HEADER STRUCTURAL GENOMICS 30-JUN-06 2HJQ TITLE NMR STRUCTURE OF BACILLUS SUBTILIS PROTEIN YQBF, NORTHEAST STRUCTURAL TITLE 2 GENOMICS TARGET SR449 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN YQBF; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: YQBF; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (LAMBDA DE3) PMGK; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21 KEYWDS TWO-DOMAIN, BSU26130, YQBF, NESG, STRUCTURAL GENOMICS, PSI-2, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.DING,T.A.RAMELOT,J.R.CORT,D.WANG,H.JANJUA,K.CUNNINGHAM,L.-C.MA, AUTHOR 2 R.XIAO,J.LIU,M.BARAN,G.V.T.SWAPNA,T.B.ACTON,B.ROST,G.T.MONTELIONE, AUTHOR 3 M.A.KENNEDY,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 4 29-MAY-24 2HJQ 1 REMARK REVDAT 3 09-MAR-22 2HJQ 1 REMARK SEQADV REVDAT 2 24-FEB-09 2HJQ 1 VERSN REVDAT 1 05-JUN-07 2HJQ 0 JRNL AUTH J.R.CORT,T.A.RAMELOT,R.XIAO,G.V.T.SWAPNA,G.M.MONTELIONE, JRNL AUTH 2 M.A.KENNEDY JRNL TITL NMR STRUCTURE OF BACILLUS SUBTILIS PROTEIN YQBF, NORTHEAST JRNL TITL 2 STRUCTURAL GENOMICS TARGET SR449 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY 3.1, XPLOR-NIH 2.15.0, CNS 1.1 REMARK 3 AUTHORS : T.D. GODDARD, D.G. KNELLER (SPARKY), C.D. REMARK 3 SCHWIETERS, J.J. KUSZEWSKI, N. TJANDRA, G.M. CLORE REMARK 3 (XPLOR-NIH), A. BRUNGER, G. L .WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2HJQ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038422. 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 : 100 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.3MM YQBF, U-N15, 13C; 20 MM REMARK 210 NH4OAC, 100MM NACL, 5MM CACL2, REMARK 210 10MM DTT, 0.02% NAN3, 95% H2O, 5% REMARK 210 D2O; 0.7MM YQBF, U-N15, 5% 13C; REMARK 210 20 MM NH4OAC, 100MM NACL, 5MM REMARK 210 CACL2, 10MM DTT, 0.02% NAN3, 95% REMARK 210 H2O, 5% D2O; 1.3MM YQBF, U-N15, REMARK 210 13C; 20 MM NH4OAC, 100MM NACL, REMARK 210 5MM CACL2, 10MM DTT, 0.02% NAN3, REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 4D_13C- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE LINUZ9, VNMR 6.1C REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING, CNS WATER REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST BOND REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURES ARE BASED ON A TOTAL OF 1719 RESTRAINTS. REMARK 210 1536 ARE NOE-DERIVED; INTRA-RESIDUE [I=J] = 268; SEQUENTIAL [(I- REMARK 210 J)=1] = 437 MEDIUM RANGE [1<(I-J)<5] = 387; LONG RANGE [(I-J)>=5] REMARK 210 = 444; HYDROGEN BOND RESTRAINTS = 42 (2 PER H-BOND); NUMBER OF REMARK 210 NOE RESTRAINTS PER RESIDUE = 16.3 (RESIDES 2-47,57-104); REMARK 210 DIHEDRAL-ANGLE RESTRAINTS = 141 (70 PHI, 71 PSI); TOTAL NUMBER REMARK 210 OF RESTRAINTS PER RESIDUE = 18.3 (RESIDES 2-47,57-104); NUMBER REMARK 210 OF LONG RANGE RESTRAINTS PER RESIDUE = 4.7 NUMBER OF STRUCTURES REMARK 210 COMPUTED = 20; NUMBER OF STRUCTURES USED = 20. AVERAGE DISTANCE REMARK 210 VIOLATIONS >0.1 ANG = 0; AVERAGE RMS DISTANCE VIOLATION / REMARK 210 CONSTRAINT = 0.06 ANGSTROMS.; MAXIMUM DISTANCE VIOLATION 0.05 REMARK 210 ANG. AVERAGE DIHEDRAL ANGLE VIOLATIONS: >10 DEG = 0 MAX DIHEDRAL REMARK 210 ANGLE VIOLATION = 0.5 DEG. AVERAGE RMS ANGLE VIOLATION / REMARK 210 CONSTRAINT = 0.003 DEG. RMSD VALUES: BACKBONE ATOMS (N,C,C', REMARK 210 RESIDUES 2-47 = 0.5 ANG; ALL HEAVY ATOMS = 0.9 ANG (RESIDUES 2- REMARK 210 47) RMSD VALUES: BACKBONE ATOMS (N,C,C', RESIDUES 2-47 = 0.7 ANG; REMARK 210 ALL HEAVY ATOMS = 1.3 ANG (RESIDUES 57-98) PROCHECK (RESIDUES 2- REMARK 210 47,57-104): MOST FAVORED REGIONS = 89% ADDITIONAL ALLOWED REMARK 210 REGIONS = 10%; GENEROUSLY ALLOWED REGIONS = 0%; DISALLOWED REMARK 210 REGIONS = 1%. 6 NON-NATIVE N-TERMINAL RESIDUES (MAGDPL) AND 8 C- REMARK 210 TERMINAL RESDIUES, INLUDING THE HIS TAG, (LEHHHHHH) WERE REMARK 210 INCLUDED IN THE STRUCTURE CALCULATION. 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 HZ2 LYS A 67 OE2 GLU A 71 1.55 REMARK 500 OE2 GLU A 105 HD1 HIS A 110 1.59 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 LYS A 10 -41.76 -139.90 REMARK 500 1 MET A 15 -79.73 65.71 REMARK 500 1 PRO A 39 44.84 -78.18 REMARK 500 1 ASP A 52 -156.54 -112.18 REMARK 500 1 ILE A 55 27.90 -169.65 REMARK 500 1 ASN A 56 109.43 -160.54 REMARK 500 1 LEU A 104 -58.57 -126.02 REMARK 500 1 HIS A 110 62.67 -153.31 REMARK 500 2 LYS A 10 -58.07 -175.61 REMARK 500 2 MET A 15 -86.93 62.78 REMARK 500 2 ASN A 48 146.90 74.45 REMARK 500 2 ASP A 53 81.05 63.66 REMARK 500 2 PRO A 54 37.72 -77.41 REMARK 500 2 ILE A 55 24.52 -145.06 REMARK 500 2 MET A 65 -169.49 -120.00 REMARK 500 2 ASN A 66 -166.35 -100.14 REMARK 500 2 ASN A 80 108.96 70.45 REMARK 500 2 HIS A 107 110.36 70.81 REMARK 500 2 HIS A 109 -21.59 -167.33 REMARK 500 2 HIS A 110 109.49 77.24 REMARK 500 3 LYS A 10 -59.64 -160.99 REMARK 500 3 MET A 15 -1.52 71.38 REMARK 500 3 PRO A 39 34.48 -78.30 REMARK 500 3 GLN A 50 -149.82 -132.57 REMARK 500 3 PRO A 81 73.90 -69.05 REMARK 500 3 LYS A 101 -67.51 -93.22 REMARK 500 3 HIS A 106 23.82 -141.53 REMARK 500 4 LYS A 10 -55.49 -179.03 REMARK 500 4 MET A 15 -85.84 64.48 REMARK 500 4 PRO A 39 29.70 -75.76 REMARK 500 4 ILE A 55 29.87 163.15 REMARK 500 4 ASN A 56 89.48 -158.33 REMARK 500 4 PRO A 81 43.89 -83.98 REMARK 500 4 HIS A 110 -84.40 -176.39 REMARK 500 5 LYS A 10 -48.08 -172.68 REMARK 500 5 MET A 15 -74.22 66.35 REMARK 500 5 ASN A 48 -37.66 -133.68 REMARK 500 5 ASP A 52 -69.15 72.56 REMARK 500 5 PRO A 54 32.08 -99.55 REMARK 500 5 ILE A 55 78.67 -178.70 REMARK 500 5 ASN A 56 86.39 -170.15 REMARK 500 5 ASN A 80 137.64 72.38 REMARK 500 5 LYS A 85 -65.04 -108.76 REMARK 500 5 HIS A 109 20.74 -141.63 REMARK 500 6 LYS A 10 -37.12 73.78 REMARK 500 6 MET A 15 -87.19 63.64 REMARK 500 6 TYR A 40 25.30 -153.22 REMARK 500 6 GLN A 50 154.66 71.00 REMARK 500 6 ASP A 52 91.75 65.67 REMARK 500 6 PRO A 54 41.88 -74.90 REMARK 500 REMARK 500 THIS ENTRY HAS 168 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SR449 RELATED DB: TARGETDB DBREF 2HJQ A 1 103 UNP P45922 YQBF_BACSU 1 103 SEQADV 2HJQ LEU A 104 UNP P45922 CLONING ARTIFACT SEQADV 2HJQ GLU A 105 UNP P45922 CLONING ARTIFACT SEQADV 2HJQ HIS A 106 UNP P45922 EXPRESSION TAG SEQADV 2HJQ HIS A 107 UNP P45922 EXPRESSION TAG SEQADV 2HJQ HIS A 108 UNP P45922 EXPRESSION TAG SEQADV 2HJQ HIS A 109 UNP P45922 EXPRESSION TAG SEQADV 2HJQ HIS A 110 UNP P45922 EXPRESSION TAG SEQADV 2HJQ HIS A 111 UNP P45922 EXPRESSION TAG SEQRES 1 A 111 MET PHE THR ALA LYS LEU ILE LYS GLY LYS THR TYR ASN SEQRES 2 A 111 VAL MET GLY ILE THR PHE ARG ALA GLY VAL SER GLN THR SEQRES 3 A 111 VAL PRO LYS LYS LEU TYR GLU TYR LEU ASN GLU ASN PRO SEQRES 4 A 111 TYR PHE ILE LEU THR GLN GLU LEU ASN ASN GLN LYS ASP SEQRES 5 A 111 ASP PRO ILE ASN TYR THR GLU SER GLU LEU LYS GLY MET SEQRES 6 A 111 ASN LYS ALA GLU HIS GLU SER ILE ILE SER ASN LEU GLY SEQRES 7 A 111 ARG ASN PRO SER ASP PHE LYS ASN ALA ASP GLU ARG ILE SEQRES 8 A 111 ALA TYR ILE LEU LYS GLN ILE ASP ASN LYS GLY GLU LEU SEQRES 9 A 111 GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 PRO A 28 ASN A 38 1 11 HELIX 2 2 THR A 58 GLY A 64 1 7 HELIX 3 3 ASN A 66 GLY A 78 1 13 HELIX 4 4 ASN A 86 ASP A 99 1 14 SHEET 1 A 3 SER A 24 VAL A 27 0 SHEET 2 A 3 PHE A 2 LEU A 6 -1 N ALA A 4 O GLN A 25 SHEET 3 A 3 PHE A 41 GLN A 45 -1 O ILE A 42 N LYS A 5 SHEET 1 B 2 THR A 11 VAL A 14 0 SHEET 2 B 2 ILE A 17 ARG A 20 -1 O PHE A 19 N TYR A 12 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