HEADER HYDROLASE 10-APR-09 2KHS TITLE SOLUTION STRUCTURE OF SNASE121:SNASE(111-143) COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: THERMONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 83-203; COMPND 5 SYNONYM: TNASE, MICROCOCCAL NUCLEASE, STAPHYLOCOCCAL NUCLEASE, COMPND 6 NUCLEASE B, NUCLEASE A; COMPND 7 EC: 3.1.31.1; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: NUCLEASE; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: UNP RESIDUES 190-222; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: NUC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PET-3D; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 10 ORGANISM_TAXID: 1280; SOURCE 11 GENE: NUC; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 EXPRESSION_SYSTEM_VECTOR: PET3D-HR52 KEYWDS HYDROLASE, CALCIUM, ENDONUCLEASE, MEMBRANE, METAL-BINDING, NUCLEASE, KEYWDS 2 SECRETED, ZYMOGEN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.GENG,Y.FENG,T.XIE,L.SHAN,J.WANG REVDAT 4 15-MAY-24 2KHS 1 REMARK REVDAT 3 14-JUN-23 2KHS 1 REMARK REVDAT 2 26-FEB-20 2KHS 1 REMARK SEQADV REVDAT 1 20-OCT-09 2KHS 0 JRNL AUTH Y.GENG,Y.FENG,T.XIE,L.SHAN,J.WANG JRNL TITL THE NATIVE-LIKE INTERACTIONS BETWEEN SNASE121 AND JRNL TITL 2 SNASE(111-143) FRAGMENTS INDUCE THE RECOVERY OF THEIR JRNL TITL 3 NATIVE-LIKE STRUCTURES AND THE ABILITY TO DEGRADE DNA. JRNL REF BIOCHEMISTRY V. 48 8692 2009 JRNL REFN ISSN 0006-2960 JRNL PMID 19658434 JRNL DOI 10.1021/BI901099S REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR, CNS 1.2 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), REMARK 3 BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-KUNSTLEVE,JIANG,KUSZEWSKI, REMARK 3 NILGES, PANNU,READ,RICE,SIMONSON,WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KHS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000101137. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : 0.15 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-13C; U-15N] PROTEIN-1, REMARK 210 1.0 MM PROTEIN-2, 50 MM SODIUM REMARK 210 ACETATE-3, 100 MM POTASSIUM REMARK 210 CHLORIDE-4, 90% H2O/10% D2O; 1.0 REMARK 210 MM PROTEIN-1, 1.0 MM [U-13C; U- REMARK 210 15N] PROTEIN-2, 50 MM SODIUM REMARK 210 ACETATE-7, 100 MM POTASSIUM REMARK 210 CHLORIDE-8, 90% H2O/10% D2O; 1 REMARK 210 MM [U-13C] PROTEIN-1, 1 MM [U- REMARK 210 15N] PROTEIN-2, 50 MM SODIUM REMARK 210 ACETATE-11, 100 MM POTASSIUM REMARK 210 CHLORIDE-12, 90% H2O/10% D2O; 1 REMARK 210 MM [U-15N] PROTEIN-1, 1 MM [U- REMARK 210 13C] PROTEIN-2, 50 MM SODIUM REMARK 210 ACETATE-15, 100 MM POTASSIUM REMARK 210 CHLORIDE-16, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 HNCO; 3D HN(CA)CO; 3D H(CCO)NH; REMARK 210 3D C(CO)NH; 3D 1H-15N TOCSY; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY; REMARK 210 4D 13C,1H-HMQC-NOESY-15N,1H-HSQC; REMARK 210 3D W1-FILTER-NOESY-13C, 1H-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX, CNS 1.2 REMARK 210 METHOD USED : MOLECULAR DYNAMICS, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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: 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: 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 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 HZ3 LYS A 116 OE1 GLU B 135 1.59 REMARK 500 HZ1 LYS B 149 O ASP B 156 1.60 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 THR A 2 -58.67 71.48 REMARK 500 1 ASP A 21 -57.46 -174.90 REMARK 500 1 THR A 41 -60.36 -122.52 REMARK 500 1 HIS A 46 104.20 -170.63 REMARK 500 1 PRO A 47 98.39 -57.71 REMARK 500 1 VAL A 51 43.68 -83.89 REMARK 500 1 ASP A 95 26.53 46.96 REMARK 500 1 ASN A 118 -61.15 -165.22 REMARK 500 1 ASN A 119 -90.42 -137.60 REMARK 500 1 SER B 123 -13.62 66.85 REMARK 500 1 HIS B 134 -14.20 85.93 REMARK 500 1 ASN B 151 -92.85 54.16 REMARK 500 2 THR A 2 109.02 70.96 REMARK 500 2 LYS A 16 142.30 -174.24 REMARK 500 2 ILE A 18 -64.80 -90.15 REMARK 500 2 ASP A 21 -34.06 177.71 REMARK 500 2 TYR A 54 23.80 -149.48 REMARK 500 2 TYR A 115 65.37 -165.27 REMARK 500 2 ASN A 118 -85.49 65.33 REMARK 500 2 THR A 120 -65.65 76.16 REMARK 500 2 PRO B 130 -74.90 -94.32 REMARK 500 2 ASN B 131 47.63 -88.73 REMARK 500 2 ASN B 151 -97.11 46.26 REMARK 500 3 LYS A 6 -73.37 -136.70 REMARK 500 3 ILE A 18 -64.45 -105.89 REMARK 500 3 ASP A 19 -152.71 -122.71 REMARK 500 3 ASP A 21 -56.12 -179.73 REMARK 500 3 PRO A 42 67.22 -68.96 REMARK 500 3 THR A 44 -42.57 74.58 REMARK 500 3 HIS A 46 97.99 73.41 REMARK 500 3 LYS A 48 -42.34 72.29 REMARK 500 3 LYS A 116 146.09 69.97 REMARK 500 3 TYR B 128 36.01 -82.02 REMARK 500 3 LYS B 129 130.38 71.40 REMARK 500 3 PRO B 130 -151.91 -76.84 REMARK 500 3 ASN B 132 10.24 -142.73 REMARK 500 3 ASN B 151 -89.97 47.44 REMARK 500 4 THR A 4 87.18 49.01 REMARK 500 4 LEU A 7 -105.08 -107.63 REMARK 500 4 ASP A 19 -161.62 -113.25 REMARK 500 4 ASP A 21 -62.19 -143.78 REMARK 500 4 LEU A 38 8.48 85.99 REMARK 500 4 HIS A 46 -77.65 87.84 REMARK 500 4 LYS A 116 121.99 69.45 REMARK 500 4 ASN A 118 -65.30 -102.75 REMARK 500 4 ASN A 119 99.17 -164.18 REMARK 500 4 ALA B 125 -100.65 54.78 REMARK 500 4 TYR B 126 99.81 -170.26 REMARK 500 4 ASN B 131 41.97 -89.15 REMARK 500 4 ASN B 151 -69.84 53.92 REMARK 500 REMARK 500 THIS ENTRY HAS 228 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 35 0.10 SIDE CHAIN REMARK 500 7 ARG A 81 0.07 SIDE CHAIN REMARK 500 9 ARG A 87 0.12 SIDE CHAIN REMARK 500 13 ARG A 35 0.08 SIDE CHAIN REMARK 500 15 ARG A 35 0.08 SIDE CHAIN REMARK 500 16 ARG A 105 0.08 SIDE CHAIN REMARK 500 19 ARG A 81 0.09 SIDE CHAIN REMARK 500 20 ARG A 87 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 15357 RELATED DB: BMRB DBREF 2KHS A 1 121 UNP P00644 NUC_STAAU 83 203 DBREF 2KHS B 124 156 UNP Q1WCB7 Q1WCB7_STAAU 190 222 SEQADV 2KHS GLY B 122 UNP Q1WCB7 EXPRESSION TAG SEQADV 2KHS SER B 123 UNP Q1WCB7 EXPRESSION TAG SEQRES 1 A 121 ALA THR SER THR LYS LYS LEU HIS LYS GLU PRO ALA THR SEQRES 2 A 121 LEU ILE LYS ALA ILE ASP GLY ASP THR VAL LYS LEU MET SEQRES 3 A 121 TYR LYS GLY GLN PRO MET THR PHE ARG LEU LEU LEU VAL SEQRES 4 A 121 ASP THR PRO GLU THR LYS HIS PRO LYS LYS GLY VAL GLU SEQRES 5 A 121 LYS TYR GLY PRO GLU ALA SER ALA PHE THR LYS LYS MET SEQRES 6 A 121 VAL GLU ASN ALA LYS LYS ILE GLU VAL GLU PHE ASP LYS SEQRES 7 A 121 GLY GLN ARG THR ASP LYS TYR GLY ARG GLY LEU ALA TYR SEQRES 8 A 121 ILE TYR ALA ASP GLY LYS MET VAL ASN GLU ALA LEU VAL SEQRES 9 A 121 ARG GLN GLY LEU ALA LYS VAL ALA TYR VAL TYR LYS PRO SEQRES 10 A 121 ASN ASN THR HIS SEQRES 1 B 35 GLY SER VAL ALA TYR VAL TYR LYS PRO ASN ASN THR HIS SEQRES 2 B 35 GLU GLN LEU LEU ARG LYS SER GLU ALA GLN ALA LYS LYS SEQRES 3 B 35 GLU LYS LEU ASN ILE TRP SER GLU ASP HELIX 1 1 TYR A 54 ASN A 68 1 15 HELIX 2 2 VAL A 99 GLN A 106 1 8 HELIX 3 3 HIS B 134 LYS B 149 1 16 HELIX 4 4 LEU B 150 GLU B 155 5 6 SHEET 1 A 6 LYS A 9 PRO A 11 0 SHEET 2 A 6 ILE A 72 GLU A 75 -1 O VAL A 74 N GLU A 10 SHEET 3 A 6 ARG A 87 ALA A 94 -1 O TYR A 93 N GLU A 73 SHEET 4 A 6 GLN A 30 LEU A 36 1 N THR A 33 O GLY A 88 SHEET 5 A 6 VAL A 23 TYR A 27 -1 N LEU A 25 O MET A 32 SHEET 6 A 6 THR A 13 ALA A 17 -1 N LYS A 16 O LYS A 24 SHEET 1 B 4 LYS A 9 PRO A 11 0 SHEET 2 B 4 ILE A 72 GLU A 75 -1 O VAL A 74 N GLU A 10 SHEET 3 B 4 ARG A 87 ALA A 94 -1 O TYR A 93 N GLU A 73 SHEET 4 B 4 LYS A 97 MET A 98 -1 O LYS A 97 N ALA A 94 SHEET 1 C 2 VAL A 39 ASP A 40 0 SHEET 2 C 2 LYS A 110 VAL A 111 -1 O LYS A 110 N ASP A 40 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