SMTL ID : 6shb.1

Cryo-EM structure of the Type III-B Cmr-beta bound to cognate target RNA and AMPPnP, state 1, in the presence of ssDNA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain 7: C.464, S.466, C.467, L.511, C.512, C.515 3 PLIP interactions: 3 interactions with chain 7 Metal complexes: 7:C.464, 7:S.466, 7:C.512

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

ANP.2: 18 residues within 4Å: Chain 7: 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 7 PLIP interactions: 7 interactions with chain 7 Hydrogen bonds: 7:V.210, 7:A.211, 7:S.227, 7:G.310, 7:R.389, 7:D.803 pi-Stacking: 7:Y.798 ANP.3: 17 residues within 4Å: Chain 7: F.252, R.311, D.650, S.651, D.652, Y.653, L.654, G.655, L.658, D.802, D.803, K.885, E.886, K.903 Ligands: ANP.2, MN.4, MN.5 8 PLIP interactions: 8 interactions with chain 7 Hydrogen bonds: 7:Y.653, 7:L.654, 7:G.655, 7:D.803, 7:K.885, 7:K.885 Salt bridges: 7:K.885 pi-Cation interactions: 7:R.311

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

MN.4: 3 residues within 4Å: Chain 7: D.650, S.651 Ligands: ANP.3 2 PLIP interactions: 2 interactions with chain 7 Metal complexes: 7:D.650, 7:S.651 MN.5: 2 residues within 4Å: Chain 7: E.882 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain 7 Metal complexes: 7:E.882 MN.6: 3 residues within 4Å: Chain 7: T.207, I.208 Ligands: ANP.2 1 PLIP interactions: 1 interactions with chain 7 Metal complexes: 7:I.208

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 RAMP protein, Cmr6 family: H
Cmr1,CRISPR-associated RAMP protein, Cmr1 family: I
CRISPR-associated protein Cmrx: LMNOPQRSTUVWXYZ012345689bc
CRISPR-associated protein, Cmr2 family: 7
CRISPR-associated protein, Cmr3 family: a

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
I

I
J

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

8
Z

9
z

b
Y

c
y

7
K

a
H

CRISPR-associated protein, Cmr5 family

CRISPR-associated RAMP protein, Cmr4 family

CRISPR-associated RAMP protein, Cmr6 family

Cmr1,CRISPR-associated RAMP protein, Cmr1 family

CRISPR-associated protein Cmrx

CRISPR-associated protein, Cmr2 family

CRISPR-associated protein, Cmr3 family

Related Entries With Identical Sequence