HEADER METAL BINDING PROTEIN 21-SEP-06 2JM3 TITLE SOLUTION STRUCTURE OF THE THAP DOMAIN FROM C. ELEGANS C-TERMINAL TITLE 2 BINDING PROTEIN (CTBP) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL BINDING PROTEIN THAP DOMAIN, RESIDUES 1-89; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 3 ORGANISM_TAXID: 6239; SOURCE 4 GENE: F49E10.5; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS PROTEIN, ZINC FINGER, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.K.LIEW,M.CROSSLEY,J.P.MACKAY,H.R.NICHOLAS REVDAT 3 09-MAR-22 2JM3 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2JM3 1 VERSN REVDAT 1 06-FEB-07 2JM3 0 JRNL AUTH C.K.LIEW,M.CROSSLEY,J.P.MACKAY,H.R.NICHOLAS JRNL TITL SOLUTION STRUCTURE OF THE THAP DOMAIN FROM CAENORHABDITIS JRNL TITL 2 ELEGANS C-TERMINAL BINDING PROTEIN (CTBP). JRNL REF J.MOL.BIOL. V. 366 382 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17174978 JRNL DOI 10.1016/J.JMB.2006.11.058 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SPARKY, CNS REMARK 3 AUTHORS : T GODDARD (SPARKY), 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: ARIA/CNS WAS USED FOR STRUCTURE REMARK 3 CALCULATION AND REFINEMENT REMARK 4 REMARK 4 2JM3 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000100003. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 6.5; 6.9 REMARK 210 IONIC STRENGTH : 0.12; 0.12 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM CTBP THAP DOMAIN, 20 MM REMARK 210 SODIUM PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 1 MM DTT, 0.1 MM DSS, REMARK 210 93% H2O, 7% D2O; 0.45 MM [U-99% REMARK 210 15N] CTBP THAP DOMAIN, 20 MM REMARK 210 SODIUM PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 1 MM DTT, 0.1 MM DSS, REMARK 210 93% H2O, 7% D2O; 0.6 MM [U-98% REMARK 210 13C, U-98% 15N] CTBP THAP DOMAIN, REMARK 210 20 MM SODIUM PHOSPHATE, 100 MM REMARK 210 SODIUM CHLORIDE, 1 MM DTT, 0.1 REMARK 210 MM DSS, 93% H2O, 7% D2O; 0.6 MM REMARK 210 [U-98% 13C, U-98% 15N] CTBP THAP REMARK 210 DOMAIN, 20 MM SODIUM PHOSPHATE, REMARK 210 100 MM SODIUM CHLORIDE, 1 MM DTT, REMARK 210 0.1 MM DSS, 99% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D HNCA; 3D HNCACB; 3D REMARK 210 HN(CO)CA; 3D CBCA(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D HCCH-COSY; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY; 2D NOESY; REMARK 210 C(CO)NH-TOCSY; H(CCO)NH-TOCSY; REMARK 210 3D HNHA; 3D HN(CA)CO REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, ARIA, TALOS REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING A COMBINATION OF NOE REMARK 210 AND COUPLING CONSTANT DATA. 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 PRO A 4 101.93 -50.90 REMARK 500 1 ASP A 23 -7.94 70.56 REMARK 500 1 VAL A 53 -46.89 83.07 REMARK 500 1 SER A 54 -73.40 -57.67 REMARK 500 1 LYS A 69 -95.03 -113.15 REMARK 500 1 GLU A 70 15.62 -148.14 REMARK 500 1 VAL A 80 -50.68 -132.12 REMARK 500 1 GLN A 83 107.83 -41.46 REMARK 500 1 PRO A 90 96.49 -64.24 REMARK 500 2 PRO A 4 108.88 -55.91 REMARK 500 2 PHE A 14 -63.71 -92.79 REMARK 500 2 ASP A 23 -25.97 70.29 REMARK 500 2 ARG A 47 -164.02 -128.74 REMARK 500 2 THR A 51 -39.23 -130.16 REMARK 500 2 VAL A 53 -131.07 -128.82 REMARK 500 2 LYS A 69 -70.02 -101.34 REMARK 500 2 GLU A 70 115.93 -172.68 REMARK 500 2 ASP A 77 107.41 -175.61 REMARK 500 3 PRO A 4 43.97 -71.09 REMARK 500 3 ASN A 11 85.33 -152.09 REMARK 500 3 ASP A 23 -41.40 71.04 REMARK 500 3 ASN A 24 25.35 83.03 REMARK 500 3 SER A 54 -113.81 -138.66 REMARK 500 3 GLU A 70 -38.92 -164.10 REMARK 500 4 PRO A 4 95.92 -59.62 REMARK 500 4 ILE A 30 108.03 70.13 REMARK 500 4 VAL A 53 -69.83 75.57 REMARK 500 4 GLU A 70 -54.29 166.48 REMARK 500 4 ASP A 77 94.00 -167.57 REMARK 500 4 GLN A 83 113.28 -28.12 REMARK 500 5 SER A 2 -52.22 -124.59 REMARK 500 5 PRO A 4 -110.88 -77.68 REMARK 500 5 THR A 5 101.24 68.00 REMARK 500 5 PRO A 10 84.29 -68.22 REMARK 500 5 ASN A 11 94.29 79.83 REMARK 500 5 TYR A 18 -164.42 -102.90 REMARK 500 5 ARG A 19 70.53 -114.35 REMARK 500 5 LEU A 21 88.97 -69.64 REMARK 500 5 GLU A 22 67.34 -60.64 REMARK 500 5 ASP A 23 -53.21 74.86 REMARK 500 5 VAL A 53 -70.30 111.61 REMARK 500 5 SER A 54 -76.56 -95.75 REMARK 500 5 LYS A 69 -98.73 -105.61 REMARK 500 5 ASP A 77 106.40 -166.97 REMARK 500 5 GLN A 83 113.59 -29.05 REMARK 500 6 PRO A 4 96.40 -60.78 REMARK 500 6 ASN A 11 89.49 -151.79 REMARK 500 6 ARG A 19 -108.57 -168.58 REMARK 500 6 ASP A 23 -30.94 70.82 REMARK 500 6 ASN A 24 36.30 79.52 REMARK 500 REMARK 500 THIS ENTRY HAS 181 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 92 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 7 SG REMARK 620 2 CYS A 12 SG 108.7 REMARK 620 3 CYS A 59 SG 107.3 109.5 REMARK 620 4 HIS A 62 NE2 111.0 109.5 110.8 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 92 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 15002 RELATED DB: BMRB DBREF 2JM3 A 3 91 UNP Q20595 Q20595_CAEEL 1 89 SEQADV 2JM3 GLY A 1 UNP Q20595 CLONING ARTIFACT SEQADV 2JM3 SER A 2 UNP Q20595 CLONING ARTIFACT SEQRES 1 A 91 GLY SER MET PRO THR THR CYS GLY PHE PRO ASN CYS LYS SEQRES 2 A 91 PHE ARG SER ARG TYR ARG GLY LEU GLU ASP ASN ARG HIS SEQRES 3 A 91 PHE TYR ARG ILE PRO LYS ARG PRO LEU ILE LEU ARG GLN SEQRES 4 A 91 ARG TRP LEU THR ALA ILE GLY ARG THR GLU GLU THR VAL SEQRES 5 A 91 VAL SER GLN LEU ARG ILE CYS SER ALA HIS PHE GLU GLY SEQRES 6 A 91 GLY GLU LYS LYS GLU GLY ASP ILE PRO VAL PRO ASP PRO SEQRES 7 A 91 THR VAL ASP LYS GLN ILE LYS ILE GLU LEU PRO PRO LYS HET ZN A 92 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 PRO A 34 GLY A 46 1 13 HELIX 2 2 THR A 48 VAL A 52 5 5 HELIX 3 3 CYS A 59 PHE A 63 5 5 LINK SG CYS A 7 ZN ZN A 92 1555 1555 2.27 LINK SG CYS A 12 ZN ZN A 92 1555 1555 2.27 LINK SG CYS A 59 ZN ZN A 92 1555 1555 2.30 LINK NE2 HIS A 62 ZN ZN A 92 1555 1555 2.02 CISPEP 1 ARG A 33 PRO A 34 1 -4.05 CISPEP 2 ARG A 33 PRO A 34 2 -4.89 CISPEP 3 ARG A 33 PRO A 34 3 -1.65 CISPEP 4 ARG A 33 PRO A 34 4 -2.11 CISPEP 5 ARG A 33 PRO A 34 5 0.22 CISPEP 6 ARG A 33 PRO A 34 6 -1.30 CISPEP 7 ARG A 33 PRO A 34 7 -1.38 CISPEP 8 ARG A 33 PRO A 34 8 -0.23 CISPEP 9 ARG A 33 PRO A 34 9 -0.59 CISPEP 10 ARG A 33 PRO A 34 10 -1.37 CISPEP 11 ARG A 33 PRO A 34 11 -2.36 CISPEP 12 ARG A 33 PRO A 34 12 -3.91 CISPEP 13 ARG A 33 PRO A 34 13 -2.84 CISPEP 14 ARG A 33 PRO A 34 14 -1.84 CISPEP 15 ARG A 33 PRO A 34 15 -1.29 CISPEP 16 ARG A 33 PRO A 34 16 -2.26 CISPEP 17 ARG A 33 PRO A 34 17 -0.01 CISPEP 18 ARG A 33 PRO A 34 18 0.20 CISPEP 19 ARG A 33 PRO A 34 19 -0.56 CISPEP 20 ARG A 33 PRO A 34 20 -4.97 SITE 1 AC1 5 CYS A 7 CYS A 12 ARG A 15 CYS A 59 SITE 2 AC1 5 HIS A 62 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