eF-site ID 6ip4-AB
PDB Code 6ip4
Chain A, B

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Title Crystal structure of Arabidopsis thaliana JMJ13 catalytic domain in complex with NOG and an H3K27me3 peptide
Classification GENE REGULATION
Compound Arabidopsis JMJ13
Source (H32_ARATH)
Sequence A:  DLKWTERLPECPVYRPTKEEFEDPLTYLQKIFPEASKYGI
CKIVSPLTATVPAGAVLMKEKSNFKFTTRVQPLRLAEWDS
DDKVTFFMSGRTYTFRDYEKMANKVFARRYCSGGSLPDSF
LEKEFWKEIACGKTETVEYACDVDGSAFSSAPGDPLGSSK
WNLNKVSRLPKSTLRLLETSIPGVTEPMLYIGMLFSMFAW
HVEDHYLYSINYQHCGASKTWYGIPGSAALKFEKVVKECV
YNDDILSTNGEDGAFDVLLGKTTIFPPKTLLDHNVPVYKA
VQKPGEFVVTFPRAYHAGFSHGFNCGEAVNFAMGDWFPFG
AIASCRYAHLNRVPLLPHEELICKEAMLLNSSSKSENLDL
TPTELSGQRSIKTAFVHLIRFLHLARWSLMKSGLCTGLVS
NTYGTIVCSLCKRDCYLAFINCECYSHPVCLRHDVKKLDL
PCGTTHTLYLRDNIEDMEAAAMKFEKEDGVS
B:  AARXSAPA
Description


Functional site
1) chain A
residue 293
type
sequence H
description binding site for residue NI A 601
source : AC1
2) chain A
residue 295
type
sequence E
description binding site for residue NI A 601
source : AC1
3) chain A
residue 388
type
sequence H
description binding site for residue NI A 601
source : AC1
4) chain A
residue 500
type
sequence C
description binding site for residue ZN A 602
source : AC2
5) chain A
residue 503
type
sequence C
description binding site for residue ZN A 602
source : AC2
6) chain A
residue 522
type
sequence C
description binding site for residue ZN A 602
source : AC2
7) chain A
residue 525
type
sequence H
description binding site for residue ZN A 602
source : AC2
8) chain A
residue 514
type
sequence C
description binding site for residue ZN A 603
source : AC3
9) chain A
residue 516
type
sequence C
description binding site for residue ZN A 603
source : AC3
10) chain A
residue 519
type
sequence H
description binding site for residue ZN A 603
source : AC3
11) chain A
residue 534
type
sequence C
description binding site for residue ZN A 603
source : AC3
12) chain A
residue 231
type
sequence Y
description binding site for residue OGA A 604
source : AC4
13) chain A
residue 282
type
sequence Y
description binding site for residue OGA A 604
source : AC4
14) chain A
residue 290
type
sequence F
description binding site for residue OGA A 604
source : AC4
15) chain A
residue 293
type
sequence H
description binding site for residue OGA A 604
source : AC4
16) chain A
residue 295
type
sequence E
description binding site for residue OGA A 604
source : AC4
17) chain A
residue 301
type
sequence S
description binding site for residue OGA A 604
source : AC4
18) chain A
residue 303
type
sequence N
description binding site for residue OGA A 604
source : AC4
19) chain A
residue 388
type
sequence H
description binding site for residue OGA A 604
source : AC4
20) chain A
residue 488
type
sequence T
description binding site for residue SO4 A 605
source : AC5
21) chain A
residue 492
type
sequence S
description binding site for residue SO4 A 605
source : AC5
22) chain A
residue 542
type
sequence L
description binding site for residue SO4 A 605
source : AC5
23) chain A
residue 543
type
sequence R
description binding site for residue SO4 A 605
source : AC5
24) chain A
residue 544
type
sequence D
description binding site for residue SO4 A 605
source : AC5
25) chain A
residue 427
type
sequence L
description binding site for residue SO4 A 606
source : AC6
26) chain A
residue 428
type
sequence L
description binding site for residue SO4 A 606
source : AC6
27) chain A
residue 429
type
sequence P
description binding site for residue SO4 A 606
source : AC6
28) chain A
residue 196
type
sequence K
description binding site for residue SO4 A 607
source : AC7
29) chain A
residue 196
type
sequence K
description binding site for residue SO4 A 607
source : AC7
30) chain A
residue 153
type
sequence K
description binding site for residue SO4 A 608
source : AC8
31) chain A
residue 154
type
sequence S
description binding site for residue SO4 A 608
source : AC8
32) chain A
residue 414
type
sequence I
description binding site for residue SO4 A 609
source : AC9
33) chain A
residue 525
type
sequence H
description binding site for residue SO4 A 610
source : AD1
34) chain A
residue 526
type
sequence D
description binding site for residue SO4 A 610
source : AD1
35) chain A
residue 188
type
sequence R
description binding site for residue SO4 A 611
source : AD2
36) chain A
residue 192
type
sequence K
description binding site for residue SO4 A 611
source : AD2
37) chain A
residue 196
type
sequence K
description binding site for residue SO4 A 611
source : AD2
38) chain A
residue 200
type
sequence R
description binding site for residue SO4 A 611
source : AD2
39) chain A
residue 236
type MOD_RES
sequence D
description Phosphoserine => ECO:0000269|PubMed:14610360, ECO:0000269|PubMed:15753571
source Swiss-Prot : SWS_FT_FI4
40) chain A
residue 282
type MOD_RES
sequence Y
description Phosphoserine => ECO:0000269|PubMed:14610360, ECO:0000269|PubMed:15753571
source Swiss-Prot : SWS_FT_FI4
41) chain A
residue 296
type MOD_RES
sequence D
description Phosphoserine => ECO:0000269|PubMed:14610360, ECO:0000269|PubMed:15753571
source Swiss-Prot : SWS_FT_FI4
42) chain A
residue 402
type MOD_RES
sequence N
description Phosphoserine => ECO:0000269|PubMed:14610360, ECO:0000269|PubMed:15753571
source Swiss-Prot : SWS_FT_FI4
43) chain B
residue 28
type MOD_RES
sequence S
description Phosphoserine => ECO:0000269|PubMed:14610360, ECO:0000269|PubMed:15753571
source Swiss-Prot : SWS_FT_FI4
44) chain B
residue 27
type SITE
sequence X
description Not N6-acetylated => ECO:0000269|PubMed:15598823
source Swiss-Prot : SWS_FT_FI1
45) chain A
residue 295
type SITE
sequence E
description Required for interaction with TSK => ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI2
46) chain A
residue 388
type SITE
sequence H
description Required for interaction with TSK => ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI2
47) chain B
residue 31
type SITE
sequence A
description Required for interaction with TSK => ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI2
48) chain A
residue 503
type MOD_RES
sequence C
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
49) chain A
residue 514
type MOD_RES
sequence C
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
50) chain A
residue 516
type MOD_RES
sequence C
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
51) chain A
residue 519
type MOD_RES
sequence H
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
52) chain A
residue 522
type MOD_RES
sequence C
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
53) chain A
residue 525
type MOD_RES
sequence H
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
54) chain A
residue 534
type MOD_RES
sequence C
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3
55) chain B
residue 27
type MOD_RES
sequence X
description N6-methyllysine; alternate => ECO:0000269|PubMed:14712277, ECO:0000269|PubMed:15598823, ECO:0000269|PubMed:17174094, ECO:0000269|PubMed:17439305, ECO:0000269|PubMed:19503079, ECO:0000269|PubMed:24626927, ECO:0000269|PubMed:35298257
source Swiss-Prot : SWS_FT_FI3

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