HEADER TRANSCRIPTION 02-NOV-09 2KQ9 TITLE SOLUTION STRUCTURE OF DNAK SUPPRESSOR PROTEIN FROM AGROBACTERIUM TITLE 2 TUMEFACIENS C58. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET TITLE 3 ATT12/ONTARIO CENTER FOR STRUCTURAL PROTEOMICS TARGET ATC0888 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNAK SUPPRESSOR PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM TUMEFACIENS STR. C58; SOURCE 3 ORGANISM_TAXID: 176299; SOURCE 4 STRAIN: C58 / ATCC 33970; SOURCE 5 GENE: DSKA, ATU0905; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: P15TVLIC KEYWDS ZINC BINDING PROTEIN, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, ONTARIO KEYWDS 3 CENTRE FOR STRUCTURAL PROTEOMICS, OCSP, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.WU,A.YEE,C.FARES,A.LEMAK,A.SEMEST,G.T.MONTELIONE,C.ARROWSMITH, AUTHOR 2 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG),ONTARIO CENTRE FOR AUTHOR 3 STRUCTURAL PROTEOMICS (OCSP) REVDAT 5 14-JUN-23 2KQ9 1 REMARK REVDAT 4 13-OCT-21 2KQ9 1 REMARK SEQADV REVDAT 3 26-FEB-20 2KQ9 1 REMARK REVDAT 2 18-JAN-12 2KQ9 1 REMARK VERSN REVDAT 1 17-NOV-09 2KQ9 0 JRNL AUTH B.WU,A.YEE,C.FARES,A.LEMAK,A.SEMEST,G.T.MONTELIONE, JRNL AUTH 2 C.ARROWSMITH JRNL TITL SOLUTION STRUCTURE OF DNAK PROTEIN FROM AGROBACTERIUM JRNL TITL 2 TUMEFACIENS C58. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM JRNL TITL 3 TARGET ATT12/ONTARIO CENTER FOR STRUCTURAL PROTEOMICS TARGET JRNL TITL 4 ATC0888 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.LEMAK,A.GUTMANAS,S.CHITAYAT,M.KARRA,C.FARES,M.SUNNERHAGEN, REMARK 1 AUTH 2 C.H.ARROWSMITH REMARK 1 TITL A NOVEL STRATEGY FOR NMR RESONANCE ASSIGNMENT AND PROTEIN REMARK 1 TITL 2 STRUCTURE DETERMINATION. REMARK 1 REF J.BIOMOL.NMR V. 49 27 2011 REMARK 1 REFN ISSN 0925-2738 REMARK 1 PMID 21161328 REMARK 1 DOI 10.1007/S10858-010-9458-0 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.3, CNS REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KQ9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-NOV-09. REMARK 100 THE DEPOSITION ID IS D_1000101438. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 300 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 13C; U-100% 15N] REMARK 210 ATC0888, 10 MM [U-100% 2H] TRIS, REMARK 210 300 MM SODIUM CHLORIDE, 10 UM REMARK 210 ZINC SULPHATE, 10 MM [U-100% 2H] REMARK 210 DTT, 10 MM BENZAMIDINE, 1 X REMARK 210 INHIBITOR COCKTAIL, 90% H2O/10% REMARK 210 D2O; 0.5 MM [U-7% 13C; U-100% REMARK 210 15N] ATC0888, 10 MM [U-100% 2H] REMARK 210 TRIS, 300 MM SODIUM CHLORIDE, 10 REMARK 210 UM ZINC SULPHATE, 10 MM [U-100% REMARK 210 2H] DTT, 10 MM BENZAMIDINE, 1 X REMARK 210 INHIBITOR COCKTAIL, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D CBCA(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D HNCA; 3D C(CO)NH; REMARK 210 3D H(CCO)NH; 3D HCCH-TOCSY; 3D REMARK 210 CCH-TOCSY; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 3D 1H-13C NOESY REMARK 210 AROMATIC; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : MDDGUI 1.0, SPARKY 3.95, FAWN REMARK 210 1.0, CYANA 2.1, AUTOSTRUCTURE, REMARK 210 PSVS 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 : 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: 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: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 13 CYS A 105 CA - CB - SG ANGL. DEV. = 6.8 DEGREES 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 6 134.88 68.69 REMARK 500 1 MET A 7 93.86 64.98 REMARK 500 1 GLU A 36 147.92 65.04 REMARK 500 1 ARG A 38 -84.56 -132.89 REMARK 500 1 ASP A 41 -65.59 77.20 REMARK 500 1 ASP A 44 136.91 -174.77 REMARK 500 1 SER A 47 23.55 -147.19 REMARK 500 1 LEU A 55 117.75 57.17 REMARK 500 1 TYR A 101 48.91 -101.80 REMARK 500 2 ALA A 2 129.49 -172.59 REMARK 500 2 LYS A 5 -62.27 -124.43 REMARK 500 2 SER A 6 -61.23 -131.90 REMARK 500 2 HIS A 28 48.10 -89.13 REMARK 500 2 PHE A 34 85.07 -66.00 REMARK 500 2 PRO A 40 78.22 -67.17 REMARK 500 2 ARG A 49 161.25 73.87 REMARK 500 2 SER A 50 -112.25 -135.58 REMARK 500 2 LEU A 55 124.51 58.31 REMARK 500 2 TYR A 101 54.37 -105.34 REMARK 500 3 ALA A 2 98.41 62.07 REMARK 500 3 HIS A 28 33.40 -91.35 REMARK 500 3 ASP A 33 30.53 -84.43 REMARK 500 3 PHE A 34 95.91 60.44 REMARK 500 3 GLU A 36 108.50 60.92 REMARK 500 3 ARG A 45 126.92 69.61 REMARK 500 3 SER A 47 149.67 78.21 REMARK 500 3 GLU A 48 -131.20 -158.47 REMARK 500 3 ARG A 49 80.48 66.29 REMARK 500 3 ASP A 56 48.39 -98.34 REMARK 500 4 ALA A 2 86.78 57.43 REMARK 500 4 LYS A 5 -71.65 -156.49 REMARK 500 4 SER A 6 62.67 -100.98 REMARK 500 4 MET A 7 96.16 -167.68 REMARK 500 4 PHE A 34 77.08 -105.66 REMARK 500 4 ARG A 38 58.28 -168.15 REMARK 500 4 ASP A 41 100.76 -56.82 REMARK 500 4 ASP A 42 -69.75 -148.58 REMARK 500 4 ALA A 46 -177.73 62.40 REMARK 500 4 SER A 47 35.74 -158.47 REMARK 500 4 ARG A 49 89.62 -66.52 REMARK 500 4 ASN A 51 82.43 59.28 REMARK 500 4 GLU A 53 177.71 59.79 REMARK 500 4 LEU A 55 109.77 53.63 REMARK 500 4 TYR A 101 36.29 -95.74 REMARK 500 5 ALA A 2 -71.97 68.01 REMARK 500 5 SER A 6 14.26 -142.64 REMARK 500 5 PHE A 34 81.36 -66.54 REMARK 500 5 GLU A 36 81.76 57.28 REMARK 500 5 PRO A 37 93.46 -56.20 REMARK 500 5 SER A 47 89.62 -66.49 REMARK 500 REMARK 500 THIS ENTRY HAS 206 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 113 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 84 SG REMARK 620 2 CYS A 87 SG 107.9 REMARK 620 3 CYS A 105 SG 108.5 111.8 REMARK 620 4 CYS A 108 SG 107.4 110.2 110.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 113 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: ATT12 RELATED DB: TARGETDB REMARK 900 RELATED ID: 16594 RELATED DB: BMRB DBREF 2KQ9 A 1 112 PDB 2KQ9 2KQ9 1 112 SEQADV 2KQ9 LEU A 1 PDB 2KQ9 MET 1 ENGINEERED MUTATION SEQRES 1 A 112 LEU ALA GLY GLY LYS SER MET ASN VAL GLU SER TYR GLU SEQRES 2 A 112 LYS ILE LEU ARG ASP ARG GLN ARG GLU LEU TYR ARG ARG SEQRES 3 A 112 LEU HIS LYS ILE GLU ALA ASP PHE GLU GLU PRO ARG ASN SEQRES 4 A 112 PRO ASP ASP GLU ASP ARG ALA SER GLU ARG SER ASN ASP SEQRES 5 A 112 GLU VAL LEU ASP GLU LEU GLY GLN VAL GLY GLN ASP GLU SEQRES 6 A 112 LEU ARG ALA ILE ASP ALA ALA LEU ALA ARG ILE ALA SER SEQRES 7 A 112 GLY THR PHE GLY THR CYS VAL LYS CYS GLY LYS ARG ILE SEQRES 8 A 112 SER GLU ASP ARG LEU LYS ALA VAL PRO TYR THR PRO PHE SEQRES 9 A 112 CYS GLN GLU CYS ALA ALA ALA LEU HET ZN A 113 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 ASN A 8 HIS A 28 1 21 HELIX 2 2 GLY A 59 GLY A 79 1 21 HELIX 3 3 SER A 92 VAL A 99 1 8 HELIX 4 4 CYS A 105 LEU A 112 1 8 LINK SG CYS A 84 ZN ZN A 113 1555 1555 2.27 LINK SG CYS A 87 ZN ZN A 113 1555 1555 2.29 LINK SG CYS A 105 ZN ZN A 113 1555 1555 2.31 LINK SG CYS A 108 ZN ZN A 113 1555 1555 2.30 SITE 1 AC1 4 CYS A 84 CYS A 87 CYS A 105 CYS A 108 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