PDB Short entry for 1P7A HEADER DNA BINDING PROTEIN 30-APR-03 1P7A TITLE SOLUTION STRUCTURE OF THE THIRD ZINC FINGER FROM BKLF COMPND MOL_ID: 1; COMPND 2 MOLECULE: KRUPPEL-LIKE FACTOR 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 9-37; COMPND 5 SYNONYM: BF3, BKLF; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: BKLF; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS CLASSICAL ZINC FINGER, KRUPPEL-LIKE, TRANSCRIPTION FACTOR, DNA KEYWDS 2 BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR R.J.Y.SIMPSON,E.D.CRAM,R.CZOLIJ,J.M.MATTHEWS,M.CROSSLEY,J.P.MACKAY REVDAT 3 28-DEC-16 1P7A 1 TITLE VERSN REVDAT 2 24-FEB-09 1P7A 1 VERSN REVDAT 1 30-DEC-03 1P7A 0 JRNL AUTH R.J.SIMPSON,E.D.CRAM,R.CZOLIJ,J.M.MATTHEWS,M.CROSSLEY, JRNL AUTH 2 J.P.MACKAY JRNL TITL CCHX ZINC FINGER DERIVATIVES RETAIN THE ABILITY TO BIND JRNL TITL 2 ZN(II) AND MEDIATE PROTEIN-DNA INTERACTIONS. JRNL REF J.BIOL.CHEM. V. 278 28011 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12736264 JRNL DOI 10.1074/JBC.M211146200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 1.1.2 REMARK 3 AUTHORS : LINGE ET AL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE CALCULATIONS WERE PERFORMED REMARK 3 USING THE PACKAGE ARIA 1.1 (AMBIGUOUS RESTRAINTS IN ITERATIVE REMARK 3 ASSIGNMENT)> FINAL STRUCTURES ARE BASED ON 719 UNAMBIGUOUS NOE- REMARK 3 DERIVED DISTANCE CONSRAINTS, 6 SETS OF AMBIGUOUS NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS AND 28 ADDITIONAL DIHEDRAL ANGLE RESTRAINTS. REMARK 4 REMARK 4 1P7A COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-MAY-03. REMARK 100 THE RCSB ID CODE IS RCSB019096. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 280; 280 REMARK 210 PH : 5.5; 5.5 REMARK 210 IONIC STRENGTH : NULL; NULL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 3MM BF3; 4.5MM TCEP; 4.5MM REMARK 210 ZNSO4; 1MM BF3 U-15N; 1.5MM TCEP; REMARK 210 1.5MM ZNSO4 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; DQF-COSY; REMARK 210 HNHA REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.5, DYANA 1.5, XEASY REMARK 210 1.3.13, ARIA 1.1.2 REMARK 210 METHOD USED : SIMULATED ANNEALING MOLECULAR REMARK 210 DYNAMICS TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 35 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES 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: 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 ARG A 4 54.02 -151.09 REMARK 500 1 SER A 6 10.95 -149.10 REMARK 500 1 LYS A 10 146.46 59.24 REMARK 500 1 ASP A 18 49.60 79.93 REMARK 500 1 ARG A 19 -154.83 -83.78 REMARK 500 1 MET A 35 -70.75 -81.00 REMARK 500 1 LEU A 36 53.36 -140.74 REMARK 500 2 SER A 2 -33.79 -143.70 REMARK 500 2 ARG A 4 -105.24 56.83 REMARK 500 2 LYS A 10 147.42 55.43 REMARK 500 2 ASP A 18 43.58 81.10 REMARK 500 2 ARG A 19 -158.38 -81.01 REMARK 500 2 SER A 20 125.67 -170.09 REMARK 500 2 LEU A 36 54.82 -109.65 REMARK 500 3 LYS A 10 148.45 56.89 REMARK 500 3 ASP A 18 39.18 77.89 REMARK 500 3 ARG A 19 -160.58 -78.49 REMARK 500 4 ARG A 4 52.28 -144.73 REMARK 500 4 LYS A 10 147.16 60.20 REMARK 500 4 ASP A 18 52.21 77.62 REMARK 500 4 ARG A 19 -146.52 -85.96 REMARK 500 5 THR A 3 -141.86 57.41 REMARK 500 5 LYS A 10 147.34 63.16 REMARK 500 5 ASP A 18 48.38 77.94 REMARK 500 5 ARG A 19 -155.62 -78.17 REMARK 500 6 SER A 2 -112.43 49.92 REMARK 500 6 LYS A 10 149.55 64.02 REMARK 500 7 SER A 2 -152.60 59.80 REMARK 500 7 THR A 7 74.61 -114.37 REMARK 500 7 LYS A 10 147.35 62.53 REMARK 500 7 ASP A 18 48.65 78.56 REMARK 500 8 THR A 3 -159.47 -129.32 REMARK 500 8 LYS A 10 147.52 63.05 REMARK 500 8 ASP A 18 18.85 83.76 REMARK 500 9 THR A 3 97.01 80.24 REMARK 500 9 SER A 6 -127.86 -93.48 REMARK 500 9 LYS A 10 147.43 69.18 REMARK 500 9 ASP A 18 50.99 70.28 REMARK 500 9 ARG A 19 -155.11 -85.40 REMARK 500 9 LEU A 36 53.27 -108.19 REMARK 500 10 THR A 3 138.91 -39.83 REMARK 500 10 ARG A 4 44.04 -143.28 REMARK 500 10 LYS A 10 146.06 67.61 REMARK 500 10 ASP A 18 34.03 81.32 REMARK 500 10 LEU A 36 52.42 -143.98 REMARK 500 11 LYS A 10 147.13 71.40 REMARK 500 11 ASP A 18 49.12 75.47 REMARK 500 11 ARG A 19 -148.02 -84.59 REMARK 500 12 LYS A 10 148.13 69.03 REMARK 500 12 ASP A 18 24.43 84.23 REMARK 500 REMARK 500 THIS ENTRY HAS 78 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 1 ZN A 38 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 30 NE2 REMARK 620 2 HIS A 34 NE2 102.5 REMARK 620 3 CYS A 14 SG 110.7 109.4 REMARK 620 4 CYS A 17 SG 112.1 110.5 111.3 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 38 DBREF 1P7A A 7 37 UNP Q60980 KLF3_MOUSE 314 344 SEQADV 1P7A GLY A 1 UNP Q60980 CLONING ARTIFACT SEQADV 1P7A SER A 2 UNP Q60980 CLONING ARTIFACT SEQADV 1P7A THR A 3 UNP Q60980 CLONING ARTIFACT SEQADV 1P7A ARG A 4 UNP Q60980 CLONING ARTIFACT SEQADV 1P7A GLY A 5 UNP Q60980 CLONING ARTIFACT SEQADV 1P7A SER A 6 UNP Q60980 CLONING ARTIFACT SEQRES 1 A 37 GLY SER THR ARG GLY SER THR GLY ILE LYS PRO PHE GLN SEQRES 2 A 37 CYS PRO ASP CYS ASP ARG SER PHE SER ARG SER ASP HIS SEQRES 3 A 37 LEU ALA LEU HIS ARG LYS ARG HIS MET LEU VAL HET ZN A 38 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 ARG A 23 LYS A 32 1 10 HELIX 2 2 ARG A 33 MET A 35 5 3 LINK ZN ZN A 38 NE2 HIS A 30 1555 1555 1.99 LINK ZN ZN A 38 NE2 HIS A 34 1555 1555 1.97 LINK ZN ZN A 38 SG CYS A 14 1555 1555 2.33 LINK ZN ZN A 38 SG CYS A 17 1555 1555 2.32 SITE 1 AC1 4 CYS A 14 CYS A 17 HIS A 30 HIS A 34 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