ASP LEU LEU LYS GLN HIS LEU SER VAL MET GLY GLN LYS SEQRES 9 A 110 THR ASP ASP THR ASN LYS HELIX 1 1 PRO A 41 GLY A 49 1 9 HELIX 2 2 ASP A 69 GLN A 80 1 12 SHEET 1 A 4 PRO A 51 LEU A 57 0 SHEET 2 A 4 CYS A 16 SER A 21 -1 N CYS A 16 O LEU A 57 SHEET 3 A 4 TYR A 28 VAL A 31 -1 O LEU A 29 N TYR A 19 SHEET 4 A 4 TYR A 82 GLN A 85 -1 O GLN A 85 N TYR A 28 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