SMTL ID : 7ase.1

43S preinitiation complex from Trypanosoma cruzi with the kDDX60 helicase

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain G: C.288, S.290, C.291, C.309, C.312 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:C.288, G:C.291, G:C.309

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain 1: S.66, T.89 Ligands: GNP.3 1 PLIP interactions: 1 interactions with chain 1 Metal complexes: 1:S.66

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Covalent)

GNP.3: 17 residues within 4Å: Chain 1: V.61, A.62, H.63, G.64, K.65, S.66, T.67, N.87, I.88, T.89, N.197, K.198, L.201, Q.234 Chain G: A.314, T.315 Ligands: MG.2 13 PLIP interactions: 12 interactions with chain 1, 1 interactions with chain G Hydrogen bonds: 1:A.62, 1:H.63, 1:G.64, 1:K.65, 1:K.65, 1:K.65, 1:S.66, 1:T.67, 1:T.67, 1:T.89, 1:N.197, G:T.315 pi-Cation interactions: 1:K.198

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bochler, A. et al., Structural Differences in Translation Initiation between Pathogenic Trypanosomatids and Their Mammalian Hosts. Cell Rep (2020)

Release Date

2021-04-14

Peptides

kDDX60: A
40S ribosomal protein S24: D
Elongation initiation factor 2 alpha subunit, putative: E
60S ribosomal protein L40: F
Translation initiation factor, putative: G
Guanine nucleotide-binding protein subunit beta-like protein: H
40S ribosomal protein S16, putative: I
40S ribosomal protein S18, putative: J
40S ribosomal protein S23, putative: K
40S ribosomal protein S8: L
40S ribosomal protein S5, putative: M
40S ribosomal protein S7: N
40S ribosomal protein S13, putative: O
40S ribosomal protein S27, putative: P
40S ribosomal protein S26: Q
40S ribosomal protein S33: R
40S ribosomal protein S14, putative: S
40S ribosomal protein S11, putative: T
Putative 40S ribosomal protein S9: U
40S ribosomal protein SA: V
40S ribosomal protein S2, putative: W
Putative 40S ribosomal protein S21: X
40S ribosomal protein S25: Y
RNA-binding protein, putative: Z
40S ribosomal protein S12: 0
Eukaryotic translation initiation factor 2 subunit, putative: 1
40S ribosomal protein S6: 2
40S ribosomal protein S17, putative: 3
Ribosomal protein S20, putative: 4
40S ribosomal protein S3, putative: 5
40S ribosomal protein S10, putative: 6
Ribosomal protein S19, putative: 7
40S ribosomal protein S15a, putative: 8
40S ribosomal protein S30: 9
Protein translation factor SUI1 homolog, putative: a
Putative eukaryotic translation initiation factor 1A: b
Eukaryotic translation initiation factor 3 subunit E: c
Eukaryotic translation initiation factor 5, putative: d
Ribosomal protein S29, putative: e
eL41: f
JAB_MPN domain-containing protein: g
CSN8_PSD8_EIF3K domain-containing protein: h
40S ribosomal protein S15, putative: i
Eukaryotic translation initiation factor 3 subunit 8, putative: j
eIF3A: k
40S ribosomal protein S3a-2: l
Eukaryotic translation initiation factor 3 (EIF-3) interacting protein, putative: m
eIF3H: n
Eukaryotic translation initiation factor 3 subunit 7-like protein, putative: o
40S ribosomal protein S4: p

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
f

D
y

E
s

F
j

G
n

H
p

I
r

J
u

K
m

L
Z

M
o

N
q

O
R

P
S

Q
t

R
U

S
v

T
X

U
B

V
F

W
d

X
g

Y
a

Z
J

0
h

1
5

2
P

3
i

4
L

5
M

6
N

7
O

8
b

9
c

a
V

b
w

c
E

d
Y

e
Q

f
D

g
G

h
K

i
T

j
C

k
8

l
W

m
I

n
H

o
A

p
l

kDDX60

40S ribosomal protein S24

Elongation initiation factor 2 alpha subunit, putative

60S ribosomal protein L40

Translation initiation factor, putative

Guanine nucleotide-binding protein subunit beta-like protein

40S ribosomal protein S16, putative

40S ribosomal protein S18, putative

40S ribosomal protein S23, putative

40S ribosomal protein S8

40S ribosomal protein S5, putative

40S ribosomal protein S7

40S ribosomal protein S13, putative

40S ribosomal protein S27, putative

40S ribosomal protein S26

40S ribosomal protein S33

40S ribosomal protein S14, putative

40S ribosomal protein S11, putative

Putative 40S ribosomal protein S9

40S ribosomal protein SA

40S ribosomal protein S2, putative

Putative 40S ribosomal protein S21

40S ribosomal protein S25

RNA-binding protein, putative

40S ribosomal protein S12

Eukaryotic translation initiation factor 2 subunit, putative

40S ribosomal protein S6

40S ribosomal protein S17, putative

Ribosomal protein S20, putative

40S ribosomal protein S3, putative

40S ribosomal protein S10, putative

Ribosomal protein S19, putative

40S ribosomal protein S15a, putative

40S ribosomal protein S30

Protein translation factor SUI1 homolog, putative

Putative eukaryotic translation initiation factor 1A

Eukaryotic translation initiation factor 3 subunit E

Eukaryotic translation initiation factor 5, putative

Ribosomal protein S29, putative

eL41

JAB_MPN domain-containing protein

CSN8_PSD8_EIF3K domain-containing protein

40S ribosomal protein S15, putative

Eukaryotic translation initiation factor 3 subunit 8, putative

eIF3A

40S ribosomal protein S3a-2

Eukaryotic translation initiation factor 3 (EIF-3) interacting protein, putative

eIF3H

Eukaryotic translation initiation factor 3 subunit 7-like protein, putative

40S ribosomal protein S4

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