SMTL ID : 8imn.1

Rt1I-Rt1II, Rt2'I-Rt2'II, Rt3I-Rt3II cylinder in cyanobacterial phycobilisome from Anthocerotibacter panamensis (Cluster F)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-18-18-3-mer

Ligands

54 x CYC: PHYCOCYANOBILIN(Covalent)(Non-covalent)

CYC.1: 27 residues within 4Å: Chain A: R.133, N.138, T.139, Y.140, W.267, A.268, S.270, T.272, R.274 Chain M: L.66, N.72, R.77, R.78, A.81, C.82, L.83, D.85, I.88, R.108, C.109, L.113, T.116, Y.117, L.120, T.122, S.126, V.127 Ligand excluded by PLIP CYC.2: 24 residues within 4Å: Chain A: N.593, T.594, Y.595, Y.722, A.723, S.725, W.729 Chain c: L.66, N.72, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, C.109, L.113, Y.117, L.120, T.122, S.126, V.127 Ligand excluded by PLIP CYC.3: 22 residues within 4Å: Chain B: V.60, F.61, K.73, G.74, N.79, K.82, C.83, R.85, D.86, I.87, Y.89, Y.90, F.93, V.117, F.121, L.123, W.127, Y.128 Chain H: I.67, Y.74, H.76, M.79 Ligand excluded by PLIP CYC.4: 23 residues within 4Å: Chain C: V.60, F.61, V.67, N.79, Q.80, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, Y.109, V.110, F.121, L.123, W.127, Y.128 Chain L: H.57, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.5: 22 residues within 4Å: Chain D: V.60, V.67, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, V.117, F.121, L.123, W.127, Y.128 Chain I: H.57, I.67, Y.74, H.76, M.79 Ligand excluded by PLIP CYC.6: 25 residues within 4Å: Chain E: V.60, F.61, V.67, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, Y.109, V.117, F.121, L.123, W.127, Y.128 Chain M: H.57, I.67, Y.74, P.75, H.76, M.79 Ligand excluded by PLIP CYC.7: 23 residues within 4Å: Chain F: V.60, V.67, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, Y.109, V.117, F.121, L.123, W.127, Y.128 Chain J: H.57, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.8: 21 residues within 4Å: Chain G: V.60, V.67, K.73, N.79, Q.80, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, F.121, L.123, W.127, Y.128 Chain K: H.57, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.9: 25 residues within 4Å: Chain H: L.66, N.72, A.73, R.78, A.81, C.82, R.84, D.85, I.88, Y.92, C.109, L.113, T.116, Y.117, L.120, T.122, S.126, V.127, A.130 Chain N: G.27, A.30, H.34, Y.38, I.42, R.43 Ligand excluded by PLIP CYC.10: 17 residues within 4Å: Chain F: F.29 Chain G: Q.146, T.149, L.153 Chain H: V.35, K.36, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.11: 24 residues within 4Å: Chain I: L.66, N.72, R.77, R.78, A.81, C.82, R.84, D.85, I.88, Y.92, C.109, L.113, Y.117, L.120, T.122, P.123, S.126, V.127, A.130 Chain N: Y.53, F.56, L.57, M.60, I.61 Ligand excluded by PLIP CYC.12: 15 residues within 4Å: Chain B: L.25, Q.26, F.29 Chain C: Q.146 Chain I: V.35, K.36, L.38, D.39, L.142, T.145, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.13: 19 residues within 4Å: Chain A: T.149, S.152, K.155, D.156, R.158 Chain J: L.66, N.72, R.78, A.81, C.82, R.84, D.85, I.88, C.109, L.113, Y.117, L.120, T.122, V.127 Ligand excluded by PLIP CYC.14: 20 residues within 4Å: Chain D: L.25, Q.26, F.29 Chain E: R.34, Q.146, T.149, E.150 Chain J: V.35, K.36, L.38, D.39, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.15: 27 residues within 4Å: Chain A: G.98, Q.99, F.246, K.247, Y.248, Q.252, S.253, A.254 Chain K: L.66, N.72, R.77, R.78, A.81, C.82, R.84, D.85, I.88, Y.92, R.108, C.109, L.113, Y.117, L.120, T.122, P.123, V.127, A.130 Ligand excluded by PLIP CYC.16: 18 residues within 4Å: Chain B: R.34, Q.146, L.153 Chain C: L.25, Q.26, F.29 Chain K: V.35, K.36, L.38, D.39, L.142, K.143, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.17: 25 residues within 4Å: Chain A: S.183, Q.184, N.185, Q.203, S.207, L.210 Chain L: L.66, N.72, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, R.108, C.109, L.113, Y.117, L.120, T.122, S.126, V.127, A.130 Ligand excluded by PLIP CYC.18: 19 residues within 4Å: Chain D: R.34, Q.146, T.149, L.153 Chain E: L.25, Q.26, F.29 Chain L: V.35, K.36, D.39, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.19: 17 residues within 4Å: Chain F: R.34, Q.146, L.153 Chain G: L.25, Q.26, F.29 Chain M: V.35, K.36, L.38, D.39, L.142, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.20: 22 residues within 4Å: Chain O: V.60, K.73, G.74, N.79, K.82, C.83, R.85, D.86, I.87, Y.89, Y.90, F.93, V.110, F.121, L.123, W.127, Y.128 Chain U: H.57, I.67, Y.74, H.76, M.79 Ligand excluded by PLIP CYC.21: 23 residues within 4Å: Chain P: V.60, F.61, K.73, G.74, N.79, K.82, C.83, R.85, D.86, I.87, Y.89, Y.90, F.93, F.121, L.123, W.127, Y.128 Chain Y: H.57, F.60, Y.74, P.75, H.76, M.79 Ligand excluded by PLIP CYC.22: 21 residues within 4Å: Chain Q: V.60, V.67, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, V.117, F.121, L.123, W.127, Y.128 Chain V: H.57, I.67, Y.74, H.76 Ligand excluded by PLIP CYC.23: 25 residues within 4Å: Chain R: V.60, V.67, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, Y.109, V.110, V.117, F.121, L.123, W.127, Y.128 Chain Z: H.57, I.67, Y.74, P.75, H.76, M.79 Ligand excluded by PLIP CYC.24: 21 residues within 4Å: Chain S: V.67, K.73, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, Y.109, F.121, L.123, W.127, Y.128 Chain W: H.57, F.60, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.25: 23 residues within 4Å: Chain T: V.60, V.67, K.73, N.79, Q.80, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, V.117, F.121, L.123, W.127, Y.128 Chain X: H.57, F.60, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.26: 24 residues within 4Å: Chain 0: G.27, A.30, H.34, Y.38, I.42, R.43 Chain U: L.66, N.72, A.73, R.77, R.78, C.82, R.84, D.85, I.88, Y.92, C.109, L.113, T.116, Y.117, L.120, T.122, S.126, V.127 Ligand excluded by PLIP CYC.27: 18 residues within 4Å: Chain S: F.29 Chain T: R.34, Q.146, T.149, L.153 Chain U: V.35, K.36, L.38, D.39, A.40, L.142, S.144, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.28: 24 residues within 4Å: Chain 0: Y.53, F.56, L.57, M.60, I.61, H.64 Chain V: N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, C.109, L.113, Y.117, L.120, T.122, S.126, V.127 Ligand excluded by PLIP CYC.29: 18 residues within 4Å: Chain O: L.25, Q.26, F.29 Chain P: Q.146, T.149 Chain V: V.35, K.36, L.38, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153 Ligand excluded by PLIP CYC.30: 21 residues within 4Å: Chain A: T.382, S.385, Q.386, K.388, D.389 Chain W: N.72, A.73, R.78, A.81, C.82, R.84, D.85, C.109, L.113, Y.117, L.120, T.122, P.123, S.126, V.127, A.130 Ligand excluded by PLIP CYC.31: 16 residues within 4Å: Chain Q: F.29 Chain R: G.145, Q.146, T.149 Chain W: V.35, K.36, L.38, D.39, A.40, S.144, T.145, V.148, T.149, V.150, G.151, C.153 Ligand excluded by PLIP CYC.32: 26 residues within 4Å: Chain A: E.328, G.331, F.479, K.480, Y.481, Q.485, N.486 Chain X: L.59, L.66, N.72, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, T.116, Y.117, L.120, T.122, S.126, V.127 Ligand excluded by PLIP CYC.33: 19 residues within 4Å: Chain O: R.34, G.145, Q.146, T.149, L.153 Chain P: Q.26, F.29 Chain X: V.35, K.36, D.39, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.34: 25 residues within 4Å: Chain A: S.416, Q.417, N.418, Q.436, I.440, L.443, R.525 Chain Y: L.66, N.72, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, C.109, L.113, Y.117, L.120, T.122, S.126, V.127, A.130 Ligand excluded by PLIP CYC.35: 19 residues within 4Å: Chain Q: Q.146, T.149, L.153 Chain R: Q.26, F.29 Chain Y: V.35, K.36, L.38, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.36: 26 residues within 4Å: Chain A: N.371, T.372, Y.373, Y.500, A.501, T.505, R.507 Chain Z: L.59, N.72, R.78, A.81, C.82, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, T.122, S.126, V.127, A.130 Ligand excluded by PLIP CYC.37: 20 residues within 4Å: Chain S: R.34, Q.146, T.149, E.150, L.153 Chain T: S.22, L.25, Q.26, F.29 Chain Z: K.32, V.35, K.36, L.38, D.39, L.142, S.144, V.148, T.149, G.151, C.153 Ligand excluded by PLIP CYC.38: 18 residues within 4Å: Chain 1: K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, V.110, F.121, L.123, W.127, Y.128 Chain 7: H.57, I.67, Y.74, H.76 Ligand excluded by PLIP CYC.39: 19 residues within 4Å: Chain 2: K.73, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, F.121, L.123, W.127, Y.128 Chain b: H.57, F.60, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.40: 23 residues within 4Å: Chain 3: V.60, K.73, G.74, N.79, K.82, C.83, R.85, D.86, I.87, Y.89, Y.90, F.93, V.117, F.121, L.123, W.127, Y.128 Chain 8: H.57, F.60, I.67, Y.74, H.76, M.79 Ligand excluded by PLIP CYC.41: 22 residues within 4Å: Chain 4: V.60, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, Y.109, V.117, F.121, L.123, W.127, Y.128 Chain c: H.57, F.60, I.67, Y.74, P.75, H.76 Ligand excluded by PLIP CYC.42: 21 residues within 4Å: Chain 5: K.73, N.79, K.82, C.83, R.85, D.86, Y.90, F.93, Y.109, V.110, V.117, F.121, L.123, W.127, Y.128 Chain 9: H.57, F.60, I.67, Y.74, H.76, M.79 Ligand excluded by PLIP CYC.43: 22 residues within 4Å: Chain 6: V.60, K.73, G.74, N.79, K.82, C.83, R.85, D.86, Y.89, Y.90, F.93, V.110, V.117, F.121, L.123, W.127, Y.128 Chain a: H.57, I.67, Y.74, H.76, M.79 Ligand excluded by PLIP CYC.44: 19 residues within 4Å: Chain 7: N.72, A.73, R.78, A.81, C.82, R.84, D.85, I.88, L.113, T.116, Y.117, L.120, T.122, V.127 Chain d: A.30, T.31, Y.38, I.42, Q.44 Ligand excluded by PLIP CYC.45: 16 residues within 4Å: Chain 5: Q.26, F.29 Chain 6: L.153 Chain 7: V.35, K.36, L.38, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153 Ligand excluded by PLIP CYC.46: 22 residues within 4Å: Chain 8: N.72, R.78, A.81, C.82, R.84, D.85, M.86, Y.92, C.109, L.113, T.116, Y.117, L.120, T.122, S.126, V.127 Chain d: Y.53, F.56, L.57, M.60, I.61, H.64 Ligand excluded by PLIP CYC.47: 16 residues within 4Å: Chain 1: L.25, Q.26 Chain 2: Q.146, T.149, L.153 Chain 8: V.35, K.36, L.38, D.39, S.144, T.145, V.148, T.149, V.150, G.151, C.153 Ligand excluded by PLIP CYC.48: 22 residues within 4Å: Chain 9: N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, R.108, C.109, L.113, T.116, Y.117, L.120, T.122, S.126, V.127, A.130 Chain A: S.607, Q.608, D.611 Ligand excluded by PLIP CYC.49: 17 residues within 4Å: Chain 3: Q.26, F.29 Chain 4: G.145, Q.146, T.149 Chain 9: V.35, K.36, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153 Ligand excluded by PLIP CYC.50: 22 residues within 4Å: Chain A: G.553, T.702, S.703, Q.707, F.712 Chain a: L.66, N.72, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, L.113, T.116, Y.117, L.120, T.122, V.127 Ligand excluded by PLIP CYC.51: 15 residues within 4Å: Chain 1: R.34, G.145, Q.146 Chain 2: L.25, F.29 Chain a: V.35, K.36, L.38, D.39, S.144, V.148, T.149, V.150, G.151, C.153 Ligand excluded by PLIP CYC.52: 25 residues within 4Å: Chain A: Q.639, T.640, Q.658, S.662, V.665 Chain b: N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, Y.117, L.120, T.122, P.123, S.126, V.127 Ligand excluded by PLIP CYC.53: 18 residues within 4Å: Chain 3: R.34, Q.146, L.153 Chain 4: S.22, L.25, F.29 Chain b: K.36, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, C.153, Y.157 Ligand excluded by PLIP CYC.54: 21 residues within 4Å: Chain 5: R.34, Q.146, T.149, L.153 Chain 6: L.25, Q.26, F.29 Chain c: V.35, K.36, D.39, A.40, L.142, S.144, T.145, V.148, T.149, V.150, G.151, D.152, C.153, Y.157 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, H.W. et al., A structure of the relict phycobilisome from a thylakoid-free cyanobacterium. Nat Commun (2023)

Release Date

2023-10-25

Peptides

CpcN: A
CpcA: BCDEFGOPQRST123456
CpcB: HIJKLMUVWXYZ789abc
CpcD: N0d

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
5

B
A

C
B

D
C

E
D

F
E

G
F

O
N

P
O

Q
P

R
Q

S
R

T
S

1
a

2
b

3
c

4
d

5
e

6
f

H
G

I
H

J
I

K
J

L
K

M
L

U
T

V
U

W
V

X
W

Y
X

Z
Y

7
g

8
h

9
i

a
j

b
k

c
l

N
M

0
Z

d
m

CpcN

CpcA

CpcB

CpcD

Related Entries With Identical Sequence