HEADER NUCLEAR PROTEIN/DNA 01-FEB-25 9LRV TITLE CRYO-EM STRUCTURE OF FISSION YEAST CENTROMERIC NUCLEOSOME CLASS 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE H3-LIKE CENTROMERIC PROTEIN CNP1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CENTROMERE PROTEIN 1,CENP-A HOMOLOG,CENPA HOMOLOG,SILENCING COMPND 5 IN THE MIDDLE OF THE CENTROMERE PROTEIN 2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HISTONE H4; COMPND 9 CHAIN: B, F; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: HISTONE H2A-ALPHA; COMPND 13 CHAIN: C, G; COMPND 14 SYNONYM: H2A.1; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: HISTONE H2B-ALPHA; COMPND 18 CHAIN: D, H; COMPND 19 SYNONYM: H2B.1; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 5; COMPND 22 MOLECULE: HISTONE H3-LIKE CENTROMERIC PROTEIN CNP1; COMPND 23 CHAIN: E; COMPND 24 SYNONYM: CENTROMERE PROTEIN 1,CENP-A HOMOLOG,CENPA HOMOLOG,SILENCING COMPND 25 IN THE MIDDLE OF THE CENTROMERE PROTEIN 2; COMPND 26 ENGINEERED: YES; COMPND 27 MOL_ID: 6; COMPND 28 MOLECULE: DNA (144-MER); COMPND 29 CHAIN: I; COMPND 30 ENGINEERED: YES; COMPND 31 MOL_ID: 7; COMPND 32 MOLECULE: DNA (144-MER); COMPND 33 CHAIN: J; COMPND 34 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 3 24843); SOURCE 4 ORGANISM_COMMON: FISSION YEAST; SOURCE 5 ORGANISM_TAXID: 284812; SOURCE 6 GENE: CNP1, SIM2, SPBC1105.17; SOURCE 7 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 905932; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 11 24843); SOURCE 12 ORGANISM_COMMON: FISSION YEAST; SOURCE 13 ORGANISM_TAXID: 284812; SOURCE 14 GENE: HHF1, H4.1, SPAC1834.03C, HHF2, H4.2, PI061, SPBC8D2.03C, SOURCE 15 HHF3, H4.3, SPBC1105.12; SOURCE 16 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 905932; SOURCE 18 MOL_ID: 3; SOURCE 19 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 20 24843); SOURCE 21 ORGANISM_COMMON: FISSION YEAST; SOURCE 22 ORGANISM_TAXID: 284812; SOURCE 23 GENE: HTA1, SPCC622.08C; SOURCE 24 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 25 EXPRESSION_SYSTEM_TAXID: 905932; SOURCE 26 MOL_ID: 4; SOURCE 27 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 28 24843); SOURCE 29 ORGANISM_COMMON: FISSION YEAST; SOURCE 30 ORGANISM_TAXID: 284812; SOURCE 31 GENE: HTB1, SPCC622.09; SOURCE 32 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 33 EXPRESSION_SYSTEM_TAXID: 905932; SOURCE 34 MOL_ID: 5; SOURCE 35 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 36 24843); SOURCE 37 ORGANISM_COMMON: FISSION YEAST; SOURCE 38 ORGANISM_TAXID: 284812; SOURCE 39 GENE: CNP1, SIM2, SPBC1105.17; SOURCE 40 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 41 EXPRESSION_SYSTEM_TAXID: 905932; SOURCE 42 MOL_ID: 6; SOURCE 43 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 44 24843); SOURCE 45 ORGANISM_COMMON: FISSION YEAST; SOURCE 46 ORGANISM_TAXID: 284812; SOURCE 47 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 48 EXPRESSION_SYSTEM_TAXID: 905932; SOURCE 49 MOL_ID: 7; SOURCE 50 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE (STRAIN 972 / ATCC SOURCE 51 24843); SOURCE 52 ORGANISM_COMMON: FISSION YEAST; SOURCE 53 ORGANISM_TAXID: 284812; SOURCE 54 EXPRESSION_SYSTEM: IN VITRO TRANSCRIPTION VECTOR PT7-FLUC(DELTAI); SOURCE 55 EXPRESSION_SYSTEM_TAXID: 905932 KEYWDS NUCLEOSOME DYNAMICS, CENP-A, CNP1, KINETOCHORE ASSEMBLY, CHROMOSOME KEYWDS 2 SEGREGATION, NUCLEAR PROTEIN/DNA, NUCLEAR PROTEIN-DNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR Y.XIONG,J.ZANG REVDAT 1 04-FEB-26 9LRV 0 JRNL AUTH Y.XIONG,Y.JIAN,Y.ZHANG,M.ZHANG,X.ZHANG,K.ZHANG,C.FU,T.TIAN, JRNL AUTH 2 J.ZANG JRNL TITL CNP1 N-TERMINAL DYNAMICS REGULATE L1 LOOP RECOGNITION BY JRNL TITL 2 MIS15 TO ORCHESTRATE KINETOCHORE ASSEMBLY IN JRNL TITL 3 SCHIZOSACCHAROMYCES POMBE. JRNL REF J MOL CELL BIOL 2025 JRNL REFN ESSN 1759-4685 JRNL PMID 41453208 JRNL DOI 10.1093/JMCB/MJAF056 REMARK 2 REMARK 2 RESOLUTION. 2.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : PHENIX, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL 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) : 2.990 REMARK 3 NUMBER OF PARTICLES : 429911 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9LRV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 05-FEB-25. REMARK 100 THE DEPOSITION ID IS D_1300056317. 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 : CRYO-EM DENSITY MAPS OF THE REMARK 245 CNP1 NUCLEOSOME, WITH CLASS 1 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.20 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 : 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 : FEI MORGAGNI REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1200.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 3000.00 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) : 5500.00 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: DECAMERIC 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 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 LYS A 3 REMARK 465 LYS A 4 REMARK 465 SER A 5 REMARK 465 LEU A 6 REMARK 465 MET A 7 REMARK 465 ALA A 8 REMARK 465 GLU A 9 REMARK 465 PRO A 10 REMARK 465 GLY A 11 REMARK 465 ASP A 12 REMARK 465 PRO A 13 REMARK 465 ILE A 14 REMARK 465 PRO A 15 REMARK 465 ARG A 16 REMARK 465 PRO A 17 REMARK 465 ARG A 18 REMARK 465 LYS A 19 REMARK 465 LYS A 20 REMARK 465 ARG A 21 REMARK 465 TYR A 22 REMARK 465 ARG A 23 REMARK 465 ALA A 120 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLY B 3 REMARK 465 ARG B 4 REMARK 465 GLY B 5 REMARK 465 LYS B 6 REMARK 465 GLY B 7 REMARK 465 GLY B 8 REMARK 465 LYS B 9 REMARK 465 GLY B 10 REMARK 465 LEU B 11 REMARK 465 GLY B 12 REMARK 465 LYS B 13 REMARK 465 GLY B 14 REMARK 465 GLY B 15 REMARK 465 ALA B 16 REMARK 465 LYS B 17 REMARK 465 ARG B 18 REMARK 465 HIS B 19 REMARK 465 ARG B 20 REMARK 465 LYS B 21 REMARK 465 ILE B 22 REMARK 465 LEU B 23 REMARK 465 ARG B 24 REMARK 465 GLY B 103 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 GLY C 3 REMARK 465 GLY C 4 REMARK 465 LYS C 5 REMARK 465 SER C 6 REMARK 465 GLY C 7 REMARK 465 GLY C 8 REMARK 465 LYS C 9 REMARK 465 ALA C 10 REMARK 465 ALA C 11 REMARK 465 VAL C 12 REMARK 465 ALA C 13 REMARK 465 LYS C 14 REMARK 465 LYS C 120 REMARK 465 THR C 121 REMARK 465 SER C 122 REMARK 465 GLY C 123 REMARK 465 ARG C 124 REMARK 465 THR C 125 REMARK 465 GLY C 126 REMARK 465 LYS C 127 REMARK 465 PRO C 128 REMARK 465 SER C 129 REMARK 465 GLN C 130 REMARK 465 GLU C 131 REMARK 465 LEU C 132 REMARK 465 MET D 1 REMARK 465 SER D 2 REMARK 465 ALA D 3 REMARK 465 ALA D 4 REMARK 465 GLU D 5 REMARK 465 LYS D 6 REMARK 465 LYS D 7 REMARK 465 PRO D 8 REMARK 465 ALA D 9 REMARK 465 SER D 10 REMARK 465 LYS D 11 REMARK 465 ALA D 12 REMARK 465 PRO D 13 REMARK 465 ALA D 14 REMARK 465 GLY D 15 REMARK 465 LYS D 16 REMARK 465 ALA D 17 REMARK 465 PRO D 18 REMARK 465 ARG D 19 REMARK 465 ASP D 20 REMARK 465 THR D 21 REMARK 465 MET D 22 REMARK 465 LYS D 23 REMARK 465 SER D 24 REMARK 465 ALA D 25 REMARK 465 ASP D 26 REMARK 465 LYS D 27 REMARK 465 LYS D 28 REMARK 465 ARG D 29 REMARK 465 GLY D 30 REMARK 465 SER D 124 REMARK 465 ALA D 125 REMARK 465 GLN D 126 REMARK 465 MET E 1 REMARK 465 ALA E 2 REMARK 465 LYS E 3 REMARK 465 LYS E 4 REMARK 465 SER E 5 REMARK 465 LEU E 6 REMARK 465 MET E 7 REMARK 465 ALA E 8 REMARK 465 GLU E 9 REMARK 465 PRO E 10 REMARK 465 GLY E 11 REMARK 465 ASP E 12 REMARK 465 PRO E 13 REMARK 465 ILE E 14 REMARK 465 PRO E 15 REMARK 465 ARG E 16 REMARK 465 PRO E 17 REMARK 465 ARG E 18 REMARK 465 LYS E 19 REMARK 465 ALA E 120 REMARK 465 MET F 1 REMARK 465 SER F 2 REMARK 465 GLY F 3 REMARK 465 ARG F 4 REMARK 465 GLY F 5 REMARK 465 LYS F 6 REMARK 465 GLY F 7 REMARK 465 GLY F 8 REMARK 465 LYS F 9 REMARK 465 GLY F 10 REMARK 465 LEU F 11 REMARK 465 GLY F 12 REMARK 465 LYS F 13 REMARK 465 GLY F 14 REMARK 465 GLY F 15 REMARK 465 ALA F 16 REMARK 465 LYS F 17 REMARK 465 ARG F 18 REMARK 465 HIS F 19 REMARK 465 ARG F 20 REMARK 465 LYS F 21 REMARK 465 ILE F 22 REMARK 465 LEU F 23 REMARK 465 ARG F 24 REMARK 465 MET G 1 REMARK 465 SER G 2 REMARK 465 GLY G 3 REMARK 465 GLY G 4 REMARK 465 LYS G 5 REMARK 465 SER G 6 REMARK 465 GLY G 7 REMARK 465 GLY G 8 REMARK 465 LYS G 9 REMARK 465 ALA G 10 REMARK 465 ALA G 11 REMARK 465 VAL G 12 REMARK 465 ALA G 13 REMARK 465 LYS G 14 REMARK 465 ASN G 112 REMARK 465 ILE G 113 REMARK 465 ASN G 114 REMARK 465 ALA G 115 REMARK 465 HIS G 116 REMARK 465 LEU G 117 REMARK 465 LEU G 118 REMARK 465 PRO G 119 REMARK 465 LYS G 120 REMARK 465 THR G 121 REMARK 465 SER G 122 REMARK 465 GLY G 123 REMARK 465 ARG G 124 REMARK 465 THR G 125 REMARK 465 GLY G 126 REMARK 465 LYS G 127 REMARK 465 PRO G 128 REMARK 465 SER G 129 REMARK 465 GLN G 130 REMARK 465 GLU G 131 REMARK 465 LEU G 132 REMARK 465 MET H 1 REMARK 465 SER H 2 REMARK 465 ALA H 3 REMARK 465 ALA H 4 REMARK 465 GLU H 5 REMARK 465 LYS H 6 REMARK 465 LYS H 7 REMARK 465 PRO H 8 REMARK 465 ALA H 9 REMARK 465 SER H 10 REMARK 465 LYS H 11 REMARK 465 ALA H 12 REMARK 465 PRO H 13 REMARK 465 ALA H 14 REMARK 465 GLY H 15 REMARK 465 LYS H 16 REMARK 465 ALA H 17 REMARK 465 PRO H 18 REMARK 465 ARG H 19 REMARK 465 ASP H 20 REMARK 465 THR H 21 REMARK 465 MET H 22 REMARK 465 LYS H 23 REMARK 465 SER H 24 REMARK 465 ALA H 25 REMARK 465 ASP H 26 REMARK 465 LYS H 27 REMARK 465 LYS H 28 REMARK 465 ARG H 29 REMARK 465 GLY H 30 REMARK 465 ALA H 125 REMARK 465 GLN H 126 REMARK 465 DA I -73 REMARK 465 DA I 72 REMARK 465 DT I 73 REMARK 465 DA J -73 REMARK 465 DT J -72 REMARK 465 DT J 73 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 PRO A 24 CG CD REMARK 470 ARG A 37 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 40 CG OD1 OD2 REMARK 470 GLU A 54 CG CD OE1 OE2 REMARK 470 GLU A 58 CG CD OE1 OE2 REMARK 470 VAL A 60 CG1 CG2 REMARK 470 ASN A 62 CG OD1 ND2 REMARK 470 PHE A 63 CG CD1 CD2 CE1 CE2 CZ REMARK 470 SER A 64 OG REMARK 470 THR A 65 OG1 CG2 REMARK 470 ASP A 66 CG OD1 OD2 REMARK 470 VAL A 67 CG1 CG2 REMARK 470 GLU A 81 CG CD OE1 OE2 REMARK 470 ASP B 25 CG OD1 OD2 REMARK 470 LYS D 31 CG CD CE NZ REMARK 470 ASN D 32 CG OD1 ND2 REMARK 470 LYS D 34 CG CD CE NZ REMARK 470 LYS E 20 CG CD CE NZ REMARK 470 ARG E 21 CG CD NE CZ NH1 NH2 REMARK 470 ARG E 23 CG CD NE CZ NH1 NH2 REMARK 470 GLU E 54 CG CD OE1 OE2 REMARK 470 ASN E 62 CG OD1 ND2 REMARK 470 PHE E 63 CG CD1 CD2 CE1 CE2 CZ REMARK 470 SER E 64 OG REMARK 470 THR E 65 OG1 CG2 REMARK 470 ASP E 66 CG OD1 OD2 REMARK 470 VAL E 67 CG1 CG2 REMARK 470 GLN G 17 CG CD OE1 NE2 REMARK 470 GLU G 93 CG CD OE1 OE2 REMARK 470 HIS G 101 CG ND1 CD2 CE1 NE2 REMARK 470 LYS H 31 CG CD CE NZ REMARK 470 LYS H 34 CG CD CE NZ REMARK 470 GLU H 71 CG CD OE1 OE2 REMARK 470 DT I -72 P OP1 OP2 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 DT I 38 O4' - C1' - N1 ANGL. DEV. = 2.4 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 ASP E 66 -1.61 67.03 REMARK 500 LYS E 102 61.14 60.71 REMARK 500 HIS G 101 36.13 -99.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-10822 RELATED DB: EMDB REMARK 900 CENP-A NUCLEOSOME CORE PARTICLE WITH 145 BASE PAIRS OF THE WIDOM REMARK 900 601 SEQUENCE REMARK 900 RELATED ID: EMD-63344 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF FISSION YEAST CENTROMERIC NUCLEOSOME CLASS 1 DBREF 9LRV A 1 120 UNP Q9Y812 CENPA_SCHPO 1 120 DBREF 9LRV B 1 103 UNP P09322 H4_SCHPO 1 103 DBREF 9LRV C 1 132 UNP P04909 H2A1_SCHPO 1 132 DBREF 9LRV D 1 126 UNP P04913 H2B1_SCHPO 1 126 DBREF 9LRV E 1 120 UNP Q9Y812 CENPA_SCHPO 1 120 DBREF 9LRV F 1 103 UNP P09322 H4_SCHPO 1 103 DBREF 9LRV G 1 132 UNP P04909 H2A1_SCHPO 1 132 DBREF 9LRV H 1 126 UNP P04913 H2B1_SCHPO 1 126 DBREF 9LRV I -73 73 PDB 9LRV 9LRV -73 73 DBREF 9LRV J -73 73 PDB 9LRV 9LRV -73 73 SEQADV 9LRV HIS A -5 UNP Q9Y812 EXPRESSION TAG SEQADV 9LRV HIS A -4 UNP Q9Y812 EXPRESSION TAG SEQADV 9LRV HIS A -3 UNP Q9Y812 EXPRESSION TAG SEQADV 9LRV HIS A -2 UNP Q9Y812 EXPRESSION TAG SEQADV 9LRV HIS A -1 UNP Q9Y812 EXPRESSION TAG SEQADV 9LRV HIS A 0 UNP Q9Y812 EXPRESSION TAG SEQRES 1 A 126 HIS HIS HIS HIS HIS HIS MET ALA LYS LYS SER LEU MET SEQRES 2 A 126 ALA GLU PRO GLY ASP PRO ILE PRO ARG PRO ARG LYS LYS SEQRES 3 A 126 ARG TYR ARG PRO GLY THR THR ALA LEU ARG GLU ILE ARG SEQRES 4 A 126 LYS TYR GLN ARG SER THR ASP LEU LEU ILE GLN ARG LEU SEQRES 5 A 126 PRO PHE SER ARG ILE VAL ARG GLU ILE SER SER GLU PHE SEQRES 6 A 126 VAL ALA ASN PHE SER THR ASP VAL GLY LEU ARG TRP GLN SEQRES 7 A 126 SER THR ALA LEU GLN CYS LEU GLN GLU ALA ALA GLU ALA SEQRES 8 A 126 PHE LEU VAL HIS LEU PHE GLU ASP THR ASN LEU CYS ALA SEQRES 9 A 126 ILE HIS ALA LYS ARG VAL THR ILE MET GLN ARG ASP MET SEQRES 10 A 126 GLN LEU ALA ARG ARG ILE ARG GLY ALA SEQRES 1 B 103 MET SER GLY ARG GLY LYS GLY GLY LYS GLY LEU GLY LYS SEQRES 2 B 103 GLY GLY ALA LYS ARG HIS ARG LYS ILE LEU ARG ASP ASN SEQRES 3 B 103 ILE GLN GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA SEQRES 4 B 103 ARG ARG GLY GLY VAL LYS ARG ILE SER ALA LEU VAL TYR SEQRES 5 B 103 GLU GLU THR ARG ALA VAL LEU LYS LEU PHE LEU GLU ASN SEQRES 6 B 103 VAL ILE ARG ASP ALA VAL THR TYR THR GLU HIS ALA LYS SEQRES 7 B 103 ARG LYS THR VAL THR SER LEU ASP VAL VAL TYR SER LEU SEQRES 8 B 103 LYS ARG GLN GLY ARG THR ILE TYR GLY PHE GLY GLY SEQRES 1 C 132 MET SER GLY GLY LYS SER GLY GLY LYS ALA ALA VAL ALA SEQRES 2 C 132 LYS SER ALA GLN SER ARG SER ALA LYS ALA GLY LEU ALA SEQRES 3 C 132 PHE PRO VAL GLY ARG VAL HIS ARG LEU LEU ARG LYS GLY SEQRES 4 C 132 ASN TYR ALA GLN ARG VAL GLY ALA GLY ALA PRO VAL TYR SEQRES 5 C 132 LEU ALA ALA VAL LEU GLU TYR LEU ALA ALA GLU ILE LEU SEQRES 6 C 132 GLU LEU ALA GLY ASN ALA ALA ARG ASP ASN LYS LYS THR SEQRES 7 C 132 ARG ILE ILE PRO ARG HIS LEU GLN LEU ALA ILE ARG ASN SEQRES 8 C 132 ASP GLU GLU LEU ASN LYS LEU LEU GLY HIS VAL THR ILE SEQRES 9 C 132 ALA GLN GLY GLY VAL VAL PRO ASN ILE ASN ALA HIS LEU SEQRES 10 C 132 LEU PRO LYS THR SER GLY ARG THR GLY LYS PRO SER GLN SEQRES 11 C 132 GLU LEU SEQRES 1 D 126 MET SER ALA ALA GLU LYS LYS PRO ALA SER LYS ALA PRO SEQRES 2 D 126 ALA GLY LYS ALA PRO ARG ASP THR MET LYS SER ALA ASP SEQRES 3 D 126 LYS LYS ARG GLY LYS ASN ARG LYS GLU THR TYR SER SER SEQRES 4 D 126 TYR ILE TYR LYS VAL LEU LYS GLN VAL HIS PRO ASP THR SEQRES 5 D 126 GLY ILE SER ASN GLN ALA MET ARG ILE LEU ASN SER PHE SEQRES 6 D 126 VAL ASN ASP ILE PHE GLU ARG ILE ALA THR GLU ALA SER SEQRES 7 D 126 LYS LEU ALA ALA TYR ASN LYS LYS SER THR ILE SER SER SEQRES 8 D 126 ARG GLU ILE GLN THR ALA VAL ARG LEU ILE LEU PRO GLY SEQRES 9 D 126 GLU LEU ALA LYS HIS ALA VAL THR GLU GLY THR LYS SER SEQRES 10 D 126 VAL THR LYS TYR SER SER SER ALA GLN SEQRES 1 E 120 MET ALA LYS LYS SER LEU MET ALA GLU PRO GLY ASP PRO SEQRES 2 E 120 ILE PRO ARG PRO ARG LYS LYS ARG TYR ARG PRO GLY THR SEQRES 3 E 120 THR ALA LEU ARG GLU ILE ARG LYS TYR GLN ARG SER THR SEQRES 4 E 120 ASP LEU LEU ILE GLN ARG LEU PRO PHE SER ARG ILE VAL SEQRES 5 E 120 ARG GLU ILE SER SER GLU PHE VAL ALA ASN PHE SER THR SEQRES 6 E 120 ASP VAL GLY LEU ARG TRP GLN SER THR ALA LEU GLN CYS SEQRES 7 E 120 LEU GLN GLU ALA ALA GLU ALA PHE LEU VAL HIS LEU PHE SEQRES 8 E 120 GLU ASP THR ASN LEU CYS ALA ILE HIS ALA LYS ARG VAL SEQRES 9 E 120 THR ILE MET GLN ARG ASP MET GLN LEU ALA ARG ARG ILE SEQRES 10 E 120 ARG GLY ALA SEQRES 1 F 103 MET SER GLY ARG GLY LYS GLY GLY LYS GLY LEU GLY LYS SEQRES 2 F 103 GLY GLY ALA LYS ARG HIS ARG LYS ILE LEU ARG ASP ASN SEQRES 3 F 103 ILE GLN GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA SEQRES 4 F 103 ARG ARG GLY GLY VAL LYS ARG ILE SER ALA LEU VAL TYR SEQRES 5 F 103 GLU GLU THR ARG ALA VAL LEU LYS LEU PHE LEU GLU ASN SEQRES 6 F 103 VAL ILE ARG ASP ALA VAL THR TYR THR GLU HIS ALA LYS SEQRES 7 F 103 ARG LYS THR VAL THR SER LEU ASP VAL VAL TYR SER LEU SEQRES 8 F 103 LYS ARG GLN GLY ARG THR ILE TYR GLY PHE GLY GLY SEQRES 1 G 132 MET SER GLY GLY LYS SER GLY GLY LYS ALA ALA VAL ALA SEQRES 2 G 132 LYS SER ALA GLN SER ARG SER ALA LYS ALA GLY LEU ALA SEQRES 3 G 132 PHE PRO VAL GLY ARG VAL HIS ARG LEU LEU ARG LYS GLY SEQRES 4 G 132 ASN TYR ALA GLN ARG VAL GLY ALA GLY ALA PRO VAL TYR SEQRES 5 G 132 LEU ALA ALA VAL LEU GLU TYR LEU ALA ALA GLU ILE LEU SEQRES 6 G 132 GLU LEU ALA GLY ASN ALA ALA ARG ASP ASN LYS LYS THR SEQRES 7 G 132 ARG ILE ILE PRO ARG HIS LEU GLN LEU ALA ILE ARG ASN SEQRES 8 G 132 ASP GLU GLU LEU ASN LYS LEU LEU GLY HIS VAL THR ILE SEQRES 9 G 132 ALA GLN GLY GLY VAL VAL PRO ASN ILE ASN ALA HIS LEU SEQRES 10 G 132 LEU PRO LYS THR SER GLY ARG THR GLY LYS PRO SER GLN SEQRES 11 G 132 GLU LEU SEQRES 1 H 126 MET SER ALA ALA GLU LYS LYS PRO ALA SER LYS ALA PRO SEQRES 2 H 126 ALA GLY LYS ALA PRO ARG ASP THR MET LYS SER ALA ASP SEQRES 3 H 126 LYS LYS ARG GLY LYS ASN ARG LYS GLU THR TYR SER SER SEQRES 4 H 126 TYR ILE TYR LYS VAL LEU LYS GLN VAL HIS PRO ASP THR SEQRES 5 H 126 GLY ILE SER ASN GLN ALA MET ARG ILE LEU ASN SER PHE SEQRES 6 H 126 VAL ASN ASP ILE PHE GLU ARG ILE ALA THR GLU ALA SER SEQRES 7 H 126 LYS LEU ALA ALA TYR ASN LYS LYS SER THR ILE SER SER SEQRES 8 H 126 ARG GLU ILE GLN THR ALA VAL ARG LEU ILE LEU PRO GLY SEQRES 9 H 126 GLU LEU ALA LYS HIS ALA VAL THR GLU GLY THR LYS SER SEQRES 10 H 126 VAL THR LYS TYR SER SER SER ALA GLN SEQRES 1 I 147 DA DT DC DG DA DG DA DA DT DC DC DC DG SEQRES 2 I 147 DG DT DG DC DC DG DA DG DG DC DC DG DC SEQRES 3 I 147 DT DC DA DA DT DT DG DG DT DC DG DT DA SEQRES 4 I 147 DG DA DC DA DG DC DT DC DT DA DG DC DA SEQRES 5 I 147 DC DC DG DC DT DT DA DA DA DC DG DC DA SEQRES 6 I 147 DC DG DT DA DC DG DC DG DC DT DG DT DC SEQRES 7 I 147 DC DC DC DC DG DC DG DT DT DT DT DA DA SEQRES 8 I 147 DC DC DG DC DC DA DA DG DG DG DG DA DT SEQRES 9 I 147 DT DA DC DT DC DC DC DT DA DG DT DC DT SEQRES 10 I 147 DC DC DA DG DG DC DA DC DG DT DG DT DC SEQRES 11 I 147 DA DC DA DT DA DT DA DT DA DC DA DT DC SEQRES 12 I 147 DC DG DA DT SEQRES 1 J 147 DA DT DC DG DG DA DT DG DT DA DT DA DT SEQRES 2 J 147 DA DT DG DT DG DA DC DA DC DG DT DG DC SEQRES 3 J 147 DC DT DG DG DA DG DA DC DT DA DG DG DG SEQRES 4 J 147 DA DG DT DA DA DT DC DC DC DC DT DT DG SEQRES 5 J 147 DG DC DG DG DT DT DA DA DA DA DC DG DC SEQRES 6 J 147 DG DG DG DG DG DA DC DA DG DC DG DC DG SEQRES 7 J 147 DT DA DC DG DT DG DC DG DT DT DT DA DA SEQRES 8 J 147 DG DC DG DG DT DG DC DT DA DG DA DG DC SEQRES 9 J 147 DT DG DT DC DT DA DC DG DA DC DC DA DA SEQRES 10 J 147 DT DT DG DA DG DC DG DG DC DC DT DC DG SEQRES 11 J 147 DG DC DA DC DC DG DG DG DA DT DT DC DT SEQRES 12 J 147 DC DG DA DT HELIX 1 AA1 GLY A 25 SER A 38 1 14 HELIX 2 AA2 GLN A 44 ALA A 61 1 18 HELIX 3 AA3 GLN A 72 ALA A 101 1 30 HELIX 4 AA4 MET A 107 GLY A 119 1 13 HELIX 5 AA5 ASN B 26 ILE B 30 5 5 HELIX 6 AA6 THR B 31 GLY B 43 1 13 HELIX 7 AA7 ALA B 49 ALA B 77 1 29 HELIX 8 AA8 THR B 83 GLN B 94 1 12 HELIX 9 AA9 SER C 18 ALA C 23 1 6 HELIX 10 AB1 PRO C 28 LYS C 38 1 11 HELIX 11 AB2 ALA C 47 ASN C 75 1 29 HELIX 12 AB3 ILE C 81 ASN C 91 1 11 HELIX 13 AB4 ASP C 92 LEU C 99 1 8 HELIX 14 AB5 TYR D 37 HIS D 49 1 13 HELIX 15 AB6 SER D 55 ASN D 84 1 30 HELIX 16 AB7 SER D 90 LEU D 102 1 13 HELIX 17 AB8 GLY D 104 SER D 122 1 19 HELIX 18 AB9 GLY E 25 SER E 38 1 14 HELIX 19 AC1 GLN E 44 ASN E 62 1 19 HELIX 20 AC2 GLN E 72 ALA E 101 1 30 HELIX 21 AC3 MET E 107 GLY E 119 1 13 HELIX 22 AC4 ASP F 25 ILE F 30 5 6 HELIX 23 AC5 THR F 31 GLY F 42 1 12 HELIX 24 AC6 ALA F 49 ALA F 77 1 29 HELIX 25 AC7 THR F 83 ARG F 93 1 11 HELIX 26 AC8 SER G 18 GLY G 24 1 7 HELIX 27 AC9 PRO G 28 LYS G 38 1 11 HELIX 28 AD1 ALA G 47 ASN G 75 1 29 HELIX 29 AD2 ILE G 81 ASP G 92 1 12 HELIX 30 AD3 ASP G 92 LEU G 99 1 8 HELIX 31 AD4 TYR H 37 HIS H 49 1 13 HELIX 32 AD5 SER H 55 ASN H 84 1 30 HELIX 33 AD6 SER H 90 LEU H 102 1 13 HELIX 34 AD7 PRO H 103 SER H 124 1 22 SHEET 1 AA1 2 ARG A 70 TRP A 71 0 SHEET 2 AA1 2 THR B 81 VAL B 82 1 O VAL B 82 N ARG A 70 SHEET 1 AA2 2 THR A 105 ILE A 106 0 SHEET 2 AA2 2 ARG B 46 ILE B 47 1 O ARG B 46 N ILE A 106 SHEET 1 AA3 2 THR B 97 TYR B 99 0 SHEET 2 AA3 2 VAL G 102 ILE G 104 1 O THR G 103 N TYR B 99 SHEET 1 AA4 2 ARG C 79 ILE C 80 0 SHEET 2 AA4 2 GLY D 53 ILE D 54 1 O GLY D 53 N ILE C 80 SHEET 1 AA5 2 THR C 103 ILE C 104 0 SHEET 2 AA5 2 ILE F 98 TYR F 99 1 O TYR F 99 N THR C 103 SHEET 1 AA6 2 ARG E 70 TRP E 71 0 SHEET 2 AA6 2 THR F 81 VAL F 82 1 O VAL F 82 N ARG E 70 SHEET 1 AA7 2 THR E 105 ILE E 106 0 SHEET 2 AA7 2 ARG F 46 ILE F 47 1 O ARG F 46 N ILE E 106 SHEET 1 AA8 2 ARG G 44 VAL G 45 0 SHEET 2 AA8 2 THR H 88 ILE H 89 1 O ILE H 89 N ARG G 44 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 MASTER 418 0 0 34 16 0 0 611645 10 0 102 END