HEADER DNA BINDING PROTEIN 09-AUG-24 9GFM TITLE CRYOEM STRUCTURE OF THE HUMAN INO80 CORE-NUCLEOSOME COMPLEX STATE N-7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: INO80 COMPLEX SUBUNIT B; COMPND 3 CHAIN: H; COMPND 4 SYNONYM: HIGH MOBILITY GROUP AT-HOOK 1-LIKE 4,IES2 HOMOLOG,HIES2,PAP- COMPND 5 1-ASSOCIATED PROTEIN 1,PAPA-1,ZINC FINGER HIT DOMAIN-CONTAINING COMPND 6 PROTEIN 4; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: NUCLEOSOMAL DNA STRAND 1; COMPND 10 CHAIN: K; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: NUCLEOSOMAL DNA STRAND 2; COMPND 14 CHAIN: L; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: HISTONE H3.1; COMPND 18 CHAIN: M; COMPND 19 SYNONYM: HISTONE H3/A,HISTONE H3/B,HISTONE H3/C,HISTONE H3/D,HISTONE COMPND 20 H3/F,HISTONE H3/H,HISTONE H3/I,HISTONE H3/J,HISTONE H3/K,HISTONE COMPND 21 H3/L; COMPND 22 ENGINEERED: YES; COMPND 23 MOL_ID: 5; COMPND 24 MOLECULE: HISTONE H4; COMPND 25 CHAIN: N; COMPND 26 ENGINEERED: YES; COMPND 27 MOL_ID: 6; COMPND 28 MOLECULE: HISTONE H2A TYPE 1-B/E; COMPND 29 CHAIN: O; COMPND 30 SYNONYM: HISTONE H2A.2,HISTONE H2A/A,HISTONE H2A/M; COMPND 31 ENGINEERED: YES; COMPND 32 MOL_ID: 7; COMPND 33 MOLECULE: HISTONE H2B TYPE 2-E; COMPND 34 CHAIN: P; COMPND 35 SYNONYM: H2B-CLUSTERED HISTONE 21,HISTONE H2B-GL105,HISTONE H2B.Q, COMPND 36 H2B/Q; COMPND 37 ENGINEERED: YES; COMPND 38 MOL_ID: 8; COMPND 39 MOLECULE: HISTONE H3.1; COMPND 40 CHAIN: Q; COMPND 41 SYNONYM: HISTONE H3/A,HISTONE H3/B,HISTONE H3/C,HISTONE H3/D,HISTONE COMPND 42 H3/F,HISTONE H3/H,HISTONE H3/I,HISTONE H3/J,HISTONE H3/K,HISTONE COMPND 43 H3/L; COMPND 44 ENGINEERED: YES; COMPND 45 MOL_ID: 9; COMPND 46 MOLECULE: HISTONE H4; COMPND 47 CHAIN: R; COMPND 48 ENGINEERED: YES; COMPND 49 MOL_ID: 10; COMPND 50 MOLECULE: HISTONE H2A TYPE 1-B/E; COMPND 51 CHAIN: S; COMPND 52 SYNONYM: HISTONE H2A.2,HISTONE H2A/A,HISTONE H2A/M; COMPND 53 ENGINEERED: YES; COMPND 54 MOL_ID: 11; COMPND 55 MOLECULE: HISTONE H2B TYPE 2-E; COMPND 56 CHAIN: T; COMPND 57 SYNONYM: H2B-CLUSTERED HISTONE 21,HISTONE H2B-GL105,HISTONE H2B.Q, COMPND 58 H2B/Q; COMPND 59 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: INO80B, HMGA1L4, PAPA1, ZNHIT4; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630; SOURCE 16 MOL_ID: 4; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_COMMON: HUMAN; SOURCE 19 ORGANISM_TAXID: 9606; SOURCE 20 GENE: H3C1, H3FA, HIST1H3A, H3C2, H3FL, HIST1H3B, H3C3, H3FC SOURCE 21 HIST1H3C, H3C4, H3FB, HIST1H3D, H3C6, H3FD, HIST1H3E, H3C7, H3FI, SOURCE 22 HIST1H3F, H3C8, H3FH, HIST1H3G, H3C10, H3FK, HIST1H3H, H3C11, H3FF, SOURCE 23 HIST1H3I, H3C12, H3FJ, HIST1H3J; SOURCE 24 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 26 MOL_ID: 5; SOURCE 27 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 28 ORGANISM_COMMON: HUMAN; SOURCE 29 ORGANISM_TAXID: 9606; SOURCE 30 GENE: H4C1, H4/A, H4FA, HIST1H4A, H4C2, H4/I, H4FI, HIST1H4B, H4C3, SOURCE 31 H4/G, H4FG, HIST1H4C, H4C4, H4/B, H4FB, HIST1H4D, H4C5, H4/J, H4FJ, SOURCE 32 HIST1H4E, H4C6, H4/C, H4FC, HIST1H4F, H4C8, H4/H, H4FH, HIST1H4H, SOURCE 33 H4C9, H4/M, H4FM, HIST1H4I, H4C11, H4/E, H4FE, HIST1H4J, H4C12, SOURCE 34 H4/D, H4FD, HIST1H4K, H4C13, H4/K, H4FK, HIST1H4L, H4C14, H4/N, SOURCE 35 H4F2, H4FN, HIST2H4, HIST2H4A, H4C15, H4/O, H4FO, HIST2H4B, H4C16, SOURCE 36 H4-16, HIST4H4; SOURCE 37 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 38 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 39 MOL_ID: 6; SOURCE 40 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 41 ORGANISM_COMMON: HUMAN; SOURCE 42 ORGANISM_TAXID: 9606; SOURCE 43 GENE: H2AC4, H2AFM, HIST1H2AB, H2AC8, H2AFA, HIST1H2AE; SOURCE 44 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 45 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 46 MOL_ID: 7; SOURCE 47 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 48 ORGANISM_COMMON: HUMAN; SOURCE 49 ORGANISM_TAXID: 9606; SOURCE 50 GENE: H2BC21, H2BFQ, HIST2H2BE; SOURCE 51 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 52 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 53 MOL_ID: 8; SOURCE 54 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 55 ORGANISM_COMMON: HUMAN; SOURCE 56 ORGANISM_TAXID: 9606; SOURCE 57 GENE: H3C1, H3FA, HIST1H3A, H3C2, H3FL, HIST1H3B, H3C3, H3FC SOURCE 58 HIST1H3C, H3C4, H3FB, HIST1H3D, H3C6, H3FD, HIST1H3E, H3C7, H3FI, SOURCE 59 HIST1H3F, H3C8, H3FH, HIST1H3G, H3C10, H3FK, HIST1H3H, H3C11, H3FF, SOURCE 60 HIST1H3I, H3C12, H3FJ, HIST1H3J; SOURCE 61 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 62 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 63 MOL_ID: 9; SOURCE 64 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 65 ORGANISM_COMMON: HUMAN; SOURCE 66 ORGANISM_TAXID: 9606; SOURCE 67 GENE: H4C1, H4/A, H4FA, HIST1H4A, H4C2, H4/I, H4FI, HIST1H4B, H4C3, SOURCE 68 H4/G, H4FG, HIST1H4C, H4C4, H4/B, H4FB, HIST1H4D, H4C5, H4/J, H4FJ, SOURCE 69 HIST1H4E, H4C6, H4/C, H4FC, HIST1H4F, H4C8, H4/H, H4FH, HIST1H4H, SOURCE 70 H4C9, H4/M, H4FM, HIST1H4I, H4C11, H4/E, H4FE, HIST1H4J, H4C12, SOURCE 71 H4/D, H4FD, HIST1H4K, H4C13, H4/K, H4FK, HIST1H4L, H4C14, H4/N, SOURCE 72 H4F2, H4FN, HIST2H4, HIST2H4A, H4C15, H4/O, H4FO, HIST2H4B, H4C16, SOURCE 73 H4-16, HIST4H4; SOURCE 74 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 75 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 76 MOL_ID: 10; SOURCE 77 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 78 ORGANISM_COMMON: HUMAN; SOURCE 79 ORGANISM_TAXID: 9606; SOURCE 80 GENE: H2AC4, H2AFM, HIST1H2AB, H2AC8, H2AFA, HIST1H2AE; SOURCE 81 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 82 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 83 MOL_ID: 11; SOURCE 84 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 85 ORGANISM_COMMON: HUMAN; SOURCE 86 ORGANISM_TAXID: 9606; SOURCE 87 GENE: H2BC21, H2BFQ, HIST2H2BE; SOURCE 88 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 89 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HOMO SAPIENS, ATP-DEPENDENT CHROMATIN REMODELLER, DNA BINDING PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR M.SHARMA,P.AGGARWAL,K.P.HOPFNER REVDAT 1 20-AUG-25 9GFM 0 JRNL AUTH M.SHARMA,P.AGGARWAL,K.P.HOPFNER JRNL TITL CRYOEM STRUCTURE OF THE HUMAN INO80 CORE-NUCLEOSOME COMPLEX JRNL TITL 2 STATE N-7 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, CRYOSPARC, COOT, ISOLDE, REMARK 3 REFMAC, RELION, RELION REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : RECIPROCAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES 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) : 3.800 REMARK 3 NUMBER OF PARTICLES : 64537 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 9GFM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-AUG-24. REMARK 100 THE DEPOSITION ID IS D_1292140907. 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 : CRYOEM STRUCTURE OF THE HUMAN REMARK 245 INO80 CORE-NUCLEOSOME COMPLEX REMARK 245 STATE N-7; HISTONE OCTAMER; REMARK 245 SYNTHETIC DEOXYRIBONUCLEIC ACID REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NEGATIVE POLARITY REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.00 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1100.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2900.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 102.90 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL 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: 11-MERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: 11-MERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, K, L, M, N, O, P, Q, R, S, REMARK 350 AND CHAINS: T 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: 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 ARG H 179 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG H 179 NE - CZ - NH2 ANGL. DEV. = 4.6 DEGREES REMARK 500 DA K -57 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA K -57 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 DA K -57 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA K -57 N1 - C6 - N6 ANGL. DEV. = -4.7 DEGREES REMARK 500 DC K -56 N3 - C2 - O2 ANGL. DEV. = -4.5 DEGREES REMARK 500 DA K -55 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA K -55 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT K -54 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 DC K -52 N3 - C2 - O2 ANGL. DEV. = -4.7 DEGREES REMARK 500 DA K -51 C4 - C5 - C6 ANGL. DEV. = -3.6 DEGREES REMARK 500 DA K -51 C5 - C6 - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA K -51 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 DC K -50 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 DA K -49 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 DA K -49 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA K -49 N1 - C6 - N6 ANGL. DEV. = -4.0 DEGREES REMARK 500 DA K -46 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA K -46 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 DA K -46 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA K -46 N1 - C6 - N6 ANGL. DEV. = -4.0 DEGREES REMARK 500 DT K -45 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 DA K -42 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA K -42 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DA K -42 N1 - C6 - N6 ANGL. DEV. = -4.3 DEGREES REMARK 500 DT K -41 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 DT K -41 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 DA K -40 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA K -40 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DA K -40 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT K -39 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DT K -39 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 DA K -38 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA K -38 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA K -38 N1 - C6 - N6 ANGL. DEV. = -3.9 DEGREES REMARK 500 DT K -37 N3 - C2 - O2 ANGL. DEV. = -3.6 DEGREES REMARK 500 DC K -36 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT K -35 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 DG K -34 O4' - C1' - N9 ANGL. DEV. = 5.2 DEGREES REMARK 500 DA K -33 C4 - C5 - C6 ANGL. DEV. = -3.0 DEGREES REMARK 500 DA K -33 C5 - C6 - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA K -33 N1 - C6 - N6 ANGL. DEV. = -4.0 DEGREES REMARK 500 DC K -32 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC K -32 N3 - C2 - O2 ANGL. DEV. = -4.5 DEGREES REMARK 500 DA K -31 C4 - C5 - C6 ANGL. DEV. = -3.5 DEGREES REMARK 500 DA K -31 C5 - C6 - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DA K -31 N1 - C6 - N6 ANGL. DEV. = -4.7 DEGREES REMARK 500 DC K -30 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT K -28 N3 - C2 - O2 ANGL. DEV. = -3.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 360 ANGLE DEVIATIONS. 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 GLN M 76 21.16 -70.05 REMARK 500 LYS M 115 -26.81 66.42 REMARK 500 ASP N 24 60.84 -67.13 REMARK 500 PRO O 109 35.31 -66.33 REMARK 500 LYS P 46 7.59 -69.92 REMARK 500 VAL P 48 -30.53 -139.15 REMARK 500 ARG P 92 -18.11 -47.50 REMARK 500 HIS Q 39 -95.75 45.87 REMARK 500 ARG Q 42 75.74 46.91 REMARK 500 ALA Q 114 24.64 -77.71 REMARK 500 ASN R 25 -38.71 -140.49 REMARK 500 LYS R 77 -33.02 65.27 REMARK 500 GLN S 104 15.49 55.26 REMARK 500 GLU T 35 84.29 56.10 REMARK 500 PRO T 103 -129.67 -78.54 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 H 179 0.08 SIDE CHAIN REMARK 500 DA K -57 0.07 SIDE CHAIN REMARK 500 DT K -45 0.07 SIDE CHAIN REMARK 500 DG K -44 0.07 SIDE CHAIN REMARK 500 DT K -43 0.10 SIDE CHAIN REMARK 500 DT K -35 0.09 SIDE CHAIN REMARK 500 DC K -30 0.06 SIDE CHAIN REMARK 500 DG K -29 0.06 SIDE CHAIN REMARK 500 DG K -27 0.06 SIDE CHAIN REMARK 500 DC K -26 0.16 SIDE CHAIN REMARK 500 DT K -24 0.15 SIDE CHAIN REMARK 500 DG K -20 0.10 SIDE CHAIN REMARK 500 DG K -13 0.08 SIDE CHAIN REMARK 500 DG K -11 0.05 SIDE CHAIN REMARK 500 DA K -8 0.08 SIDE CHAIN REMARK 500 DC K -6 0.07 SIDE CHAIN REMARK 500 DC K -4 0.14 SIDE CHAIN REMARK 500 DT K -2 0.07 SIDE CHAIN REMARK 500 DG K 0 0.06 SIDE CHAIN REMARK 500 DC K 2 0.09 SIDE CHAIN REMARK 500 DG K 3 0.07 SIDE CHAIN REMARK 500 DG K 4 0.09 SIDE CHAIN REMARK 500 DT K 5 0.07 SIDE CHAIN REMARK 500 DT K 6 0.19 SIDE CHAIN REMARK 500 DA K 8 0.06 SIDE CHAIN REMARK 500 DC K 11 0.17 SIDE CHAIN REMARK 500 DC K 13 0.09 SIDE CHAIN REMARK 500 DG K 15 0.09 SIDE CHAIN REMARK 500 DG K 16 0.08 SIDE CHAIN REMARK 500 DG K 17 0.06 SIDE CHAIN REMARK 500 DC K 20 0.10 SIDE CHAIN REMARK 500 DC K 23 0.09 SIDE CHAIN REMARK 500 DC K 25 0.06 SIDE CHAIN REMARK 500 DG K 26 0.18 SIDE CHAIN REMARK 500 DT K 27 0.12 SIDE CHAIN REMARK 500 DC K 29 0.07 SIDE CHAIN REMARK 500 DC K 33 0.10 SIDE CHAIN REMARK 500 DT K 35 0.14 SIDE CHAIN REMARK 500 DT K 36 0.11 SIDE CHAIN REMARK 500 DT K 37 0.11 SIDE CHAIN REMARK 500 DA K 39 0.07 SIDE CHAIN REMARK 500 DG K 40 0.07 SIDE CHAIN REMARK 500 DC K 41 0.06 SIDE CHAIN REMARK 500 DG K 42 0.07 SIDE CHAIN REMARK 500 DG K 43 0.07 SIDE CHAIN REMARK 500 DG K 45 0.11 SIDE CHAIN REMARK 500 DT K 47 0.18 SIDE CHAIN REMARK 500 DA K 48 0.09 SIDE CHAIN REMARK 500 DG K 54 0.09 SIDE CHAIN REMARK 500 DT K 55 0.14 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 120 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-51313 RELATED DB: EMDB REMARK 900 CRYOEM STRUCTURE OF THE HUMAN INO80 CORE-NUCLEOSOME COMPLEX STAGE 1 DBREF 9GFM H 140 189 UNP Q9C086 IN80B_HUMAN 140 189 DBREF 9GFM K -57 81 PDB 9GFM 9GFM -57 81 DBREF 9GFM L -81 57 PDB 9GFM 9GFM -81 57 DBREF 9GFM M 43 135 UNP P68431 H31_HUMAN 44 136 DBREF 9GFM N 21 102 UNP P62805 H4_HUMAN 22 103 DBREF 9GFM O 13 118 UNP P04908 H2A1B_HUMAN 14 119 DBREF 9GFM P 30 125 UNP Q16778 H2B2E_HUMAN 31 126 DBREF 9GFM Q 36 135 UNP P68431 H31_HUMAN 37 136 DBREF 9GFM R 24 102 UNP P62805 H4_HUMAN 25 103 DBREF 9GFM S 8 118 UNP P04908 H2A1B_HUMAN 9 119 DBREF 9GFM T 31 123 UNP Q16778 H2B2E_HUMAN 32 124 SEQADV 9GFM ALA P 124 UNP Q16778 SER 125 CONFLICT SEQRES 1 H 50 GLY LEU GLY GLY GLN GLU GLU GLU GLU GLU GLN ARG TRP SEQRES 2 H 50 LEU ASP ALA LEU GLU LYS GLY GLU LEU ASP ASP ASN GLY SEQRES 3 H 50 ASP LEU LYS LYS GLU ILE ASN GLU ARG LEU LEU THR ALA SEQRES 4 H 50 ARG GLN ARG ALA LEU LEU GLN LYS ALA ARG SER SEQRES 1 K 139 DA DC DA DT DG DC DA DC DA DG DG DA DT SEQRES 2 K 139 DG DT DA DT DA DT DA DT DC DT DG DA DC SEQRES 3 K 139 DA DC DG DT DG DC DC DT DG DG DA DG DA SEQRES 4 K 139 DC DT DA DG DG DG DA DG DT DA DA DT DC SEQRES 5 K 139 DC DC DC DT DT DG DG DC DG DG DT DT DA SEQRES 6 K 139 DA DA DA DC DG DC DG DG DG DG DG DA DC SEQRES 7 K 139 DA DG DC DG DC DG DT DA DC DG DT DG DC SEQRES 8 K 139 DG DT DT DT DA DA DG DC DG DG DT DG DC SEQRES 9 K 139 DT DA DG DA DG DC DT DG DT DC DT DA DC SEQRES 10 K 139 DG DA DC DC DA DA DT DT DG DA DG DC DG SEQRES 11 K 139 DG DC DC DT DC DG DG DC DA SEQRES 1 L 139 DT DG DC DC DG DA DG DG DC DC DG DC DT SEQRES 2 L 139 DC DA DA DT DT DG DG DT DC DG DT DA DG SEQRES 3 L 139 DA DC DA DG DC DT DC DT DA DG DC DA DC SEQRES 4 L 139 DC DG DC DT DT DA DA DA DC DG DC DA DC SEQRES 5 L 139 DG DT DA DC DG DC DG DC DT DG DT DC DC SEQRES 6 L 139 DC DC DC DG DC DG DT DT DT DT DA DA DC SEQRES 7 L 139 DC DG DC DC DA DA DG DG DG DG DA DT DT SEQRES 8 L 139 DA DC DT DC DC DC DT DA DG DT DC DT DC SEQRES 9 L 139 DC DA DG DG DC DA DC DG DT DG DT DC DA SEQRES 10 L 139 DG DA DT DA DT DA DT DA DC DA DT DC DC SEQRES 11 L 139 DT DG DT DG DC DA DT DG DT SEQRES 1 M 93 PRO GLY THR VAL ALA LEU ARG GLU ILE ARG ARG TYR GLN SEQRES 2 M 93 LYS SER THR GLU LEU LEU ILE ARG LYS LEU PRO PHE GLN SEQRES 3 M 93 ARG LEU VAL ARG GLU ILE ALA GLN ASP PHE LYS THR ASP SEQRES 4 M 93 LEU ARG PHE GLN SER SER ALA VAL MET ALA LEU GLN GLU SEQRES 5 M 93 ALA CYS GLU ALA TYR LEU VAL GLY LEU PHE GLU ASP THR SEQRES 6 M 93 ASN LEU CYS ALA ILE HIS ALA LYS ARG VAL THR ILE MET SEQRES 7 M 93 PRO LYS ASP ILE GLN LEU ALA ARG ARG ILE ARG GLY GLU SEQRES 8 M 93 ARG ALA SEQRES 1 N 82 VAL LEU ARG ASP ASN ILE GLN GLY ILE THR LYS PRO ALA SEQRES 2 N 82 ILE ARG ARG LEU ALA ARG ARG GLY GLY VAL LYS ARG ILE SEQRES 3 N 82 SER GLY LEU ILE TYR GLU GLU THR ARG GLY VAL LEU LYS SEQRES 4 N 82 VAL PHE LEU GLU ASN VAL ILE ARG ASP ALA VAL THR TYR SEQRES 5 N 82 THR GLU HIS ALA LYS ARG LYS THR VAL THR ALA MET ASP SEQRES 6 N 82 VAL VAL TYR ALA LEU LYS ARG GLN GLY ARG THR LEU TYR SEQRES 7 N 82 GLY PHE GLY GLY SEQRES 1 O 106 LYS ALA LYS THR ARG SER SER ARG ALA GLY LEU GLN PHE SEQRES 2 O 106 PRO VAL GLY ARG VAL HIS ARG LEU LEU ARG LYS GLY ASN SEQRES 3 O 106 TYR SER GLU ARG VAL GLY ALA GLY ALA PRO VAL TYR LEU SEQRES 4 O 106 ALA ALA VAL LEU GLU TYR LEU THR ALA GLU ILE LEU GLU SEQRES 5 O 106 LEU ALA GLY ASN ALA ALA ARG ASP ASN LYS LYS THR ARG SEQRES 6 O 106 ILE ILE PRO ARG HIS LEU GLN LEU ALA ILE ARG ASN ASP SEQRES 7 O 106 GLU GLU LEU ASN LYS LEU LEU GLY ARG VAL THR ILE ALA SEQRES 8 O 106 GLN GLY GLY VAL LEU PRO ASN ILE GLN ALA VAL LEU LEU SEQRES 9 O 106 PRO LYS SEQRES 1 P 96 LYS ARG SER ARG LYS GLU SER TYR SER ILE TYR VAL TYR SEQRES 2 P 96 LYS VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SER SEQRES 3 P 96 SER LYS ALA MET GLY ILE MET ASN SER PHE VAL ASN ASP SEQRES 4 P 96 ILE PHE GLU ARG ILE ALA GLY GLU ALA SER ARG LEU ALA SEQRES 5 P 96 HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU ILE SEQRES 6 P 96 GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU ALA SEQRES 7 P 96 LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR LYS SEQRES 8 P 96 TYR THR SER ALA LYS SEQRES 1 Q 100 LYS LYS PRO HIS ARG TYR ARG PRO GLY THR VAL ALA LEU SEQRES 2 Q 100 ARG GLU ILE ARG ARG TYR GLN LYS SER THR GLU LEU LEU SEQRES 3 Q 100 ILE ARG LYS LEU PRO PHE GLN ARG LEU VAL ARG GLU ILE SEQRES 4 Q 100 ALA GLN ASP PHE LYS THR ASP LEU ARG PHE GLN SER SER SEQRES 5 Q 100 ALA VAL MET ALA LEU GLN GLU ALA CYS GLU ALA TYR LEU SEQRES 6 Q 100 VAL GLY LEU PHE GLU ASP THR ASN LEU CYS ALA ILE HIS SEQRES 7 Q 100 ALA LYS ARG VAL THR ILE MET PRO LYS ASP ILE GLN LEU SEQRES 8 Q 100 ALA ARG ARG ILE ARG GLY GLU ARG ALA SEQRES 1 R 79 ASP ASN ILE GLN GLY ILE THR LYS PRO ALA ILE ARG ARG SEQRES 2 R 79 LEU ALA ARG ARG GLY GLY VAL LYS ARG ILE SER GLY LEU SEQRES 3 R 79 ILE TYR GLU GLU THR ARG GLY VAL LEU LYS VAL PHE LEU SEQRES 4 R 79 GLU ASN VAL ILE ARG ASP ALA VAL THR TYR THR GLU HIS SEQRES 5 R 79 ALA LYS ARG LYS THR VAL THR ALA MET ASP VAL VAL TYR SEQRES 6 R 79 ALA LEU LYS ARG GLN GLY ARG THR LEU TYR GLY PHE GLY SEQRES 7 R 79 GLY SEQRES 1 S 111 GLY LYS ALA ARG ALA LYS ALA LYS THR ARG SER SER ARG SEQRES 2 S 111 ALA GLY LEU GLN PHE PRO VAL GLY ARG VAL HIS ARG LEU SEQRES 3 S 111 LEU ARG LYS GLY ASN TYR SER GLU ARG VAL GLY ALA GLY SEQRES 4 S 111 ALA PRO VAL TYR LEU ALA ALA VAL LEU GLU TYR LEU THR SEQRES 5 S 111 ALA GLU ILE LEU GLU LEU ALA GLY ASN ALA ALA ARG ASP SEQRES 6 S 111 ASN LYS LYS THR ARG ILE ILE PRO ARG HIS LEU GLN LEU SEQRES 7 S 111 ALA ILE ARG ASN ASP GLU GLU LEU ASN LYS LEU LEU GLY SEQRES 8 S 111 ARG VAL THR ILE ALA GLN GLY GLY VAL LEU PRO ASN ILE SEQRES 9 S 111 GLN ALA VAL LEU LEU PRO LYS SEQRES 1 T 93 ARG SER ARG LYS GLU SER TYR SER ILE TYR VAL TYR LYS SEQRES 2 T 93 VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SER SER SEQRES 3 T 93 LYS ALA MET GLY ILE MET ASN SER PHE VAL ASN ASP ILE SEQRES 4 T 93 PHE GLU ARG ILE ALA GLY GLU ALA SER ARG LEU ALA HIS SEQRES 5 T 93 TYR ASN LYS ARG SER THR ILE THR SER ARG GLU ILE GLN SEQRES 6 T 93 THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU ALA LYS SEQRES 7 T 93 HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR LYS TYR SEQRES 8 T 93 THR SER HELIX 1 AA1 LEU H 141 GLY H 159 1 19 HELIX 2 AA2 ASN H 172 LEU H 176 5 5 HELIX 3 AA3 THR H 177 ARG H 188 1 12 HELIX 4 AA4 GLY M 44 SER M 57 1 14 HELIX 5 AA5 ARG M 63 GLN M 76 1 14 HELIX 6 AA6 GLN M 85 ALA M 114 1 30 HELIX 7 AA7 MET M 120 GLY M 132 1 13 HELIX 8 AA8 ASP N 24 ILE N 29 5 6 HELIX 9 AA9 THR N 30 GLY N 41 1 12 HELIX 10 AB1 LEU N 49 ALA N 76 1 28 HELIX 11 AB2 THR N 82 GLN N 93 1 12 HELIX 12 AB3 THR O 16 GLY O 22 1 7 HELIX 13 AB4 PRO O 26 GLY O 37 1 12 HELIX 14 AB5 ALA O 45 ASN O 73 1 29 HELIX 15 AB6 ILE O 79 ASP O 90 1 12 HELIX 16 AB7 ASP O 90 LEU O 97 1 8 HELIX 17 AB8 GLN O 112 LEU O 116 5 5 HELIX 18 AB9 TYR P 37 LYS P 46 1 10 HELIX 19 AC1 SER P 55 ASN P 84 1 30 HELIX 20 AC2 THR P 90 LEU P 102 1 13 HELIX 21 AC3 PRO P 103 LYS P 125 1 23 HELIX 22 AC4 THR Q 45 SER Q 57 1 13 HELIX 23 AC5 ARG Q 63 GLN Q 76 1 14 HELIX 24 AC6 SER Q 87 ALA Q 114 1 28 HELIX 25 AC7 MET Q 120 ARG Q 131 1 12 HELIX 26 AC8 ASN R 25 ILE R 29 5 5 HELIX 27 AC9 THR R 30 GLY R 41 1 12 HELIX 28 AD1 LEU R 49 ALA R 76 1 28 HELIX 29 AD2 THR R 82 GLN R 93 1 12 HELIX 30 AD3 THR S 16 GLY S 22 1 7 HELIX 31 AD4 PRO S 26 GLY S 37 1 12 HELIX 32 AD5 ALA S 45 ASN S 73 1 29 HELIX 33 AD6 ILE S 79 ASP S 90 1 12 HELIX 34 AD7 ASP S 90 LEU S 97 1 8 HELIX 35 AD8 GLN S 112 LEU S 116 5 5 HELIX 36 AD9 TYR T 37 HIS T 49 1 13 HELIX 37 AE1 SER T 55 TYR T 83 1 29 HELIX 38 AE2 THR T 90 LEU T 102 1 13 HELIX 39 AE3 GLY T 104 SER T 123 1 20 SHEET 1 AA1 2 ARG M 83 PHE M 84 0 SHEET 2 AA1 2 THR N 80 VAL N 81 1 O VAL N 81 N ARG M 83 SHEET 1 AA2 2 THR M 118 ILE M 119 0 SHEET 2 AA2 2 ARG N 45 ILE N 46 1 O ARG N 45 N ILE M 119 SHEET 1 AA3 2 THR N 96 TYR N 98 0 SHEET 2 AA3 2 VAL S 100 ILE S 102 1 O THR S 101 N THR N 96 SHEET 1 AA4 2 ARG O 42 VAL O 43 0 SHEET 2 AA4 2 THR P 88 ILE P 89 1 O ILE P 89 N ARG O 42 SHEET 1 AA5 2 ARG O 77 ILE O 78 0 SHEET 2 AA5 2 GLY P 53 ILE P 54 1 O GLY P 53 N ILE O 78 SHEET 1 AA6 2 VAL O 100 ILE O 102 0 SHEET 2 AA6 2 THR R 96 TYR R 98 1 O TYR R 98 N THR O 101 SHEET 1 AA7 2 ARG Q 83 PHE Q 84 0 SHEET 2 AA7 2 THR R 80 VAL R 81 1 O VAL R 81 N ARG Q 83 SHEET 1 AA8 2 THR Q 118 ILE Q 119 0 SHEET 2 AA8 2 ARG R 45 ILE R 46 1 O ARG R 45 N ILE Q 119 SHEET 1 AA9 2 ARG S 42 VAL S 43 0 SHEET 2 AA9 2 THR T 88 ILE T 89 1 O ILE T 89 N ARG S 42 SHEET 1 AB1 2 ARG S 77 ILE S 78 0 SHEET 2 AB1 2 GLY T 53 ILE T 54 1 O GLY T 53 N ILE S 78 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 TER 405 SER H 189 TER 3274 DA K 81 TER 6106 DT L 57 TER 6863 ALA M 135 TER 7517 GLY N 102 TER 8338 LYS O 118 TER 9094 LYS P 125 TER 9920 ALA Q 135 TER 10548 GLY R 102 TER 11403 LYS S 118 TER 12136 SER T 123 MASTER 273 0 0 39 20 0 0 612125 11 0 90 END