HEADER GENE REGULATION 05-NOV-19 6L87 TITLE SOLUTION STRUCTURE OF THE TANDEM PWWP-ARID DOMAINS OF HUMAN RBBP1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AT-RICH INTERACTIVE DOMAIN-CONTAINING PROTEIN 4A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ARID DOMAIN-CONTAINING PROTEIN 4A,RETINOBLASTOMA-BINDING COMPND 5 PROTEIN 1,RBBP-1; 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: ARID4A, RBBP1, RBP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA BINDING, PWWP, ARID, GENE REGULATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.B.GONG,S.PERRETT,Y.G.FENG REVDAT 4 15-MAY-24 6L87 1 REMARK REVDAT 3 14-JUN-23 6L87 1 REMARK REVDAT 2 06-OCT-21 6L87 1 JRNL REVDAT 1 06-JAN-21 6L87 0 JRNL AUTH W.GONG,Q.LIANG,Y.TONG,S.PERRETT,Y.FENG JRNL TITL STRUCTURAL INSIGHT INTO CHROMATIN RECOGNITION BY MULTIPLE JRNL TITL 2 DOMAINS OF THE TUMOR SUPPRESSOR RBBP1. JRNL REF J.MOL.BIOL. 67224 2021 JRNL REFN ESSN 1089-8638 JRNL PMID 34506790 JRNL DOI 10.1016/J.JMB.2021.167224 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER A. T. ET.AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6L87 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-NOV-19. REMARK 100 THE DEPOSITION ID IS D_1300014360. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 302 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 720 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 10 MM SODIUM PHOSPHATE, 700 MM REMARK 210 SODIUM CHLORIDE, 1 MM EDTA, 1 MM REMARK 210 DTT, 90% H2O/10% D2O; 10 MM REMARK 210 SODIUM PHOSPHATE, 700 MM SODIUM REMARK 210 CHLORIDE, 1 MM EDTA, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; 3D HNCO; 3D HN(CA)CO; 3D REMARK 210 HN(CO)CA; 3D HCCH-TOCSY; 3D CCH- REMARK 210 TOCSY; 3D C(CO)NH; 2D 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 950 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE II; DDII REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, 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 LOWEST REMARK 210 ENERGY 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HZ2 LYS A 110 OD1 ASP A 115 1.59 REMARK 500 OE2 GLU A 71 HZ1 LYS A 75 1.59 REMARK 500 HZ1 LYS A 110 OD2 ASP A 120 1.59 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 2 99.16 77.08 REMARK 500 1 LEU A 4 1.53 -63.06 REMARK 500 1 ALA A 14 -56.69 63.53 REMARK 500 1 ASP A 48 -88.74 -124.52 REMARK 500 1 ARG A 88 1.73 -152.66 REMARK 500 1 LEU A 102 -66.89 -109.82 REMARK 500 1 GLU A 103 -61.20 -168.86 REMARK 500 1 SER A 104 -32.57 -137.51 REMARK 500 1 SER A 105 -0.87 74.43 REMARK 500 1 GLU A 113 -54.78 76.48 REMARK 500 1 TYR A 145 1.61 55.55 REMARK 500 1 LEU A 184 -81.53 59.86 REMARK 500 1 ASN A 211 71.45 61.58 REMARK 500 1 PHE A 214 114.62 -170.56 REMARK 500 1 HIS A 219 78.16 -113.43 REMARK 500 1 HIS A 228 107.92 -50.27 REMARK 500 2 ALA A 14 -55.74 66.16 REMARK 500 2 PRO A 28 6.88 -68.98 REMARK 500 2 ASP A 48 -87.23 -106.21 REMARK 500 2 GLU A 103 -36.71 86.72 REMARK 500 2 LYS A 112 -50.13 -124.81 REMARK 500 2 TYR A 145 8.31 54.25 REMARK 500 2 ASN A 185 -100.34 55.49 REMARK 500 2 THR A 216 -88.90 -52.79 REMARK 500 2 VAL A 217 74.54 -106.32 REMARK 500 2 HIS A 218 84.52 -162.26 REMARK 500 2 HIS A 220 -23.24 -158.03 REMARK 500 2 GLU A 221 -55.08 -135.59 REMARK 500 2 LEU A 222 165.94 64.73 REMARK 500 2 HIS A 226 -46.31 -158.69 REMARK 500 2 HIS A 228 108.06 -56.26 REMARK 500 3 LYS A 7 -166.84 -123.09 REMARK 500 3 ALA A 14 -57.60 70.39 REMARK 500 3 THR A 15 -28.45 -157.85 REMARK 500 3 ASP A 48 -87.80 -136.64 REMARK 500 3 PRO A 76 108.07 -49.83 REMARK 500 3 ARG A 88 -46.22 76.52 REMARK 500 3 LEU A 102 -67.02 -108.80 REMARK 500 3 GLU A 103 -66.99 175.71 REMARK 500 3 LEU A 114 -71.95 -55.03 REMARK 500 3 ASP A 115 96.62 -167.44 REMARK 500 3 LEU A 184 -73.64 64.84 REMARK 500 3 PHE A 214 85.48 54.23 REMARK 500 3 ARG A 215 -88.33 -96.39 REMARK 500 3 VAL A 217 -98.94 50.16 REMARK 500 3 HIS A 218 38.77 176.83 REMARK 500 3 HIS A 228 -70.03 -75.89 REMARK 500 4 LEU A 4 10.64 -65.65 REMARK 500 4 SER A 13 -162.84 -75.96 REMARK 500 4 THR A 15 -33.34 -143.95 REMARK 500 REMARK 500 THIS ENTRY HAS 334 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 17 0.07 SIDE CHAIN REMARK 500 1 ARG A 133 0.08 SIDE CHAIN REMARK 500 5 ARG A 119 0.10 SIDE CHAIN REMARK 500 6 ARG A 119 0.09 SIDE CHAIN REMARK 500 6 ARG A 197 0.09 SIDE CHAIN REMARK 500 10 ARG A 56 0.08 SIDE CHAIN REMARK 500 11 ARG A 197 0.08 SIDE CHAIN REMARK 500 13 ARG A 44 0.08 SIDE CHAIN REMARK 500 13 ARG A 88 0.12 SIDE CHAIN REMARK 500 14 ARG A 119 0.08 SIDE CHAIN REMARK 500 15 ARG A 17 0.08 SIDE CHAIN REMARK 500 17 ARG A 44 0.10 SIDE CHAIN REMARK 500 17 ARG A 197 0.08 SIDE CHAIN REMARK 500 18 ARG A 119 0.13 SIDE CHAIN REMARK 500 19 ARG A 44 0.07 SIDE CHAIN REMARK 500 19 ARG A 119 0.08 SIDE CHAIN REMARK 500 20 ARG A 88 0.10 SIDE CHAIN REMARK 500 20 ARG A 119 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27677 RELATED DB: BMRB REMARK 999 REMARK 999 SEQUENCE REMARK 999 REFER TO BIOMOLECULAR NMR ASSIGNMENTS, 13, 177-181 DBREF 6L87 A 1 221 UNP P29374 ARI4A_HUMAN 171 414 SEQADV 6L87 LYS A 108 UNP P29374 ASP 278 SEE SEQUENCE DETAILS SEQADV 6L87 LYS A 110 UNP P29374 GLU 280 SEE SEQUENCE DETAILS SEQADV 6L87 A UNP P29374 ASP 281 DELETION SEQADV 6L87 A UNP P29374 GLY 282 DELETION SEQADV 6L87 A UNP P29374 PRO 283 DELETION SEQADV 6L87 A UNP P29374 ALA 284 DELETION SEQADV 6L87 A UNP P29374 GLU 285 DELETION SEQADV 6L87 A UNP P29374 GLU 286 DELETION SEQADV 6L87 A UNP P29374 ASN 287 DELETION SEQADV 6L87 A UNP P29374 ASP 288 DELETION SEQADV 6L87 A UNP P29374 GLU 289 DELETION SEQADV 6L87 A UNP P29374 GLU 290 DELETION SEQADV 6L87 A UNP P29374 LYS 291 DELETION SEQADV 6L87 A UNP P29374 GLU 292 DELETION SEQADV 6L87 A UNP P29374 LYS 293 DELETION SEQADV 6L87 A UNP P29374 GLU 294 DELETION SEQADV 6L87 A UNP P29374 ALA 295 DELETION SEQADV 6L87 A UNP P29374 LYS 296 DELETION SEQADV 6L87 A UNP P29374 LYS 297 DELETION SEQADV 6L87 A UNP P29374 THR 298 DELETION SEQADV 6L87 A UNP P29374 GLU 299 DELETION SEQADV 6L87 A UNP P29374 GLU 300 DELETION SEQADV 6L87 A UNP P29374 GLU 301 DELETION SEQADV 6L87 A UNP P29374 VAL 302 DELETION SEQADV 6L87 A UNP P29374 PRO 303 DELETION SEQADV 6L87 LYS A 112 UNP P29374 GLU 305 SEE SEQUENCE DETAILS SEQADV 6L87 LEU A 222 UNP P29374 EXPRESSION TAG SEQADV 6L87 GLU A 223 UNP P29374 EXPRESSION TAG SEQADV 6L87 HIS A 224 UNP P29374 EXPRESSION TAG SEQADV 6L87 HIS A 225 UNP P29374 EXPRESSION TAG SEQADV 6L87 HIS A 226 UNP P29374 EXPRESSION TAG SEQADV 6L87 HIS A 227 UNP P29374 EXPRESSION TAG SEQADV 6L87 HIS A 228 UNP P29374 EXPRESSION TAG SEQADV 6L87 HIS A 229 UNP P29374 EXPRESSION TAG SEQRES 1 A 229 ASN ASP GLU LEU LEU GLY LYS VAL VAL SER VAL VAL SER SEQRES 2 A 229 ALA THR GLU ARG THR GLU TRP TYR PRO ALA LEU VAL ILE SEQRES 3 A 229 SER PRO SER CYS ASN ASP ASP ILE THR VAL LYS LYS ASP SEQRES 4 A 229 GLN CYS LEU VAL ARG SER PHE ILE ASP SER LYS PHE TYR SEQRES 5 A 229 SER ILE ALA ARG LYS ASP ILE LYS GLU VAL ASP ILE LEU SEQRES 6 A 229 ASN LEU PRO GLU SER GLU LEU SER THR LYS PRO GLY LEU SEQRES 7 A 229 GLN LYS ALA SER ILE PHE LEU LYS THR ARG VAL VAL PRO SEQRES 8 A 229 ASP ASN TRP LYS MET ASP ILE SER GLU ILE LEU GLU SER SEQRES 9 A 229 SER SER SER LYS ASP LYS GLU LYS GLU LEU ASP PRO GLU SEQRES 10 A 229 GLU ARG ASP ASN PHE LEU GLN GLN LEU TYR LYS PHE MET SEQRES 11 A 229 GLU ASP ARG GLY THR PRO ILE ASN LYS PRO PRO VAL LEU SEQRES 12 A 229 GLY TYR LYS ASP LEU ASN LEU PHE LYS LEU PHE ARG LEU SEQRES 13 A 229 VAL TYR HIS GLN GLY GLY CYS ASP ASN ILE ASP SER GLY SEQRES 14 A 229 ALA VAL TRP LYS GLN ILE TYR MET ASP LEU GLY ILE PRO SEQRES 15 A 229 ILE LEU ASN SER ALA ALA SER TYR ASN VAL LYS THR ALA SEQRES 16 A 229 TYR ARG LYS TYR LEU TYR GLY PHE GLU GLU TYR CYS ARG SEQRES 17 A 229 SER ALA ASN ILE GLN PHE ARG THR VAL HIS HIS HIS GLU SEQRES 18 A 229 LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 AA1 ASP A 63 LEU A 67 5 5 HELIX 2 AA2 PRO A 68 LYS A 75 1 8 HELIX 3 AA3 LYS A 75 THR A 87 1 13 HELIX 4 AA4 ASP A 97 LEU A 102 1 6 HELIX 5 AA5 GLU A 117 ASP A 132 1 16 HELIX 6 AA6 ASN A 149 GLN A 160 1 12 HELIX 7 AA7 GLY A 161 ILE A 166 5 6 HELIX 8 AA8 SER A 168 GLY A 180 1 13 HELIX 9 AA9 ASN A 185 LEU A 200 1 16 HELIX 10 AB1 LEU A 200 ALA A 210 1 11 HELIX 11 AB2 ARG A 215 HIS A 219 5 5 SHEET 1 AA1 5 TYR A 52 ALA A 55 0 SHEET 2 AA1 5 GLN A 40 ARG A 44 -1 N CYS A 41 O ILE A 54 SHEET 3 AA1 5 GLU A 16 VAL A 25 -1 N LEU A 24 O ARG A 44 SHEET 4 AA1 5 VAL A 8 SER A 13 -1 N VAL A 11 O TYR A 21 SHEET 5 AA1 5 ILE A 59 GLU A 61 -1 O LYS A 60 N SER A 10 SHEET 1 AA2 2 VAL A 142 LEU A 143 0 SHEET 2 AA2 2 LYS A 146 ASP A 147 -1 O LYS A 146 N LEU A 143 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