HEADER DNA BINDING PROTEIN 10-APR-09 2KHQ TITLE SOLUTION NMR STRUCTURE OF A PHAGE INTEGRASE SSP1947 FRAGMENT 59-159 TITLE 2 FROM STAPHYLOCOCCUS SAPROPHYTICUS, NORTHEAST STRUCTURAL GENOMICS TITLE 3 CONSORTIUM TARGET SYR103B COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 59-159; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS SAPROPHYTICUS SUBSP. SOURCE 3 SAPROPHYTICUS ATCC 15305; SOURCE 4 ORGANISM_TAXID: 342451; SOURCE 5 STRAIN: ATCC 15305 / DSM 20229; SOURCE 6 GENE: SSP1947; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)+ MAGIC; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET 21-23C KEYWDS ALL-ALPHA, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, KEYWDS 2 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.ELETSKY,J.L.MILLS,J.HUA,R.L.BELOTE,C.CICCOSANTI,M.JIANG,R.NAIR, AUTHOR 2 B.ROST,T.B.ACTON,R.XIAO,G.V.T.SWAPNA,J.K.EVERETT,G.T.MONTELIONE, AUTHOR 3 T.SZYPERSKI,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 3 22-MAY-24 2KHQ 1 REMARK REVDAT 2 16-MAR-22 2KHQ 1 REMARK REVDAT 1 28-APR-09 2KHQ 0 JRNL AUTH A.ELETSKY,J.L.MILLS,J.HUA,R.BELOTE,C.CICCOSANTI,M.JIANG, JRNL AUTH 2 R.NAIR,B.ROST,T.B.ACTON,R.XIAO,G.V.T.SWAPNA,J.K.EVERETT, JRNL AUTH 3 G.T.MONTELIONE,T.SZYPERSKI JRNL TITL SOLUTION NMR STRUCTURE OF A PHAGE INTEGRASE SSP1947 FRAGMENT JRNL TITL 2 59-159 FROM STAPHYLOCOCCUS SAPROPHYTICUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ 2.1B, CNS 1.2.1 REMARK 3 AUTHORS : VARIAN (VNMRJ), BRUNGER, ADAMS, CLORE, GROS, REMARK 3 NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE DETERMINATION WAS PERFORMED REMARK 3 ITERATIVELY WITH CYANA V2.1 USING NOE-BASED CONSTRAINTS, PHI AND REMARK 3 PSI DIHEDRAL ANGLE CONSTRAINTS FROM TALOS, HYDROGEN BOND REMARK 3 CONSTRAINTS BASED ON PRELIMINARY STRUCTURES AND CLEANEX/MEXICO REMARK 3 DATA. THE 20 CONFORMERS OUT OF 100 WITH THE LOWEST TARGET REMARK 3 FUNCTION WERE FURTHER REFINED BY SIMULATED ANNEALING IN EXPLICIT REMARK 3 WATER BATH USING THE PROGRAM CNS WITH OPLSX FORCE FIELD. REMARK 4 REMARK 4 2KHQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000101135. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.215 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.69 MM [U-100% 13C; U-100% 15N] REMARK 210 SYR103B_PROTEIN, 20 MM MES, 200 REMARK 210 MM SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 50 UM DSS, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O; REMARK 210 0.6 MM [U-5% 13C; U-100% 15N] REMARK 210 SYR103B_PROTEIN, 20 MM MES, 200 REMARK 210 MM SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 50 UM DSS, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C CT-HSQC REMARK 210 ALIPHATIC; 2D 1H-13C CT-HSQC REMARK 210 AROMATIC; 3D 1H-15N,13C NOESY; REMARK 210 3D 1H-13C NOESY; 3D HNCO; 3D REMARK 210 CBCA(CO)NH; 3D HNCACB; 3D HN(CA) REMARK 210 CO; 3D HBHA(CO)NH; 3D HCCH-COSY REMARK 210 ALIPHATIC; 3D HCCH-TOCSY REMARK 210 ALIPHATIC; 3D HCCH-COSY AROMATIC; REMARK 210 2D 1H-15N LR-HSQC; 2D 1H-13C CT- REMARK 210 HSQC METHYL; 2D MEXICO; 2D REMARK 210 CLEANEX REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : PROSA 6.0.2, CARA 1.8.4, CSI REMARK 210 2.0, TALOS 2007.068.09.07, CYANA REMARK 210 2.1, AUTOSTRUCTURE 2.1.1, PSVS REMARK 210 1.3 REMARK 210 METHOD USED : SIMULATED ANNEALING 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: 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 HB3 GLU A 97 HD2 HIS A 99 1.21 REMARK 500 HZ1 LYS A 42 OD2 ASP A 46 1.58 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 PHE A 39 77.37 -101.30 REMARK 500 1 LYS A 95 41.97 -106.97 REMARK 500 1 GLU A 104 95.29 -62.80 REMARK 500 2 THR A 62 18.22 -141.41 REMARK 500 2 ALA A 96 47.22 -78.07 REMARK 500 3 HIS A 19 -56.66 -130.93 REMARK 500 4 HIS A 19 -51.05 -123.41 REMARK 500 4 ILE A 47 98.82 -67.59 REMARK 500 4 TYR A 94 -78.04 -87.48 REMARK 500 4 LEU A 98 43.30 -84.51 REMARK 500 6 ASN A 15 -60.80 -101.84 REMARK 500 6 PHE A 39 58.32 -96.87 REMARK 500 6 HIS A 106 -75.52 -83.93 REMARK 500 6 HIS A 107 154.91 173.44 REMARK 500 7 PHE A 39 51.22 -96.60 REMARK 500 7 HIS A 106 141.75 166.81 REMARK 500 8 ASN A 15 -73.01 -110.97 REMARK 500 8 PHE A 39 70.49 -107.59 REMARK 500 8 TYR A 87 -70.12 -89.91 REMARK 500 8 LYS A 90 -168.33 -163.62 REMARK 500 10 ASN A 15 -55.08 -124.52 REMARK 500 10 VAL A 88 -158.83 -135.86 REMARK 500 10 ASN A 91 139.41 -171.68 REMARK 500 10 HIS A 108 138.30 -170.29 REMARK 500 11 TYR A 94 -62.44 -143.48 REMARK 500 11 SER A 101 -64.57 -145.39 REMARK 500 11 LEU A 103 -158.12 -118.08 REMARK 500 12 LEU A 17 -61.95 -151.40 REMARK 500 12 HIS A 41 57.76 -156.24 REMARK 500 13 ASN A 15 -73.83 -108.39 REMARK 500 13 ARG A 40 -63.06 -97.65 REMARK 500 13 LEU A 98 79.31 59.73 REMARK 500 14 ASN A 15 -77.38 -101.78 REMARK 500 14 PRO A 92 -149.91 -68.47 REMARK 500 14 THR A 93 17.45 54.06 REMARK 500 14 HIS A 109 159.82 69.80 REMARK 500 15 ASN A 15 -72.25 -108.29 REMARK 500 15 VAL A 102 -35.89 -141.66 REMARK 500 16 ILE A 89 -164.16 -76.53 REMARK 500 16 ALA A 100 98.27 -66.73 REMARK 500 16 HIS A 109 -82.11 -164.30 REMARK 500 17 LYS A 95 -6.61 74.62 REMARK 500 19 HIS A 19 -50.51 -121.62 REMARK 500 19 PHE A 39 52.07 -92.55 REMARK 500 19 ILE A 89 -168.33 -71.96 REMARK 500 19 LYS A 90 39.88 -83.13 REMARK 500 19 ASN A 91 131.20 70.10 REMARK 500 19 THR A 93 34.65 -79.13 REMARK 500 19 LYS A 95 42.89 -108.95 REMARK 500 19 HIS A 106 -65.45 -120.03 REMARK 500 REMARK 500 THIS ENTRY HAS 53 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SYR103B RELATED DB: TARGETDB DBREF 2KHQ A 2 102 UNP Q49VW8 Q49VW8_STAS1 59 159 SEQADV 2KHQ MET A 1 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ LEU A 103 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ GLU A 104 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ HIS A 105 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ HIS A 106 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ HIS A 107 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ HIS A 108 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ HIS A 109 UNP Q49VW8 EXPRESSION TAG SEQADV 2KHQ HIS A 110 UNP Q49VW8 EXPRESSION TAG SEQRES 1 A 110 MET ILE THR PHE ALA ASP TYR PHE TYR GLN TRP TYR GLU SEQRES 2 A 110 VAL ASN LYS LEU PRO HIS VAL SER GLU SER THR LYS ARG SEQRES 3 A 110 HIS TYR GLU SER ALA TYR LYS HIS ILE LYS ASP HIS PHE SEQRES 4 A 110 ARG HIS LYS LEU LEU LYS ASP ILE LYS ARG THR GLU TYR SEQRES 5 A 110 GLN LYS PHE LEU ASN GLU TYR GLY LEU THR HIS SER TYR SEQRES 6 A 110 GLU THR ILE ARG LYS LEU ASN SER TYR ILE ARG ASN ALA SEQRES 7 A 110 PHE ASP ASP ALA ILE HIS GLU GLY TYR VAL ILE LYS ASN SEQRES 8 A 110 PRO THR TYR LYS ALA GLU LEU HIS ALA SER VAL LEU GLU SEQRES 9 A 110 HIS HIS HIS HIS HIS HIS HELIX 1 1 THR A 3 LYS A 16 1 14 HELIX 2 2 LEU A 17 VAL A 20 5 4 HELIX 3 3 SER A 21 PHE A 39 1 19 HELIX 4 4 LEU A 43 ILE A 47 5 5 HELIX 5 5 LYS A 48 HIS A 63 1 16 HELIX 6 6 SER A 64 GLU A 85 1 22 HELIX 7 7 ASN A 91 ALA A 96 5 6 HELIX 8 8 ALA A 100 GLU A 104 5 5 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