PDB Short entry for 2DA2 HEADER TRANSCRIPTION 13-DEC-05 2DA2 TITLE SOLUTION STRUCTURE OF THE SECOND HOMEOBOX DOMAIN OF AT-BINDING TITLE 2 TRANSCRIPTION FACTOR 1 (ATBF1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-FETOPROTEIN ENHANCER BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: THE SECOND HOMEOBOX DOMAIN; COMPND 5 SYNONYM: AT MOTIF-BINDING FACTOR, AT-BINDING TRANSCRIPTION FACTOR 1, COMPND 6 ATBF1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ATBF1; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050620-20; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS HOMEOBOX DOMAIN, THREE HELICES WITH THE DNA BINDING HELIX-TURN-HELIX KEYWDS 2 MOTIF, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.OHNISHI,T.KIGAWA,N.TOCHIO,S.KOSHIBA,M.INOUE,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DA2 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DA2 1 VERSN REVDAT 1 13-JUN-06 2DA2 0 JRNL AUTH S.OHNISHI,T.KIGAWA,N.TOCHIO,S.KOSHIBA,M.INOUE,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE SECOND HOMEOBOX DOMAIN OF JRNL TITL 2 AT-BINDING TRANSCRIPTION FACTOR 1 (ATBF1) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DA2 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1000025173. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.1MM PROTEIN U-15N,13C; 20MM D REMARK 210 -TRIS-HCL(PH7.0); 100MM NACL; REMARK 210 1MM D-DTT; 0.02% NAN3; 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20030801, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.932, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION,STRUCTURES WITH REMARK 210 THE LOWEST ENERGY,STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 VIOLATIONS 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: 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 9 43.53 34.43 REMARK 500 1 PRO A 67 1.71 -69.79 REMARK 500 2 SER A 6 169.63 -48.38 REMARK 500 2 SER A 65 143.47 -175.01 REMARK 500 2 PRO A 67 93.41 -69.76 REMARK 500 2 SER A 69 109.31 -44.51 REMARK 500 3 SER A 6 172.48 -56.58 REMARK 500 3 SER A 10 116.17 -165.34 REMARK 500 3 ARG A 63 129.58 -34.48 REMARK 500 3 SER A 69 134.32 -35.45 REMARK 500 4 SER A 9 42.48 39.73 REMARK 500 4 THR A 12 87.68 -69.73 REMARK 500 4 PRO A 67 89.81 -69.80 REMARK 500 4 SER A 69 115.24 -162.27 REMARK 500 5 SER A 2 46.24 -80.50 REMARK 500 5 SER A 5 42.27 39.97 REMARK 500 5 LYS A 64 158.98 -39.14 REMARK 500 5 SER A 65 45.22 -79.03 REMARK 500 5 PRO A 67 2.56 -69.70 REMARK 500 6 ARG A 63 126.26 -34.70 REMARK 500 6 SER A 65 -60.83 -103.25 REMARK 500 7 SER A 5 172.49 -46.07 REMARK 500 7 SER A 9 112.47 -171.53 REMARK 500 7 PRO A 67 2.33 -69.78 REMARK 500 7 SER A 69 123.90 -173.35 REMARK 500 8 SER A 10 129.84 -38.82 REMARK 500 8 PRO A 67 2.75 -69.70 REMARK 500 8 SER A 68 92.36 -50.03 REMARK 500 9 SER A 6 42.16 -95.29 REMARK 500 9 SER A 9 44.51 35.36 REMARK 500 10 LYS A 64 90.61 -68.19 REMARK 500 11 SER A 5 -60.78 -133.86 REMARK 500 11 SER A 6 42.17 39.07 REMARK 500 11 SER A 10 42.50 39.30 REMARK 500 11 PRO A 67 87.23 -69.71 REMARK 500 12 SER A 3 42.28 -97.51 REMARK 500 12 ARG A 8 91.19 -56.41 REMARK 500 12 THR A 12 41.76 -81.24 REMARK 500 12 ARG A 63 123.08 -34.52 REMARK 500 13 ARG A 63 -177.55 -57.49 REMARK 500 13 PRO A 67 2.78 -69.76 REMARK 500 13 SER A 68 82.19 -59.63 REMARK 500 14 ARG A 13 52.73 71.62 REMARK 500 14 LYS A 64 93.67 -59.23 REMARK 500 15 SER A 6 82.25 -65.13 REMARK 500 15 ARG A 63 119.38 -36.25 REMARK 500 15 SER A 68 41.23 -108.39 REMARK 500 16 SER A 2 127.06 -35.27 REMARK 500 17 SER A 5 42.22 -105.93 REMARK 500 18 PRO A 67 2.76 -69.81 REMARK 500 REMARK 500 THIS ENTRY HAS 52 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK003000131.3 RELATED DB: TARGETDB DBREF 2DA2 A 8 64 UNP Q15911 ATBF1_HUMAN 2243 2299 SEQADV 2DA2 GLY A 1 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 2 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 3 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 GLY A 4 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 5 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 6 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 GLY A 7 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 65 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 GLY A 66 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 PRO A 67 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 68 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 SER A 69 UNP Q15911 CLONING ARTIFACT SEQADV 2DA2 GLY A 70 UNP Q15911 CLONING ARTIFACT SEQRES 1 A 70 GLY SER SER GLY SER SER GLY ARG SER SER ARG THR ARG SEQRES 2 A 70 PHE THR ASP TYR GLN LEU ARG VAL LEU GLN ASP PHE PHE SEQRES 3 A 70 ASP ALA ASN ALA TYR PRO LYS ASP ASP GLU PHE GLU GLN SEQRES 4 A 70 LEU SER ASN LEU LEU ASN LEU PRO THR ARG VAL ILE VAL SEQRES 5 A 70 VAL TRP PHE GLN ASN ALA ARG GLN LYS ALA ARG LYS SER SEQRES 6 A 70 GLY PRO SER SER GLY HELIX 1 1 THR A 15 ASN A 29 1 15 HELIX 2 2 LYS A 33 LEU A 44 1 12 HELIX 3 3 PRO A 47 ARG A 63 1 17 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