eF-site ID 4hb4-ABC
PDB Code 4hb4
Chain A, B, C

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Title Crystal structure of CRM1 inhibitor Leptomycin B in complex with CRM1(537DLTVK541/GLCEQ)-Ran-RanBP1
Classification PROTEIN TRANSPORT/ANTIBIOTIC
Compound GTP-binding nuclear protein Ran
Source Homo sapiens (Human) (XPO1_YEAST)
Sequence A:  QVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEV
HPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAI
IMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIK
DRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARK
LIGDPNLEFVAMPALAPPEVVMDPALAAQYEHDLEVAQTT
ALPDEDDDL
B:  EEDEEVLYKVRAKLFRFDKDAKEWKERGTGDCKFLKNKKT
NKVRILMRRDKTLKICANHIIAPEYTLKPNVGSDRSWVYA
CTADIAEGEAEAFTFAIRFGSKENADKFKEEFEKAQEINK
K
C:  GAMEGILDFSNDLDIALLDQVVSTFYQGSGVQQKQAQEIL
TKFQDNPDAWQKADQILQFSTNPQSKFIALSILDKLITRK
WKLLPNDHRIGIRNFVVGMIISMCQDDEVFKTQKNLINKS
DLTLVQILKQEWPQNWPEFIPELIGSSSSSVNVCENNMIV
LKLLSEEVFDFSAEQMTQAKALHLKNSMSKEFEQIFKLCF
QVLEQGSSSSLIVATLESLLRYLHWIPYRYIYETNILELL
STKFMTSPDTRAITLKCLTEVSNLKIPQDNDLIKRQTVLF
FQNTLQQIATSVMPVTADLKATYANANGNDQSFLQDLAMF
LTTYLARNRALLESDESLRELLLNAHQYLIQLSKIEEREL
FKTTLDYWHNLVADLFYEPLKKHIYEEICSQLRLVIIENM
VRPEEVLVVENDEGEIVREFVKESDTIQLYKSEREVLVYL
THLNVIDTEEIMISKLARQIDGSEWSWHNINTLSWAIGSI
SGTMSEDTEKRFVVTVIKDLLGLCEQKRGKDNKAVVASDI
MYVVGQYPRFLKAHWNFLRTVILKLFEFMHETHEGVQDMA
CDTFIKIVQKCKYHFVIQQPRESEPFIQTIIRDIQKTTAD
LQPQQVHTFYKACGIIISEERSVAERNRLLSDLMQLPNMA
WDTIVEQSTANPTLLLDSETVKIIANIIKTNVAVCTSMGA
DFYPQLGHIYYNMLQLYRAVSSMISAQVAAEGLIATKTPK
VRGLRTIKKEILKLVETYISKARNLDDVVKVLVEPLLNAV
LEDYMNNVPDARDAEVLNCMTTVVEKVGHMIPQGVILILQ
SVFECTLDMINKDFTEYPEHRVEFYKLLKVINEKSFAAFL
ELPPAAFKLFVDAICWAFKHNNRDVEVNGLQIALDLVKNI
ERMGNVPFANEFHKNYFFIFVSETFFVLTDSDHKSGFSKQ
ALLLMKLISLVYDNKISVPLYQEAEVPQGTSNQVYLSQYL
ANMLSNAFPHLTSEQIASFLSALTKQCKDLVVFKGTLRDF
LVQIKEVGGDPTDYLFA
Description (1)  GTP-binding nuclear protein Ran, Ran-specific GTPase-activating protein 1, Exportin-1


Functional site

1) chain A
residue 18
type
sequence D
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

2) chain A
residue 19
type
sequence G
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

3) chain A
residue 20
type
sequence G
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

4) chain A
residue 21
type
sequence T
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

5) chain A
residue 22
type
sequence G
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

6) chain A
residue 23
type
sequence K
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

7) chain A
residue 24
type
sequence T
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

8) chain A
residue 25
type
sequence T
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

9) chain A
residue 36
type
sequence E
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

10) chain A
residue 37
type
sequence K
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

11) chain A
residue 38
type
sequence K
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

12) chain A
residue 39
type
sequence Y
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

13) chain A
residue 41
type
sequence A
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

14) chain A
residue 42
type
sequence T
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

15) chain A
residue 68
type
sequence G
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

16) chain A
residue 69
type
sequence Q
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

17) chain A
residue 122
type
sequence N
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

18) chain A
residue 123
type
sequence K
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

19) chain A
residue 125
type
sequence D
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

20) chain A
residue 126
type
sequence I
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

21) chain A
residue 150
type
sequence S
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

22) chain A
residue 151
type
sequence A
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

23) chain A
residue 152
type
sequence K
description BINDING SITE FOR RESIDUE GNP A 301
source : AC1

24) chain A
residue 24
type
sequence T
description BINDING SITE FOR RESIDUE MG A 302
source : AC2

25) chain A
residue 42
type
sequence T
description BINDING SITE FOR RESIDUE MG A 302
source : AC2

26) chain A
residue 103
type
sequence N
description BINDING SITE FOR RESIDUE EDO A 303
source : AC3

27) chain A
residue 107
type
sequence D
description BINDING SITE FOR RESIDUE EDO A 303
source : AC3

28) chain C
residue 525
type
sequence K
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

29) chain C
residue 539
type
sequence C
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

30) chain C
residue 540
type
sequence E
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

31) chain C
residue 548
type
sequence K
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

32) chain C
residue 552
type
sequence A
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

33) chain C
residue 569
type
sequence H
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

34) chain C
residue 572
type
sequence F
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

35) chain C
residue 575
type
sequence T
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

36) chain C
residue 579
type
sequence K
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

37) chain C
residue 583
type
sequence F
description BINDING SITE FOR RESIDUE LMB C 1101
source : AC4

38) chain C
residue 842
type
sequence L
description BINDING SITE FOR RESIDUE GOL C 1102
source : AC5

39) chain C
residue 846
type
sequence N
description BINDING SITE FOR RESIDUE GOL C 1102
source : AC5

40) chain C
residue 891
type
sequence W
description BINDING SITE FOR RESIDUE GOL C 1102
source : AC5

41) chain C
residue 967
type
sequence Y
description BINDING SITE FOR RESIDUE EDO C 1103
source : AC6

42) chain C
residue 988
type
sequence Q
description BINDING SITE FOR RESIDUE EDO C 1103
source : AC6

43) chain C
residue 992
type
sequence S
description BINDING SITE FOR RESIDUE EDO C 1103
source : AC6

44) chain C
residue 1009
type
sequence E
description BINDING SITE FOR RESIDUE CL C 1104
source : AC7

45) chain C
residue 605
type
sequence K
description BINDING SITE FOR RESIDUE CL C 1105
source : AC8

46) chain C
residue 608
type
sequence Y
description BINDING SITE FOR RESIDUE CL C 1105
source : AC8

47) chain C
residue 61
type
sequence P
description BINDING SITE FOR RESIDUE CL C 1106
source : AC9

48) chain C
residue 62
type
sequence Q
description BINDING SITE FOR RESIDUE CL C 1106
source : AC9

49) chain C
residue 227
type
sequence R
description BINDING SITE FOR RESIDUE CL C 1107
source : BC1

50) chain A
residue 60
type MOD_RES
sequence K
description N6-acetyllysine => ECO:0007744|PubMed:19608861
source Swiss-Prot : SWS_FT_FI10

51) chain A
residue 99
type MOD_RES
sequence K
description N6-acetyllysine => ECO:0007744|PubMed:19608861
source Swiss-Prot : SWS_FT_FI10

52) chain A
residue 24
type MOD_RES
sequence T
description Phosphothreonine => ECO:0007744|PubMed:23186163
source Swiss-Prot : SWS_FT_FI8

53) chain A
residue 71
type MOD_RES
sequence K
description N6-acetyllysine; alternate => ECO:0007744|PubMed:19608861
source Swiss-Prot : SWS_FT_FI11

54) chain A
residue 134
type MOD_RES
sequence K
description N6-acetyllysine => ECO:0000269|PubMed:29040603
source Swiss-Prot : SWS_FT_FI12

55) chain A
residue 159
type MOD_RES
sequence K
description N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P62827
source Swiss-Prot : SWS_FT_FI13

56) chain A
residue 71
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate
source Swiss-Prot : SWS_FT_FI14

57) chain A
residue 152
type CROSSLNK
sequence K
description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) => ECO:0007744|PubMed:28112733
source Swiss-Prot : SWS_FT_FI15

58) chain A
residue 69
type SITE
sequence Q
description Essential for GTP hydrolysis => ECO:0000269|PubMed:18591255, ECO:0000269|PubMed:26272610, ECO:0000269|PubMed:8636225
source Swiss-Prot : SWS_FT_FI6

59) chain A
residue 37
type MOD_RES
sequence K
description N6-acetyllysine => ECO:0000269|PubMed:31075303
source Swiss-Prot : SWS_FT_FI9

60) chain A
residue 18
type BINDING
sequence D
description BINDING => ECO:0000269|PubMed:10078529, ECO:0000269|PubMed:10353245, ECO:0000269|PubMed:10367892, ECO:0000269|PubMed:11832950, ECO:0000269|PubMed:18611384, ECO:0000269|PubMed:19389996, ECO:0000269|PubMed:19505478, ECO:0000269|PubMed:24449914, ECO:0000269|PubMed:24915079, ECO:0000269|PubMed:26272610, ECO:0000269|PubMed:26349033, ECO:0000269|PubMed:28282025, ECO:0000269|PubMed:7885480, ECO:0007744|PDB:1IBR, ECO:0007744|PDB:1K5G, ECO:0007744|PDB:1RRP, ECO:0007744|PDB:3CH5, ECO:0007744|PDB:3GJ0, ECO:0007744|PDB:3GJ3, ECO:0007744|PDB:3GJ4, ECO:0007744|PDB:3GJ5, ECO:0007744|PDB:3GJ6, ECO:0007744|PDB:3GJ7, ECO:0007744|PDB:3GJ8, ECO:0007744|PDB:3GJX, ECO:0007744|PDB:3NBY, ECO:0007744|PDB:3NBZ, ECO:0007744|PDB:3NC0, ECO:0007744|PDB:3NC1, ECO:0007744|PDB:3ZJY, ECO:0007744|PDB:4C0Q, ECO:0007744|PDB:4OL0, ECO:0007744|PDB:5CIQ, ECO:0007744|PDB:5CIT, ECO:0007744|PDB:5CIW, ECO:0007744|PDB:5CLQ, ECO:0007744|PDB:5DH9, ECO:0007744|PDB:5DHA, ECO:0007744|PDB:5DHF, ECO:0007744|PDB:5DI9, ECO:0007744|PDB:5DIF, ECO:0007744|PDB:5DIS, ECO:0007744|PDB:5DLQ, ECO:0007744|PDB:5UWH, ECO:0007744|PDB:5UWI, ECO:0007744|PDB:5UWJ, ECO:0007744|PDB:5UWO, ECO:0007744|PDB:5UWP, ECO:0007744|PDB:5UWQ, ECO:0007744|PDB:5UWR, ECO:0007744|PDB:5UWS, ECO:0007744|PDB:5UWT, ECO:0007744|PDB:5UWU, ECO:0007744|PDB:5UWW
source Swiss-Prot : SWS_FT_FI1

61) chain A
residue 36
type BINDING
sequence E
description BINDING => ECO:0000269|PubMed:10078529, ECO:0000269|PubMed:10353245, ECO:0000269|PubMed:10367892, ECO:0000269|PubMed:11832950, ECO:0000269|PubMed:19389996, ECO:0000269|PubMed:24449914, ECO:0000269|PubMed:24915079, ECO:0000269|PubMed:26272610, ECO:0000269|PubMed:26349033, ECO:0000269|PubMed:28282025, ECO:0000269|PubMed:7885480, ECO:0007744|PDB:1IBR, ECO:0007744|PDB:1K5D, ECO:0007744|PDB:1QBK, ECO:0007744|PDB:1RRP, ECO:0007744|PDB:3GJX, ECO:0007744|PDB:3NBY, ECO:0007744|PDB:3NBZ, ECO:0007744|PDB:3NC0, ECO:0007744|PDB:3NC1, ECO:0007744|PDB:3ZJY, ECO:0007744|PDB:4C0Q, ECO:0007744|PDB:4OL0, ECO:0007744|PDB:5CLL, ECO:0007744|PDB:5CLQ, ECO:0007744|PDB:5DH9, ECO:0007744|PDB:5DHA, ECO:0007744|PDB:5DHF, ECO:0007744|PDB:5DI9, ECO:0007744|PDB:5DIF, ECO:0007744|PDB:5DIS, ECO:0007744|PDB:5DLQ, ECO:0007744|PDB:5JLJ, ECO:0007744|PDB:5UWH, ECO:0007744|PDB:5UWI, ECO:0007744|PDB:5UWJ, ECO:0007744|PDB:5UWO, ECO:0007744|PDB:5UWP, ECO:0007744|PDB:5UWQ, ECO:0007744|PDB:5UWR, ECO:0007744|PDB:5UWS, ECO:0007744|PDB:5UWT, ECO:0007744|PDB:5UWU, ECO:0007744|PDB:5UWW
source Swiss-Prot : SWS_FT_FI2

62) chain A
residue 68
type BINDING
sequence G
description BINDING => ECO:0000269|PubMed:10078529, ECO:0000269|PubMed:10353245, ECO:0000269|PubMed:10367892, ECO:0000269|PubMed:11832950, ECO:0000269|PubMed:18611384, ECO:0000269|PubMed:19389996, ECO:0000269|PubMed:19505478, ECO:0000269|PubMed:24449914, ECO:0000269|PubMed:24915079, ECO:0000269|PubMed:26272610, ECO:0000269|PubMed:26349033, ECO:0000269|PubMed:28282025, ECO:0000269|PubMed:7885480, ECO:0007744|PDB:1IBR, ECO:0007744|PDB:1K5D, ECO:0007744|PDB:1QBK, ECO:0007744|PDB:1RRP, ECO:0007744|PDB:3GJX, ECO:0007744|PDB:3NBY, ECO:0007744|PDB:3NBZ, ECO:0007744|PDB:3NC0, ECO:0007744|PDB:3NC1, ECO:0007744|PDB:3ZJY, ECO:0007744|PDB:4C0Q, ECO:0007744|PDB:4OL0, ECO:0007744|PDB:5DH9, ECO:0007744|PDB:5DHA, ECO:0007744|PDB:5DHF, ECO:0007744|PDB:5DI9, ECO:0007744|PDB:5DIF, ECO:0007744|PDB:5DIS, ECO:0007744|PDB:5DLQ, ECO:0007744|PDB:5JLJ, ECO:0007744|PDB:5UWH, ECO:0007744|PDB:5UWI, ECO:0007744|PDB:5UWJ, ECO:0007744|PDB:5UWO, ECO:0007744|PDB:5UWP, ECO:0007744|PDB:5UWQ, ECO:0007744|PDB:5UWR, ECO:0007744|PDB:5UWS, ECO:0007744|PDB:5UWT, ECO:0007744|PDB:5UWU, ECO:0007744|PDB:5UWW
source Swiss-Prot : SWS_FT_FI3

63) chain A
residue 122
type BINDING
sequence N
description BINDING => ECO:0000269|PubMed:10078529, ECO:0000269|PubMed:10353245, ECO:0000269|PubMed:10367892, ECO:0000269|PubMed:11832950, ECO:0000269|PubMed:18611384, ECO:0000269|PubMed:19389996, ECO:0000269|PubMed:19505478, ECO:0000269|PubMed:24449914, ECO:0000269|PubMed:24915079, ECO:0000269|PubMed:26272610, ECO:0000269|PubMed:26349033, ECO:0000269|PubMed:28282025, ECO:0000269|PubMed:7885480, ECO:0007744|PDB:1IBR, ECO:0007744|PDB:1K5D, ECO:0007744|PDB:1QBK, ECO:0007744|PDB:1RRP, ECO:0007744|PDB:3CH5, ECO:0007744|PDB:3GJ0, ECO:0007744|PDB:3GJ3, ECO:0007744|PDB:3GJ4, ECO:0007744|PDB:3GJ5, ECO:0007744|PDB:3GJ6, ECO:0007744|PDB:3GJ7, ECO:0007744|PDB:3GJ8, ECO:0007744|PDB:3GJX, ECO:0007744|PDB:3NBY, ECO:0007744|PDB:3NBZ, ECO:0007744|PDB:3NC0, ECO:0007744|PDB:3NC1, ECO:0007744|PDB:3ZJY, ECO:0007744|PDB:4C0Q, ECO:0007744|PDB:4OL0, ECO:0007744|PDB:5CIQ, ECO:0007744|PDB:5CIT, ECO:0007744|PDB:5CIW, ECO:0007744|PDB:5CJ2, ECO:0007744|PDB:5CLL, ECO:0007744|PDB:5DH9, ECO:0007744|PDB:5DHA, ECO:0007744|PDB:5DHF, ECO:0007744|PDB:5DI9, ECO:0007744|PDB:5DIF, ECO:0007744|PDB:5DIS, ECO:0007744|PDB:5DLQ, ECO:0007744|PDB:5JLJ, ECO:0007744|PDB:5UWH, ECO:0007744|PDB:5UWI, ECO:0007744|PDB:5UWJ, ECO:0007744|PDB:5UWO, ECO:0007744|PDB:5UWP, ECO:0007744|PDB:5UWQ, ECO:0007744|PDB:5UWR, ECO:0007744|PDB:5UWS, ECO:0007744|PDB:5UWT, ECO:0007744|PDB:5UWU, ECO:0007744|PDB:5UWW
source Swiss-Prot : SWS_FT_FI4

64) chain A
residue 150
type BINDING
sequence S
description BINDING => ECO:0000269|PubMed:10078529, ECO:0000269|PubMed:10353245, ECO:0000269|PubMed:10367892, ECO:0000269|PubMed:11832950, ECO:0000269|PubMed:18611384, ECO:0000269|PubMed:19389996, ECO:0000269|PubMed:19505478, ECO:0000269|PubMed:24449914, ECO:0000269|PubMed:24915079, ECO:0000269|PubMed:26272610, ECO:0000269|PubMed:26349033, ECO:0000269|PubMed:28282025, ECO:0000269|PubMed:7885480, ECO:0007744|PDB:1K5G, ECO:0007744|PDB:3CH5, ECO:0007744|PDB:3GJ0, ECO:0007744|PDB:3GJ3, ECO:0007744|PDB:3GJ4, ECO:0007744|PDB:3GJ5, ECO:0007744|PDB:3GJ6, ECO:0007744|PDB:3GJ7, ECO:0007744|PDB:3GJ8, ECO:0007744|PDB:3GJX, ECO:0007744|PDB:3NBY, ECO:0007744|PDB:3NBZ, ECO:0007744|PDB:3NC0, ECO:0007744|PDB:3NC1, ECO:0007744|PDB:3ZJY, ECO:0007744|PDB:4C0Q, ECO:0007744|PDB:4OL0, ECO:0007744|PDB:5CIQ, ECO:0007744|PDB:5CIT, ECO:0007744|PDB:5CIW, ECO:0007744|PDB:5CJ2, ECO:0007744|PDB:5CLL, ECO:0007744|PDB:5CLQ, ECO:0007744|PDB:5DH9, ECO:0007744|PDB:5DHA, ECO:0007744|PDB:5DHF, ECO:0007744|PDB:5DI9, ECO:0007744|PDB:5DIF, ECO:0007744|PDB:5DIS, ECO:0007744|PDB:5DLQ, ECO:0007744|PDB:5JLJ, ECO:0007744|PDB:5UWH, ECO:0007744|PDB:5UWI, ECO:0007744|PDB:5UWJ, ECO:0007744|PDB:5UWO, ECO:0007744|PDB:5UWP, ECO:0007744|PDB:5UWQ, ECO:0007744|PDB:5UWR, ECO:0007744|PDB:5UWS, ECO:0007744|PDB:5UWT, ECO:0007744|PDB:5UWU, ECO:0007744|PDB:5UWW
source Swiss-Prot : SWS_FT_FI5


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