eF-site ID 4fjv-ABCD
PDB Code 4fjv
Chain A, B, C, D

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Title Crystal Structure of Human Otubain2 and Ubiquitin Complex
Classification HYDROLASE
Compound Ubiquitin thioesterase OTUB2
Source Homo sapiens (Human) (UBC_HUMAN)
Sequence A:  SETSFNLISEKCDILSILRDHPENRIYRRKIEELSKRFTA
IRKTKGDGNCFYRALGYSYLESLLGKSREIFKFKERVLQT
PNDLLAAGFEEHKFRNFFNAFYSVVELVEKDGSVSSLLKV
FNDQSASDHIVQFLRLLTSAFIRNRADFFRHFIDEEMDIK
DFCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDT
ALNHHVFPEAATPSVYLLYKTSHYNILYAAD
B:  DVPDYAHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK
EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL
RG
C:  ETSFNLISEKCDILSILRDHPENRIYRRKIEELSKRFTAI
RKTKGDGNCFYRALGYSYLESLLGKSREIFKFKERVLQTP
NDLLAAGFEEHKFRNFFNAFYSVVELVEKDGSVSSLLKVF
NDQSASDHIVQFLRLLTSAFIRNRADFFRHFIDEEMDIKD
FCTHEVEPMATECDHIQITALSQALSIALQVEYVDEMDTA
LNHHVFPEAATPSVYLLYKTSHYNILYAAD
D:  DVPDYAHMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDK
EGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRL
RG
Description


Functional site

1) chain A
residue 6
type
sequence F
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

2) chain A
residue 7
type
sequence N
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

3) chain A
residue 10
type
sequence S
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

4) chain A
residue 44
type
sequence K
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

5) chain A
residue 45
type
sequence T
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

6) chain A
residue 46
type
sequence K
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

7) chain C
residue 20
type
sequence R
description BINDING SITE FOR RESIDUE GOL A 301
source : AC1

8) chain A
residue 12
type
sequence K
description BINDING SITE FOR RESIDUE GOL A 302
source : AC2

9) chain A
residue 14
type
sequence D
description BINDING SITE FOR RESIDUE GOL A 302
source : AC2

10) chain C
residue 12
type
sequence K
description BINDING SITE FOR RESIDUE GOL A 302
source : AC2

11) chain C
residue 14
type
sequence D
description BINDING SITE FOR RESIDUE GOL A 302
source : AC2

12) chain A
residue 196
type
sequence V
description BINDING SITE FOR RESIDUE GOL A 303
source : AC3

13) chain A
residue 220
type
sequence Y
description BINDING SITE FOR RESIDUE GOL A 303
source : AC3

14) chain A
residue 221
type
sequence K
description BINDING SITE FOR RESIDUE GOL A 303
source : AC3

15) chain A
residue 223
type
sequence S
description BINDING SITE FOR RESIDUE GOL A 303
source : AC3

16) chain A
residue 49
type
sequence G
description BINDING SITE FOR RESIDUE NEH B 101
source : AC4

17) chain A
residue 51
type
sequence C
description BINDING SITE FOR RESIDUE NEH B 101
source : AC4

18) chain A
residue 223
type
sequence S
description BINDING SITE FOR RESIDUE NEH B 101
source : AC4

19) chain B
residue 75
type
sequence G
description BINDING SITE FOR RESIDUE NEH B 101
source : AC4

20) chain A
residue 20
type
sequence R
description BINDING SITE FOR RESIDUE GOL C 301
source : AC5

21) chain C
residue 6
type
sequence F
description BINDING SITE FOR RESIDUE GOL C 301
source : AC5

22) chain C
residue 7
type
sequence N
description BINDING SITE FOR RESIDUE GOL C 301
source : AC5

23) chain C
residue 10
type
sequence S
description BINDING SITE FOR RESIDUE GOL C 301
source : AC5

24) chain C
residue 45
type
sequence T
description BINDING SITE FOR RESIDUE GOL C 301
source : AC5

25) chain A
residue 10
type
sequence S
description BINDING SITE FOR RESIDUE GOL C 302
source : AC6

26) chain A
residue 11
type
sequence E
description BINDING SITE FOR RESIDUE GOL C 302
source : AC6

27) chain C
residue 10
type
sequence S
description BINDING SITE FOR RESIDUE GOL C 303
source : AC7

28) chain C
residue 49
type
sequence G
description BINDING SITE FOR RESIDUE NEH D 101
source : AC8

29) chain C
residue 51
type
sequence C
description BINDING SITE FOR RESIDUE NEH D 101
source : AC8

30) chain C
residue 223
type
sequence S
description BINDING SITE FOR RESIDUE NEH D 101
source : AC8

31) chain C
residue 224
type
sequence H
description BINDING SITE FOR RESIDUE NEH D 101
source : AC8

32) chain D
residue 75
type
sequence G
description BINDING SITE FOR RESIDUE NEH D 101
source : AC8

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

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 D
residue 54
type SITE
sequence R
description Interacts with activating enzyme
source Swiss-Prot : SWS_FT_FI1

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

38) 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_FI10

39) chain D
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_FI10

40) 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_FI11

41) chain D
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_FI11

42) chain B
residue 63
type CROSSLNK
sequence K
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_FI12

43) chain D
residue 63
type CROSSLNK
sequence K
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_FI12

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

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

46) 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:25527291
source Swiss-Prot : SWS_FT_FI3

47) chain D
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:25527291
source Swiss-Prot : SWS_FT_FI3

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

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

50) 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_FI6

51) chain D
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_FI6

52) chain B
residue 11
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_FI8

53) 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_FI8

54) chain D
residue 11
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_FI8

55) chain D
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_FI8

56) 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_FI9

57) chain D
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_FI9


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