eF-site ID 3azg-ABCDEFGH
PDB Code 3azg
Chain A, B, C, D, E, F, G, H

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Title Crystal Structure of Human Nucleosome Core Particle Containing H3K115Q mutation
Classification STRUCTURAL PROTEIN/DNA
Compound Histone H3.1
Source Homo sapiens (Human) (3AZG)
Sequence A:  PHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQD
FKTDLRFQSSAVMALQEACEAYLVGLFEDTNLCAIHAQRV
TIMPKDIQLARRIRGER
B:  NIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLEN
VIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
C:  RAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVY
LAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRND
EELNKLLGRVTIAQGGVLPNIQAVLLPK
D:  RSRKESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIF
ERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHA
VSEGTKAVTKYTSA
E:  KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQ
DFKTDLRFQSSAVMALQEACEAYLVGLFEDTNLCAIHAQR
VTIMPKDIQLARRIRGERA
F:  RKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVL
KVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLY
GFGG
G:  KTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAV
LEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELN
KLLGRVTIAQGGVLPNIQAVLLPK
H:  SRKESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFE
RIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAV
SEGTKAVTKYTSA
Description


Functional site

1) chain A
residue 121
type
sequence P
description BINDING SITE FOR RESIDUE CL A 1001
source : AC1

2) chain A
residue 122
type
sequence K
description BINDING SITE FOR RESIDUE CL A 1001
source : AC1

3) chain C
residue 46
type
sequence G
description BINDING SITE FOR RESIDUE CL D 201
source : AC2

4) chain C
residue 47
type
sequence A
description BINDING SITE FOR RESIDUE CL D 201
source : AC2

5) chain D
residue 90
type
sequence T
description BINDING SITE FOR RESIDUE CL D 201
source : AC2

6) chain D
residue 91
type
sequence S
description BINDING SITE FOR RESIDUE CL D 201
source : AC2

7) chain D
residue 48
type
sequence V
description BINDING SITE FOR RESIDUE MN E 1001
source : AC3

8) chain E
residue 77
type
sequence D
description BINDING SITE FOR RESIDUE MN E 1001
source : AC3

9) chain E
residue 121
type
sequence P
description BINDING SITE FOR RESIDUE CL E 1002
source : AC4

10) chain E
residue 122
type
sequence K
description BINDING SITE FOR RESIDUE CL E 1002
source : AC4

11) chain G
residue 44
type
sequence G
description BINDING SITE FOR RESIDUE CL G 1001
source : AC5

12) chain G
residue 46
type
sequence G
description BINDING SITE FOR RESIDUE CL G 1001
source : AC5

13) chain G
residue 47
type
sequence A
description BINDING SITE FOR RESIDUE CL G 1001
source : AC5

14) chain H
residue 90
type
sequence T
description BINDING SITE FOR RESIDUE CL G 1001
source : AC5

15) chain H
residue 91
type
sequence S
description BINDING SITE FOR RESIDUE CL G 1001
source : AC5

16) chain C
residue 21-27
type prosite
sequence AGLQFPV
description HISTONE_H2A Histone H2A signature. AGLqFPV
source prosite : PS00046

17) chain D
residue 92-114
type prosite
sequence REIQTAVRLLLPGELAKHAVSEG
description HISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG
source prosite : PS00357

18) chain A
residue 66-74
type prosite
sequence PFQRLVREI
description HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI
source prosite : PS00959

19) chain D
residue 36
type MOD_RES
sequence S
description Phosphoserine; by AMPK => ECO:0000250|UniProtKB:Q64475
source Swiss-Prot : SWS_FT_FI10

20) chain H
residue 36
type MOD_RES
sequence S
description Phosphoserine; by AMPK => ECO:0000250|UniProtKB:Q64475
source Swiss-Prot : SWS_FT_FI10

21) chain E
residue 56
type MOD_RES
sequence K
description Phosphoserine; by AMPK => ECO:0000250|UniProtKB:Q64475
source Swiss-Prot : SWS_FT_FI10

22) chain D
residue 46
type MOD_RES
sequence K
description N6-methyllysine; alternate => ECO:0000269|PubMed:16627869
source Swiss-Prot : SWS_FT_FI11

23) chain D
residue 108
type MOD_RES
sequence K
description N6-methyllysine; alternate => ECO:0000269|PubMed:16627869
source Swiss-Prot : SWS_FT_FI11

24) chain H
residue 46
type MOD_RES
sequence K
description N6-methyllysine; alternate => ECO:0000269|PubMed:16627869
source Swiss-Prot : SWS_FT_FI11

25) chain H
residue 108
type MOD_RES
sequence K
description N6-methyllysine; alternate => ECO:0000269|PubMed:16627869
source Swiss-Prot : SWS_FT_FI11

26) chain D
residue 57
type MOD_RES
sequence K
description N6-(2-hydroxyisobutyryl)lysine; alternate => ECO:0000269|PubMed:24681537
source Swiss-Prot : SWS_FT_FI12

27) chain H
residue 57
type MOD_RES
sequence K
description N6-(2-hydroxyisobutyryl)lysine; alternate => ECO:0000269|PubMed:24681537
source Swiss-Prot : SWS_FT_FI12

28) chain D
residue 79
type MOD_RES
sequence R
description Dimethylated arginine => ECO:0000250|UniProtKB:Q96A08
source Swiss-Prot : SWS_FT_FI13

29) chain H
residue 79
type MOD_RES
sequence R
description Dimethylated arginine => ECO:0000250|UniProtKB:Q96A08
source Swiss-Prot : SWS_FT_FI13

30) chain D
residue 86
type MOD_RES
sequence R
description Omega-N-methylarginine => ECO:0000250|UniProtKB:Q96A08
source Swiss-Prot : SWS_FT_FI14

31) chain D
residue 92
type MOD_RES
sequence R
description Omega-N-methylarginine => ECO:0000250|UniProtKB:Q96A08
source Swiss-Prot : SWS_FT_FI14

32) chain H
residue 86
type MOD_RES
sequence R
description Omega-N-methylarginine => ECO:0000250|UniProtKB:Q96A08
source Swiss-Prot : SWS_FT_FI14

33) chain H
residue 92
type MOD_RES
sequence R
description Omega-N-methylarginine => ECO:0000250|UniProtKB:Q96A08
source Swiss-Prot : SWS_FT_FI14

34) chain D
residue 115
type MOD_RES
sequence T
description Phosphothreonine => ECO:0000250|UniProtKB:Q00729
source Swiss-Prot : SWS_FT_FI15

35) chain H
residue 115
type MOD_RES
sequence T
description Phosphothreonine => ECO:0000250|UniProtKB:Q00729
source Swiss-Prot : SWS_FT_FI15

36) chain F
residue 91
type MOD_RES
sequence K
description Phosphothreonine => ECO:0000250|UniProtKB:Q00729
source Swiss-Prot : SWS_FT_FI15

37) chain D
residue 112
type CARBOHYD
sequence S
description O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
source Swiss-Prot : SWS_FT_FI16

38) chain H
residue 112
type CARBOHYD
sequence S
description O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
source Swiss-Prot : SWS_FT_FI16

39) chain B
residue 79
type CARBOHYD
sequence K
description O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
source Swiss-Prot : SWS_FT_FI16

40) chain F
residue 20
type CARBOHYD
sequence K
description O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
source Swiss-Prot : SWS_FT_FI16

41) chain F
residue 59
type CARBOHYD
sequence K
description O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
source Swiss-Prot : SWS_FT_FI16

42) chain F
residue 79
type CARBOHYD
sequence K
description O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807
source Swiss-Prot : SWS_FT_FI16

43) chain D
residue 120
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:16307923, ECO:0000269|PubMed:16627869, ECO:0000269|PubMed:16713563
source Swiss-Prot : SWS_FT_FI18

44) chain H
residue 120
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:16307923, ECO:0000269|PubMed:16627869, ECO:0000269|PubMed:16713563
source Swiss-Prot : SWS_FT_FI18

45) chain D
residue 34
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:21726816
source Swiss-Prot : SWS_FT_FI20

46) chain H
residue 34
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:21726816
source Swiss-Prot : SWS_FT_FI20

47) chain A
residue 79
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:29211711
source Swiss-Prot : SWS_FT_FI21

48) chain E
residue 79
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:29211711
source Swiss-Prot : SWS_FT_FI21

49) chain A
residue 80
type MOD_RES
sequence T
description Phosphothreonine => ECO:0000269|PubMed:20850016
source Swiss-Prot : SWS_FT_FI22

50) chain E
residue 80
type MOD_RES
sequence T
description Phosphothreonine => ECO:0000269|PubMed:20850016
source Swiss-Prot : SWS_FT_FI22

51) chain A
residue 86
type MOD_RES
sequence S
description Phosphoserine => ECO:0000250|UniProtKB:P84243
source Swiss-Prot : SWS_FT_FI23

52) chain E
residue 86
type MOD_RES
sequence S
description Phosphoserine => ECO:0000250|UniProtKB:P84243
source Swiss-Prot : SWS_FT_FI23

53) chain A
residue 107
type MOD_RES
sequence T
description Phosphothreonine => ECO:0000250|UniProtKB:Q71DI3
source Swiss-Prot : SWS_FT_FI24

54) chain E
residue 107
type MOD_RES
sequence T
description Phosphothreonine => ECO:0000250|UniProtKB:Q71DI3
source Swiss-Prot : SWS_FT_FI24

55) chain A
residue 115
type MOD_RES
sequence Q
description N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297
source Swiss-Prot : SWS_FT_FI25

56) chain E
residue 115
type MOD_RES
sequence Q
description N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297
source Swiss-Prot : SWS_FT_FI25

57) chain A
residue 122
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:27436229
source Swiss-Prot : SWS_FT_FI26

58) chain E
residue 122
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:27436229
source Swiss-Prot : SWS_FT_FI26

59) chain H
residue 43
type MOD_RES
sequence K
description N6-lactoyllysine; alternate => ECO:0000269|PubMed:31645732
source Swiss-Prot : SWS_FT_FI3

60) chain H
residue 85
type MOD_RES
sequence K
description N6-lactoyllysine; alternate => ECO:0000269|PubMed:31645732
source Swiss-Prot : SWS_FT_FI3

61) chain D
residue 43
type MOD_RES
sequence K
description N6-lactoyllysine; alternate => ECO:0000269|PubMed:31645732
source Swiss-Prot : SWS_FT_FI3

62) chain D
residue 85
type MOD_RES
sequence K
description N6-lactoyllysine; alternate => ECO:0000269|PubMed:31645732
source Swiss-Prot : SWS_FT_FI3

63) chain G
residue 95
type MOD_RES
sequence K
description ADP-ribosylserine => ECO:0000269|PubMed:34874266
source Swiss-Prot : SWS_FT_FI4

64) chain B
residue 44
type MOD_RES
sequence K
description N6-crotonyllysine; alternate => ECO:0000269|PubMed:21925322
source Swiss-Prot : SWS_FT_FI5

65) chain F
residue 44
type MOD_RES
sequence K
description N6-crotonyllysine; alternate => ECO:0000269|PubMed:21925322
source Swiss-Prot : SWS_FT_FI5

66) chain B
residue 77
type MOD_RES
sequence K
description Phosphoserine; by STK4/MST1 => ECO:0000269|PubMed:12757711
source Swiss-Prot : SWS_FT_FI6

67) chain B
residue 91
type MOD_RES
sequence K
description Phosphoserine; by STK4/MST1 => ECO:0000269|PubMed:12757711
source Swiss-Prot : SWS_FT_FI6

68) chain F
residue 31
type MOD_RES
sequence K
description Phosphoserine; by STK4/MST1 => ECO:0000269|PubMed:12757711
source Swiss-Prot : SWS_FT_FI6

69) chain F
residue 77
type MOD_RES
sequence K
description Phosphoserine; by STK4/MST1 => ECO:0000269|PubMed:12757711
source Swiss-Prot : SWS_FT_FI6

70) chain F
residue 91
type MOD_RES
sequence K
description Phosphoserine; by STK4/MST1 => ECO:0000269|PubMed:12757711
source Swiss-Prot : SWS_FT_FI6

71) chain G
residue 74
type MOD_RES
sequence K
description N6-(2-hydroxyisobutyryl)lysine => ECO:0000269|PubMed:24681537
source Swiss-Prot : SWS_FT_FI7

72) chain G
residue 75
type MOD_RES
sequence K
description N6-(2-hydroxyisobutyryl)lysine => ECO:0000269|PubMed:24681537
source Swiss-Prot : SWS_FT_FI7

73) chain D
residue 34
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
source Swiss-Prot : SWS_FT_FI8

74) chain D
residue 116
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
source Swiss-Prot : SWS_FT_FI8

75) chain D
residue 120
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
source Swiss-Prot : SWS_FT_FI8

76) chain H
residue 34
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
source Swiss-Prot : SWS_FT_FI8

77) chain H
residue 116
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
source Swiss-Prot : SWS_FT_FI8

78) chain H
residue 120
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435
source Swiss-Prot : SWS_FT_FI8

79) chain D
residue 35
type MOD_RES
sequence E
description PolyADP-ribosyl glutamic acid => ECO:0000250|UniProtKB:Q64475
source Swiss-Prot : SWS_FT_FI9

80) chain H
residue 35
type MOD_RES
sequence E
description PolyADP-ribosyl glutamic acid => ECO:0000250|UniProtKB:Q64475
source Swiss-Prot : SWS_FT_FI9

81) chain G
residue 118
type MOD_RES
sequence K
description PolyADP-ribosyl glutamic acid => ECO:0000250|UniProtKB:Q64475
source Swiss-Prot : SWS_FT_FI9


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