SMTL ID : 3j80.1

CryoEM structure of 40S-eIF1-eIF1A preinitiation complex

Coordinates

PDB Format

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-mer

Ligands

67 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: G.361, G.362 No protein-ligand interaction detected (PLIP) MG.2: 4 residues within 4Å: Chain A: A.93, C.401, G.402 Chain E: R.3 No protein-ligand interaction detected (PLIP) MG.3: 5 residues within 4Å: Chain A: G.551, G.552, C.553, A.554, A.555 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain A: C.99, A.100, C.360 No protein-ligand interaction detected (PLIP) MG.5: 2 residues within 4Å: Chain A: G.623, A.1025 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain A: G.556, G.585 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Chain A: C.49 No protein-ligand interaction detected (PLIP) MG.8: 1 residues within 4Å: Chain A: G.994 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain A: G.1330, A.1331, C.1332, C.1419 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain A: U.9, G.10 No protein-ligand interaction detected (PLIP) MG.11: 3 residues within 4Å: Chain A: A.929, A.944, U.945 No protein-ligand interaction detected (PLIP) MG.12: 5 residues within 4Å: Chain A: A.1762, G.1766, G.1767, U.1769, U.1770 No protein-ligand interaction detected (PLIP) MG.13: 2 residues within 4Å: Chain A: G.547, G.548 No protein-ligand interaction detected (PLIP) MG.14: 3 residues within 4Å: Chain A: G.391, A.400 Chain H: K.23 No protein-ligand interaction detected (PLIP) MG.15: 2 residues within 4Å: Chain A: G.16, U.607 No protein-ligand interaction detected (PLIP) MG.16: 4 residues within 4Å: Chain A: G.361, G.362, A.377, U.378 No protein-ligand interaction detected (PLIP) MG.17: 3 residues within 4Å: Chain A: A.28, U.29, A.436 No protein-ligand interaction detected (PLIP) MG.18: 3 residues within 4Å: Chain A: G.370, A.604, G.606 No protein-ligand interaction detected (PLIP) MG.19: 3 residues within 4Å: Chain A: A.998, U.999, U.1004 No protein-ligand interaction detected (PLIP) MG.20: 2 residues within 4Å: Chain A: C.426, G.428 No protein-ligand interaction detected (PLIP) MG.21: 3 residues within 4Å: Chain A: A.43, U.44, A.47 No protein-ligand interaction detected (PLIP) MG.22: 5 residues within 4Å: Chain A: U.1760, A.1761, A.1762, G.1766, G.1767 No protein-ligand interaction detected (PLIP) MG.23: 3 residues within 4Å: Chain A: A.618, A.619, A.620 No protein-ligand interaction detected (PLIP) MG.24: 1 residues within 4Å: Chain A: A.579 No protein-ligand interaction detected (PLIP) MG.25: 3 residues within 4Å: Chain A: U.617, A.618, A.619 No protein-ligand interaction detected (PLIP) MG.26: 2 residues within 4Å: Chain A: G.1328, G.1330 No protein-ligand interaction detected (PLIP) MG.27: 2 residues within 4Å: Chain A: A.622, C.1028 No protein-ligand interaction detected (PLIP) MG.28: 4 residues within 4Å: Chain A: A.100, U.101, U.102, C.360 No protein-ligand interaction detected (PLIP) MG.29: 4 residues within 4Å: Chain A: G.20, U.21, A.604 Chain O: K.110 No protein-ligand interaction detected (PLIP) MG.30: 3 residues within 4Å: Chain A: G.1108, G.1109, G.1110 No protein-ligand interaction detected (PLIP) MG.31: 1 residues within 4Å: Chain A: U.1769 No protein-ligand interaction detected (PLIP) MG.32: 1 residues within 4Å: Chain A: G.95 No protein-ligand interaction detected (PLIP) MG.33: 5 residues within 4Å: Chain A: G.1671, G.1672, C.1673, G.1726, U.1727 No protein-ligand interaction detected (PLIP) MG.34: 4 residues within 4Å: Chain A: G.1628, U.1629, G.1792, A.1793 No protein-ligand interaction detected (PLIP) MG.35: 2 residues within 4Å: Chain A: C.267 Chain F: Q.176 No protein-ligand interaction detected (PLIP) MG.36: 2 residues within 4Å: Chain A: A.459, G.460 No protein-ligand interaction detected (PLIP) MG.37: 1 residues within 4Å: Chain A: G.466 No protein-ligand interaction detected (PLIP) MG.38: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.39: 1 residues within 4Å: Chain A: G.548 No protein-ligand interaction detected (PLIP) MG.40: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.41: 2 residues within 4Å: Chain A: U.1303, G.1304 No protein-ligand interaction detected (PLIP) MG.42: 1 residues within 4Å: Chain A: A.979 No protein-ligand interaction detected (PLIP) MG.43: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.44: 3 residues within 4Å: Chain A: U.760, A.761, G.762 No protein-ligand interaction detected (PLIP) MG.45: 2 residues within 4Å: Chain A: U.8, G.1140 No protein-ligand interaction detected (PLIP) MG.46: 3 residues within 4Å: Chain A: A.514, G.515, C.529 No protein-ligand interaction detected (PLIP) MG.47: 1 residues within 4Å: Chain A: G.1294 No protein-ligand interaction detected (PLIP) MG.48: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.49: 2 residues within 4Å: Chain A: U.989, G.1011 No protein-ligand interaction detected (PLIP) MG.50: 2 residues within 4Å: Chain A: A.212, G.213 No protein-ligand interaction detected (PLIP) MG.51: 1 residues within 4Å: Chain A: G.328 No protein-ligand interaction detected (PLIP) MG.52: 1 residues within 4Å: Chain A: G.876 No protein-ligand interaction detected (PLIP) MG.53: 2 residues within 4Å: Chain A: U.379, G.382 No protein-ligand interaction detected (PLIP) MG.54: 4 residues within 4Å: Chain A: G.1394, U.1395, C.1402, C.1403 No protein-ligand interaction detected (PLIP) MG.55: 1 residues within 4Å: Chain A: U.1283 No protein-ligand interaction detected (PLIP) MG.56: 2 residues within 4Å: Chain A: A.1468, A.1474 No protein-ligand interaction detected (PLIP) MG.57: 1 residues within 4Å: Chain A: C.1446 No protein-ligand interaction detected (PLIP) MG.58: 3 residues within 4Å: Chain A: A.1202, C.1455, C.1456 No protein-ligand interaction detected (PLIP) MG.59: 4 residues within 4Å: Chain A: A.1196, G.1201, A.1599, C.1601 No protein-ligand interaction detected (PLIP) MG.60: 1 residues within 4Å: Chain A: U.1436 No protein-ligand interaction detected (PLIP) MG.61: 4 residues within 4Å: Chain 2: K.74 Chain A: A.1196, C.1197, C.1464 No protein-ligand interaction detected (PLIP) MG.62: 3 residues within 4Å: Chain A: G.1268, U.1269, U.1431 No protein-ligand interaction detected (PLIP) MG.63: 4 residues within 4Å: Chain A: G.1273, C.1274, G.1427, G.1428 No protein-ligand interaction detected (PLIP) MG.64: 3 residues within 4Å: Chain A: U.1537, G.1538, G.1540 No protein-ligand interaction detected (PLIP) MG.65: 2 residues within 4Å: Chain A: U.1519, U.1521 No protein-ligand interaction detected (PLIP) MG.66: 3 residues within 4Å: Chain A: C.1274, G.1427, G.1428 No protein-ligand interaction detected (PLIP) MG.67: 3 residues within 4Å: Chain A: A.1202, A.1203, C.1598 No protein-ligand interaction detected (PLIP)

3 x ZN: ZINC ION(Non-covalent)

ZN.68: 4 residues within 4Å: Chain Q: C.23, C.26, C.74, C.77 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:C.23, Q:C.74, Q:C.77 ZN.69: 7 residues within 4Å: Chain R: V.35, K.36, C.37, N.42, T.44, C.56, L.63 No protein-ligand interaction detected (PLIP) ZN.70: 3 residues within 4Å: Chain 6: C.121, C.139, C.142 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hussain, T. et al., Structural changes enable start codon recognition by the eukaryotic translation initiation complex. Cell(Cambridge,Mass.) (2014)

Release Date

2014-11-05

Peptides

uS2: B
eS1: C
uS5: D
eS4: E
eS6: F
eS7: G
eS8: H
uS4: I
uS17: J
uS15: K
uS11: L
eS21: M
uS8: N
uS12: O
eS24: P
eS26: Q
eS27: R
eS30: S
uS3: T
uS7: U
eS10: V
eS12: W
uS19: X
uS9: Y
eS17: Z
uS13: 0
eS19: 1
uS10: 2
eS25: 3
eS28: 4
uS14: 5
eS31: 6
RACK1: 7
eL41: 8
eIF1A: 9
eIF1: a

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
A

C
B

D
C

E
E

F
G

G
H

H
I

I
J

J
L

K
N

L
O

M
V

N
W

O
X

P
Y

Q
a

R
b

S
e

T
D

U
F

V
K

W
M

X
P

Y
Q

Z
R

0
S

1
T

2
U

3
Z

4
c

5
d

6
f

7
g

8
h

9
i

a
j

uS2

eS1

uS5

eS4

eS6

eS7

eS8

uS4

uS17

uS15

uS11

eS21

uS8

uS12

eS24

eS26

eS27

eS30

uS3

uS7

eS10

eS12

uS19

uS9

eS17

uS13

eS19

uS10

eS25

eS28

uS14

eS31

RACK1

eL41

eIF1A

eIF1

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