MolNFT v1 · #155843 · protein

Structure of xenopus laevis cytoplasmic ring subunit.

6LK8 · MGC83295 protein: “Structure of xenopus laevis cytoplasmic ring subunit.”. Electron microscopy, 20 pockets (best druggability 0.81). MolNFT v1 #155843 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6LK8
Type: protein
Length: 14,685 residues
Chains: 32
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: MGC83295 protein; Nuclear pore complex protein NUP85; MGC154553 protein; Nucleoporin…
UniProt: Q642R6, Q68FJ0, Q05AW3, Q4FZW5, A0A1L8GIX3, Q66IZ6, A0A1L8HBE3, Q7ZYJ8, A2RV69, A0A1L8H1I9, A0A1L8HGL2
Pockets: 20 · best druggability 0.81

Structure

electron microscopy · 30 distinct chains · 51% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	MGC83295 protein	protein	1409	78% helix, 0% strand	Q642R6
B	Nuclear pore complex protein NUP85	protein	532	75% helix, 4% strand	Q68FJ0
C	MGC154553 protein	protein	289	0% helix, 35% strand	Q05AW3
D	Nucleoporin SEH1-a	protein	307	1% helix, 48% strand	Q4FZW5
E	Outer NUP160	protein	1030	44% helix, 18% strand	A0A1L8GIX3
F	MGC83926 protein	protein	289	0% helix, 49% strand	Q66IZ6
G	Nuclear pore complex protein NUP96	protein	618	65% helix, 0% strand	A0A1L8HBE3
H	Gator complex protein SEC13	protein	291	4% helix, 49% strand	Q7ZYJ8
I	Nuclear pore complex protein	protein	738	70% helix, 1% strand	A2RV69
J	Outer NUP133	protein	1026	40% helix, 17% strand	A0A1L8H1I9
S, T, V	NUP358 complex, clamps	protein	169	81% helix, 0% strand	A0A1L8HGL2
U	NUP358 complex, clamps	protein	173	79% helix, 0% strand	A0A1L8HGL2
K	NUP214 complex coiled-coil region 1, helix 1	protein	69	91% helix, 0% strand	—
L	NUP214 complex coiled coil region 1, helix 2	protein	80	86% helix, 0% strand	—
M	NUP214 complex coiled coil region 1, helix 3	protein	73	97% helix, 0% strand	—
N	NUP214 complex coiled coil region 2, helix 1	protein	31	90% helix, 0% strand	—
O	NUP214 complex coiled coil region 2, helix 2	protein	35	89% helix, 0% strand	—
P	NUP214 complex coiled coil region 2, helix 3	protein	26	88% helix, 0% strand	—
Q	Bridge domain	protein	387	84% helix, 0% strand	—
R	Bridge domain	protein	351	10% helix, 6% strand	—
a	MGC83295 protein	protein	1272	73% helix, 0% strand	Q642R6
b	Nuclear pore complex protein NUP85	protein	519	75% helix, 2% strand	Q68FJ0
c	MGC154553 protein	protein	292	0% helix, 26% strand	Q05AW3
d	Nucleoporin SEH1-a	protein	293	1% helix, 51% strand	Q4FZW5
e	Outer NUP160	protein	1109	41% helix, 17% strand	A0A1L8GIX3
f	MGC83926 protein	protein	291	0% helix, 49% strand	Q66IZ6
g	Nuclear pore complex protein NUP96	protein	607	67% helix, 1% strand	A0A1L8HBE3
h	Gator complex protein SEC13	protein	287	4% helix, 48% strand	Q7ZYJ8
i	Nuclear pore complex protein	protein	727	70% helix, 1% strand	A2RV69
j	Outer NUP133	protein	1027	40% helix, 17% strand	A0A1L8H1I9

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	873	0.81	0.83	115	empty
2	1188	0.81	0.82	123	empty
3	1879	0.81	0.82	191	empty
4	2027	0.80	0.82	200	empty
5	785	0.80	0.83	126	empty

Interfaces

42 interfaces between chains.

g–h · 1000 Å² buried · 8 hydrogen bonds · protein-protein
B–D · 813 Å² buried · 6 hydrogen bonds · protein-protein
G–H · 752 Å² buried · 1 hydrogen bond · protein-protein
G–I · 669 Å² buried · 0 hydrogen bonds · protein-protein
E–F · 616 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

6LK8 · Structure of Xenopus laevis Cytoplasmic Ring subunit. · the same entry in another collection · chain S against S, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q642R6
Every structure of UniProt Q68FJ0
Every structure of UniProt Q05AW3
Every structure of UniProt Q4FZW5
Every structure of UniProt A0A1L8GIX3
Every structure of UniProt Q66IZ6
Every structure of UniProt A0A1L8HBE3
Every structure of UniProt Q7ZYJ8
Every structure of UniProt A2RV69
Every structure of UniProt A0A1L8H1I9
Every structure of UniProt A0A1L8HGL2
Elsewhere: RCSB PDB 6LK8 · PDBe 6LK8 · UniProt Q642R6 · UniProt Q68FJ0 · UniProt Q05AW3 · UniProt Q4FZW5 · UniProt A0A1L8GIX3 · UniProt Q66IZ6 · UniProt A0A1L8HBE3 · UniProt Q7ZYJ8 · UniProt A2RV69 · UniProt A0A1L8H1I9 · UniProt A0A1L8HGL2

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