PDB Short entry for 2YUL HEADER TRANSCRIPTION 06-APR-07 2YUL TITLE SOLUTION STRUCTURE OF THE HMG BOX OF HUMAN TRANSCRIPTION FACTOR SOX-17 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION FACTOR SOX-17; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HMG (HIGH MOBILITY GROUP) BOX; COMPND 5 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: SOX17; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P051003-07; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS TRANSCRIPTION, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON KEYWDS 2 PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 3 GENOMICS/PROTEOMICS INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.ABE,N.TOCHIO,K.MIYAMOTO,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 16-MAR-22 2YUL 1 REMARK SEQADV REVDAT 2 24-FEB-09 2YUL 1 VERSN REVDAT 1 08-APR-08 2YUL 0 JRNL AUTH H.ABE,N.TOCHIO,K.MIYAMOTO,S.KOSHIBA,M.INOUE,T.KIGAWA, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE HMG BOX OF HUMAN TRANSCRIPTION JRNL TITL 2 FACTOR SOX-17 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 1.3, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (TOPSPIN), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2YUL COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000027153. 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; 20MM D-TRIS-HCL; REMARK 210 100MM NACL; 1MM D-DTT; 0.02% REMARK 210 NAN3; 90% H2O, 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 20031121, NMNMRVIEW REMARK 210 5.0.4, KUJIRA 0.9747, CYANA REMARK 210 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, TARGET REMARK 210 FUNCTION 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 VAL A 17 -70.68 -50.13 REMARK 500 1 LYS A 20 -33.69 -34.73 REMARK 500 1 ALA A 36 -38.87 -34.29 REMARK 500 1 LYS A 40 -33.94 -35.15 REMARK 500 1 LEU A 49 159.30 -49.39 REMARK 500 1 PRO A 73 4.00 -69.75 REMARK 500 1 ASN A 74 49.81 -75.81 REMARK 500 1 TYR A 75 -52.51 -127.33 REMARK 500 1 LYS A 76 119.01 -174.93 REMARK 500 1 PRO A 79 -173.88 -69.76 REMARK 500 2 PRO A 11 -170.37 -69.82 REMARK 500 2 ASN A 35 -71.40 -33.51 REMARK 500 2 LYS A 40 -31.39 -36.74 REMARK 500 2 PRO A 73 79.88 -69.78 REMARK 500 2 ASN A 74 -34.31 -135.02 REMARK 500 2 TYR A 75 161.56 -42.06 REMARK 500 2 LYS A 76 177.73 -50.94 REMARK 500 3 SER A 5 118.06 -169.38 REMARK 500 3 LYS A 20 -35.38 -36.02 REMARK 500 3 ASN A 35 -70.31 -34.55 REMARK 500 3 ALA A 36 -38.41 -34.27 REMARK 500 3 LYS A 40 -31.11 -38.44 REMARK 500 3 LEU A 49 155.95 -42.64 REMARK 500 3 LEU A 64 -63.32 -90.54 REMARK 500 3 TYR A 75 156.72 -38.96 REMARK 500 3 LYS A 76 103.90 -49.11 REMARK 500 4 ALA A 36 -38.15 -38.31 REMARK 500 4 LYS A 40 -30.94 -36.96 REMARK 500 4 PRO A 73 0.47 -69.77 REMARK 500 4 TYR A 75 156.75 -47.65 REMARK 500 5 LYS A 20 -35.13 -34.33 REMARK 500 5 ASN A 35 -70.23 -33.63 REMARK 500 5 ALA A 36 -39.87 -34.21 REMARK 500 5 LYS A 40 -32.05 -35.37 REMARK 500 5 PRO A 73 3.09 -69.68 REMARK 500 5 SER A 77 131.27 -174.95 REMARK 500 5 SER A 80 92.50 -40.43 REMARK 500 6 PRO A 11 -177.21 -69.71 REMARK 500 6 LYS A 20 -34.64 -36.44 REMARK 500 6 ASN A 35 -70.38 -33.83 REMARK 500 6 ALA A 36 -39.80 -34.75 REMARK 500 6 LYS A 40 -30.86 -35.75 REMARK 500 6 TYR A 75 170.72 -44.93 REMARK 500 6 PRO A 79 86.12 -69.80 REMARK 500 7 SER A 2 82.26 -67.23 REMARK 500 7 SER A 3 41.85 34.63 REMARK 500 7 LYS A 20 -32.84 -39.61 REMARK 500 7 ALA A 36 -38.61 -35.37 REMARK 500 7 LYS A 40 -31.54 -37.12 REMARK 500 7 LYS A 76 104.96 -172.91 REMARK 500 REMARK 500 THIS ENTRY HAS 132 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002002627.1 RELATED DB: TARGETDB DBREF 2YUL A 8 76 UNP Q9H6I2 SOX17_HUMAN 68 136 SEQADV 2YUL GLY A 1 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 2 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 3 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL GLY A 4 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 5 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 6 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL GLY A 7 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 77 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL GLY A 78 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL PRO A 79 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 80 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL SER A 81 UNP Q9H6I2 EXPRESSION TAG SEQADV 2YUL GLY A 82 UNP Q9H6I2 EXPRESSION TAG SEQRES 1 A 82 GLY SER SER GLY SER SER GLY ILE ARG ARG PRO MET ASN SEQRES 2 A 82 ALA PHE MET VAL TRP ALA LYS ASP GLU ARG LYS ARG LEU SEQRES 3 A 82 ALA GLN GLN ASN PRO ASP LEU HIS ASN ALA GLU LEU SER SEQRES 4 A 82 LYS MET LEU GLY LYS SER TRP LYS ALA LEU THR LEU ALA SEQRES 5 A 82 GLU LYS ARG PRO PHE VAL GLU GLU ALA GLU ARG LEU ARG SEQRES 6 A 82 VAL GLN HIS MET GLN ASP HIS PRO ASN TYR LYS SER GLY SEQRES 7 A 82 PRO SER SER GLY HELIX 1 1 ASN A 13 ASN A 30 1 18 HELIX 2 2 HIS A 34 LEU A 49 1 16 HELIX 3 3 THR A 50 ASP A 71 1 22 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