eF-site ID 5fpb-A
PDB Code 5fpb
Chain A

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Title Crystal structure of human KDM4D in complex with 2-1H-pyrazol-4-yloxy- 3H,4H-pyrido-3,4-d-pyrimidin-4-one
Classification OXIDOREDUCTASE
Compound LYSINE-SPECIFIC DEMETHYLASE 4D
Source Homo sapiens (Human) (KDM4D_HUMAN)
Sequence A:  AQNPNCNIMIFHPTKEEFNDFDKYIAYMESQGAHRAGLAK
IIPPKEWKARETYDNISEILIATPLQQVASGRAGVFTQYH
KKKKAMTVGEYRHLANSKKYQTPPHQNFEDLERKYWKNRI
YNSPIYGADISGSLFDENTKQWNLGHLGTIQDLLEKECGV
VIEGVNTPYLYFGMWKTTFAWHTEDMDLYSINYLHLGEPK
TWYVVPPEHGQRLERLARELFPGSSRGCGAFLRHKVALIS
PTVLKENGIPFNRITQEAGEFMVTFPYGYHAGFNHGFNCA
EAINFATPRWIDYGKMASQCSCGEARVTFSMDAFVRILQP
ERYDLWKRGQ
Description


Functional site

1) chain A
residue 238
type
sequence C
description BINDING SITE FOR RESIDUE ZN A 350
source : AC1

2) chain A
residue 244
type
sequence H
description BINDING SITE FOR RESIDUE ZN A 350
source : AC1

3) chain A
residue 310
type
sequence C
description BINDING SITE FOR RESIDUE ZN A 350
source : AC1

4) chain A
residue 312
type
sequence C
description BINDING SITE FOR RESIDUE ZN A 350
source : AC1

5) chain A
residue 192
type
sequence H
description BINDING SITE FOR RESIDUE CO A 360
source : AC2

6) chain A
residue 194
type
sequence E
description BINDING SITE FOR RESIDUE CO A 360
source : AC2

7) chain A
residue 280
type
sequence H
description BINDING SITE FOR RESIDUE CO A 360
source : AC2

8) chain A
residue 90
type
sequence H
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

9) chain A
residue 136
type
sequence Y
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

10) chain A
residue 138
type
sequence A
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

11) chain A
residue 181
type
sequence Y
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

12) chain A
residue 188
type
sequence T
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

13) chain A
residue 189
type
sequence F
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

14) chain A
residue 192
type
sequence H
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

15) chain A
residue 210
type
sequence K
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

16) chain A
residue 212
type
sequence W
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

17) chain A
residue 245
type
sequence K
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

18) chain A
residue 280
type
sequence H
description BINDING SITE FOR RESIDUE HA6 A 1341
source : AC3

19) chain A
residue 179
type
sequence Y
description BINDING SITE FOR RESIDUE SO4 A 1342
source : AC4

20) chain A
residue 181
type
sequence Y
description BINDING SITE FOR RESIDUE SO4 A 1342
source : AC4

21) chain A
residue 194
type
sequence E
description BINDING SITE FOR RESIDUE SO4 A 1342
source : AC4

22) chain A
residue 292
type
sequence A
description BINDING SITE FOR RESIDUE SO4 A 1342
source : AC4

23) chain A
residue 294
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1342
source : AC4

24) chain A
residue 60
type
sequence R
description BINDING SITE FOR RESIDUE SO4 A 1343
source : AC5

25) chain A
residue 61
type
sequence E
description BINDING SITE FOR RESIDUE SO4 A 1343
source : AC5

26) chain A
residue 62
type
sequence T
description BINDING SITE FOR RESIDUE SO4 A 1343
source : AC5

27) chain A
residue 65
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1343
source : AC5

28) chain A
residue 123
type
sequence R
description BINDING SITE FOR RESIDUE SO4 A 1344
source : AC6

29) chain A
residue 124
type
sequence K
description BINDING SITE FOR RESIDUE SO4 A 1344
source : AC6

30) chain A
residue 127
type
sequence K
description BINDING SITE FOR RESIDUE SO4 A 1344
source : AC6

31) chain A
residue 128
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1344
source : AC6

32) chain A
residue 113
type
sequence P
description BINDING SITE FOR RESIDUE SO4 A 1345
source : AC7

33) chain A
residue 124
type
sequence K
description BINDING SITE FOR RESIDUE SO4 A 1345
source : AC7

34) chain A
residue 128
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1345
source : AC7

35) chain A
residue 185
type
sequence W
description BINDING SITE FOR RESIDUE SO4 A 1345
source : AC7

36) chain A
residue 186
type
sequence K
description BINDING SITE FOR RESIDUE SO4 A 1345
source : AC7

37) chain A
residue 102
type
sequence R
description BINDING SITE FOR RESIDUE SO4 A 1346
source : AC8

38) chain A
residue 103
type
sequence H
description BINDING SITE FOR RESIDUE SO4 A 1346
source : AC8

39) chain A
residue 106
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1346
source : AC8

40) chain A
residue 116
type
sequence Q
description BINDING SITE FOR RESIDUE SO4 A 1347
source : AC9

41) chain A
residue 116
type
sequence Q
description BINDING SITE FOR RESIDUE SO4 A 1347
source : AC9

42) chain A
residue 117
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1347
source : AC9

43) chain A
residue 117
type
sequence N
description BINDING SITE FOR RESIDUE SO4 A 1347
source : AC9

44) chain A
residue 302
type
sequence D
description BINDING SITE FOR RESIDUE SO4 A 1348
source : BC1

45) chain A
residue 303
type
sequence Y
description BINDING SITE FOR RESIDUE SO4 A 1348
source : BC1

46) chain A
residue 306
type
sequence M
description BINDING SITE FOR RESIDUE SO4 A 1348
source : BC1

47) chain A
residue 136
type BINDING
sequence Y
description BINDING => ECO:0000250|UniProtKB:B2RXH2
source Swiss-Prot : SWS_FT_FI1

48) chain A
residue 202
type BINDING
sequence N
description BINDING => ECO:0000250|UniProtKB:B2RXH2
source Swiss-Prot : SWS_FT_FI1

49) chain A
residue 210
type BINDING
sequence K
description BINDING => ECO:0000250|UniProtKB:B2RXH2
source Swiss-Prot : SWS_FT_FI1

50) chain A
residue 245
type BINDING
sequence K
description BINDING => ECO:0000250|UniProtKB:B2RXH2
source Swiss-Prot : SWS_FT_FI1

51) chain A
residue 192
type BINDING
sequence H
description BINDING => ECO:0000255|PROSITE-ProRule:PRU00538, ECO:0000305|PubMed:26741168
source Swiss-Prot : SWS_FT_FI2

52) chain A
residue 194
type BINDING
sequence E
description BINDING => ECO:0000255|PROSITE-ProRule:PRU00538, ECO:0000305|PubMed:26741168
source Swiss-Prot : SWS_FT_FI2

53) chain A
residue 280
type BINDING
sequence H
description BINDING => ECO:0000255|PROSITE-ProRule:PRU00538, ECO:0000305|PubMed:26741168
source Swiss-Prot : SWS_FT_FI2

54) chain A
residue 238
type BINDING
sequence C
description BINDING => ECO:0007744|PDB:5F5A, ECO:0007744|PDB:5F5C
source Swiss-Prot : SWS_FT_FI3

55) chain A
residue 244
type BINDING
sequence H
description BINDING => ECO:0007744|PDB:5F5A, ECO:0007744|PDB:5F5C
source Swiss-Prot : SWS_FT_FI3

56) chain A
residue 310
type BINDING
sequence C
description BINDING => ECO:0007744|PDB:5F5A, ECO:0007744|PDB:5F5C
source Swiss-Prot : SWS_FT_FI3

57) chain A
residue 312
type BINDING
sequence C
description BINDING => ECO:0007744|PDB:5F5A, ECO:0007744|PDB:5F5C
source Swiss-Prot : SWS_FT_FI3

58) chain A
residue 26
type MOD_RES
sequence E
description PolyADP-ribosyl glutamic acid => ECO:0000269|PubMed:23102699
source Swiss-Prot : SWS_FT_FI4

59) chain A
residue 27
type MOD_RES
sequence E
description PolyADP-ribosyl glutamic acid => ECO:0000269|PubMed:23102699
source Swiss-Prot : SWS_FT_FI4


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