10 20 30 40 50 60 70 80 2YQE - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA BINDING PROTEIN 30-MAR-07 2YQE
TITLE SOLUTION STRUCTURE OF THE ARID DOMAIN OF JARID1D PROTEIN
COMPND MOL_ID: 1; COMPND 2 MOLECULE: JUMONJI/ARID DOMAIN-CONTAINING PROTEIN 1D; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ARID DOMAIN; COMPND 5 SYNONYM: PROTEIN SMCY, HISTOCOMPATIBILITY Y ANTIGEN, H-Y; COMPND 6 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: SMCY, HY, HYA, JARID1D, KIAA0234; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P060731-15
KEYWDS ARID DOMAIN, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT KEYWDS 2 ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 3 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, DNA KEYWDS 4 BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR W.TANABE,S.SUZUKI,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA, AUTHOR 2 M.SHIROUZU,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 3 INITIATIVE (RSGI)
REVDAT 2 24-FEB-09 2YQE 1 VERSN REVDAT 1 01-APR-08 2YQE 0
JRNL AUTH W.TANABE,S.SUZUKI,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA, JRNL AUTH 2 M.SHIROUZU,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE ARID DOMAIN OF JARID1D JRNL TITL 2 PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1 REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2YQE COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-JUN-07. REMARK 100 THE RCSB ID CODE IS RCSB027002.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 20MM D-TRIS-HCL(PH7.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; REMARK 210 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE REMARK 210 20060702, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9820, CYANA 2.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING 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, REMARK 210 STRUCTURES WITH THE LOWEST REMARK 210 ENERGY, TARGET 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 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 76 135.40 -170.53 REMARK 500 1 THR A 79 38.58 -94.84 REMARK 500 1 ARG A 80 -74.14 -79.29 REMARK 500 1 LYS A 82 -27.87 -39.86 REMARK 500 1 GLU A 94 -31.96 -39.31 REMARK 500 1 ARG A 107 41.68 36.94 REMARK 500 1 ARG A 132 41.28 35.36 REMARK 500 1 TRP A 134 -37.44 -38.28 REMARK 500 1 ASN A 148 72.93 -66.53 REMARK 500 1 HIS A 156 -39.22 -36.96 REMARK 500 1 GLN A 168 41.27 -84.69 REMARK 500 2 THR A 79 95.87 -49.42 REMARK 500 2 TYR A 85 -32.89 -39.53 REMARK 500 2 GLU A 94 -36.91 -39.17 REMARK 500 2 ARG A 132 50.87 39.07 REMARK 500 2 LYS A 147 179.99 -59.85 REMARK 500 2 ASN A 148 42.22 -93.97 REMARK 500 3 ARG A 80 -63.42 -124.87 REMARK 500 3 LYS A 82 -31.92 -35.13 REMARK 500 3 SER A 99 173.26 -55.51 REMARK 500 3 ALA A 127 -70.46 -65.58 REMARK 500 3 ARG A 132 37.99 36.04 REMARK 500 3 PRO A 145 96.68 -69.77 REMARK 500 3 ASN A 148 75.99 -62.87 REMARK 500 3 TYR A 157 -70.27 -68.57 REMARK 500 4 GLN A 88 -71.03 -72.26 REMARK 500 4 SER A 98 110.27 -167.02 REMARK 500 4 SER A 99 163.28 -43.84 REMARK 500 4 ARG A 132 44.56 36.98 REMARK 500 4 ASN A 148 81.39 -66.68 REMARK 500 4 SER A 169 96.09 -60.12 REMARK 500 5 SER A 99 166.68 -49.88 REMARK 500 5 ARG A 132 35.92 34.39 REMARK 500 5 HIS A 142 35.82 71.91 REMARK 500 5 SER A 155 -71.93 -61.34 REMARK 500 5 HIS A 156 -34.94 -37.37 REMARK 500 5 GLN A 168 38.07 -96.03 REMARK 500 6 ARG A 80 -53.69 -123.94 REMARK 500 6 LYS A 82 -30.33 -36.93 REMARK 500 6 ARG A 132 52.23 34.31 REMARK 500 6 PRO A 145 94.80 -69.79 REMARK 500 6 LYS A 147 168.55 -49.56 REMARK 500 6 ASN A 148 43.80 -83.39 REMARK 500 6 GLN A 168 49.52 -75.65 REMARK 500 7 SER A 76 91.69 -56.71 REMARK 500 7 LYS A 82 -31.10 -35.90 REMARK 500 7 ARG A 132 43.43 34.46 REMARK 500 7 HIS A 142 48.88 71.42 REMARK 500 7 PRO A 145 95.27 -69.80 REMARK 500 7 ASN A 148 81.14 -63.76 REMARK 500 7 GLN A 168 46.28 -93.91 REMARK 500 8 SER A 76 105.31 -40.70 REMARK 500 8 ARG A 80 -64.79 -130.82 REMARK 500 8 LYS A 82 -27.83 -38.99 REMARK 500 8 GLN A 88 -70.58 -78.74 REMARK 500 8 ARG A 132 45.72 37.70 REMARK 500 8 PRO A 145 97.78 -69.72 REMARK 500 8 ASN A 148 82.68 -66.68 REMARK 500 8 HIS A 156 -36.16 -39.91 REMARK 500 8 GLN A 168 41.98 -93.52 REMARK 500 9 LYS A 82 -33.09 -37.22 REMARK 500 9 GLU A 94 -39.34 -37.68 REMARK 500 9 SER A 99 150.78 -38.02 REMARK 500 9 ALA A 127 -71.29 -53.75 REMARK 500 9 ARG A 132 44.90 35.45 REMARK 500 9 LYS A 147 171.00 -58.15 REMARK 500 9 ASN A 148 42.20 -87.20 REMARK 500 10 SER A 74 158.04 -45.34 REMARK 500 10 ARG A 80 -69.46 -131.48 REMARK 500 10 LYS A 82 -33.25 -36.12 REMARK 500 10 GLU A 94 -31.54 -36.96 REMARK 500 10 ARG A 132 29.36 41.91 REMARK 500 10 ASN A 148 43.36 -83.86 REMARK 500 10 ARG A 154 -39.97 -39.21 REMARK 500 10 SER A 155 -70.01 -67.56 REMARK 500 10 HIS A 156 -33.57 -37.17 REMARK 500 10 GLN A 168 73.26 -104.76 REMARK 500 11 THR A 79 41.69 -104.59 REMARK 500 11 GLU A 94 -32.53 -36.91 REMARK 500 11 ASP A 111 75.05 -103.41 REMARK 500 11 ALA A 127 -70.96 -63.15 REMARK 500 11 ARG A 132 51.92 35.47 REMARK 500 11 SER A 155 -71.15 -68.16 REMARK 500 11 HIS A 156 -37.91 -37.03 REMARK 500 11 GLN A 168 38.99 -88.29 REMARK 500 12 THR A 79 92.64 -60.83 REMARK 500 12 LYS A 82 -32.88 -35.24 REMARK 500 12 GLU A 94 -33.15 -34.82 REMARK 500 12 SER A 99 159.10 -41.46 REMARK 500 12 ARG A 132 48.20 35.21 REMARK 500 12 ASN A 148 82.55 -68.11 REMARK 500 12 GLN A 168 48.05 -92.55 REMARK 500 13 LYS A 82 -31.39 -36.34 REMARK 500 13 ARG A 107 39.13 37.09 REMARK 500 13 ALA A 127 -71.21 -72.06 REMARK 500 13 ARG A 132 35.58 34.24 REMARK 500 13 PRO A 145 94.51 -69.74 REMARK 500 13 ASN A 148 75.75 -69.88 REMARK 500 13 ARG A 154 -38.77 -39.93 REMARK 500 13 SER A 169 47.92 -84.13 REMARK 500 14 LYS A 82 -28.27 -37.47 REMARK 500 14 ALA A 127 -71.35 -62.09 REMARK 500 14 ARG A 132 54.60 36.11 REMARK 500 14 ASN A 148 75.43 -65.86 REMARK 500 14 GLN A 168 48.67 -75.70 REMARK 500 14 SER A 169 -60.30 -127.22 REMARK 500 15 SER A 77 104.57 -57.07 REMARK 500 15 ARG A 132 43.93 34.63 REMARK 500 15 GLN A 168 41.50 -91.02 REMARK 500 16 SER A 77 40.57 -94.49 REMARK 500 16 THR A 79 105.89 -43.50 REMARK 500 16 ARG A 80 -69.25 -127.19 REMARK 500 16 LYS A 82 -30.70 -39.03 REMARK 500 16 ARG A 132 46.74 34.45 REMARK 500 16 PRO A 145 89.18 -69.79 REMARK 500 16 LYS A 147 166.00 -45.38 REMARK 500 16 GLN A 168 38.72 -87.59 REMARK 500 17 ARG A 80 -57.52 -123.47 REMARK 500 17 GLU A 94 -37.97 -34.48 REMARK 500 17 SER A 99 158.69 -47.18 REMARK 500 17 ASP A 111 75.11 -69.05 REMARK 500 17 ALA A 127 -71.26 -67.75 REMARK 500 17 ARG A 132 40.25 33.48 REMARK 500 17 ASN A 148 76.52 -64.58 REMARK 500 17 GLN A 168 38.08 -98.52 REMARK 500 18 THR A 79 96.17 -62.57 REMARK 500 18 LYS A 82 -32.96 -36.87 REMARK 500 18 GLU A 106 53.21 39.80 REMARK 500 18 ARG A 132 50.76 35.53 REMARK 500 18 PRO A 145 99.99 -69.77 REMARK 500 18 ASN A 148 75.51 -65.00 REMARK 500 19 SER A 73 42.10 39.22 REMARK 500 19 ARG A 107 43.05 35.53 REMARK 500 19 ALA A 127 -71.36 -67.38 REMARK 500 19 ARG A 132 38.87 34.23 REMARK 500 19 TRP A 134 -37.22 -35.54 REMARK 500 19 PRO A 145 90.88 -69.75 REMARK 500 19 ASN A 148 81.33 -67.29 REMARK 500 20 THR A 79 41.12 -89.89 REMARK 500 20 GLU A 94 -25.78 -39.41 REMARK 500 20 ARG A 107 36.91 38.42 REMARK 500 20 GLN A 168 41.62 -96.76 REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002001234.3 RELATED DB: TARGETDB
DBREF 2YQE A 79 171 UNP Q9BY66 JAD1D_HUMAN 79 171
SEQADV 2YQE GLY A 72 UNP Q9BY66 EXPRESSION TAG SEQADV 2YQE SER A 73 UNP Q9BY66 EXPRESSION TAG SEQADV 2YQE SER A 74 UNP Q9BY66 EXPRESSION TAG SEQADV 2YQE GLY A 75 UNP Q9BY66 EXPRESSION TAG SEQADV 2YQE SER A 76 UNP Q9BY66 EXPRESSION TAG SEQADV 2YQE SER A 77 UNP Q9BY66 EXPRESSION TAG SEQADV 2YQE GLY A 78 UNP Q9BY66 EXPRESSION TAG
SEQRES 1 A 100 GLY SER SER GLY SER SER GLY THR ARG VAL LYS LEU ASN SEQRES 2 A 100 TYR LEU ASP GLN ILE ALA LYS PHE TRP GLU ILE GLN GLY SEQRES 3 A 100 SER SER LEU LYS ILE PRO ASN VAL GLU ARG LYS ILE LEU SEQRES 4 A 100 ASP LEU TYR SER LEU SER LYS ILE VAL ILE GLU GLU GLY SEQRES 5 A 100 GLY TYR GLU ALA ILE CYS LYS ASP ARG ARG TRP ALA ARG SEQRES 6 A 100 VAL ALA GLN ARG LEU HIS TYR PRO PRO GLY LYS ASN ILE SEQRES 7 A 100 GLY SER LEU LEU ARG SER HIS TYR GLU ARG ILE ILE TYR SEQRES 8 A 100 PRO TYR GLU MET PHE GLN SER GLY ALA
HELIX 1 1 ARG A 80 GLY A 97 1 18 HELIX 2 2 ASP A 111 GLY A 123 1 13 HELIX 3 3 GLY A 124 ASP A 131 1 8 HELIX 4 4 ARG A 133 LEU A 141 1 9 HELIX 5 5 ASN A 148 ILE A 160 1 13 HELIX 6 6 ILE A 160 GLN A 168 1 9
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