HEADER DNA BINDING PROTEIN/TRANSFERASE/DNA 07-JUN-23 8T3W TITLE STRUCTURE OF BRE1-NUCLEOSOME COMPLEX - STATE2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE H3.2; COMPND 3 CHAIN: A, E; COMPND 4 SYNONYM: HISTONE H3; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HISTONE H4; COMPND 8 CHAIN: B, F; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: HISTONE H2A TYPE 1; COMPND 12 CHAIN: C, G; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: HISTONE H2B; COMPND 16 CHAIN: D, H; COMPND 17 SYNONYM: H2B1.1; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 5; COMPND 20 MOLECULE: 601 DNA STRAND 1; COMPND 21 CHAIN: I; COMPND 22 ENGINEERED: YES; COMPND 23 MOL_ID: 6; COMPND 24 MOLECULE: 601 DNA STRAND 2; COMPND 25 CHAIN: J; COMPND 26 ENGINEERED: YES; COMPND 27 MOL_ID: 7; COMPND 28 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE BRE1; COMPND 29 CHAIN: K, L; COMPND 30 SYNONYM: BREFELDIN A-SENSITIVITY PROTEIN 1,RING-TYPE E3 UBIQUITIN COMPND 31 TRANSFERASE BRE1; COMPND 32 EC: 2.3.2.27; COMPND 33 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 9 ORGANISM_COMMON: AFRICAN CLAWED FROG; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 19 MOL_ID: 4; SOURCE 20 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 21 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 22 ORGANISM_TAXID: 8355; SOURCE 23 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 25 MOL_ID: 5; SOURCE 26 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 27 ORGANISM_TAXID: 32630; SOURCE 28 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 29 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 30 MOL_ID: 6; SOURCE 31 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 32 ORGANISM_TAXID: 32630; SOURCE 33 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 34 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 35 MOL_ID: 7; SOURCE 36 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 37 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 38 ORGANISM_TAXID: 4932; SOURCE 39 GENE: BRE1, YDL074C; SOURCE 40 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 41 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS H2B UBIQUITIN, NUCLEOSOME ACIDIC PATCH BINDING PROTEIN, DNA BINDING KEYWDS 2 PROTEIN-TRANSFERASE-DNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR F.ZHAO,C.W.HICKS,C.WOLBERGER REVDAT 4 22-NOV-23 8T3W 1 JRNL REVDAT 3 08-NOV-23 8T3W 1 JRNL REVDAT 2 01-NOV-23 8T3W 1 JRNL REVDAT 1 18-OCT-23 8T3W 0 JRNL AUTH F.ZHAO,C.W.HICKS,C.WOLBERGER JRNL TITL MECHANISM OF HISTONE H2B MONOUBIQUITINATION BY BRE1. JRNL REF NAT.STRUCT.MOL.BIOL. V. 30 1623 2023 JRNL REFN ESSN 1545-9985 JRNL PMID 37872231 JRNL DOI 10.1038/S41594-023-01137-X REMARK 2 REMARK 2 RESOLUTION. 3.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : UCSF CHIMERAX, PHENIX, COOT 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 : 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) : 3.250 REMARK 3 NUMBER OF PARTICLES : 163909 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 8T3W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUN-23. REMARK 100 THE DEPOSITION ID IS D_1000275155. 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 : BRE1-NUCLEOSOME COMPLEX REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 1.00 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 TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1250.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2500.00 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) : 5002.00 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: DODECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H, I, J, REMARK 350 AND CHAINS: K, L 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 ALA A 1 REMARK 465 ARG A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 GLN A 5 REMARK 465 THR A 6 REMARK 465 ALA A 7 REMARK 465 ARG A 8 REMARK 465 LYS A 9 REMARK 465 SER A 10 REMARK 465 THR A 11 REMARK 465 GLY A 12 REMARK 465 GLY A 13 REMARK 465 LYS A 14 REMARK 465 ALA A 15 REMARK 465 PRO A 16 REMARK 465 ARG A 17 REMARK 465 LYS A 18 REMARK 465 GLN A 19 REMARK 465 LEU A 20 REMARK 465 ALA A 21 REMARK 465 THR A 22 REMARK 465 LYS A 23 REMARK 465 ALA A 24 REMARK 465 ALA A 25 REMARK 465 ARG A 26 REMARK 465 LYS A 27 REMARK 465 SER A 28 REMARK 465 ALA A 29 REMARK 465 PRO A 30 REMARK 465 ALA A 31 REMARK 465 THR A 32 REMARK 465 GLY A 33 REMARK 465 GLY A 34 REMARK 465 VAL A 35 REMARK 465 LYS A 36 REMARK 465 LYS A 37 REMARK 465 ARG A 134 REMARK 465 ALA A 135 REMARK 465 SER B 1 REMARK 465 GLY B 2 REMARK 465 ARG B 3 REMARK 465 GLY B 4 REMARK 465 LYS B 5 REMARK 465 GLY B 6 REMARK 465 GLY B 7 REMARK 465 LYS B 8 REMARK 465 GLY B 9 REMARK 465 LEU B 10 REMARK 465 GLY B 11 REMARK 465 LYS B 12 REMARK 465 GLY B 13 REMARK 465 GLY B 14 REMARK 465 ALA B 15 REMARK 465 LYS B 16 REMARK 465 ARG B 17 REMARK 465 HIS B 18 REMARK 465 ARG B 19 REMARK 465 LYS B 20 REMARK 465 VAL B 21 REMARK 465 LEU B 22 REMARK 465 ARG B 23 REMARK 465 ASP B 24 REMARK 465 SER C 1 REMARK 465 GLY C 2 REMARK 465 ARG C 3 REMARK 465 GLY C 4 REMARK 465 LYS C 5 REMARK 465 GLN C 6 REMARK 465 GLY C 7 REMARK 465 GLY C 8 REMARK 465 LYS C 9 REMARK 465 THR C 10 REMARK 465 ARG C 11 REMARK 465 ALA C 12 REMARK 465 LYS C 13 REMARK 465 LYS C 118 REMARK 465 LYS C 119 REMARK 465 THR C 120 REMARK 465 GLU C 121 REMARK 465 SER C 122 REMARK 465 SER C 123 REMARK 465 LYS C 124 REMARK 465 SER C 125 REMARK 465 ALA C 126 REMARK 465 LYS C 127 REMARK 465 SER C 128 REMARK 465 LYS C 129 REMARK 465 ALA D 4 REMARK 465 LYS D 5 REMARK 465 SER D 6 REMARK 465 ALA D 7 REMARK 465 PRO D 8 REMARK 465 ALA D 9 REMARK 465 PRO D 10 REMARK 465 LYS D 11 REMARK 465 LYS D 12 REMARK 465 GLY D 13 REMARK 465 SER D 14 REMARK 465 LYS D 15 REMARK 465 LYS D 16 REMARK 465 ALA D 17 REMARK 465 VAL D 18 REMARK 465 THR D 19 REMARK 465 LYS D 20 REMARK 465 THR D 21 REMARK 465 GLN D 22 REMARK 465 LYS D 23 REMARK 465 LYS D 24 REMARK 465 ASP D 25 REMARK 465 GLY D 26 REMARK 465 LYS D 27 REMARK 465 LYS D 28 REMARK 465 ARG D 29 REMARK 465 ARG D 30 REMARK 465 LYS D 31 REMARK 465 LYS D 125 REMARK 465 ALA E 1 REMARK 465 ARG E 2 REMARK 465 THR E 3 REMARK 465 LYS E 4 REMARK 465 GLN E 5 REMARK 465 THR E 6 REMARK 465 ALA E 7 REMARK 465 ARG E 8 REMARK 465 LYS E 9 REMARK 465 SER E 10 REMARK 465 THR E 11 REMARK 465 GLY E 12 REMARK 465 GLY E 13 REMARK 465 LYS E 14 REMARK 465 ALA E 15 REMARK 465 PRO E 16 REMARK 465 ARG E 17 REMARK 465 LYS E 18 REMARK 465 GLN E 19 REMARK 465 LEU E 20 REMARK 465 ALA E 21 REMARK 465 THR E 22 REMARK 465 LYS E 23 REMARK 465 ALA E 24 REMARK 465 ALA E 25 REMARK 465 ARG E 26 REMARK 465 LYS E 27 REMARK 465 SER E 28 REMARK 465 ALA E 29 REMARK 465 PRO E 30 REMARK 465 ALA E 31 REMARK 465 THR E 32 REMARK 465 GLY E 33 REMARK 465 GLY E 34 REMARK 465 VAL E 35 REMARK 465 LYS E 36 REMARK 465 LYS E 37 REMARK 465 ARG E 134 REMARK 465 ALA E 135 REMARK 465 SER F 1 REMARK 465 GLY F 2 REMARK 465 ARG F 3 REMARK 465 GLY F 4 REMARK 465 LYS F 5 REMARK 465 GLY F 6 REMARK 465 GLY F 7 REMARK 465 LYS F 8 REMARK 465 GLY F 9 REMARK 465 LEU F 10 REMARK 465 GLY F 11 REMARK 465 LYS F 12 REMARK 465 GLY F 13 REMARK 465 GLY F 14 REMARK 465 ALA F 15 REMARK 465 LYS F 16 REMARK 465 ARG F 17 REMARK 465 HIS F 18 REMARK 465 ARG F 19 REMARK 465 LYS F 20 REMARK 465 SER G 1 REMARK 465 GLY G 2 REMARK 465 ARG G 3 REMARK 465 GLY G 4 REMARK 465 LYS G 5 REMARK 465 GLN G 6 REMARK 465 GLY G 7 REMARK 465 GLY G 8 REMARK 465 LYS G 9 REMARK 465 THR G 10 REMARK 465 ARG G 11 REMARK 465 ALA G 12 REMARK 465 LYS G 13 REMARK 465 LYS G 119 REMARK 465 THR G 120 REMARK 465 GLU G 121 REMARK 465 SER G 122 REMARK 465 SER G 123 REMARK 465 LYS G 124 REMARK 465 SER G 125 REMARK 465 ALA G 126 REMARK 465 LYS G 127 REMARK 465 SER G 128 REMARK 465 LYS G 129 REMARK 465 ALA H 4 REMARK 465 LYS H 5 REMARK 465 SER H 6 REMARK 465 ALA H 7 REMARK 465 PRO H 8 REMARK 465 ALA H 9 REMARK 465 PRO H 10 REMARK 465 LYS H 11 REMARK 465 LYS H 12 REMARK 465 GLY H 13 REMARK 465 SER H 14 REMARK 465 LYS H 15 REMARK 465 LYS H 16 REMARK 465 ALA H 17 REMARK 465 VAL H 18 REMARK 465 THR H 19 REMARK 465 LYS H 20 REMARK 465 THR H 21 REMARK 465 GLN H 22 REMARK 465 LYS H 23 REMARK 465 LYS H 24 REMARK 465 ASP H 25 REMARK 465 GLY H 26 REMARK 465 LYS H 27 REMARK 465 LYS H 28 REMARK 465 ARG H 29 REMARK 465 ARG H 30 REMARK 465 LYS H 31 REMARK 465 LYS K 591 REMARK 465 LEU K 592 REMARK 465 ASN K 593 REMARK 465 ASP K 594 REMARK 465 THR K 595 REMARK 465 GLU K 596 REMARK 465 ILE K 597 REMARK 465 GLU K 598 REMARK 465 LEU K 599 REMARK 465 LYS K 600 REMARK 465 HIS K 601 REMARK 465 PHE K 602 REMARK 465 LYS K 603 REMARK 465 GLN K 604 REMARK 465 LYS K 605 REMARK 465 ALA K 606 REMARK 465 SER K 607 REMARK 465 HIS K 608 REMARK 465 LEU K 609 REMARK 465 GLU K 610 REMARK 465 SER K 611 REMARK 465 LYS K 612 REMARK 465 CYS K 613 REMARK 465 GLU K 614 REMARK 465 LYS K 615 REMARK 465 LEU K 616 REMARK 465 HIS K 617 REMARK 465 ASP K 618 REMARK 465 THR K 619 REMARK 465 LEU K 620 REMARK 465 PHE K 621 REMARK 465 ARG K 622 REMARK 465 GLY K 623 REMARK 465 ASN K 624 REMARK 465 ASN K 625 REMARK 465 LYS K 626 REMARK 465 ASN K 627 REMARK 465 LYS K 628 REMARK 465 GLY K 629 REMARK 465 SER K 630 REMARK 465 SER K 631 REMARK 465 LYS L 591 REMARK 465 LEU L 592 REMARK 465 ASN L 593 REMARK 465 ASP L 594 REMARK 465 THR L 595 REMARK 465 GLU L 596 REMARK 465 ILE L 597 REMARK 465 GLU L 598 REMARK 465 LEU L 599 REMARK 465 LYS L 600 REMARK 465 HIS L 601 REMARK 465 PHE L 602 REMARK 465 LYS L 603 REMARK 465 GLN L 604 REMARK 465 LYS L 605 REMARK 465 ALA L 606 REMARK 465 SER L 607 REMARK 465 HIS L 608 REMARK 465 LEU L 609 REMARK 465 GLU L 610 REMARK 465 SER L 611 REMARK 465 LYS L 612 REMARK 465 CYS L 613 REMARK 465 GLU L 614 REMARK 465 LYS L 615 REMARK 465 LEU L 616 REMARK 465 HIS L 617 REMARK 465 ASP L 618 REMARK 465 THR L 619 REMARK 465 LEU L 620 REMARK 465 PHE L 621 REMARK 465 ARG L 622 REMARK 465 GLY L 623 REMARK 465 ASN L 624 REMARK 465 ASN L 625 REMARK 465 LYS L 626 REMARK 465 ASN L 627 REMARK 465 LYS L 628 REMARK 465 GLY L 629 REMARK 465 SER L 630 REMARK 465 SER L 631 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 THR A 58 1.49 -152.27 REMARK 500 LEU C 97 57.19 -93.03 REMARK 500 LYS G 36 54.33 -90.85 REMARK 500 LEU G 97 59.32 -95.44 REMARK 500 ASN L 687 76.92 53.37 REMARK 500 PHE L 690 -150.04 -153.31 REMARK 500 SER L 691 -161.50 -161.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN K 802 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS K 648 SG REMARK 620 2 CYS K 651 SG 112.8 REMARK 620 3 CYS K 668 SG 109.7 108.7 REMARK 620 4 CYS K 671 SG 117.7 111.7 94.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN K 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS K 663 SG REMARK 620 2 HIS K 665 ND1 72.8 REMARK 620 3 CYS K 683 SG 111.6 117.6 REMARK 620 4 CYS K 686 SG 112.3 126.4 109.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN L 802 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS L 648 SG REMARK 620 2 CYS L 651 SG 111.9 REMARK 620 3 CYS L 668 SG 106.3 108.2 REMARK 620 4 CYS L 671 SG 111.9 111.4 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN L 801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS L 663 SG REMARK 620 2 HIS L 665 ND1 60.4 REMARK 620 3 CYS L 683 SG 108.4 139.3 REMARK 620 4 CYS L 686 SG 110.9 151.8 68.1 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-41015 RELATED DB: EMDB REMARK 900 STRUCTURE OF BRE1-NUCLEOSOME COMPLEX - STATE2 DBREF 8T3W A 1 135 UNP P84233 H32_XENLA 2 136 DBREF 8T3W B 1 102 UNP P62799 H4_XENLA 2 103 DBREF 8T3W C 1 129 UNP P06897 H2A1_XENLA 2 130 DBREF 8T3W D 4 125 UNP P02281 H2B11_XENLA 5 126 DBREF 8T3W E 1 135 UNP P84233 H32_XENLA 2 136 DBREF 8T3W F 1 102 UNP P62799 H4_XENLA 2 103 DBREF 8T3W G 1 129 UNP P06897 H2A1_XENLA 2 130 DBREF 8T3W H 4 125 UNP P02281 H2B11_XENLA 5 126 DBREF 8T3W I 2 147 PDB 8T3W 8T3W 2 147 DBREF 8T3W J 1 146 PDB 8T3W 8T3W 1 146 DBREF 8T3W K 591 700 UNP Q07457 BRE1_YEAST 591 700 DBREF 8T3W L 591 700 UNP Q07457 BRE1_YEAST 591 700 SEQADV 8T3W ALA A 102 UNP P84233 GLY 103 VARIANT SEQADV 8T3W ARG C 99 UNP P06897 GLY 100 CONFLICT SEQADV 8T3W SER C 123 UNP P06897 ALA 124 CONFLICT SEQADV 8T3W THR D 32 UNP P02281 SER 33 VARIANT SEQADV 8T3W ALA E 102 UNP P84233 GLY 103 VARIANT SEQADV 8T3W ARG G 99 UNP P06897 GLY 100 CONFLICT SEQADV 8T3W SER G 123 UNP P06897 ALA 124 CONFLICT SEQADV 8T3W THR H 32 UNP P02281 SER 33 VARIANT SEQRES 1 A 135 ALA ARG THR LYS GLN THR ALA ARG LYS SER THR GLY GLY SEQRES 2 A 135 LYS ALA PRO ARG LYS GLN LEU ALA THR LYS ALA ALA ARG SEQRES 3 A 135 LYS SER ALA PRO ALA THR GLY GLY VAL LYS LYS PRO HIS SEQRES 4 A 135 ARG TYR ARG PRO GLY THR VAL ALA LEU ARG GLU ILE ARG SEQRES 5 A 135 ARG TYR GLN LYS SER THR GLU LEU LEU ILE ARG LYS LEU SEQRES 6 A 135 PRO PHE GLN ARG LEU VAL ARG GLU ILE ALA GLN ASP PHE SEQRES 7 A 135 LYS THR ASP LEU ARG PHE GLN SER SER ALA VAL MET ALA SEQRES 8 A 135 LEU GLN GLU ALA SER GLU ALA TYR LEU VAL ALA LEU PHE SEQRES 9 A 135 GLU ASP THR ASN LEU CYS ALA ILE HIS ALA LYS ARG VAL SEQRES 10 A 135 THR ILE MET PRO LYS ASP ILE GLN LEU ALA ARG ARG ILE SEQRES 11 A 135 ARG GLY GLU ARG ALA SEQRES 1 B 102 SER GLY ARG GLY LYS GLY GLY LYS GLY LEU GLY LYS GLY SEQRES 2 B 102 GLY ALA LYS ARG HIS ARG LYS VAL LEU ARG ASP ASN ILE SEQRES 3 B 102 GLN GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA ARG SEQRES 4 B 102 ARG GLY GLY VAL LYS ARG ILE SER GLY LEU ILE TYR GLU SEQRES 5 B 102 GLU THR ARG GLY VAL LEU LYS VAL PHE LEU GLU ASN VAL SEQRES 6 B 102 ILE ARG ASP ALA VAL THR TYR THR GLU HIS ALA LYS ARG SEQRES 7 B 102 LYS THR VAL THR ALA MET ASP VAL VAL TYR ALA LEU LYS SEQRES 8 B 102 ARG GLN GLY ARG THR LEU TYR GLY PHE GLY GLY SEQRES 1 C 129 SER GLY ARG GLY LYS GLN GLY GLY LYS THR ARG ALA LYS SEQRES 2 C 129 ALA LYS THR ARG SER SER ARG ALA GLY LEU GLN PHE PRO SEQRES 3 C 129 VAL GLY ARG VAL HIS ARG LEU LEU ARG LYS GLY ASN TYR SEQRES 4 C 129 ALA GLU ARG VAL GLY ALA GLY ALA PRO VAL TYR LEU ALA SEQRES 5 C 129 ALA VAL LEU GLU TYR LEU THR ALA GLU ILE LEU GLU LEU SEQRES 6 C 129 ALA GLY ASN ALA ALA ARG ASP ASN LYS LYS THR ARG ILE SEQRES 7 C 129 ILE PRO ARG HIS LEU GLN LEU ALA VAL ARG ASN ASP GLU SEQRES 8 C 129 GLU LEU ASN LYS LEU LEU GLY ARG VAL THR ILE ALA GLN SEQRES 9 C 129 GLY GLY VAL LEU PRO ASN ILE GLN SER VAL LEU LEU PRO SEQRES 10 C 129 LYS LYS THR GLU SER SER LYS SER ALA LYS SER LYS SEQRES 1 D 122 ALA LYS SER ALA PRO ALA PRO LYS LYS GLY SER LYS LYS SEQRES 2 D 122 ALA VAL THR LYS THR GLN LYS LYS ASP GLY LYS LYS ARG SEQRES 3 D 122 ARG LYS THR ARG LYS GLU SER TYR ALA ILE TYR VAL TYR SEQRES 4 D 122 LYS VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SER SEQRES 5 D 122 SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN ASP SEQRES 6 D 122 VAL PHE GLU ARG ILE ALA GLY GLU ALA SER ARG LEU ALA SEQRES 7 D 122 HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU ILE SEQRES 8 D 122 GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU ALA SEQRES 9 D 122 LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR LYS SEQRES 10 D 122 TYR THR SER ALA LYS SEQRES 1 E 135 ALA ARG THR LYS GLN THR ALA ARG LYS SER THR GLY GLY SEQRES 2 E 135 LYS ALA PRO ARG LYS GLN LEU ALA THR LYS ALA ALA ARG SEQRES 3 E 135 LYS SER ALA PRO ALA THR GLY GLY VAL LYS LYS PRO HIS SEQRES 4 E 135 ARG TYR ARG PRO GLY THR VAL ALA LEU ARG GLU ILE ARG SEQRES 5 E 135 ARG TYR GLN LYS SER THR GLU LEU LEU ILE ARG LYS LEU SEQRES 6 E 135 PRO PHE GLN ARG LEU VAL ARG GLU ILE ALA GLN ASP PHE SEQRES 7 E 135 LYS THR ASP LEU ARG PHE GLN SER SER ALA VAL MET ALA SEQRES 8 E 135 LEU GLN GLU ALA SER GLU ALA TYR LEU VAL ALA LEU PHE SEQRES 9 E 135 GLU ASP THR ASN LEU CYS ALA ILE HIS ALA LYS ARG VAL SEQRES 10 E 135 THR ILE MET PRO LYS ASP ILE GLN LEU ALA ARG ARG ILE SEQRES 11 E 135 ARG GLY GLU ARG ALA SEQRES 1 F 102 SER GLY ARG GLY LYS GLY GLY LYS GLY LEU GLY LYS GLY SEQRES 2 F 102 GLY ALA LYS ARG HIS ARG LYS VAL LEU ARG ASP ASN ILE SEQRES 3 F 102 GLN GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA ARG SEQRES 4 F 102 ARG GLY GLY VAL LYS ARG ILE SER GLY LEU ILE TYR GLU SEQRES 5 F 102 GLU THR ARG GLY VAL LEU LYS VAL PHE LEU GLU ASN VAL SEQRES 6 F 102 ILE ARG ASP ALA VAL THR TYR THR GLU HIS ALA LYS ARG SEQRES 7 F 102 LYS THR VAL THR ALA MET ASP VAL VAL TYR ALA LEU LYS SEQRES 8 F 102 ARG GLN GLY ARG THR LEU TYR GLY PHE GLY GLY SEQRES 1 G 129 SER GLY ARG GLY LYS GLN GLY GLY LYS THR ARG ALA LYS SEQRES 2 G 129 ALA LYS THR ARG SER SER ARG ALA GLY LEU GLN PHE PRO SEQRES 3 G 129 VAL GLY ARG VAL HIS ARG LEU LEU ARG LYS GLY ASN TYR SEQRES 4 G 129 ALA GLU ARG VAL GLY ALA GLY ALA PRO VAL TYR LEU ALA SEQRES 5 G 129 ALA VAL LEU GLU TYR LEU THR ALA GLU ILE LEU GLU LEU SEQRES 6 G 129 ALA GLY ASN ALA ALA ARG ASP ASN LYS LYS THR ARG ILE SEQRES 7 G 129 ILE PRO ARG HIS LEU GLN LEU ALA VAL ARG ASN ASP GLU SEQRES 8 G 129 GLU LEU ASN LYS LEU LEU GLY ARG VAL THR ILE ALA GLN SEQRES 9 G 129 GLY GLY VAL LEU PRO ASN ILE GLN SER VAL LEU LEU PRO SEQRES 10 G 129 LYS LYS THR GLU SER SER LYS SER ALA LYS SER LYS SEQRES 1 H 122 ALA LYS SER ALA PRO ALA PRO LYS LYS GLY SER LYS LYS SEQRES 2 H 122 ALA VAL THR LYS THR GLN LYS LYS ASP GLY LYS LYS ARG SEQRES 3 H 122 ARG LYS THR ARG LYS GLU SER TYR ALA ILE TYR VAL TYR SEQRES 4 H 122 LYS VAL LEU LYS GLN VAL HIS PRO ASP THR GLY ILE SER SEQRES 5 H 122 SER LYS ALA MET SER ILE MET ASN SER PHE VAL ASN ASP SEQRES 6 H 122 VAL PHE GLU ARG ILE ALA GLY GLU ALA SER ARG LEU ALA SEQRES 7 H 122 HIS TYR ASN LYS ARG SER THR ILE THR SER ARG GLU ILE SEQRES 8 H 122 GLN THR ALA VAL ARG LEU LEU LEU PRO GLY GLU LEU ALA SEQRES 9 H 122 LYS HIS ALA VAL SER GLU GLY THR LYS ALA VAL THR LYS SEQRES 10 H 122 TYR THR SER ALA LYS SEQRES 1 I 146 DT DC DG DA DG DA DA DT DC DC DC DG DG SEQRES 2 I 146 DT DG DC DC DG DA DG DG DC DC DG DC DT SEQRES 3 I 146 DC DA DA DT DT DG DG DT DC DG DT DA DG SEQRES 4 I 146 DA DC DA DG DC DT DC DT DA DG DC DA DC SEQRES 5 I 146 DC DG DC DT DT DA DA DA DC DG DC DA DC SEQRES 6 I 146 DG DT DA DC DG DC DG DC DT DG DT DC DC SEQRES 7 I 146 DC DC DC DG DC DG DT DT DT DT DA DA DC SEQRES 8 I 146 DC DG DC DC DA DA DG DG DG DG DA DT DT SEQRES 9 I 146 DA DC DT DC DC DC DT DA DG DT DC DT DC SEQRES 10 I 146 DC DA DG DG DC DA DC DG DT DG DT DC DA SEQRES 11 I 146 DG DA DT DA DT DA DT DA DC DA DT DC DC SEQRES 12 I 146 DG DA DT SEQRES 1 J 146 DA DT DC DG DG DA DT DG DT DA DT DA DT SEQRES 2 J 146 DA DT DC DT DG DA DC DA DC DG DT DG DC SEQRES 3 J 146 DC DT DG DG DA DG DA DC DT DA DG DG DG SEQRES 4 J 146 DA DG DT DA DA DT DC DC DC DC DT DT DG SEQRES 5 J 146 DG DC DG DG DT DT DA DA DA DA DC DG DC SEQRES 6 J 146 DG DG DG DG DG DA DC DA DG DC DG DC DG SEQRES 7 J 146 DT DA DC DG DT DG DC DG DT DT DT DA DA SEQRES 8 J 146 DG DC DG DG DT DG DC DT DA DG DA DG DC SEQRES 9 J 146 DT DG DT DC DT DA DC DG DA DC DC DA DA SEQRES 10 J 146 DT DT DG DA DG DC DG DG DC DC DT DC DG SEQRES 11 J 146 DG DC DA DC DC DG DG DG DA DT DT DC DT SEQRES 12 J 146 DC DG DA SEQRES 1 K 110 LYS LEU ASN ASP THR GLU ILE GLU LEU LYS HIS PHE LYS SEQRES 2 K 110 GLN LYS ALA SER HIS LEU GLU SER LYS CYS GLU LYS LEU SEQRES 3 K 110 HIS ASP THR LEU PHE ARG GLY ASN ASN LYS ASN LYS GLY SEQRES 4 K 110 SER SER ASP GLU ALA LEU VAL GLU GLU LEU ALA ASN PHE SEQRES 5 K 110 ARG THR LEU VAL TYR CYS SER LEU CYS SER LYS ASN TRP SEQRES 6 K 110 LYS ASN MET ALA ILE LYS THR CYS GLY HIS VAL PHE CYS SEQRES 7 K 110 GLU ASN CYS CYS LYS GLU ARG LEU ALA ALA ARG MET ARG SEQRES 8 K 110 LYS CYS PRO THR CYS ASN LYS ALA PHE SER SER ASN ASP SEQRES 9 K 110 LEU LEU THR VAL HIS LEU SEQRES 1 L 110 LYS LEU ASN ASP THR GLU ILE GLU LEU LYS HIS PHE LYS SEQRES 2 L 110 GLN LYS ALA SER HIS LEU GLU SER LYS CYS GLU LYS LEU SEQRES 3 L 110 HIS ASP THR LEU PHE ARG GLY ASN ASN LYS ASN LYS GLY SEQRES 4 L 110 SER SER ASP GLU ALA LEU VAL GLU GLU LEU ALA ASN PHE SEQRES 5 L 110 ARG THR LEU VAL TYR CYS SER LEU CYS SER LYS ASN TRP SEQRES 6 L 110 LYS ASN MET ALA ILE LYS THR CYS GLY HIS VAL PHE CYS SEQRES 7 L 110 GLU ASN CYS CYS LYS GLU ARG LEU ALA ALA ARG MET ARG SEQRES 8 L 110 LYS CYS PRO THR CYS ASN LYS ALA PHE SER SER ASN ASP SEQRES 9 L 110 LEU LEU THR VAL HIS LEU HET ZN K 801 1 HET ZN K 802 1 HET ZN L 801 1 HET ZN L 802 1 HETNAM ZN ZINC ION FORMUL 13 ZN 4(ZN 2+) HELIX 1 AA1 GLY A 44 GLN A 55 1 12 HELIX 2 AA2 ARG A 63 ALA A 75 1 13 HELIX 3 AA3 GLN A 76 PHE A 78 5 3 HELIX 4 AA4 GLN A 85 HIS A 113 1 29 HELIX 5 AA5 MET A 120 GLY A 132 1 13 HELIX 6 AA6 ASN B 25 ILE B 29 5 5 HELIX 7 AA7 THR B 30 GLY B 42 1 13 HELIX 8 AA8 LEU B 49 ALA B 76 1 28 HELIX 9 AA9 THR B 82 ARG B 92 1 11 HELIX 10 AB1 THR C 16 GLY C 22 1 7 HELIX 11 AB2 PRO C 26 ARG C 35 1 10 HELIX 12 AB3 GLY C 46 ASP C 72 1 27 HELIX 13 AB4 ILE C 79 ASN C 89 1 11 HELIX 14 AB5 ASP C 90 LEU C 97 1 8 HELIX 15 AB6 GLN C 112 LEU C 116 5 5 HELIX 16 AB7 TYR D 37 HIS D 49 1 13 HELIX 17 AB8 SER D 55 ASN D 84 1 30 HELIX 18 AB9 THR D 90 LEU D 100 1 11 HELIX 19 AC1 GLY D 104 ALA D 124 1 21 HELIX 20 AC2 VAL E 46 GLN E 55 1 10 HELIX 21 AC3 ARG E 63 ALA E 75 1 13 HELIX 22 AC4 GLN E 85 ALA E 114 1 30 HELIX 23 AC5 MET E 120 ARG E 131 1 12 HELIX 24 AC6 ASP F 24 ILE F 29 5 6 HELIX 25 AC7 THR F 30 GLY F 42 1 13 HELIX 26 AC8 LEU F 49 ALA F 76 1 28 HELIX 27 AC9 THR F 82 ARG F 92 1 11 HELIX 28 AD1 THR G 16 GLY G 22 1 7 HELIX 29 AD2 PRO G 26 LYS G 36 1 11 HELIX 30 AD3 ALA G 47 ASN G 73 1 27 HELIX 31 AD4 ILE G 79 LEU G 85 1 7 HELIX 32 AD5 ASP G 90 LEU G 97 1 8 HELIX 33 AD6 TYR H 37 HIS H 49 1 13 HELIX 34 AD7 SER H 55 ASN H 84 1 30 HELIX 35 AD8 THR H 90 LEU H 102 1 13 HELIX 36 AD9 GLY H 104 SER H 123 1 20 HELIX 37 AE1 GLU K 633 TYR K 647 1 15 HELIX 38 AE2 CYS K 668 ALA K 677 1 10 HELIX 39 AE3 SER K 691 ASN K 693 5 3 HELIX 40 AE4 GLU L 633 TYR L 647 1 15 HELIX 41 AE5 GLU L 669 ALA L 678 1 10 SHEET 1 AA1 2 ARG A 83 PHE A 84 0 SHEET 2 AA1 2 THR B 80 VAL B 81 1 O VAL B 81 N ARG A 83 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 88 ILE D 89 1 O ILE D 89 N ARG C 42 SHEET 1 AA4 2 VAL C 100 ILE C 102 0 SHEET 2 AA4 2 THR F 96 TYR F 98 1 O TYR F 98 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 88 ILE H 89 1 O ILE H 89 N ARG G 42 SHEET 1 AA8 2 ARG G 77 ILE G 78 0 SHEET 2 AA8 2 GLY H 53 ILE H 54 1 O GLY H 53 N ILE G 78 SHEET 1 AA9 3 VAL K 666 PHE K 667 0 SHEET 2 AA9 3 MET K 658 ILE K 660 -1 N MET K 658 O PHE K 667 SHEET 3 AA9 3 LEU K 695 THR K 697 -1 O LEU K 696 N ALA K 659 SHEET 1 AB1 3 VAL L 666 PHE L 667 0 SHEET 2 AB1 3 MET L 658 ILE L 660 -1 N MET L 658 O PHE L 667 SHEET 3 AB1 3 LEU L 695 THR L 697 -1 O LEU L 696 N ALA L 659 LINK SG CYS K 648 ZN ZN K 802 1555 1555 2.33 LINK SG CYS K 651 ZN ZN K 802 1555 1555 2.32 LINK SG CYS K 663 ZN ZN K 801 1555 1555 2.32 LINK ND1 HIS K 665 ZN ZN K 801 1555 1555 2.08 LINK SG CYS K 668 ZN ZN K 802 1555 1555 2.31 LINK SG CYS K 671 ZN ZN K 802 1555 1555 2.32 LINK SG CYS K 683 ZN ZN K 801 1555 1555 2.32 LINK SG CYS K 686 ZN ZN K 801 1555 1555 2.32 LINK SG CYS L 648 ZN ZN L 802 1555 1555 2.33 LINK SG CYS L 651 ZN ZN L 802 1555 1555 2.33 LINK SG CYS L 663 ZN ZN L 801 1555 1555 2.30 LINK ND1 HIS L 665 ZN ZN L 801 1555 1555 2.30 LINK SG CYS L 668 ZN ZN L 802 1555 1555 2.32 LINK SG CYS L 671 ZN ZN L 802 1555 1555 2.33 LINK SG CYS L 683 ZN ZN L 801 1555 1555 2.89 LINK SG CYS L 686 ZN ZN L 801 1555 1555 2.95 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