SMTL ID : 7zs5.1

Structure of 60S ribosomal subunit from S. cerevisiae with eIF6 and tRNA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-1-mer

Ligands

23 x UNK: UNKNOWN(Non-functional Binders)

UNK.1: 2 residues within 4Å: Chain A: A.1503 Ligands: UNK.22 No protein-ligand interaction detected (PLIP) UNK.2: 3 residues within 4Å: Chain A: C.1846 Ligands: UNK.3, UNK.20 No protein-ligand interaction detected (PLIP) UNK.3: 3 residues within 4Å: Chain A: C.1846 Ligands: UNK.2, UNK.16 No protein-ligand interaction detected (PLIP) UNK.4: 3 residues within 4Å: Chain A: A.883 Ligands: UNK.5, UNK.17 No protein-ligand interaction detected (PLIP) UNK.5: 3 residues within 4Å: Ligands: UNK.4, UNK.17, UNK.21 No protein-ligand interaction detected (PLIP) UNK.6: 3 residues within 4Å: Ligands: UNK.7, UNK.8, UNK.21 No protein-ligand interaction detected (PLIP) UNK.7: 4 residues within 4Å: Chain A: U.2978 Ligands: UNK.6, UNK.8, UNK.9 No protein-ligand interaction detected (PLIP) UNK.8: 6 residues within 4Å: Chain A: G.2400, U.2978 Ligands: UNK.6, UNK.7, UNK.9, UNK.10 No protein-ligand interaction detected (PLIP) UNK.9: 4 residues within 4Å: Ligands: UNK.7, UNK.8, UNK.10, UNK.11 No protein-ligand interaction detected (PLIP) UNK.10: 5 residues within 4Å: Chain A: A.2404 Ligands: UNK.8, UNK.9, UNK.11, UNK.12 No protein-ligand interaction detected (PLIP) UNK.11: 6 residues within 4Å: Chain A: A.2404, U.2954 Ligands: UNK.9, UNK.10, UNK.12, UNK.13 No protein-ligand interaction detected (PLIP) UNK.12: 6 residues within 4Å: Chain A: G.2403, A.2404 Ligands: UNK.10, UNK.11, UNK.13, UNK.14 No protein-ligand interaction detected (PLIP) UNK.13: 5 residues within 4Å: Chain A: G.2403, U.2875 Ligands: UNK.11, UNK.12, UNK.14 No protein-ligand interaction detected (PLIP) UNK.14: 5 residues within 4Å: Chain A: A.2820, U.2875, U.2954 Ligands: UNK.12, UNK.13 No protein-ligand interaction detected (PLIP) UNK.16: 2 residues within 4Å: Ligands: UNK.3, UNK.17 No protein-ligand interaction detected (PLIP) UNK.17: 4 residues within 4Å: Chain J: R.68 Ligands: UNK.4, UNK.5, UNK.16 No protein-ligand interaction detected (PLIP) UNK.18: 3 residues within 4Å: Chain U: R.127 Ligands: UNK.19, UNK.24 No protein-ligand interaction detected (PLIP) UNK.19: 2 residues within 4Å: Ligands: UNK.18, UNK.20 No protein-ligand interaction detected (PLIP) UNK.20: 3 residues within 4Å: Chain U: R.127 Ligands: UNK.2, UNK.19 No protein-ligand interaction detected (PLIP) UNK.21: 2 residues within 4Å: Ligands: UNK.5, UNK.6 No protein-ligand interaction detected (PLIP) UNK.22: 3 residues within 4Å: Ligands: UNK.1, UNK.23 Chain g: Y.36 1 PLIP interactions: 1 interactions with chain g Hydrogen bonds: g:Y.36 UNK.23: 2 residues within 4Å: Ligands: UNK.22, UNK.24 No protein-ligand interaction detected (PLIP) UNK.24: 2 residues within 4Å: Ligands: UNK.18, UNK.23 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.15: 1 residues within 4Å: Chain E: U.29 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Best, K. et al., Structural basis for clearing of ribosome collisions by the RQT complex. Nat Commun (2023)

Release Date

2023-02-22

Peptides

Eukaryotic translation initiation factor 6: D
60S ribosomal protein L42-A: F
60S ribosomal protein L43-A: G
60S ribosomal protein L2-A: H
60S ribosomal protein L3: I
60S ribosomal protein L4-A: J
60S ribosomal protein L5: K
60S ribosomal protein L6-A: L
60S ribosomal protein L7-A: M
60S ribosomal protein L8-A: N
60S ribosomal protein L9-A: O
60S ribosomal protein L11-B: P
60S ribosomal protein L13-A: Q
60S ribosomal protein L14-A: R
60S ribosomal protein L15-A: S
60S ribosomal protein L16-A: T
60S ribosomal protein L17-A: U
60S ribosomal protein L18-A: V
60S ribosomal protein L19-A: W
60S ribosomal protein L20-A: X
60S ribosomal protein L21-A: Y
60S ribosomal protein L22-A: Z
60S ribosomal protein L23-A: 0
60S ribosomal protein L24-A: 1
60S ribosomal protein L25: 2
60S ribosomal protein L26-A: 3
60S ribosomal protein L27-A: 4
60S ribosomal protein L28: 5
60S ribosomal protein L29: 6
60S ribosomal protein L30: 7
60S ribosomal protein L31-A: 8
60S ribosomal protein L32: 9
60S ribosomal protein L33-A: a
60S ribosomal protein L34-A: b
60S ribosomal protein L35-A: c
60S ribosomal protein L36-A: d
60S ribosomal protein L37-A: e
60S ribosomal protein L38: f
60S ribosomal protein L39: g
60S ribosomal protein L40-A: h
60S ribosomal protein L10: i

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

D
A

F
BA

G
BB

H
BC

I
BD

J
BE

K
BF

L
BG

M
BH

N
BI

O
BJ

P
BL

Q
BM

R
BN

S
BO

T
BP

U
BQ

V
BR

W
BS

X
BT

Y
BU

Z
BV

0
BW

1
BX

2
BY

3
BZ

4
Ba

5
Bb

6
Bc

7
Bd

8
Be

9
Bf

a
Bg

b
Bh

c
Bi

d
Bj

e
Bk

f
Bl

g
Bm

h
Bn

i
BK

Eukaryotic translation initiation factor 6

60S ribosomal protein L42-A

60S ribosomal protein L43-A

60S ribosomal protein L2-A

60S ribosomal protein L3

60S ribosomal protein L4-A

60S ribosomal protein L5

60S ribosomal protein L6-A

60S ribosomal protein L7-A

60S ribosomal protein L8-A

60S ribosomal protein L9-A

60S ribosomal protein L11-B

60S ribosomal protein L13-A

60S ribosomal protein L14-A

60S ribosomal protein L15-A

60S ribosomal protein L16-A

60S ribosomal protein L17-A

60S ribosomal protein L18-A

60S ribosomal protein L19-A

60S ribosomal protein L20-A

60S ribosomal protein L21-A

60S ribosomal protein L22-A

60S ribosomal protein L23-A

60S ribosomal protein L24-A

60S ribosomal protein L25

60S ribosomal protein L26-A

60S ribosomal protein L27-A

60S ribosomal protein L28

60S ribosomal protein L29

60S ribosomal protein L30

60S ribosomal protein L31-A

60S ribosomal protein L32

60S ribosomal protein L33-A

60S ribosomal protein L34-A

60S ribosomal protein L35-A

60S ribosomal protein L36-A

60S ribosomal protein L37-A

60S ribosomal protein L38

60S ribosomal protein L39

60S ribosomal protein L40-A

60S ribosomal protein L10

Related Entries With Identical Sequence