HEADER OXIDOREDUCTASE 20-NOV-07 2JXJ TITLE NMR STRUCTURE OF THE ARID DOMAIN FROM THE HISTONE H3K4 DEMETHYLASE TITLE 2 RBP2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE DEMETHYLASE JARID1A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ARID DOMAIN; COMPND 5 SYNONYM: JUMONJI/ARID DOMAIN- CONTAINING PROTEIN 1A, RETINOBLASTOMA- COMPND 6 BINDING PROTEIN 2, RBBP-2; COMPND 7 EC: 1.14.11.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 GENE: JARID1A, RBBP2, RBP2; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PGEX6P2 KEYWDS ARID DOMAIN, CHROMATIN REGULATOR, DEVELOPMENTAL PROTEIN, DIOXYGENASE, KEYWDS 2 IRON, METAL-BINDING, NUCLEUS, OXIDOREDUCTASE, PHOSPHOPROTEIN, KEYWDS 3 POLYMORPHISM, TRANSCRIPTION, TRANSCRIPTION REGULATION, ZINC, ZINC- KEYWDS 4 FINGER EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.TU,C.YUAN,M.TSAI REVDAT 4 29-MAY-24 2JXJ 1 REMARK REVDAT 3 16-MAR-22 2JXJ 1 REMARK SEQADV REVDAT 2 24-FEB-09 2JXJ 1 VERSN REVDAT 1 30-SEP-08 2JXJ 0 JRNL AUTH S.TU,Y.C.TENG,C.YUAN,Y.T.WU,M.Y.CHAN,A.N.CHENG,P.H.LIN, JRNL AUTH 2 L.J.JUAN,M.D.TSAI JRNL TITL THE ARID DOMAIN OF THE H3K4 DEMETHYLASE RBP2 BINDS TO A DNA JRNL TITL 2 CCGCCC MOTIF JRNL REF NAT.STRUCT.MOL.BIOL. V. 15 419 2008 JRNL REFN ISSN 1545-9993 JRNL PMID 18270511 JRNL DOI 10.1038/NSMB.1400 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CNS 1.1 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), BRUNGER, ADAMS, CLORE, REMARK 3 GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JXJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-DEC-07. REMARK 100 THE DEPOSITION ID IS D_1000100415. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : ~200 MM SALT REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4 MM [U-100% 13C; U-100% 15N] REMARK 210 PROTEIN, 50 MM SODIUM PHOSPHATE, REMARK 210 100 MM SODIUM CHLORIDE, 90% H2O/ REMARK 210 10% D2O; 0.4 MM [U-100% 13C; U- REMARK 210 100% 15N] PROTEIN, 50 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCACB; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 3D HNHA; 3D HNHB; REMARK 210 3D CBCA(CO)NH; 3D 1H-15N TOCSY; REMARK 210 3D HNCO; 3D HCCH-TOCSY; 3D HCCH- REMARK 210 COSY; 3D HN(CO)CA REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS, NMRVIEW, NMRPIPE REMARK 210 METHOD USED : 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 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 THR A 104 109.78 64.41 REMARK 500 1 LEU A 117 -58.42 -139.68 REMARK 500 1 PHE A 130 -53.39 -177.82 REMARK 500 1 PRO A 150 89.21 -53.35 REMARK 500 1 LYS A 152 -72.06 -61.55 REMARK 500 1 ARG A 164 -36.84 -171.46 REMARK 500 1 SER A 174 30.86 -97.84 REMARK 500 2 PRO A 108 179.49 -53.40 REMARK 500 2 LEU A 117 -67.35 -138.42 REMARK 500 2 PHE A 130 -58.30 -178.09 REMARK 500 2 PRO A 150 92.17 -69.28 REMARK 500 2 THR A 154 -7.88 78.50 REMARK 500 2 ARG A 164 -41.49 -166.20 REMARK 500 2 SER A 174 30.32 -99.37 REMARK 500 3 PRO A 81 -168.03 -70.85 REMARK 500 3 LEU A 82 102.84 59.78 REMARK 500 3 SER A 84 38.00 -141.98 REMARK 500 3 THR A 104 169.18 56.09 REMARK 500 3 ASP A 116 175.23 -59.05 REMARK 500 3 LEU A 117 -55.45 -142.85 REMARK 500 3 PHE A 130 -56.04 -178.57 REMARK 500 3 GLU A 163 47.85 -93.13 REMARK 500 3 ARG A 164 -43.68 -132.83 REMARK 500 3 ILE A 165 -50.15 -129.21 REMARK 500 3 SER A 174 40.81 176.97 REMARK 500 4 LEU A 82 93.88 -56.91 REMARK 500 4 THR A 104 107.20 64.85 REMARK 500 4 ASP A 116 175.47 -59.39 REMARK 500 4 LEU A 117 -61.32 -126.18 REMARK 500 4 PHE A 130 -51.31 -177.24 REMARK 500 4 ARG A 164 -39.19 -155.56 REMARK 500 4 ILE A 165 -61.63 -127.92 REMARK 500 5 SER A 84 37.29 -172.62 REMARK 500 5 LEU A 117 -55.72 -120.92 REMARK 500 5 PHE A 130 -57.23 -179.67 REMARK 500 5 LEU A 146 -71.51 -72.33 REMARK 500 5 THR A 154 -63.53 69.47 REMARK 500 5 ARG A 164 -43.90 -146.03 REMARK 500 5 ILE A 165 -41.43 -132.16 REMARK 500 6 PRO A 81 -167.96 -70.37 REMARK 500 6 THR A 104 147.58 64.42 REMARK 500 6 PHE A 130 -57.87 -179.02 REMARK 500 6 PRO A 150 173.55 -54.60 REMARK 500 6 ARG A 164 -49.62 -160.69 REMARK 500 6 LEU A 166 -64.56 -92.47 REMARK 500 6 SER A 174 31.16 -97.92 REMARK 500 7 THR A 104 128.51 65.38 REMARK 500 7 PHE A 130 -56.92 -179.48 REMARK 500 7 THR A 154 -53.66 -158.67 REMARK 500 7 GLU A 163 44.79 -97.07 REMARK 500 REMARK 500 THIS ENTRY HAS 142 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2JXJ A 85 175 UNP P29375 JAD1A_HUMAN 85 175 SEQADV 2JXJ GLY A 80 UNP P29375 EXPRESSION TAG SEQADV 2JXJ PRO A 81 UNP P29375 EXPRESSION TAG SEQADV 2JXJ LEU A 82 UNP P29375 EXPRESSION TAG SEQADV 2JXJ GLY A 83 UNP P29375 EXPRESSION TAG SEQADV 2JXJ SER A 84 UNP P29375 EXPRESSION TAG SEQRES 1 A 96 GLY PRO LEU GLY SER ARG VAL ARG LEU ASP PHE LEU ASP SEQRES 2 A 96 GLN LEU ALA LYS PHE TRP GLU LEU GLN GLY SER THR LEU SEQRES 3 A 96 LYS ILE PRO VAL VAL GLU ARG LYS ILE LEU ASP LEU TYR SEQRES 4 A 96 ALA LEU SER LYS ILE VAL ALA SER LYS GLY GLY PHE GLU SEQRES 5 A 96 MET VAL THR LYS GLU LYS LYS TRP SER LYS VAL GLY SER SEQRES 6 A 96 ARG LEU GLY TYR LEU PRO GLY LYS GLY THR GLY SER LEU SEQRES 7 A 96 LEU LYS SER HIS TYR GLU ARG ILE LEU TYR PRO TYR GLU SEQRES 8 A 96 LEU PHE GLN SER GLY HELIX 1 1 SER A 84 GLY A 102 1 19 HELIX 2 2 LEU A 117 GLY A 129 1 13 HELIX 3 3 PHE A 130 LYS A 137 1 8 HELIX 4 4 LYS A 138 GLY A 147 1 10 HELIX 5 5 GLY A 153 GLU A 163 1 11 HELIX 6 6 LEU A 166 SER A 174 1 9 SHEET 1 A 2 VAL A 109 VAL A 110 0 SHEET 2 A 2 LYS A 113 ILE A 114 -1 O LYS A 113 N VAL A 110 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