PDB Short entry for 6R1T HEADER GENE REGULATION 15-MAR-19 6R1T TITLE STRUCTURE OF LSD2/NPAC-LINKER/NUCLEOSOME CORE PARTICLE COMPLEX: CLASS TITLE 2 1, FREE NUCLESOME COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE H3; COMPND 3 CHAIN: A, E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HISTONE H2A; COMPND 7 CHAIN: B, F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HISTONE H2A; COMPND 11 CHAIN: C, G; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: HISTONE H2B; COMPND 15 CHAIN: D, H; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 5; COMPND 18 MOLECULE: DNA (147-MER); COMPND 19 CHAIN: I; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 6; COMPND 22 MOLECULE: DNA (147-MER); COMPND 23 CHAIN: J; COMPND 24 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 3 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 4 ORGANISM_TAXID: 8355; SOURCE 5 GENE: XELAEV_18002543MG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 10 ORGANISM_TAXID: 8355; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 15 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 16 ORGANISM_TAXID: 8355; SOURCE 17 GENE: HIST1H2AJ, LOC494591, XELAEV_18003602MG; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 20 MOL_ID: 4; SOURCE 21 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 22 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 23 ORGANISM_TAXID: 8355; SOURCE 24 GENE: XELAEV_18032686MG; SOURCE 25 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 26 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 27 MOL_ID: 5; SOURCE 28 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 29 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 30 ORGANISM_TAXID: 32630; SOURCE 31 EXPRESSION_SYSTEM: SYNTHETIC CONSTRUCT; SOURCE 32 EXPRESSION_SYSTEM_TAXID: 32630; SOURCE 33 MOL_ID: 6; SOURCE 34 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 35 ORGANISM_TAXID: 32630; SOURCE 36 EXPRESSION_SYSTEM: SYNTHETIC CONSTRUCT; SOURCE 37 EXPRESSION_SYSTEM_TAXID: 32630 KEYWDS HISTONE DEMETHYLATION, CHROMATIN READER, FLAVOENZYME, EPIGENETICS, KEYWDS 2 EVOLUTION OF PROTEIN FUNCTION, MOLECULAR RECOGNITION., GENE KEYWDS 3 REGULATION EXPDTA ELECTRON MICROSCOPY AUTHOR C.MARABELLI,S.PILOTTO,S.CHITTORI,S.SUBRAMANIAM,A.MATTEVI REVDAT 1 24-APR-19 6R1T 0 JRNL AUTH C.MARABELLI,B.MARROCCO,S.PILOTTO,S.CHITTORI,S.PICAUD, JRNL AUTH 2 S.MARCHESE,G.CIOSSANI,F.FORNERIS,P.FILIPPAKOPOULOS, JRNL AUTH 3 G.SCHOEHN,D.RHODES,S.SUBRAMANIAM,A.MATTEVI JRNL TITL A TAIL-BASED MECHANISM DRIVES NUCLEOSOME DEMETHYLATION BY JRNL TITL 2 THE LSD2/NPAC MULTIMERIC COMPLEX. JRNL REF CELL REP V. 27 387 2019 JRNL REFN ESSN 2211-1247 JRNL PMID 30970244 JRNL DOI 10.1016/J.CELREP.2019.03.061 REMARK 2 REMARK 2 RESOLUTION. 3.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : RELION, UCSF CHIMERA, RELION REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 6ESF REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : RIGID BODY FIT REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 4.020 REMARK 3 NUMBER OF PARTICLES : 124354 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 6R1T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1292101219. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : 147 BP NUCLEOSOME; HISTONES; REMARK 245 WIDOM DNA REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.87 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : XENOPUS LAEVIS HISTONES REMARK 245 RECOMBINANTLY EXPRESSED. ALKYLATED K4C-C110A H3. 601 WIDOM DNA REMARK 245 SEQUENCE. REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 2078 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 0.70 REMARK 245 MAXIMUM DEFOCUS (NM) : 3.05 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 1.25 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 130000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: DECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 56470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 77140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -425.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H, I, J 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY B 102 REMARK 465 THR C 10 REMARK 465 ARG C 11 REMARK 465 ALA C 12 REMARK 465 ALA E 135 REMARK 465 LYS F 16 REMARK 465 ARG H 26 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS C 13 CG CD CE NZ REMARK 470 ARG C 20 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 CB ARG A 128 OE2 GLU A 133 0.82 REMARK 500 NE ARG A 128 OE1 GLU A 133 0.83 REMARK 500 CD ARG A 128 OE1 GLU A 133 1.43 REMARK 500 O HIS E 39 O ARG E 40 1.45 REMARK 500 CA ARG A 128 OE2 GLU A 133 1.55 REMARK 500 CG ARG A 128 OE2 GLU A 133 1.55 REMARK 500 NE ARG G 17 OP2 DT J -43 1.62 REMARK 500 N LEU E 70 OD1 ASN F 25 1.72 REMARK 500 CB ARG B 19 OP2 DA J 16 1.74 REMARK 500 NZ LYS D 28 OP1 DC J 51 1.76 REMARK 500 CB ARG A 128 CD GLU A 133 1.78 REMARK 500 O ARG G 17 N ARG G 20 1.83 REMARK 500 CG ARG A 128 CD GLU A 133 1.86 REMARK 500 CZ ARG A 128 OE1 GLU A 133 1.89 REMARK 500 CG ARG A 128 OE1 GLU A 133 1.89 REMARK 500 O GLN B 27 CD1 ILE B 29 1.90 REMARK 500 CD ARG G 17 OP1 DT J -43 1.91 REMARK 500 C ARG E 69 OD1 ASN F 25 1.91 REMARK 500 CA LEU E 70 OD1 ASN F 25 1.95 REMARK 500 O ASP B 24 N ILE B 26 1.98 REMARK 500 O ARG G 17 N SER G 19 1.99 REMARK 500 OG1 THR H 29 OP1 DT J 30 2.02 REMARK 500 CB ARG C 20 OP1 DG I -42 2.03 REMARK 500 NE ARG A 128 CD GLU A 133 2.05 REMARK 500 N ARG H 27 OP1 DT J 31 2.08 REMARK 500 C2 DG I -70 N2 DG J 71 2.08 REMARK 500 CE LYS D 28 OP1 DC J 51 2.09 REMARK 500 O ARG B 23 N ASN B 25 2.11 REMARK 500 NE ARG A 69 CD2 LEU B 22 2.12 REMARK 500 CD ARG G 17 P DT J -43 2.12 REMARK 500 O GLN B 27 N ILE B 29 2.13 REMARK 500 N2 DG I -70 N2 DG J 71 2.14 REMARK 500 O GLY B 28 N THR B 30 2.14 REMARK 500 CD ARG G 17 OP2 DT J -43 2.17 REMARK 500 O PRO E 38 N ARG E 40 2.18 REMARK 500 O ARG E 69 OD1 ASN F 25 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DG I 71 C1' DG I 71 N9 -0.104 REMARK 500 DC J 6 O3' DC J 6 C3' -0.043 REMARK 500 DG J 71 C1' DG J 71 N9 -0.116 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 DA I -68 O4' - C1' - N9 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT I -67 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT I -59 C3' - C2' - C1' ANGL. DEV. = -5.4 DEGREES REMARK 500 DT I -59 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC I -58 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT I -57 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT I 35 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA I 42 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT I 54 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC I 60 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DG I 71 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG J -68 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT J -36 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT J 3 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC J 7 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT J 15 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT J 38 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DC J 49 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA J 72 O4' - C1' - N9 ANGL. DEV. = 2.0 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 ARG A 42 166.83 162.15 REMARK 500 LEU A 61 -60.95 -93.52 REMARK 500 ASP A 81 62.93 60.31 REMARK 500 ARG A 134 99.32 -52.49 REMARK 500 HIS B 18 72.29 57.04 REMARK 500 VAL B 21 83.28 -47.54 REMARK 500 ARG B 23 -94.47 55.07 REMARK 500 ASP B 24 55.58 -48.54 REMARK 500 ASN B 25 -48.35 -3.24 REMARK 500 ILE B 29 60.63 -52.74 REMARK 500 THR B 30 160.71 -31.09 REMARK 500 ALA C 14 43.27 -98.24 REMARK 500 ARG C 17 -148.32 -99.91 REMARK 500 ARG C 20 -76.47 -149.39 REMARK 500 ALA C 21 -73.70 -36.02 REMARK 500 LEU C 23 -105.49 -153.98 REMARK 500 PHE C 25 148.93 79.08 REMARK 500 PRO C 109 76.15 -69.36 REMARK 500 LYS C 119 -161.91 170.07 REMARK 500 ARG D 27 -120.13 -57.67 REMARK 500 THR D 29 -149.92 -99.36 REMARK 500 ARG D 30 -132.71 -156.01 REMARK 500 LYS D 31 119.93 147.84 REMARK 500 VAL D 45 -62.02 -90.23 REMARK 500 HIS E 39 -59.99 49.76 REMARK 500 ARG E 40 -179.21 4.04 REMARK 500 VAL F 21 87.01 -52.44 REMARK 500 ASP F 24 73.28 74.61 REMARK 500 SER F 47 -168.46 -78.31 REMARK 500 ARG G 11 -92.90 50.27 REMARK 500 ALA G 14 88.80 -44.36 REMARK 500 THR G 16 -109.06 -97.23 REMARK 500 ARG G 17 -82.89 -156.54 REMARK 500 SER G 18 -34.27 -15.92 REMARK 500 LYS G 118 53.80 -93.03 REMARK 500 SER H 33 -163.63 -174.32 REMARK 500 SER H 84 29.41 -141.00 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 ARG A 40 0.29 SIDE CHAIN REMARK 500 ARG A 129 0.08 SIDE CHAIN REMARK 500 ARG A 131 0.20 SIDE CHAIN REMARK 500 ARG B 17 0.19 SIDE CHAIN REMARK 500 ARG C 17 0.08 SIDE CHAIN REMARK 500 ARG D 27 0.27 SIDE CHAIN REMARK 500 ARG F 17 0.10 SIDE CHAIN REMARK 500 ARG F 19 0.15 SIDE CHAIN REMARK 500 ARG F 23 0.18 SIDE CHAIN REMARK 500 ARG G 11 0.28 SIDE CHAIN REMARK 500 ARG H 30 0.21 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-4704 RELATED DB: EMDB REMARK 900 STRUCTURE OF LSD2/NPAC-LINKER/NUCLEOSOME CORE PARTICLE COMPLEX: REMARK 900 CLASS 1, FREE NUCLESOME DBREF1 6R1T A 37 135 UNP A0A310TTQ1_XENLA DBREF2 6R1T A A0A310TTQ1 38 136 DBREF 6R1T B 16 102 PDB 6R1T 6R1T 16 102 DBREF 6R1T C 10 120 UNP Q6AZJ8 Q6AZJ8_XENLA 11 121 DBREF1 6R1T D 26 121 UNP A0A1L8FQ56_XENLA DBREF2 6R1T D A0A1L8FQ56 30 125 DBREF1 6R1T E 37 135 UNP A0A310TTQ1_XENLA DBREF2 6R1T E A0A310TTQ1 38 136 DBREF 6R1T F 16 102 PDB 6R1T 6R1T 16 102 DBREF 6R1T G 10 120 UNP Q6AZJ8 Q6AZJ8_XENLA 11 121 DBREF1 6R1T H 26 121 UNP A0A1L8FQ56_XENLA DBREF2 6R1T H A0A1L8FQ56 30 125 DBREF 6R1T I -73 73 PDB 6R1T 6R1T -73 73 DBREF 6R1T J -73 73 PDB 6R1T 6R1T -73 73 SEQRES 1 A 99 LYS PRO HIS ARG TYR ARG PRO GLY THR VAL ALA LEU ARG SEQRES 2 A 99 GLU ILE ARG ARG TYR GLN LYS SER THR GLU LEU LEU ILE SEQRES 3 A 99 ARG LYS LEU PRO PHE GLN ARG LEU VAL ARG GLU ILE ALA SEQRES 4 A 99 GLN ASP PHE LYS THR ASP LEU ARG PHE GLN SER SER ALA SEQRES 5 A 99 VAL MET ALA LEU GLN GLU ALA SER GLU ALA TYR LEU VAL SEQRES 6 A 99 ALA LEU PHE GLU ASP THR ASN LEU CYS ALA ILE HIS ALA SEQRES 7 A 99 LYS ARG VAL THR ILE MET PRO LYS ASP ILE GLN LEU ALA SEQRES 8 A 99 ARG ARG ILE ARG GLY GLU ARG ALA SEQRES 1 B 87 LYS ARG HIS ARG LYS VAL LEU ARG ASP ASN ILE GLN GLY SEQRES 2 B 87 ILE THR LYS PRO ALA ILE ARG ARG LEU ALA ARG ARG GLY SEQRES 3 B 87 GLY VAL LYS ARG ILE SER GLY LEU ILE TYR GLU GLU THR SEQRES 4 B 87 ARG GLY VAL LEU LYS VAL PHE LEU GLU ASN VAL ILE ARG SEQRES 5 B 87 ASP ALA VAL THR TYR THR GLU HIS ALA LYS ARG LYS THR SEQRES 6 B 87 VAL THR ALA MET ASP VAL VAL TYR ALA LEU LYS ARG GLN SEQRES 7 B 87 GLY ARG THR LEU TYR GLY PHE GLY GLY SEQRES 1 C 111 THR ARG ALA LYS ALA LYS THR ARG SER SER ARG ALA GLY SEQRES 2 C 111 LEU GLN PHE PRO VAL GLY ARG VAL HIS ARG LEU LEU ARG SEQRES 3 C 111 LYS GLY ASN TYR ALA GLU ARG VAL GLY ALA GLY ALA PRO SEQRES 4 C 111 VAL TYR LEU ALA ALA VAL LEU GLU TYR LEU THR ALA GLU SEQRES 5 C 111 ILE LEU GLU LEU ALA GLY ASN ALA ALA ARG ASP ASN LYS SEQRES 6 C 111 LYS THR ARG ILE ILE PRO ARG HIS LEU GLN LEU ALA VAL SEQRES 7 C 111 ARG ASN ASP GLU GLU LEU ASN LYS LEU LEU GLY ARG VAL SEQRES 8 C 111 THR ILE ALA GLN GLY GLY VAL LEU PRO ASN ILE GLN SER SEQRES 9 C 111 VAL LEU LEU PRO LYS LYS THR SEQRES 1 D 96 ARG ARG LYS THR ARG LYS GLU SER TYR ALA ILE TYR VAL SEQRES 2 D 96 TYR LYS VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SEQRES 3 D 96 SER SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN SEQRES 4 D 96 ASP VAL PHE GLU ARG ILE ALA GLY GLU ALA SER ARG LEU SEQRES 5 D 96 ALA HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU SEQRES 6 D 96 ILE GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU SEQRES 7 D 96 ALA LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR SEQRES 8 D 96 LYS TYR THR SER ALA SEQRES 1 E 99 LYS PRO HIS ARG TYR ARG PRO GLY THR VAL ALA LEU ARG SEQRES 2 E 99 GLU ILE ARG ARG TYR GLN LYS SER THR GLU LEU LEU ILE SEQRES 3 E 99 ARG LYS LEU PRO PHE GLN ARG LEU VAL ARG GLU ILE ALA SEQRES 4 E 99 GLN ASP PHE LYS THR ASP LEU ARG PHE GLN SER SER ALA SEQRES 5 E 99 VAL MET ALA LEU GLN GLU ALA SER GLU ALA TYR LEU VAL SEQRES 6 E 99 ALA LEU PHE GLU ASP THR ASN LEU CYS ALA ILE HIS ALA SEQRES 7 E 99 LYS ARG VAL THR ILE MET PRO LYS ASP ILE GLN LEU ALA SEQRES 8 E 99 ARG ARG ILE ARG GLY GLU ARG ALA SEQRES 1 F 87 LYS ARG HIS ARG LYS VAL LEU ARG ASP ASN ILE GLN GLY SEQRES 2 F 87 ILE THR LYS PRO ALA ILE ARG ARG LEU ALA ARG ARG GLY SEQRES 3 F 87 GLY VAL LYS ARG ILE SER GLY LEU ILE TYR GLU GLU THR SEQRES 4 F 87 ARG GLY VAL LEU LYS VAL PHE LEU GLU ASN VAL ILE ARG SEQRES 5 F 87 ASP ALA VAL THR TYR THR GLU HIS ALA LYS ARG LYS THR SEQRES 6 F 87 VAL THR ALA MET ASP VAL VAL TYR ALA LEU LYS ARG GLN SEQRES 7 F 87 GLY ARG THR LEU TYR GLY PHE GLY GLY SEQRES 1 G 111 THR ARG ALA LYS ALA LYS THR ARG SER SER ARG ALA GLY SEQRES 2 G 111 LEU GLN PHE PRO VAL GLY ARG VAL HIS ARG LEU LEU ARG SEQRES 3 G 111 LYS GLY ASN TYR ALA GLU ARG VAL GLY ALA GLY ALA PRO SEQRES 4 G 111 VAL TYR LEU ALA ALA VAL LEU GLU TYR LEU THR ALA GLU SEQRES 5 G 111 ILE LEU GLU LEU ALA GLY ASN ALA ALA ARG ASP ASN LYS SEQRES 6 G 111 LYS THR ARG ILE ILE PRO ARG HIS LEU GLN LEU ALA VAL SEQRES 7 G 111 ARG ASN ASP GLU GLU LEU ASN LYS LEU LEU GLY ARG VAL SEQRES 8 G 111 THR ILE ALA GLN GLY GLY VAL LEU PRO ASN ILE GLN SER SEQRES 9 G 111 VAL LEU LEU PRO LYS LYS THR SEQRES 1 H 96 ARG ARG LYS THR ARG LYS GLU SER TYR ALA ILE TYR VAL SEQRES 2 H 96 TYR LYS VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SEQRES 3 H 96 SER SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN SEQRES 4 H 96 ASP VAL PHE GLU ARG ILE ALA GLY GLU ALA SER ARG LEU SEQRES 5 H 96 ALA HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU SEQRES 6 H 96 ILE GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU SEQRES 7 H 96 ALA LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR SEQRES 8 H 96 LYS TYR THR SER ALA SEQRES 1 I 147 DA DT DC DG DG DA DT DG DT DA DT DA DT SEQRES 2 I 147 DA DT DC DT DG DA DC DA DC DG DT DG DC SEQRES 3 I 147 DC DT DG DG DA DG DA DC DT DA DG DG DG SEQRES 4 I 147 DA DG DT DA DA DT DC DC DC DC DT DT DG SEQRES 5 I 147 DG DC DG DG DT DT DA DA DA DA DC DG DC SEQRES 6 I 147 DG DG DG DG DG DA DC DA DG DC DG DC DG SEQRES 7 I 147 DT DA DC DG DT DG DC DG DT DT DT DA DA SEQRES 8 I 147 DG DC DG DG DT DG DC DT DA DG DA DG DC SEQRES 9 I 147 DT DG DT DC DT DA DC DG DA DC DC DA DA SEQRES 10 I 147 DT DT DG DA DG DC DG DG DC DC DT DC DG SEQRES 11 I 147 DG DC DA DC DC DG DG DG DA DT DT DC DT SEQRES 12 I 147 DC DG DA DT SEQRES 1 J 147 DA DT DC DG DA DG DA DA DT DC DC DC DG SEQRES 2 J 147 DG DT DG DC DC DG DA DG DG DC DC DG DC SEQRES 3 J 147 DT DC DA DA DT DT DG DG DT DC DG DT DA SEQRES 4 J 147 DG DA DC DA DG DC DT DC DT DA DG DC DA SEQRES 5 J 147 DC DC DG DC DT DT DA DA DA DC DG DC DA SEQRES 6 J 147 DC DG DT DA DC DG DC DG DC DT DG DT DC SEQRES 7 J 147 DC DC DC DC DG DC DG DT DT DT DT DA DA SEQRES 8 J 147 DC DC DG DC DC DA DA DG DG DG DG DA DT SEQRES 9 J 147 DT DA DC DT DC DC DC DT DA DG DT DC DT SEQRES 10 J 147 DC DC DA DG DG DC DA DC DG DT DG DT DC SEQRES 11 J 147 DA DG DA DT DA DT DA DT DA DC DA DT DC SEQRES 12 J 147 DC DG DA DT HELIX 1 AA1 GLY A 44 SER A 57 1 14 HELIX 2 AA2 ARG A 63 LYS A 79 1 17 HELIX 3 AA3 GLN A 85 HIS A 113 1 29 HELIX 4 AA4 MET A 120 GLY A 132 1 13 HELIX 5 AA5 THR B 30 GLY B 41 1 12 HELIX 6 AA6 LEU B 49 ALA B 76 1 28 HELIX 7 AA7 THR B 82 GLN B 93 1 12 HELIX 8 AA8 PRO C 26 LYS C 36 1 11 HELIX 9 AA9 GLY C 46 ASP C 72 1 27 HELIX 10 AB1 ILE C 79 ASP C 90 1 12 HELIX 11 AB2 ASP C 90 LEU C 97 1 8 HELIX 12 AB3 TYR D 34 HIS D 46 1 13 HELIX 13 AB4 SER D 52 HIS D 79 1 28 HELIX 14 AB5 THR D 87 LEU D 99 1 13 HELIX 15 AB6 GLY D 101 SER D 120 1 20 HELIX 16 AB7 GLY E 44 SER E 57 1 14 HELIX 17 AB8 ARG E 63 GLN E 76 1 14 HELIX 18 AB9 GLN E 85 HIS E 113 1 29 HELIX 19 AC1 MET E 120 ARG E 131 1 12 HELIX 20 AC2 ASN F 25 ILE F 29 5 5 HELIX 21 AC3 THR F 30 GLY F 42 1 13 HELIX 22 AC4 LEU F 49 HIS F 75 1 27 HELIX 23 AC5 THR F 82 GLN F 93 1 12 HELIX 24 AC6 ARG G 17 GLY G 22 1 6 HELIX 25 AC7 PRO G 26 LYS G 36 1 11 HELIX 26 AC8 GLY G 46 ASP G 72 1 27 HELIX 27 AC9 ILE G 79 ARG G 88 1 10 HELIX 28 AD1 ASP G 90 LEU G 97 1 8 HELIX 29 AD2 TYR H 34 HIS H 46 1 13 HELIX 30 AD3 SER H 52 ASN H 81 1 30 HELIX 31 AD4 THR H 87 LEU H 99 1 13 HELIX 32 AD5 GLY H 101 SER H 120 1 20 SHEET 1 AA1 2 THR A 118 ILE A 119 0 SHEET 2 AA1 2 ARG B 45 ILE B 46 1 O ARG B 45 N ILE A 119 SHEET 1 AA2 2 THR B 96 TYR B 98 0 SHEET 2 AA2 2 VAL G 100 ILE G 102 1 O THR G 101 N THR B 96 SHEET 1 AA3 2 ARG C 42 VAL C 43 0 SHEET 2 AA3 2 THR D 85 ILE D 86 1 O ILE D 86 N ARG C 42 SHEET 1 AA4 2 VAL C 100 THR C 101 0 SHEET 2 AA4 2 THR F 96 LEU F 97 1 O THR F 96 N THR C 101 SHEET 1 AA5 2 ARG E 83 PHE E 84 0 SHEET 2 AA5 2 THR F 80 VAL F 81 1 O VAL F 81 N ARG E 83 SHEET 1 AA6 2 THR E 118 ILE E 119 0 SHEET 2 AA6 2 ARG F 45 ILE F 46 1 O ARG F 45 N ILE E 119 SHEET 1 AA7 2 ARG G 42 VAL G 43 0 SHEET 2 AA7 2 THR H 85 ILE H 86 1 O ILE H 86 N ARG G 42 SHEET 1 AA8 2 ARG G 77 ILE G 78 0 SHEET 2 AA8 2 GLY H 50 ILE H 51 1 O GLY H 50 N ILE G 78 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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