2NZD - JenaLib

Asym./Biol. Unit - manually (Jmol Viewer)

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   NUCLEOSOME CORE PARTICLE CONTAINING 145 BP OF DNA

Authors :   M. S. Ong, T. J. Richmond, C. A. Davey

Date :   23 Nov 06 (Deposition) - 10 Apr 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.65

Chains :   Asym./Biol. Unit : A,B,C,D,E,F,G,H,I,J

Keywords :   Nucleosome, Chromatin, Histone, Dna Stretching, Dna Kinking, Double-Helix, Structural Protein/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. S. Ong, T. J. Richmond, C. A. Davey
Dna Stretching And Extreme Kinking In The Nucleosome Core
J. Mol. Biol. V. 368 1067 2007
PubMed-ID: 17379244 | Reference-DOI: 10.1016/J.JMB.2007.02.062
(for further references see the PDB file header)

Molecule 1 - DNA (145-MER)
	Chains	:	I
	Engineered	:	YES
	Synthetic	:	YES

Molecule 2 - DNA (145-MER)
	Chains	:	J
	Engineered	:	YES
	Synthetic	:	YES

Molecule 3 - HISTONE H3
	Chains	:	A, E
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Common	:	AFRICAN CLAWED FROG
	Organism Scientific	:	XENOPUS LAEVIS
	Organism Taxid	:	8355

Molecule 4 - HISTONE H4
	Chains	:	B, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Common	:	AFRICAN CLAWED FROG
	Organism Scientific	:	XENOPUS LAEVIS
	Organism Taxid	:	8355

Molecule 5 - HISTONE H2A
	Chains	:	C, G
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Common	:	AFRICAN CLAWED FROG
	Organism Scientific	:	XENOPUS LAEVIS
	Organism Taxid	:	8355

Molecule 6 - HISTONE H2B
	Chains	:	D, H
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Common	:	AFRICAN CLAWED FROG
	Organism Scientific	:	XENOPUS LAEVIS
	Organism Taxid	:	8355
	Synonym	:	H2B1.1

		1	2	3	4	5	6	7	8	9	10
Asymmetric/Biological Unit	:	A	B	C	D	E	F	G	H	I	J

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 11)

No.	Name	Count	Type	Full Name
1	MN	11	Ligand/Ion	MANGANESE (II) ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	VAL D:45 , ASP E:77 , HOH E:1008 , HOH E:1010 , HOH E:1012 , HOH F:117	BINDING SITE FOR RESIDUE MN E 1001
02	AC2	SOFTWARE	DG I:-34 , DG I:-33	BINDING SITE FOR RESIDUE MN I 1003
03	AC3	SOFTWARE	DG J:60 , DG J:61	BINDING SITE FOR RESIDUE MN J 1004
04	AC4	SOFTWARE	DG J:26	BINDING SITE FOR RESIDUE MN J 1005
05	AC5	SOFTWARE	DG J:4	BINDING SITE FOR RESIDUE MN J 1006
06	AC6	SOFTWARE	DG J:47 , HOH J:1015 , HOH J:1019	BINDING SITE FOR RESIDUE MN J 1007
07	AC7	SOFTWARE	DG I:47	BINDING SITE FOR RESIDUE MN I 1008
08	AC8	SOFTWARE	DG I:60 , HOH I:1013	BINDING SITE FOR RESIDUE MN I 1009
09	AC9	SOFTWARE	DG J:-34 , DG J:-33 , HOH J:1012	BINDING SITE FOR RESIDUE MN J 1010
10	BC1	SOFTWARE	DA I:25 , DG I:26	BINDING SITE FOR RESIDUE MN I 1011

(no "SS Bond" information available for 2NZD)

(no "Cis Peptide Bond" information available for 2NZD)

(no "SAP(SNP)/Variant" information available for 2NZD)

Asymmetric/Biological Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HISTONE_H2A	PS00046	Histone H2A signature.	H2A1_XENLA	22-28	2	C:21-27 G:21-27
2	HISTONE_H3_2	PS00959	Histone H3 signature 2.	H32_XENLA	67-75	2	A:66-74 E:66-74
3	HISTONE_H2B	PS00357	Histone H2B signature.	H2B11_XENLA	93-115	2	D:89-111 H:89-111

(no "Exon" information available for 2NZD)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:97
 aligned with H32_XENLA | P84233 from UniProtKB/Swiss-Prot  Length:136

    Alignment length:97
                                    48        58        68        78        88        98       108       118       128       
            H32_XENLA    39 PHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 135
               SCOP domains d2nzda_ A: Histone H3                                                                             SCOP domains
               CATH domains 2nzdA00 A:38-134 Histone, subunit A                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------HISTONE_H------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 2nzd A  38 PHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 134
                                    47        57        67        77        87        97       107       117       127

Chain B from PDB  Type:PROTEIN  Length:82
 aligned with H4_XENLA | P62799 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:82
                                    31        41        51        61        71        81        91       101  
             H4_XENLA    22 VLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 103
               SCOP domains d2nzdb_ B: Histone H4                                                              SCOP domains
               CATH domains 2nzdB00 B:21-102 Histone, subunit A                                                CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhh..eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                 2nzd B  21 VLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 102
                                    30        40        50        60        70        80        90       100

Chain C from PDB  Type:PROTEIN  Length:106
 aligned with H2A1_XENLA | P06897 from UniProtKB/Swiss-Prot  Length:130

    Alignment length:106
                                    24        34        44        54        64        74        84        94       104       114      
           H2A1_XENLA    15 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGGVTIAQGGVLPNIQSVLLPKK 120
               SCOP domains d2nzdc_ C: Histone H2A                                                                                     SCOP domains
               CATH domains 2nzdC00 C:14-119 Histone, subunit A                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh...hhhhhhhhhhhh....ee..hhhhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhhhhhhhh..eee.........hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------HISTONE-------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 2nzd C  14 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119
                                    23        33        43        53        63        73        83        93       103       113

Chain C from PDB  Type:PROTEIN  Length:106
 aligned with Q6AZJ8_XENLA | Q6AZJ8 from UniProtKB/TrEMBL  Length:130

    Alignment length:106
                                    24        34        44        54        64        74        84        94       104       114      
         Q6AZJ8_XENLA    15 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 120
               SCOP domains d2nzdc_ C: Histone H2A                                                                                     SCOP domains
               CATH domains 2nzdC00 C:14-119 Histone, subunit A                                                                        CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh...hhhhhhhhhhhh....ee..hhhhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhhhhhhhh..eee.........hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 2nzd C  14 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119
                                    23        33        43        53        63        73        83        93       103       113

Chain D from PDB  Type:PROTEIN  Length:95
 aligned with H2B11_XENLA | P02281 from UniProtKB/Swiss-Prot  Length:126

    Alignment length:95
                                    41        51        61        71        81        91       101       111       121     
          H2B11_XENLA    32 KSRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 126
               SCOP domains d2nzdd_ D: Histone H2B                                                                          SCOP domains
               CATH domains 2nzdD00 D:28-122 Histone, subunit A                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------HISTONE_H2B            ----------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 2nzd D  28 KTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 122
                                    37        47        57        67        77        87        97       107       117

Chain E from PDB  Type:PROTEIN  Length:97
 aligned with H32_XENLA | P84233 from UniProtKB/Swiss-Prot  Length:136

    Alignment length:97
                                    48        58        68        78        88        98       108       118       128       
            H32_XENLA    39 PHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 135
               SCOP domains d2nzde_ E: Histone H3                                                                             SCOP domains
               CATH domains 2nzdE00 E:38-134 Histone, subunit A                                                               CATH domains
           Pfam domains (1) -------------------Histone-2nzdE01 E:57-131                                                   --- Pfam domains (1)
           Pfam domains (2) -------------------Histone-2nzdE02 E:57-131                                                   --- Pfam domains (2)
         Sec.struct. author ......hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------HISTONE_H------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 2nzd E  38 PHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGER 134
                                    47        57        67        77        87        97       107       117       127

Chain F from PDB  Type:PROTEIN  Length:87
 aligned with H4_XENLA | P62799 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:87
                                    26        36        46        56        66        76        86        96       
             H4_XENLA    17 KRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 103
               SCOP domains d2nzdf_ F: Histone H4                                                                   SCOP domains
               CATH domains 2nzdF00 F:16-102 Histone, subunit A                                                     CATH domains
           Pfam domains (1) --------Histone-2nzdF01 F:24-93                                               --------- Pfam domains (1)
           Pfam domains (2) --------Histone-2nzdF02 F:24-93                                               --------- Pfam domains (2)
         Sec.struct. author ........hhhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh..eee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 2nzd F  16 KRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 102
                                    25        35        45        55        65        75        85        95

Chain G from PDB  Type:PROTEIN  Length:106
 aligned with H2A1_XENLA | P06897 from UniProtKB/Swiss-Prot  Length:130

    Alignment length:106
                                    24        34        44        54        64        74        84        94       104       114      
           H2A1_XENLA    15 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGGVTIAQGGVLPNIQSVLLPKK 120
               SCOP domains d2nzdg_ G: Histone H2A                                                                                     SCOP domains
               CATH domains 2nzdG00 G:14-119 Histone, subunit A                                                                        CATH domains
           Pfam domains (1) ---Histone-2nzdG01 G:17-90                                                   ----------------------------- Pfam domains (1)
           Pfam domains (2) ---Histone-2nzdG02 G:17-90                                                   ----------------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhh...hhhhhhhhhhh.....ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhh..eee.........hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------HISTONE-------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 2nzd G  14 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119
                                    23        33        43        53        63        73        83        93       103       113

Chain G from PDB  Type:PROTEIN  Length:106
 aligned with Q6AZJ8_XENLA | Q6AZJ8 from UniProtKB/TrEMBL  Length:130

    Alignment length:106
                                    24        34        44        54        64        74        84        94       104       114      
         Q6AZJ8_XENLA    15 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 120
               SCOP domains d2nzdg_ G: Histone H2A                                                                                     SCOP domains
               CATH domains 2nzdG00 G:14-119 Histone, subunit A                                                                        CATH domains
           Pfam domains (1) ---Histone-2nzdG01 G:17-90                                                   ----------------------------- Pfam domains (1)
           Pfam domains (2) ---Histone-2nzdG02 G:17-90                                                   ----------------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhh...hhhhhhhhhhh.....ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhh..eee.........hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 2nzd G  14 AKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119
                                    23        33        43        53        63        73        83        93       103       113

Chain H from PDB  Type:PROTEIN  Length:95
 aligned with H2B11_XENLA | P02281 from UniProtKB/Swiss-Prot  Length:126

    Alignment length:95
                                    41        51        61        71        81        91       101       111       121     
          H2B11_XENLA    32 KSRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 126
               SCOP domains d2nzdh_ H: Histone H2B                                                                          SCOP domains
               CATH domains 2nzdH00 H:28-122 Histone, subunit A                                                             CATH domains
           Pfam domains (1) Histone-2nzdH01 H:28-98                                                ------------------------ Pfam domains (1)
           Pfam domains (2) Histone-2nzdH02 H:28-98                                                ------------------------ Pfam domains (2)
         Sec.struct. author ......hhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------HISTONE_H2B            ----------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 2nzd H  28 KTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 122
                                    37        47        57        67        77        87        97       107       117

Chain I from PDB  Type:DNA  Length:145
                                                                                                                                                                                 
                 2nzd I -72 ATCAATATCCACCTGCAGATACTACCAAAAGTGTATTTGGAAACTGCTCCATCAAAAGGCATGTTCAGCTGAATCAGCTGAACATGCCTTTTGATGGAGCAGTTTCCAAATACACTTTTGGTAGTATCTGCAGGTGGATATTGAT  72
                                   -63       -53       -43       -33       -23       -13        -3         7        17        27        37        47        57        67

Chain J from PDB  Type:DNA  Length:145
                                                                                                                                                                                 
                 2nzd J -72 ATCAATATCCACCTGCAGATACTACCAAAAGTGTATTTGGAAACTGCTCCATCAAAAGGCATGTTCAGCTGATTCAGCTGAACATGCCTTTTGATGGAGCAGTTTCCAAATACACTTTTGGTAGTATCTGCAGGTGGATATTGAT  72
                                   -63       -53       -43       -33       -23       -13        -3         7        17        27        37        47        57        67

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Histone, subunit A (62)

Homologous Superfamily: Histone, subunit A (62)

[unclassified] (10)

1a	2nzdA00	A:38-134
1b	2nzdD00	D:28-122
1c	2nzdH00	H:28-122
1d	2nzdF00	F:16-102
1e	2nzdB00	B:21-102
1f	2nzdC00	C:14-119
1g	2nzdG00	G:14-119
1h	2nzdE00	E:38-134

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Histone (49)

Family: Histone (46)

Xenopus laevis (African clawed frog) (32)

1a	Histone-2nzdG01	G:17-90
1b	Histone-2nzdG02	G:17-90
1c	Histone-2nzdH01	H:28-98
1d	Histone-2nzdH02	H:28-98
1e	Histone-2nzdE01	E:57-131
1f	Histone-2nzdE02	E:57-131
1g	Histone-2nzdF01	F:24-93
1h	Histone-2nzdF02	F:24-93

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,E (H32_XENLA | P84233)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
cellular component
	GO:0005694	chromosome	A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0000786	nucleosome	A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain B,F (H4_XENLA | P62799)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
biological process
	GO:0006352	DNA-templated transcription, initiation	Any process involved in the assembly of the RNA polymerase preinitiation complex (PIC) at the core promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. The initiation phase ends just before and does not include promoter clearance, or release, which is the transition between the initiation and elongation phases of transcription.
	GO:0006334	nucleosome assembly	The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA.
cellular component
	GO:0005694	chromosome	A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
	GO:0000786	nucleosome	A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain C,G (H2A1_XENLA | P06897)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
cellular component
	GO:0005694	chromosome	A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
	GO:0000786	nucleosome	A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain C,G (Q6AZJ8_XENLA | Q6AZJ8)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
cellular component
	GO:0005694	chromosome	A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
	GO:0000786	nucleosome	A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain D,H (H2B11_XENLA | P02281)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0046982	protein heterodimerization activity	Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
cellular component
	GO:0005694	chromosome	A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
	GO:0000786	nucleosome	A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA into higher order structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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1kx3	X-RAY STRUCTURE OF THE NUCLEOSOME CORE PARTICLE, NCP146, AT 2.0 A RESOLUTION
1kx4	X-RAY STRUCTURE OF THE NUCLEOSOME CORE PARTICLE, NCP146, AT 2.0 A RESOLUTION
1kx5	X-RAY STRUCTURE OF THE NUCLEOSOME CORE PARTICLE, NCP146B, AT 2.6 A RESOLUTION

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 11)

Sites (10, 10)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 6)

Exons (0, 0)

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SCOP Domains (4, 8)

CATH Domains (1, 8)

Pfam Domains (1, 8)

Gene Ontology (9, 30)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File