SMTL ID : 6sh8.1

Cryo-EM structure of the Type III-B Cmr-beta bound to cognate target RNA and AMPPnP, state 2, in the presence of ssDNA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-4-1-1-1-1-26-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain K: C.464, C.467, C.512, C.515 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.464, K:C.467, K:C.512, K:C.515

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 20 residues within 4Å: Chain K: D.206, T.207, I.208, G.209, V.210, A.211, I.214, S.227, V.230, S.231, I.308, P.309, G.310, R.389, K.429, Y.798, D.803, Y.878 Ligands: ANP.3, MN.6 10 PLIP interactions: 10 interactions with chain K Hydrogen bonds: K:G.209, K:V.210, K:A.211, K:I.308, K:G.310, K:R.389, K:D.803 Salt bridges: K:K.429 pi-Stacking: K:Y.798, K:Y.798 ANP.3: 19 residues within 4Å: Chain K: F.252, R.311, Y.418, S.651, D.652, Y.653, L.654, G.655, D.656, L.658, D.802, D.803, E.882, K.885, E.886, K.903 Ligands: ANP.2, MN.4, MN.5 14 PLIP interactions: 14 interactions with chain K Hydrogen bonds: K:Y.418, K:Y.653, K:L.654, K:G.655, K:D.656, K:D.802, K:D.803, K:E.882, K:E.882, K:K.885, K:E.886, K:K.903 pi-Stacking: K:F.252 pi-Cation interactions: K:R.311

3 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 4 residues within 4Å: Chain K: D.650, S.651, K.885 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain K Metal complexes: K:S.651 MN.5: 2 residues within 4Å: Chain K: E.882 Ligands: ANP.3 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:E.882, K:E.882 MN.6: 3 residues within 4Å: Chain K: D.206, T.207 Ligands: ANP.2 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:D.206, K:T.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sofos, N. et al., Structures of the Cmr-beta Complex Reveal the Regulation of the Immunity Mechanism of Type III-B CRISPR-Cas. Mol.Cell (2020)

Release Date

2020-07-08

Peptides

CRISPR-associated protein, Cmr5 family: ABC
CRISPR-associated RAMP protein, Cmr4 family: DEFG
CRISPR-associated protein, Cmr3 family: H
CRISPR-associated RAMP protein, Cmr6 family: I
Cmr1,CRISPR-associated RAMP protein, Cmr1 family: J
CRISPR-associated protein, Cmr2 family: K
CRISPR-associated protein Cmrx: LMNOPQRSTUVWXYZ01234569abc

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

N
N

O
O

P
P

Q
Q

R
R

S
S

T
T

U
W

V
X

W
l

X
m

Y
n

Z
o

0
p

1
q

2
r

3
s

4
t

5
w

6
x

9
Z

a
z

b
Y

c
y

CRISPR-associated protein, Cmr5 family

CRISPR-associated RAMP protein, Cmr4 family

CRISPR-associated protein, Cmr3 family

CRISPR-associated RAMP protein, Cmr6 family

Cmr1,CRISPR-associated RAMP protein, Cmr1 family

CRISPR-associated protein, Cmr2 family

CRISPR-associated protein Cmrx

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