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(-) Description

Title :  BINDING OF NICKEL IONS TO THE NUCLEOSOME CORE PARTICLE
 
Authors :  K. Mohideen, R. Muhammad, C. A. Davey
Date :  07 Apr 10  (Deposition) - 16 Jun 10  (Release) - 21 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H,I,J
Keywords :  Protein-Dna Complex, Structural Protein-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Mohideen, R. Muhammad, C. A. Davey
Perturbations In Nucleosome Structure From Heavy Metal Association.
Nucleic Acids Res. V. 38 6301 2010
PubMed-ID: 20494975  |  Reference-DOI: 10.1093/NAR/GKQ420

(-) Compounds

Molecule 1 - HISTONE H3.2
    Chains: A, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3D
    Expression System Strain: BL21 DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HISTONE 3 OR H3
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
 
Molecule 2 - HISTONE H4
    Chains: B, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21 DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HISTONE 4 OR H4
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
 
Molecule 3 - HISTONE H2A
    Chains: C, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21 DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 2-120
    Gene: HISTONE 2A OR H2A, LOC494591
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
 
Molecule 4 - HISTONE H2B 1.1
    Chains: D, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Strain: BL21 DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HISTONE 2B OR H2B
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
    Synonym: H2B1.1
 
Molecule 5 - DNA (147-MER)
    Chains: I
    Engineered: YES
    Other Details: SYNTHETIC PALINDROMIC DNA EXPRESSED IN PUC18 PLASMID USING E.COLI HB101 CELLS.
    Synthetic: YES
 
Molecule 6 - DNA (147-MER)
    Chains: J
    Engineered: YES
    Other Details: SYNTHETIC PALINDROMIC DNA EXPRESSED IN PUC18 PLASMID USING E.COLI HB101 CELLS.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678910
Asymmetric/Biological Unit : ABCDEFGHIJ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 51)

Asymmetric/Biological Unit (2, 51)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION
2NI47Ligand/IonNICKEL (II) ION

(-) Sites  (49, 49)

Asymmetric Unit (49, 49)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL D:45 , ASP E:77BINDING SITE FOR RESIDUE NI E 136
02AC2SOFTWAREDG I:-28 , DT I:67 , DG J:27BINDING SITE FOR RESIDUE NI J 74
03AC3SOFTWAREDG I:61BINDING SITE FOR RESIDUE NI I 74
04AC4SOFTWAREDG I:-3BINDING SITE FOR RESIDUE NI I 75
05AC5SOFTWAREDG J:48BINDING SITE FOR RESIDUE NI J 75
06AC6SOFTWAREDG J:-3BINDING SITE FOR RESIDUE NI J 76
07AC7SOFTWAREDG J:61BINDING SITE FOR RESIDUE NI J 77
08AC8SOFTWAREGLU D:102 , HIS D:106 , HIS F:18BINDING SITE FOR RESIDUE NI D 123
09AC9SOFTWAREDG I:48BINDING SITE FOR RESIDUE NI I 76
10BC1SOFTWAREHIS H:79BINDING SITE FOR RESIDUE NI H 123
11BC2SOFTWAREDA I:26 , DG I:27BINDING SITE FOR RESIDUE NI I 77
12BC3SOFTWAREDG J:8BINDING SITE FOR RESIDUE NI J 78
13BC4SOFTWAREDG I:-56BINDING SITE FOR RESIDUE NI I 78
14BC5SOFTWAREDG J:-6BINDING SITE FOR RESIDUE NI J 79
15BC6SOFTWAREGLU H:102 , LYS H:105 , HIS H:106BINDING SITE FOR RESIDUE NI H 124
16BC7SOFTWAREDA J:29 , DG J:30BINDING SITE FOR RESIDUE NI J 80
17BC8SOFTWAREDG J:-56BINDING SITE FOR RESIDUE NI J 81
18BC9SOFTWAREHIS D:79BINDING SITE FOR RESIDUE NI D 124
19CC1SOFTWAREDG I:-35 , DG I:-34 , NI I:86BINDING SITE FOR RESIDUE NI I 80
20CC2SOFTWAREDG J:5BINDING SITE FOR RESIDUE NI J 82
21CC3SOFTWAREDA I:29BINDING SITE FOR RESIDUE NI I 81
22CC4SOFTWAREDG J:71BINDING SITE FOR RESIDUE NI J 83
23CC5SOFTWAREDG I:24 , DG I:25 , NI I:89BINDING SITE FOR RESIDUE NI I 82
24CC6SOFTWAREDG J:-35 , DG J:-34BINDING SITE FOR RESIDUE NI J 84
25CC7SOFTWAREDG J:24 , DG J:25BINDING SITE FOR RESIDUE NI J 85
26CC8SOFTWAREDG I:71BINDING SITE FOR RESIDUE NI I 83
27CC9SOFTWAREDG I:64 , DG I:65BINDING SITE FOR RESIDUE NI I 84
28DC1SOFTWAREDA J:-70BINDING SITE FOR RESIDUE NI J 86
29DC2SOFTWAREHIS H:46BINDING SITE FOR RESIDUE NI H 125
30DC3SOFTWAREDG J:-34BINDING SITE FOR RESIDUE NI J 87
31DC4SOFTWAREDG I:-15 , DG J:14BINDING SITE FOR RESIDUE NI J 88
32DC5SOFTWAREDG I:-6BINDING SITE FOR RESIDUE NI I 85
33DC6SOFTWAREDG I:-34 , NI I:80BINDING SITE FOR RESIDUE NI I 86
34DC7SOFTWAREDG I:58 , DC I:59 , NI I:91 , DG J:-59BINDING SITE FOR RESIDUE NI I 87
35DC8SOFTWAREASP F:24BINDING SITE FOR RESIDUE NI F 103
36DC9SOFTWAREASP A:77BINDING SITE FOR RESIDUE NI A 136
37EC1SOFTWAREDA J:-19BINDING SITE FOR RESIDUE NI J 89
38EC2SOFTWAREDG J:52BINDING SITE FOR RESIDUE NI J 90
39EC3SOFTWAREASP C:90BINDING SITE FOR RESIDUE NI C 120
40EC4SOFTWAREDG I:52BINDING SITE FOR RESIDUE NI I 88
41EC5SOFTWAREDC I:-30 , DA J:-70BINDING SITE FOR RESIDUE NI J 91
42EC6SOFTWAREASP G:90BINDING SITE FOR RESIDUE NI G 120
43EC7SOFTWAREDG I:24 , DG I:25 , NI I:82BINDING SITE FOR RESIDUE NI I 89
44EC8SOFTWAREDT I:57 , NI I:87BINDING SITE FOR RESIDUE NI I 91
45EC9SOFTWAREDG J:64 , DG J:65BINDING SITE FOR RESIDUE NI J 105
46FC1SOFTWAREGLY G:44 , GLY G:46 , ALA G:47 , THR H:87 , SER H:88BINDING SITE FOR RESIDUE CL G 3145
47FC2SOFTWAREGLY C:46 , ALA C:47 , THR D:87 , SER D:88BINDING SITE FOR RESIDUE CL C 3146
48FC3SOFTWAREPRO A:121 , LYS A:122BINDING SITE FOR RESIDUE CL A 3147
49FC4SOFTWAREPRO E:121 , LYS E:122BINDING SITE FOR RESIDUE CL E 3148

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3MGQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3MGQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3MGQ)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HISTONE_H3_2PS00959 Histone H3 signature 2.H32_XENLA67-75
 		  2A:66-74
E:66-74
2HISTONE_H2BPS00357 Histone H2B signature.H2B11_XENLA93-115
 		  2D:89-111
H:89-111

(-) Exons   (0, 0)

(no "Exon" information available for 3MGQ)

(-) Sequences/Alignments

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:99
 aligned with H32_XENLA | P84233 from UniProtKB/Swiss-Prot  Length:136

    Alignment length:99
                                    47        57        67        77        87        97       107       117       127         
            H32_XENLA    38 KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA 136
               SCOP domains d3mgqa_ A: Histone H3                                                                               SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- 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
                 3mgq A  37 KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA 135
                                    46        56        66        76        86        96       106       116       126         


Chain B from PDB  Type:PROTEIN  Length:79
 aligned with H4_XENLA | P62799 from UniProtKB/Swiss-Prot  Length:103

    Alignment length:79
                                    34        44        54        64        74        84        94         
             H4_XENLA    25 DNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 103
               SCOP domains d3mgqb_ B: Histone H4                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhh..eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------- Transcript
                 3mgq B  24 DNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 102
                                    33        43        53        63        73        83        93         


Chain C from PDB  Type:PROTEIN  Length:105
 aligned with Q6AZJ8_XENLA | Q6AZJ8 from UniProtKB/TrEMBL  Length:130

    Alignment length:105
                                    25        35        45        55        65        75        85        95       105       115     
         Q6AZJ8_XENLA    16 KTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 120
               SCOP domains d3mgqc_ C: Histone H2A                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh...hhhhhhhhhhhh....ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhh..eee.........hhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 3mgq C  15 KTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKK 119
                                    24        34        44        54        64        74        84        94       104       114     


Chain D from PDB  Type:PROTEIN  Length:100
 aligned with H2B11_XENLA | P02281 from UniProtKB/Swiss-Prot  Length:126

    Alignment length:100
                                    36        46        56        66        76        86        96       106       116       126
          H2B11_XENLA    27 GKKRRKSRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 126
               SCOP domains d3mgqd_ D: Histone H2B                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------- 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
                 3mgq D  23 GKKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 122
                                    32        42        52        62        72        82        92       102       112       122


Chain E from PDB  Type:PROTEIN  Length:99
 aligned with H32_XENLA | P84233 from UniProtKB/Swiss-Prot  Length:136

    Alignment length:99
                                    47        57        67        77        87        97       107       117       127         
            H32_XENLA    38 KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA 136
               SCOP domains d3mgqe_ E: Histone H3                                                                               SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------Histone-3mgqE01 E:57-131                                                   ---- Pfam domains (1)
           Pfam domains (2) --------------------Histone-3mgqE02 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
                 3mgq E  37 KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA 135
                                    46        56        66        76        86        96       106       116       126         


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 d3mgqf_ F: Histone H4                                                                   SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------Histone-3mgqF01 F:24-93                                               --------- Pfam domains (1)
           Pfam domains (2) --------Histone-3mgqF02 F:24-93                                               --------- Pfam domains (2)
         Sec.struct. author ........hhhhhhhhhhhhhhhhhh...ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhh..eee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3mgq F  16 KRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 102
                                    25        35        45        55        65        75        85        95       


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

    Alignment length:106
                                    23        33        43        53        63        73        83        93       103       113      
         Q6AZJ8_XENLA    14 KAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 119
               SCOP domains d3mgqg_ G: Histone H2A                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----Histone-3mgqG01 G:17-90                                                   ---------------------------- Pfam domains (1)
           Pfam domains (2) ----Histone-3mgqG02 G:17-90                                                   ---------------------------- Pfam domains (2)
         Sec.struct. author ...hhhhhhh...hhhhhhhhhhhh....ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhh..eee.........hhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 3mgq G  13 KAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPK 118
                                    22        32        42        52        62        72        82        92       102       112      


Chain H from PDB  Type:PROTEIN  Length:99
 aligned with H2B11_XENLA | P02281 from UniProtKB/Swiss-Prot  Length:126

    Alignment length:99
                                    37        47        57        67        77        87        97       107       117         
          H2B11_XENLA    28 KKRRKSRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 126
               SCOP domains d3mgqh_ H: Histone H2B                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----Histone-3mgqH01 H:28-98                                                ------------------------ Pfam domains (1)
           Pfam domains (2) ----Histone-3mgqH02 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
                 3mgq H  24 KKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK 122
                                    33        43        53        63        73        83        93       103       113         


Chain I from PDB  Type:DNA  Length:147
                                                                                                                                                                                   
                 3mgq I -73 ATCAATATCCACCTGCAGATACTACCAAAAGTGTATTTGGAAACTGCTCCATCAAAAGGCATGTTCAGCTGGAATCCAGCTGAACATGCCTTTTGATGGAGCAGTTTCCAAATACACTTTTGGTAGTATCTGCAGGTGGATATTGAT  73
                                   -64       -54       -44       -34       -24       -14        -4         6        16        26        36        46        56        66       


Chain J from PDB  Type:DNA  Length:147
                                                                                                                                                                                   
                 3mgq J -73 ATCAATATCCACCTGCAGATACTACCAAAAGTGTATTTGGAAACTGCTCCATCAAAAGGCATGTTCAGCTGGATTCCAGCTGAACATGCCTTTTGATGGAGCAGTTTCCAAATACACTTTTGGTAGTATCTGCAGGTGGATATTGAT  73
                                   -64       -54       -44       -34       -24       -14        -4         6        16        26        36        46        56        66
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (4, 8)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3MGQ)

(-) Pfam Domains  (1, 8)

Asymmetric/Biological Unit
(-)
Clan: Histone (49)

(-) Gene Ontology  (9, 25)

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   (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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  3mgq
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  H2B11_XENLA | P02281
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  H32_XENLA | P84233
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  H4_XENLA | P62799
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  Q6AZJ8_XENLA | Q6AZJ8
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        H2B11_XENLA | P02281: 1aoi 1f66 1kx3 1kx4 1kx5 1m18 1m19 1m1a 1p34 1p3a 1p3b 1p3f 1p3g 1p3i 1p3k 1p3l 1p3m 1p3o 1p3p 1s32 1zbb 1zla 2f8n 2fj7 2nzd 3b6f 3b6g 3kuy 3kwq 3kxb 3lel 3lja 3lz0 3lz1 3mgp 3mgr 3mgs 3mnn 3mvd 3o62 3reh 3rei 3rej 3rek 3rel 3tu4 3ut9 3uta 3utb 4j8u 4j8v 4j8w 4j8x 4kgc 4kha 4ld9 4r8p 4wu8 4wu9 4xuj 4xzq 4ys3 4z66 4zux 5cp6 5dnm 5dnn 5e5a 5f99 5g2e 5hq2 5nl0 5x0x 5x0y
        H32_XENLA | P84233: 1f66 1kx3 1kx4 1kx5 1p34 1p3a 1p3b 1p3f 1p3g 1p3i 1p3k 1p3l 1p3m 1p3o 1p3p 1s32 1zbb 1zla 2f8n 2fj7 2hue 2io5 2nzd 3b6f 3b6g 3c1b 3c1c 3gv6 3kuy 3kwq 3kxb 3lel 3lja 3lz0 3lz1 3mgp 3mgr 3mgs 3mnn 3mvd 3o62 3reh 3rei 3rej 3rek 3rel 3tu4 3ut9 3uta 3utb 4eo5 4j8u 4j8v 4j8w 4j8x 4kgc 4ld9 4r8p 4wu8 4wu9 4xuj 4xzq 4ys3 4z66 4zux 5bs7 5bsa 5cp6 5dnm 5dnn 5e5a 5f99 5hq2 5kgf 5mlu 5nl0 5x0x 5x0y
        H4_XENLA | P62799: 1aoi 1kx3 1kx4 1kx5 1m18 1m19 1m1a 1p34 1p3a 1p3b 1p3f 1p3g 1p3i 1p3k 1p3l 1p3m 1p3o 1p3p 1s32 1zbb 1zla 2f8n 2fj7 2hue 2io5 2nzd 3b6f 3b6g 3c1b 3c1c 3kuy 3kwq 3kxb 3lel 3lja 3lz0 3lz1 3mgp 3mgr 3mgs 3mnn 3mvd 3o62 3reh 3rei 3rej 3rek 3rel 3tu4 3ut9 3uta 3utb 4eo5 4j8u 4j8v 4j8w 4j8x 4kgc 4ld9 4r8p 4wu8 4wu9 4xuj 4xzq 4ys3 4z66 4zbj 4zux 5bs7 5bsa 5cp6 5dnm 5dnn 5e5a 5f99 5hq2 5kgf 5mlu 5nl0 5x0x 5x0y
        Q6AZJ8_XENLA | Q6AZJ8: 2nzd 3b6f 3b6g 3kuy 3kwq 3lja 3mnn 3tu4 3ut9 3uta 3utb 4j8v 4j8w 4j8x 4ld9 4xuj 4xzq 4ys3 4z66 5cp6 5dnm 5dnn 5e5a 5hq2
UniProtKB/TrEMBL
        Q6AZJ8_XENLA | Q6AZJ8: 3kxb 3lel 3lz0 3lz1 3mgp 3mgr 3mgs 3mvd 4kgc 4kha 4r8p 5x0x 5x0y

(-) Related Entries Specified in the PDB File

1kx5 3mgp 3mgr 3mgs