HEADER DNA BINDING PROTEIN 23-AUG-21 7PJ1 TITLE SOLUTION STRUCTURE OF ISOLATED DROSOPHILA HISTONE H2A-H2B HETERODIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE H2A; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HISTONE H2B; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 3 ORGANISM_COMMON: FRUIT FLY; SOURCE 4 ORGANISM_TAXID: 7227; SOURCE 5 GENE: HIS2A, H2A, HIS2A:CG31618, CG31618, HIS2A:CG33808, CG33808, SOURCE 6 HIS2A:CG33814, CG33814, HIS2A:CG33817, CG33817, HIS2A:CG33820, SOURCE 7 CG33820, HIS2A:CG33823, CG33823, HIS2A:CG33826, CG33826, SOURCE 8 HIS2A:CG33829, CG33829, HIS2A:CG33832, CG33832, HIS2A:CG33835, SOURCE 9 CG33835, HIS2A:CG33838, CG33838, HIS2A:CG33841, CG33841, SOURCE 10 HIS2A:CG33844, CG33844, HIS2A:CG33847, CG33847, HIS2A:CG33850, SOURCE 11 CG33850, HIS2A:CG33862, CG33862, HIS2A:CG33865, CG33865; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 MOL_ID: 2; SOURCE 15 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 16 ORGANISM_COMMON: FRUIT FLY; SOURCE 17 ORGANISM_TAXID: 7227; SOURCE 18 GENE: HIS2B, HIS2B:CG17949, CG17949, HIS2B:CG33868, CG33868, SOURCE 19 HIS2B:CG33870, CG33870, HIS2B:CG33872, CG33872, HIS2B:CG33874, SOURCE 20 CG33874, HIS2B:CG33876, CG33876, HIS2B:CG33878, CG33878, SOURCE 21 HIS2B:CG33880, CG33880, HIS2B:CG33882, CG33882, HIS2B:CG33884, SOURCE 22 CG33884, HIS2B:CG33886, CG33886, HIS2B:CG33888, CG33888, SOURCE 23 HIS2B:CG33890, CG33890, HIS2B:CG33892, CG33892, HIS2B:CG33894, SOURCE 24 CG33894, HIS2B:CG33896, CG33896, HIS2B:CG33898, CG33898, SOURCE 25 HIS2B:CG33900, CG33900, HIS2B:CG33902, CG33902, HIS2B:CG33904, SOURCE 26 CG33904, HIS2B:CG33906, CG33906, HIS2B:CG33908, CG33908, SOURCE 27 HIS2B:CG33910, CG33910; SOURCE 28 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 29 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HISTONE, H2A-H2B, DIMER, DNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.VAN INGEN,H.ZHANG REVDAT 1 08-DEC-21 7PJ1 0 JRNL AUTH H.ZHANG,J.EERLAND,V.HORN,R.SCHELLEVIS,H.VAN INGEN JRNL TITL MAPPING THE ELECTROSTATIC POTENTIAL OF THE NUCLEOSOME ACIDIC JRNL TITL 2 PATCH. JRNL REF SCI REP V. 11 23013 2021 JRNL REFN ESSN 2045-2322 JRNL PMID 34837025 JRNL DOI 10.1038/S41598-021-02436-3 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS, HADDOCK REMARK 3 AUTHORS : BRUNGER A. T. ET.AL. (CNS), BONVIN (HADDOCK) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7PJ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-AUG-21. REMARK 100 THE DEPOSITION ID IS D_1292116143. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 300 REMARK 210 PRESSURE : 1 BAR REMARK 210 SAMPLE CONTENTS : 0.5 MM HISTONE H2A, 0.5 MM [U REMARK 210 -15N; U-2H] HISTONE H2B, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 950 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ROSETTA, CYANA, NMRFAM-SPARKY REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 3000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 HH22 ARG B 30 HD21 ASN B 60 1.13 REMARK 500 HH11 ARG A 28 HB2 GLU B 32 1.23 REMARK 500 OE1 GLU B 110 HZ1 LYS B 122 1.59 REMARK 500 OE1 GLU B 73 HH11 ARG B 76 1.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 SER B 33 C - N - CA ANGL. DEV. = -22.1 DEGREES REMARK 500 2 SER A 97 CA - C - N ANGL. DEV. = -13.2 DEGREES REMARK 500 2 GLY A 98 C - N - CA ANGL. DEV. = 28.9 DEGREES REMARK 500 4 SER B 33 C - N - CA ANGL. DEV. = -15.2 DEGREES REMARK 500 9 SER B 33 C - N - CA ANGL. DEV. = 28.5 DEGREES REMARK 500 11 SER B 33 C - N - CA ANGL. DEV. = 17.1 DEGREES REMARK 500 14 SER B 33 C - N - CA ANGL. DEV. = -15.2 DEGREES REMARK 500 15 ARG B 28 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 15 SER B 33 C - N - CA ANGL. DEV. = -16.8 DEGREES REMARK 500 16 GLY A 21 N - CA - C ANGL. DEV. = -16.8 DEGREES REMARK 500 16 LEU A 22 C - N - CA ANGL. DEV. = -16.8 DEGREES REMARK 500 16 SER A 97 CA - C - N ANGL. DEV. = -13.7 DEGREES REMARK 500 16 GLY A 98 C - N - CA ANGL. DEV. = 28.6 DEGREES 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 LYS A 10 -67.70 -154.63 REMARK 500 1 LEU A 84 -73.49 -121.84 REMARK 500 1 THR A 100 -140.07 -158.52 REMARK 500 1 GLN A 103 -71.69 -101.73 REMARK 500 1 ASN A 109 -174.31 176.41 REMARK 500 1 GLN A 111 -164.98 -129.28 REMARK 500 1 LEU A 115 133.97 85.77 REMARK 500 1 LYS B 3 108.47 114.46 REMARK 500 1 LYS B 10 102.74 -47.45 REMARK 500 1 LYS B 11 -164.14 -164.99 REMARK 500 1 LYS B 14 -80.87 -102.31 REMARK 500 1 GLN B 16 101.82 -45.71 REMARK 500 1 LYS B 17 26.91 47.66 REMARK 500 1 LYS B 21 -14.90 64.53 REMARK 500 1 GLU B 32 -175.20 59.94 REMARK 500 2 SER A 97 -131.18 -79.98 REMARK 500 2 LYS B 25 108.40 -58.79 REMARK 500 2 SER B 120 37.06 -93.56 REMARK 500 3 PRO A 25 47.57 -75.98 REMARK 500 3 LEU A 96 58.94 -98.16 REMARK 500 3 LEU A 114 -150.91 -119.29 REMARK 500 3 LYS A 117 156.31 174.93 REMARK 500 4 ALA A 39 -163.06 -164.49 REMARK 500 4 LYS A 122 163.47 88.51 REMARK 500 4 LYS B 26 -169.95 -103.61 REMARK 500 4 GLU B 32 -110.17 -107.17 REMARK 500 4 SER B 33 134.25 -173.82 REMARK 500 4 HIS B 106 -54.33 -125.97 REMARK 500 5 ASN A 88 -53.50 -128.71 REMARK 500 5 SER A 97 -122.92 -81.92 REMARK 500 5 GLN A 103 93.53 57.97 REMARK 500 5 LYS B 3 -75.04 95.18 REMARK 500 5 ALA B 9 157.95 174.57 REMARK 500 5 ILE B 19 45.53 -92.32 REMARK 500 5 LYS B 24 155.76 68.23 REMARK 500 5 GLU B 32 107.14 -42.73 REMARK 500 5 SER B 33 124.31 175.17 REMARK 500 5 LEU B 97 -51.21 -124.05 REMARK 500 5 SER B 121 -74.77 69.91 REMARK 500 6 ARG A 16 145.22 -171.45 REMARK 500 6 THR A 119 -159.68 -104.89 REMARK 500 6 LYS B 3 -59.04 179.26 REMARK 500 6 ALA B 15 -166.60 -167.21 REMARK 500 6 THR B 20 101.19 -49.64 REMARK 500 6 LYS B 21 157.03 166.68 REMARK 500 6 LYS B 24 -146.77 -118.73 REMARK 500 7 ARG A 3 -28.01 71.88 REMARK 500 7 LYS A 117 109.01 -41.54 REMARK 500 7 LYS A 118 19.62 56.05 REMARK 500 7 SER B 5 -72.49 -69.82 REMARK 500 REMARK 500 THIS ENTRY HAS 140 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 2 ARG A 16 0.08 SIDE CHAIN REMARK 500 9 ARG B 28 0.10 SIDE CHAIN REMARK 500 14 ARG B 30 0.11 SIDE CHAIN REMARK 500 16 ARG A 3 0.10 SIDE CHAIN REMARK 500 18 ARG A 19 0.09 SIDE CHAIN REMARK 500 18 ARG B 28 0.08 SIDE CHAIN REMARK 500 20 ARG B 30 0.13 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 2 SER A 97 12.99 REMARK 500 8 LEU A 96 10.74 REMARK 500 13 SER A 97 11.54 REMARK 500 16 SER A 97 11.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27547 RELATED DB: BMRB DBREF 7PJ1 A 1 123 UNP P84051 H2A_DROME 2 124 DBREF 7PJ1 B 1 122 UNP P02283 H2B_DROME 2 123 SEQRES 1 A 123 SER GLY ARG GLY LYS GLY GLY LYS VAL LYS GLY LYS ALA SEQRES 2 A 123 LYS SER ARG SER ASN ARG ALA GLY LEU GLN PHE PRO VAL SEQRES 3 A 123 GLY ARG ILE HIS ARG LEU LEU ARG LYS GLY ASN TYR ALA SEQRES 4 A 123 GLU ARG VAL GLY ALA GLY ALA PRO VAL TYR LEU ALA ALA SEQRES 5 A 123 VAL MET GLU TYR LEU ALA ALA GLU VAL LEU GLU LEU ALA SEQRES 6 A 123 GLY ASN ALA ALA ARG ASP ASN LYS LYS THR ARG ILE ILE SEQRES 7 A 123 PRO ARG HIS LEU GLN LEU ALA ILE ARG ASN ASP GLU GLU SEQRES 8 A 123 LEU ASN LYS LEU LEU SER GLY VAL THR ILE ALA GLN GLY SEQRES 9 A 123 GLY VAL LEU PRO ASN ILE GLN ALA VAL LEU LEU PRO LYS SEQRES 10 A 123 LYS THR GLU LYS LYS ALA SEQRES 1 B 122 PRO PRO LYS THR SER GLY LYS ALA ALA LYS LYS ALA GLY SEQRES 2 B 122 LYS ALA GLN LYS ASN ILE THR LYS THR ASP LYS LYS LYS SEQRES 3 B 122 LYS ARG LYS ARG LYS GLU SER TYR ALA ILE TYR ILE TYR SEQRES 4 B 122 LYS VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SER SEQRES 5 B 122 SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN ASP SEQRES 6 B 122 ILE PHE GLU ARG ILE ALA ALA GLU ALA SER ARG LEU ALA SEQRES 7 B 122 HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU ILE SEQRES 8 B 122 GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU ALA SEQRES 9 B 122 LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR LYS SEQRES 10 B 122 TYR THR SER SER LYS HELIX 1 AA1 PRO A 25 GLY A 36 1 12 HELIX 2 AA2 GLY A 45 ASN A 72 1 28 HELIX 3 AA3 ILE A 78 LEU A 84 1 7 HELIX 4 AA4 LEU A 84 ASP A 89 1 6 HELIX 5 AA5 ASP A 89 LEU A 96 1 8 HELIX 6 AA7 TYR B 34 HIS B 46 1 13 HELIX 7 AA8 SER B 52 ASN B 81 1 30 HELIX 8 AA9 THR B 87 LEU B 99 1 13 HELIX 9 AB1 PRO B 100 TYR B 118 1 19 SHEET 1 AA1 2 ARG A 41 VAL A 42 0 SHEET 2 AA1 2 THR B 85 ILE B 86 1 O ILE B 86 N ARG A 41 SHEET 1 AA2 2 ARG A 76 ILE A 77 0 SHEET 2 AA2 2 GLY B 50 ILE B 51 1 O GLY B 50 N ILE A 77 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