HEADER NUCLEAR PROTEIN 29-SEP-20 7D69 TITLE CRYO-EM STRUCTURE OF THE NUCLEOSOME CONTAINING GIARDIA HISTONES 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 H4; COMPND 7 CHAIN: B, F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HISTONE H2B; COMPND 11 CHAIN: D, H; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: HISTONE H2A; COMPND 15 CHAIN: C, G; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 5; COMPND 18 MOLECULE: 601L DNA (145-MER); COMPND 19 CHAIN: I; COMPND 20 ENGINEERED: YES; COMPND 21 MOL_ID: 6; COMPND 22 MOLECULE: 601L DNA (145-MER); COMPND 23 CHAIN: J; COMPND 24 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GIARDIA INTESTINALIS; SOURCE 3 ORGANISM_TAXID: 5741; SOURCE 4 GENE: DHA2_154455; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: GIARDIA INTESTINALIS; SOURCE 9 ORGANISM_TAXID: 5741; SOURCE 10 GENE: DHA2_135001, DHA2_154716, GSB_155602; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: GIARDIA INTESTINALIS; SOURCE 15 ORGANISM_TAXID: 5741; SOURCE 16 GENE: DHA2_151009; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 19 MOL_ID: 4; SOURCE 20 ORGANISM_SCIENTIFIC: GIARDIA INTESTINALIS; SOURCE 21 ORGANISM_TAXID: 5741; SOURCE 22 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 24 MOL_ID: 5; SOURCE 25 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 26 ORGANISM_TAXID: 32630; SOURCE 27 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 28 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 29 MOL_ID: 6; SOURCE 30 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 31 ORGANISM_TAXID: 32630; SOURCE 32 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 33 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEOSOME, CHROMATIN, HISTONE, GIARDIA LAMBLIA, NUCLEAR PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.SATO,Y.TAKIZAWA,H.KURUMIZAKA REVDAT 2 23-MAR-22 7D69 1 JRNL REVDAT 1 08-SEP-21 7D69 0 JRNL AUTH S.SATO,Y.TAKIZAWA,F.HOSHIKAWA,M.DACHER,H.TANAKA,H.TACHIWANA, JRNL AUTH 2 T.KUJIRAI,Y.IIKURA,C.H.HO,N.ADACHI,I.PATWAL,A.FLAUS, JRNL AUTH 3 H.KURUMIZAKA JRNL TITL CRYO-EM STRUCTURE OF THE NUCLEOSOME CORE PARTICLE CONTAINING JRNL TITL 2 GIARDIA LAMBLIA HISTONES. JRNL REF NUCLEIC ACIDS RES. V. 49 8934 2021 JRNL REFN ESSN 1362-4962 JRNL PMID 34352093 JRNL DOI 10.1093/NAR/GKAB644 REMARK 2 REMARK 2 RESOLUTION. 3.57 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE 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) : 3.570 REMARK 3 NUMBER OF PARTICLES : 194041 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 7D69 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-OCT-20. REMARK 100 THE DEPOSITION ID IS D_1300018824. 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 : NUCLEOSOME REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL 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 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL 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) : 6400.00 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, D, E, F, H, C, G, 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 A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 ALA A 1 REMARK 465 ARG A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 HIS A 5 REMARK 465 THR A 6 REMARK 465 ALA A 7 REMARK 465 ARG A 8 REMARK 465 LYS A 9 REMARK 465 THR A 10 REMARK 465 THR A 11 REMARK 465 SER A 12 REMARK 465 ALA A 13 REMARK 465 THR A 14 REMARK 465 LYS A 15 REMARK 465 ALA A 16 REMARK 465 PRO A 17 REMARK 465 ARG A 18 REMARK 465 LYS A 19 REMARK 465 THR A 20 REMARK 465 ILE A 21 REMARK 465 ALA A 22 REMARK 465 ARG A 23 REMARK 465 LYS A 24 REMARK 465 ALA A 25 REMARK 465 ALA A 26 REMARK 465 ARG A 27 REMARK 465 LYS A 28 REMARK 465 THR A 29 REMARK 465 ALA A 30 REMARK 465 SER A 31 REMARK 465 SER A 32 REMARK 465 THR A 33 REMARK 465 SER A 34 REMARK 465 GLY A 35 REMARK 465 ILE A 36 REMARK 465 LYS A 37 REMARK 465 LYS A 38 REMARK 465 THR A 39 REMARK 465 GLY A 40 REMARK 465 ARG A 41 REMARK 465 LYS A 42 REMARK 465 LYS A 43 REMARK 465 GLN A 44 REMARK 465 GLY A 45 REMARK 465 MET A 46 REMARK 465 VAL A 47 REMARK 465 ALA A 48 REMARK 465 VAL A 49 REMARK 465 LYS A 50 REMARK 465 TYR A 141 REMARK 465 ARG A 142 REMARK 465 LYS A 143 REMARK 465 GLY A 144 REMARK 465 LYS A 145 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 HIS B -1 REMARK 465 MET B 0 REMARK 465 SER B 1 REMARK 465 GLY B 2 REMARK 465 LYS B 3 REMARK 465 GLY B 4 REMARK 465 LYS B 5 REMARK 465 GLY B 6 REMARK 465 LYS B 7 REMARK 465 GLY B 8 REMARK 465 TYR B 9 REMARK 465 GLY B 10 REMARK 465 LYS B 11 REMARK 465 SER B 12 REMARK 465 LYS B 13 REMARK 465 ARG B 14 REMARK 465 HIS B 15 REMARK 465 SER B 16 REMARK 465 LYS B 17 REMARK 465 GLU B 18 REMARK 465 LYS B 19 REMARK 465 ILE B 98 REMARK 465 GLY D -3 REMARK 465 SER D -2 REMARK 465 HIS D -1 REMARK 465 MET D 0 REMARK 465 SER D 1 REMARK 465 LYS D 2 REMARK 465 VAL D 3 REMARK 465 GLU D 4 REMARK 465 THR D 5 REMARK 465 LYS D 6 REMARK 465 ARG D 7 REMARK 465 LEU D 8 REMARK 465 MET D 9 REMARK 465 LYS D 10 REMARK 465 LYS D 11 REMARK 465 THR D 12 REMARK 465 GLU D 13 REMARK 465 ALA D 14 REMARK 465 GLY D 15 REMARK 465 ASP D 16 REMARK 465 LYS D 17 REMARK 465 GLY D 18 REMARK 465 ASP D 19 REMARK 465 ALA D 20 REMARK 465 LYS D 21 REMARK 465 ARG D 22 REMARK 465 LYS D 23 REMARK 465 HIS D 24 REMARK 465 LYS D 25 REMARK 465 ARG D 26 REMARK 465 HIS D 27 REMARK 465 LYS D 124 REMARK 465 GLU D 125 REMARK 465 SER D 126 REMARK 465 THR D 127 REMARK 465 LYS D 128 REMARK 465 LYS D 129 REMARK 465 GLY E -3 REMARK 465 SER E -2 REMARK 465 HIS E -1 REMARK 465 MET E 0 REMARK 465 ALA E 1 REMARK 465 ARG E 2 REMARK 465 THR E 3 REMARK 465 LYS E 4 REMARK 465 HIS E 5 REMARK 465 THR E 6 REMARK 465 ALA E 7 REMARK 465 ARG E 8 REMARK 465 LYS E 9 REMARK 465 THR E 10 REMARK 465 THR E 11 REMARK 465 SER E 12 REMARK 465 ALA E 13 REMARK 465 THR E 14 REMARK 465 LYS E 15 REMARK 465 ALA E 16 REMARK 465 PRO E 17 REMARK 465 ARG E 18 REMARK 465 LYS E 19 REMARK 465 THR E 20 REMARK 465 ILE E 21 REMARK 465 ALA E 22 REMARK 465 ARG E 23 REMARK 465 LYS E 24 REMARK 465 ALA E 25 REMARK 465 ALA E 26 REMARK 465 ARG E 27 REMARK 465 LYS E 28 REMARK 465 THR E 29 REMARK 465 ALA E 30 REMARK 465 SER E 31 REMARK 465 SER E 32 REMARK 465 THR E 33 REMARK 465 SER E 34 REMARK 465 GLY E 35 REMARK 465 ILE E 36 REMARK 465 LYS E 37 REMARK 465 LYS E 38 REMARK 465 THR E 39 REMARK 465 GLY E 40 REMARK 465 ARG E 41 REMARK 465 LYS E 42 REMARK 465 ARG E 142 REMARK 465 LYS E 143 REMARK 465 GLY E 144 REMARK 465 LYS E 145 REMARK 465 GLY F -3 REMARK 465 SER F -2 REMARK 465 HIS F -1 REMARK 465 MET F 0 REMARK 465 SER F 1 REMARK 465 GLY F 2 REMARK 465 LYS F 3 REMARK 465 GLY F 4 REMARK 465 LYS F 5 REMARK 465 GLY F 6 REMARK 465 LYS F 7 REMARK 465 GLY F 8 REMARK 465 TYR F 9 REMARK 465 GLY F 10 REMARK 465 LYS F 11 REMARK 465 SER F 12 REMARK 465 LYS F 13 REMARK 465 ARG F 14 REMARK 465 HIS F 15 REMARK 465 SER F 16 REMARK 465 LYS F 17 REMARK 465 GLU F 18 REMARK 465 LYS F 19 REMARK 465 ILE F 98 REMARK 465 GLY H -3 REMARK 465 SER H -2 REMARK 465 HIS H -1 REMARK 465 MET H 0 REMARK 465 SER H 1 REMARK 465 LYS H 2 REMARK 465 VAL H 3 REMARK 465 GLU H 4 REMARK 465 THR H 5 REMARK 465 LYS H 6 REMARK 465 ARG H 7 REMARK 465 LEU H 8 REMARK 465 MET H 9 REMARK 465 LYS H 10 REMARK 465 LYS H 11 REMARK 465 THR H 12 REMARK 465 GLU H 13 REMARK 465 ALA H 14 REMARK 465 GLY H 15 REMARK 465 ASP H 16 REMARK 465 LYS H 17 REMARK 465 GLY H 18 REMARK 465 ASP H 19 REMARK 465 ALA H 20 REMARK 465 LYS H 21 REMARK 465 ARG H 22 REMARK 465 LYS H 23 REMARK 465 HIS H 24 REMARK 465 LYS H 25 REMARK 465 ARG H 26 REMARK 465 HIS H 27 REMARK 465 LYS H 124 REMARK 465 GLU H 125 REMARK 465 SER H 126 REMARK 465 THR H 127 REMARK 465 LYS H 128 REMARK 465 LYS H 129 REMARK 465 GLY C -3 REMARK 465 SER C -2 REMARK 465 HIS C -1 REMARK 465 MET C 0 REMARK 465 SER C 1 REMARK 465 THR C 2 REMARK 465 LYS C 3 REMARK 465 PRO C 4 REMARK 465 VAL C 5 REMARK 465 LYS C 6 REMARK 465 ASP C 7 REMARK 465 ASN C 8 REMARK 465 SER C 9 REMARK 465 LYS C 10 REMARK 465 MET C 11 REMARK 465 SER C 107 REMARK 465 ALA C 108 REMARK 465 LYS C 109 REMARK 465 GLU C 110 REMARK 465 GLY C 111 REMARK 465 ARG C 112 REMARK 465 GLU C 113 REMARK 465 GLY C 114 REMARK 465 LYS C 115 REMARK 465 GLY C 116 REMARK 465 SER C 117 REMARK 465 HIS C 118 REMARK 465 ARG C 119 REMARK 465 SER C 120 REMARK 465 GLN C 121 REMARK 465 ASP C 122 REMARK 465 LEU C 123 REMARK 465 GLY G -3 REMARK 465 SER G -2 REMARK 465 HIS G -1 REMARK 465 MET G 0 REMARK 465 SER G 1 REMARK 465 THR G 2 REMARK 465 LYS G 3 REMARK 465 PRO G 4 REMARK 465 VAL G 5 REMARK 465 LYS G 6 REMARK 465 ASP G 7 REMARK 465 ASN G 8 REMARK 465 SER G 9 REMARK 465 LYS G 10 REMARK 465 MET G 11 REMARK 465 SER G 107 REMARK 465 ALA G 108 REMARK 465 LYS G 109 REMARK 465 GLU G 110 REMARK 465 GLY G 111 REMARK 465 ARG G 112 REMARK 465 GLU G 113 REMARK 465 GLY G 114 REMARK 465 LYS G 115 REMARK 465 GLY G 116 REMARK 465 SER G 117 REMARK 465 HIS G 118 REMARK 465 ARG G 119 REMARK 465 SER G 120 REMARK 465 GLN G 121 REMARK 465 ASP G 122 REMARK 465 LEU G 123 REMARK 465 DA I -6 REMARK 465 DT I -5 REMARK 465 DC I -4 REMARK 465 DA I -3 REMARK 465 DC I -2 REMARK 465 DA I -1 REMARK 465 DA I 0 REMARK 465 DC I 126 REMARK 465 DC I 127 REMARK 465 DG I 128 REMARK 465 DG I 129 REMARK 465 DG I 130 REMARK 465 DA I 131 REMARK 465 DT I 132 REMARK 465 DT I 133 REMARK 465 DG I 134 REMARK 465 DT I 135 REMARK 465 DG I 136 REMARK 465 DA I 137 REMARK 465 DT I 138 REMARK 465 DA J -12 REMARK 465 DT J -11 REMARK 465 DC J -10 REMARK 465 DA J -9 REMARK 465 DC J -8 REMARK 465 DA J -7 REMARK 465 DA J -6 REMARK 465 DT J -5 REMARK 465 DC J -4 REMARK 465 DC J -3 REMARK 465 DC J -2 REMARK 465 DG J -1 REMARK 465 DG J 0 REMARK 465 DT J 126 REMARK 465 DT J 127 REMARK 465 DG J 128 REMARK 465 DT J 129 REMARK 465 DG J 130 REMARK 465 DA J 131 REMARK 465 DT J 132 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 TYR E 141 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLY F 97 O 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 OG SER E 69 NH1 ARG E 73 2.06 REMARK 500 N ASN D 55 OP1 DA I 12 2.13 REMARK 500 OG SER C 41 OP1 DG J 98 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 DA I 22 O3' DA I 22 C3' -0.037 REMARK 500 DG J 87 O3' DG J 87 C3' -0.040 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 DT I 30 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA I 41 O4' - C1' - N9 ANGL. DEV. = 1.8 DEGREES REMARK 500 DG I 86 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT I 91 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG I 95 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG J 26 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DA J 35 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT J 44 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG J 58 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA J 76 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG J 87 O4' - C1' - N9 ANGL. DEV. = 3.0 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 TYR D 30 48.03 -93.08 REMARK 500 ASP D 48 19.22 52.08 REMARK 500 SER E 81 -3.51 82.34 REMARK 500 TYR H 30 48.37 -92.66 REMARK 500 SER H 45 -164.00 -79.65 REMARK 500 SER C 71 17.83 57.70 REMARK 500 LYS C 86 -60.82 -90.18 REMARK 500 ASN C 96 71.94 -100.75 REMARK 500 ARG G 74 146.99 -172.07 REMARK 500 LYS G 86 -61.38 -102.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-30591 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF THE NUCLEOSOME CONTAINING GIARDIA HISTONES DBREF 7D69 A 0 145 UNP V6TEE9 V6TEE9_GIAIN 44 189 DBREF 7D69 B 0 98 UNP E2RU60 E2RU60_GIAIN 1 99 DBREF 7D69 D 0 129 UNP V6TJV6 V6TJV6_GIAIN 20 149 DBREF 7D69 E 0 145 UNP V6TEE9 V6TEE9_GIAIN 44 189 DBREF 7D69 F 0 98 UNP E2RU60 E2RU60_GIAIN 1 99 DBREF 7D69 H 0 129 UNP V6TJV6 V6TJV6_GIAIN 20 149 DBREF 7D69 C 0 123 UNP E2RU15 E2RU15_GIAIN 1 124 DBREF 7D69 G 0 123 UNP E2RU15 E2RU15_GIAIN 1 124 DBREF 7D69 I -6 138 PDB 7D69 7D69 -6 138 DBREF 7D69 J -12 132 PDB 7D69 7D69 -12 132 SEQADV 7D69 GLY A -3 UNP V6TEE9 EXPRESSION TAG SEQADV 7D69 SER A -2 UNP V6TEE9 EXPRESSION TAG SEQADV 7D69 HIS A -1 UNP V6TEE9 EXPRESSION TAG SEQADV 7D69 GLY B -3 UNP E2RU60 EXPRESSION TAG SEQADV 7D69 SER B -2 UNP E2RU60 EXPRESSION TAG SEQADV 7D69 HIS B -1 UNP E2RU60 EXPRESSION TAG SEQADV 7D69 GLY D -3 UNP V6TJV6 EXPRESSION TAG SEQADV 7D69 SER D -2 UNP V6TJV6 EXPRESSION TAG SEQADV 7D69 HIS D -1 UNP V6TJV6 EXPRESSION TAG SEQADV 7D69 GLY E -3 UNP V6TEE9 EXPRESSION TAG SEQADV 7D69 SER E -2 UNP V6TEE9 EXPRESSION TAG SEQADV 7D69 HIS E -1 UNP V6TEE9 EXPRESSION TAG SEQADV 7D69 GLY F -3 UNP E2RU60 EXPRESSION TAG SEQADV 7D69 SER F -2 UNP E2RU60 EXPRESSION TAG SEQADV 7D69 HIS F -1 UNP E2RU60 EXPRESSION TAG SEQADV 7D69 GLY H -3 UNP V6TJV6 EXPRESSION TAG SEQADV 7D69 SER H -2 UNP V6TJV6 EXPRESSION TAG SEQADV 7D69 HIS H -1 UNP V6TJV6 EXPRESSION TAG SEQADV 7D69 GLY C -3 UNP E2RU15 EXPRESSION TAG SEQADV 7D69 SER C -2 UNP E2RU15 EXPRESSION TAG SEQADV 7D69 HIS C -1 UNP E2RU15 EXPRESSION TAG SEQADV 7D69 GLY G -3 UNP E2RU15 EXPRESSION TAG SEQADV 7D69 SER G -2 UNP E2RU15 EXPRESSION TAG SEQADV 7D69 HIS G -1 UNP E2RU15 EXPRESSION TAG SEQRES 1 A 149 GLY SER HIS MET ALA ARG THR LYS HIS THR ALA ARG LYS SEQRES 2 A 149 THR THR SER ALA THR LYS ALA PRO ARG LYS THR ILE ALA SEQRES 3 A 149 ARG LYS ALA ALA ARG LYS THR ALA SER SER THR SER GLY SEQRES 4 A 149 ILE LYS LYS THR GLY ARG LYS LYS GLN GLY MET VAL ALA SEQRES 5 A 149 VAL LYS GLU ILE LYS LYS TYR GLN LYS SER THR ASP LEU SEQRES 6 A 149 LEU ILE ARG LYS LEU PRO PHE SER LYS LEU VAL ARG ASP SEQRES 7 A 149 ILE VAL THR SER GLY LEU SER LYS SER ASP ILE ARG PHE SEQRES 8 A 149 GLN GLY ALA ALA VAL GLU ALA LEU GLN GLU SER ALA GLU SEQRES 9 A 149 ASN TYR ILE ILE SER LEU PHE VAL ASP THR GLN LEU CYS SEQRES 10 A 149 ALA GLU HIS ALA LYS ARG VAL THR ILE MET LYS PRO ASP SEQRES 11 A 149 MET GLU LEU ALA THR ARG ILE GLY LYS ARG ILE GLU PRO SEQRES 12 A 149 GLU TYR ARG LYS GLY LYS SEQRES 1 B 102 GLY SER HIS MET SER GLY LYS GLY LYS GLY LYS GLY TYR SEQRES 2 B 102 GLY LYS SER LYS ARG HIS SER LYS GLU LYS ASP THR LEU SEQRES 3 B 102 GLY GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA ARG SEQRES 4 B 102 ARG GLY GLY VAL LYS ARG ILE SER SER THR ILE TYR GLN SEQRES 5 B 102 GLN THR ARG GLU VAL LEU LYS ALA PHE LEU GLU VAL VAL SEQRES 6 B 102 LEU ARG ASP SER LEU THR TYR THR GLU HIS GLY GLN ARG SEQRES 7 B 102 LYS THR VAL THR SER GLN ASP VAL VAL TYR ALA LEU LYS SEQRES 8 B 102 ARG GLN GLY ARG THR LEU TYR GLY PHE GLY ILE SEQRES 1 D 133 GLY SER HIS MET SER LYS VAL GLU THR LYS ARG LEU MET SEQRES 2 D 133 LYS LYS THR GLU ALA GLY ASP LYS GLY ASP ALA LYS ARG SEQRES 3 D 133 LYS HIS LYS ARG HIS GLU THR TYR ALA THR TYR ILE TYR SEQRES 4 D 133 LYS VAL LEU ARG SER GLU ASN ILE ARG SER GLU ALA ASP SEQRES 5 D 133 THR ASP LEU GLY ILE SER ASN LYS GLY MET GLU VAL MET SEQRES 6 D 133 ASN SER LEU VAL ASN ASP LEU PHE GLU ARG ILE ALA SER SEQRES 7 D 133 GLU ALA SER ASN LEU ALA LYS ILE SER LYS ARG ASN THR SEQRES 8 D 133 ILE GLY LYS LYS ASP ILE GLU SER ALA ALA LYS LEU VAL SEQRES 9 D 133 ILE PRO GLY GLU ILE GLY ARG LEU ILE ARG ASP GLU ALA SEQRES 10 D 133 ASP LYS ALA LEU SER LYS PHE THR SER SER LYS GLU SER SEQRES 11 D 133 THR LYS LYS SEQRES 1 E 149 GLY SER HIS MET ALA ARG THR LYS HIS THR ALA ARG LYS SEQRES 2 E 149 THR THR SER ALA THR LYS ALA PRO ARG LYS THR ILE ALA SEQRES 3 E 149 ARG LYS ALA ALA ARG LYS THR ALA SER SER THR SER GLY SEQRES 4 E 149 ILE LYS LYS THR GLY ARG LYS LYS GLN GLY MET VAL ALA SEQRES 5 E 149 VAL LYS GLU ILE LYS LYS TYR GLN LYS SER THR ASP LEU SEQRES 6 E 149 LEU ILE ARG LYS LEU PRO PHE SER LYS LEU VAL ARG ASP SEQRES 7 E 149 ILE VAL THR SER GLY LEU SER LYS SER ASP ILE ARG PHE SEQRES 8 E 149 GLN GLY ALA ALA VAL GLU ALA LEU GLN GLU SER ALA GLU SEQRES 9 E 149 ASN TYR ILE ILE SER LEU PHE VAL ASP THR GLN LEU CYS SEQRES 10 E 149 ALA GLU HIS ALA LYS ARG VAL THR ILE MET LYS PRO ASP SEQRES 11 E 149 MET GLU LEU ALA THR ARG ILE GLY LYS ARG ILE GLU PRO SEQRES 12 E 149 GLU TYR ARG LYS GLY LYS SEQRES 1 F 102 GLY SER HIS MET SER GLY LYS GLY LYS GLY LYS GLY TYR SEQRES 2 F 102 GLY LYS SER LYS ARG HIS SER LYS GLU LYS ASP THR LEU SEQRES 3 F 102 GLY GLY ILE THR LYS PRO ALA ILE ARG ARG LEU ALA ARG SEQRES 4 F 102 ARG GLY GLY VAL LYS ARG ILE SER SER THR ILE TYR GLN SEQRES 5 F 102 GLN THR ARG GLU VAL LEU LYS ALA PHE LEU GLU VAL VAL SEQRES 6 F 102 LEU ARG ASP SER LEU THR TYR THR GLU HIS GLY GLN ARG SEQRES 7 F 102 LYS THR VAL THR SER GLN ASP VAL VAL TYR ALA LEU LYS SEQRES 8 F 102 ARG GLN GLY ARG THR LEU TYR GLY PHE GLY ILE SEQRES 1 H 133 GLY SER HIS MET SER LYS VAL GLU THR LYS ARG LEU MET SEQRES 2 H 133 LYS LYS THR GLU ALA GLY ASP LYS GLY ASP ALA LYS ARG SEQRES 3 H 133 LYS HIS LYS ARG HIS GLU THR TYR ALA THR TYR ILE TYR SEQRES 4 H 133 LYS VAL LEU ARG SER GLU ASN ILE ARG SER GLU ALA ASP SEQRES 5 H 133 THR ASP LEU GLY ILE SER ASN LYS GLY MET GLU VAL MET SEQRES 6 H 133 ASN SER LEU VAL ASN ASP LEU PHE GLU ARG ILE ALA SER SEQRES 7 H 133 GLU ALA SER ASN LEU ALA LYS ILE SER LYS ARG ASN THR SEQRES 8 H 133 ILE GLY LYS LYS ASP ILE GLU SER ALA ALA LYS LEU VAL SEQRES 9 H 133 ILE PRO GLY GLU ILE GLY ARG LEU ILE ARG ASP GLU ALA SEQRES 10 H 133 ASP LYS ALA LEU SER LYS PHE THR SER SER LYS GLU SER SEQRES 11 H 133 THR LYS LYS SEQRES 1 C 127 GLY SER HIS MET SER THR LYS PRO VAL LYS ASP ASN SER SEQRES 2 C 127 LYS MET LYS SER ARG SER ALA ARG ALA GLY ILE SER PHE SEQRES 3 C 127 PRO ILE GLY ARG ILE HIS ARG HIS LEU ARG GLU GLY ARG SEQRES 4 C 127 TYR ALA GLU ARG ILE SER SER ASP ALA PRO VAL TYR LEU SEQRES 5 C 127 ALA ALA VAL LEU GLU ASN VAL VAL ALA GLU VAL PHE ARG SEQRES 6 C 127 GLU ALA CYS ASN HIS ARG ASP LYS LYS SER GLN LYS ARG SEQRES 7 C 127 ILE VAL PRO ASN HIS ILE LEU THR ALA LEU ARG LYS ASP SEQRES 8 C 127 LYS GLU LEU ALA THR ILE PHE ALA ASN VAL THR ILE ARG SEQRES 9 C 127 GLU GLY GLY VAL ALA ARG SER ALA LYS GLU GLY ARG GLU SEQRES 10 C 127 GLY LYS GLY SER HIS ARG SER GLN ASP LEU SEQRES 1 G 127 GLY SER HIS MET SER THR LYS PRO VAL LYS ASP ASN SER SEQRES 2 G 127 LYS MET LYS SER ARG SER ALA ARG ALA GLY ILE SER PHE SEQRES 3 G 127 PRO ILE GLY ARG ILE HIS ARG HIS LEU ARG GLU GLY ARG SEQRES 4 G 127 TYR ALA GLU ARG ILE SER SER ASP ALA PRO VAL TYR LEU SEQRES 5 G 127 ALA ALA VAL LEU GLU ASN VAL VAL ALA GLU VAL PHE ARG SEQRES 6 G 127 GLU ALA CYS ASN HIS ARG ASP LYS LYS SER GLN LYS ARG SEQRES 7 G 127 ILE VAL PRO ASN HIS ILE LEU THR ALA LEU ARG LYS ASP SEQRES 8 G 127 LYS GLU LEU ALA THR ILE PHE ALA ASN VAL THR ILE ARG SEQRES 9 G 127 GLU GLY GLY VAL ALA ARG SER ALA LYS GLU GLY ARG GLU SEQRES 10 G 127 GLY LYS GLY SER HIS ARG SER GLN ASP LEU SEQRES 1 I 145 DA DT DC DA DC DA DA DT DC DC DC DG DG SEQRES 2 I 145 DT DG DC DC DG DA DG DG DC DC DG DC DT SEQRES 3 I 145 DC DA DA DT DT DG DG DT DC DG DT DA DG SEQRES 4 I 145 DA DC DA DG DC DT DC DT DA DG DC DA DC SEQRES 5 I 145 DC DG DC DT DT DA DA DA DC DG DC DA DC SEQRES 6 I 145 DG DT DA DC DG DG DA DA DT DC DC DG DT SEQRES 7 I 145 DA DC DG DT DG DC DG DT DT DT DA DA DG SEQRES 8 I 145 DC DG DG DT DG DC DT DA DG DA DG DC DT SEQRES 9 I 145 DG DT DC DT DA DC DG DA DC DC DA DA DT SEQRES 10 I 145 DT DG DA DG DC DG DG DC DC DT DC DG DG SEQRES 11 I 145 DC DA DC DC DG DG DG DA DT DT DG DT DG SEQRES 12 I 145 DA DT SEQRES 1 J 145 DA DT DC DA DC DA DA DT DC DC DC DG DG SEQRES 2 J 145 DT DG DC DC DG DA DG DG DC DC DG DC DT SEQRES 3 J 145 DC DA DA DT DT DG DG DT DC DG DT DA DG SEQRES 4 J 145 DA DC DA DG DC DT DC DT DA DG DC DA DC SEQRES 5 J 145 DC DG DC DT DT DA DA DA DC DG DC DA DC SEQRES 6 J 145 DG DT DA DC DG DG DA DT DT DC DC DG DT SEQRES 7 J 145 DA DC DG DT DG DC DG DT DT DT DA DA DG SEQRES 8 J 145 DC DG DG DT DG DC DT DA DG DA DG DC DT SEQRES 9 J 145 DG DT DC DT DA DC DG DA DC DC DA DA DT SEQRES 10 J 145 DT DG DA DG DC DG DG DC DC DT DC DG DG SEQRES 11 J 145 DC DA DC DC DG DG DG DA DT DT DG DT DG SEQRES 12 J 145 DA DT HELIX 1 AA1 GLU A 51 SER A 58 1 8 HELIX 2 AA2 ARG A 64 SER A 78 1 15 HELIX 3 AA3 GLN A 88 ALA A 117 1 30 HELIX 4 AA4 MET A 123 ILE A 133 1 11 HELIX 5 AA5 THR B 21 ILE B 25 5 5 HELIX 6 AA6 THR B 26 GLY B 37 1 12 HELIX 7 AA7 THR B 45 GLY B 72 1 28 HELIX 8 AA8 THR B 78 GLY B 90 1 13 HELIX 9 AA9 TYR D 30 SER D 45 1 16 HELIX 10 AB1 SER D 54 LYS D 84 1 31 HELIX 11 AB2 GLY D 89 ILE D 101 1 13 HELIX 12 AB3 GLY D 103 SER D 122 1 20 HELIX 13 AB4 GLY E 45 SER E 58 1 14 HELIX 14 AB5 ARG E 64 GLY E 79 1 16 HELIX 15 AB6 GLN E 88 ALA E 117 1 30 HELIX 16 AB7 MET E 123 ILE E 133 1 11 HELIX 17 AB8 THR F 21 ILE F 25 5 5 HELIX 18 AB9 THR F 26 GLY F 38 1 13 HELIX 19 AC1 SER F 44 GLY F 72 1 29 HELIX 20 AC2 THR F 78 ARG F 88 1 11 HELIX 21 AC3 TYR H 30 ILE H 43 1 14 HELIX 22 AC4 SER H 54 LYS H 84 1 31 HELIX 23 AC5 GLY H 89 ILE H 101 1 13 HELIX 24 AC6 GLY H 103 SER H 122 1 20 HELIX 25 AC7 SER C 13 ALA C 18 1 6 HELIX 26 AC8 PRO C 23 GLY C 34 1 12 HELIX 27 AC9 SER C 42 ASP C 68 1 27 HELIX 28 AD1 VAL C 76 ASP C 87 1 12 HELIX 29 AD2 ASP C 87 PHE C 94 1 8 HELIX 30 AD3 SER G 13 ALA G 18 1 6 HELIX 31 AD4 PRO G 23 GLY G 34 1 12 HELIX 32 AD5 ASP G 43 ASP G 68 1 26 HELIX 33 AD6 VAL G 76 ASP G 87 1 12 HELIX 34 AD7 ASP G 87 PHE G 94 1 8 SHEET 1 AA1 2 ARG A 86 PHE A 87 0 SHEET 2 AA1 2 THR B 76 VAL B 77 1 O VAL B 77 N ARG A 86 SHEET 1 AA2 2 THR A 121 ILE A 122 0 SHEET 2 AA2 2 ARG B 41 ILE B 42 1 O ARG B 41 N ILE A 122 SHEET 1 AA3 2 LEU B 93 TYR B 94 0 SHEET 2 AA3 2 THR G 98 ILE G 99 1 O THR G 98 N TYR B 94 SHEET 1 AA4 2 ARG E 86 PHE E 87 0 SHEET 2 AA4 2 THR F 76 VAL F 77 1 O VAL F 77 N ARG E 86 SHEET 1 AA5 2 THR E 121 ILE E 122 0 SHEET 2 AA5 2 ARG F 41 ILE F 42 1 O ARG F 41 N ILE E 122 SHEET 1 AA6 2 THR F 92 TYR F 94 0 SHEET 2 AA6 2 VAL C 97 ILE C 99 1 O THR C 98 N THR F 92 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