eF-site ID 4pij-AB
PDB Code 4pij
Chain A, B

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Title X-ray crystal structure of the K11S/K63S double mutant of ubiquitin
Classification PROTEIN BINDING
Compound Ubiquitin
Source Homo sapiens (Human) (RL40_HUMAN)
Sequence A:  MQIFVKTLTGSTITLEVEPSDTIENVKAKIQDKEGIPPDQ
QRLIFAGKQLEDGRTLSDYNIQSESTLHLVLRLRG
B:  MQIFVKTLTGSTITLEVEPSDTIENVKAKIQDKEGIPPDQ
QRLIFAGKQLEDGRTLSDYNIQSESTLHLVLRLRG
Description


Functional site

1) chain A
residue 7
type
sequence T
description binding site for residue GOL A 101
source : AC1

2) chain A
residue 68
type
sequence H
description binding site for residue GOL A 101
source : AC1

3) chain A
residue 69
type
sequence L
description binding site for residue GOL A 101
source : AC1

4) chain B
residue 47
type
sequence G
description binding site for residue GOL A 101
source : AC1

5) chain B
residue 27
type
sequence K
description binding site for residue SO4 B 101
source : AC2

6) chain B
residue 39
type
sequence D
description binding site for residue SO4 B 101
source : AC2

7) chain B
residue 42
type
sequence R
description binding site for residue SO4 B 101
source : AC2

8) chain B
residue 52
type
sequence D
description binding site for residue SO4 B 101
source : AC2

9) chain B
residue 54
type
sequence R
description binding site for residue SO4 B 101
source : AC2

10) chain A
residue 2
type
sequence Q
description binding site for residue SO4 B 102
source : AC3

11) chain B
residue 46
type
sequence A
description binding site for residue SO4 B 102
source : AC3

12) chain B
residue 68
type
sequence H
description binding site for residue SO4 B 102
source : AC3

13) chain A
residue 74
type
sequence R
description binding site for residue SO4 B 103
source : AC4

14) chain B
residue 51
type
sequence E
description binding site for residue SO4 B 103
source : AC4

15) chain B
residue 52
type
sequence D
description binding site for residue SO4 B 103
source : AC4

16) chain A
residue 42
type
sequence R
description binding site for residue SO4 B 104
source : AC5

17) chain A
residue 49
type
sequence Q
description binding site for residue SO4 B 104
source : AC5

18) chain A
residue 72
type
sequence R
description binding site for residue SO4 B 104
source : AC5

19) chain B
residue 42
type
sequence R
description binding site for residue SO4 B 104
source : AC5

20) chain B
residue 49
type
sequence Q
description binding site for residue SO4 B 104
source : AC5

21) chain B
residue 72
type
sequence R
description binding site for residue SO4 B 104
source : AC5

22) chain B
residue 73
type
sequence L
description binding site for residue SO4 B 104
source : AC5

23) chain A
residue 7
type
sequence T
description binding site for residue SO4 B 105
source : AC6

24) chain A
residue 9
type
sequence T
description binding site for residue SO4 B 105
source : AC6

25) chain A
residue 11
type
sequence S
description binding site for residue SO4 B 105
source : AC6

26) chain A
residue 34
type
sequence E
description binding site for residue SO4 B 105
source : AC6

27) chain B
residue 7
type
sequence T
description binding site for residue SO4 B 105
source : AC6

28) chain B
residue 8
type
sequence L
description binding site for residue SO4 B 105
source : AC6

29) chain B
residue 9
type
sequence T
description binding site for residue SO4 B 105
source : AC6

30) chain B
residue 34
type
sequence E
description binding site for residue SO4 B 105
source : AC6

31) chain A
residue 27-52
type prosite
sequence KAKIQDKEGIPPDQQRLIFAGKQLED
description UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD
source prosite : PS00299

32) chain A
residue 54
type SITE
sequence R
description Interacts with activating enzyme
source Swiss-Prot : SWS_FT_FI1

33) chain A
residue 72
type SITE
sequence R
description Interacts with activating enzyme
source Swiss-Prot : SWS_FT_FI1

34) chain B
residue 54
type SITE
sequence R
description Interacts with activating enzyme
source Swiss-Prot : SWS_FT_FI1

35) chain B
residue 72
type SITE
sequence R
description Interacts with activating enzyme
source Swiss-Prot : SWS_FT_FI1

36) chain A
residue 33
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577
source Swiss-Prot : SWS_FT_FI10

37) chain B
residue 33
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577
source Swiss-Prot : SWS_FT_FI10

38) chain A
residue 68
type SITE
sequence H
description Essential for function
source Swiss-Prot : SWS_FT_FI2

39) chain B
residue 68
type SITE
sequence H
description Essential for function
source Swiss-Prot : SWS_FT_FI2

40) chain A
residue 65
type MOD_RES
sequence S
description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25474007, ECO:0000269|PubMed:25527291
source Swiss-Prot : SWS_FT_FI3

41) chain B
residue 65
type MOD_RES
sequence S
description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25474007, ECO:0000269|PubMed:25527291
source Swiss-Prot : SWS_FT_FI3

42) chain A
residue 66
type MOD_RES
sequence T
description (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457
source Swiss-Prot : SWS_FT_FI4

43) chain B
residue 66
type MOD_RES
sequence T
description (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457
source Swiss-Prot : SWS_FT_FI4

44) chain A
residue 6
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603
source Swiss-Prot : SWS_FT_FI5

45) chain B
residue 6
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603
source Swiss-Prot : SWS_FT_FI5

46) chain A
residue 63
type CROSSLNK
sequence S
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106
source Swiss-Prot : SWS_FT_FI6

47) chain B
residue 63
type CROSSLNK
sequence S
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106
source Swiss-Prot : SWS_FT_FI6

48) chain A
residue 11
type CROSSLNK
sequence S
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144
source Swiss-Prot : SWS_FT_FI7

49) chain A
residue 48
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144
source Swiss-Prot : SWS_FT_FI7

50) chain B
residue 11
type CROSSLNK
sequence S
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144
source Swiss-Prot : SWS_FT_FI7

51) chain B
residue 48
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144
source Swiss-Prot : SWS_FT_FI7

52) chain A
residue 27
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860
source Swiss-Prot : SWS_FT_FI8

53) chain B
residue 27
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860
source Swiss-Prot : SWS_FT_FI8

54) chain A
residue 29
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127
source Swiss-Prot : SWS_FT_FI9

55) chain B
residue 29
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127
source Swiss-Prot : SWS_FT_FI9


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