9M3J | pdb_00009m3j

structure of bundle-shaped PBS with both long rod and (ApcA2B3ApcD) trimer

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.37 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history. 


Literature

structure of bundle-shaped PBS with long rod

Ma, J.F., Sui, S.-F.

To be published.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Allophycocyanin alpha subunit161Gloeobacter violaceus PCC 7421Mutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Allophycocyanin beta subunit161Gloeobacter violaceus PCC 7421Mutation(s): 0 
UniProt
Find proteins for Q7NL79 (Gloeobacter violaceus (strain ATCC 29082 / PCC 7421))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Allophycocyanin-BK [auth K1],
L [auth L1]		161Gloeobacter violaceus PCC 7421Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Phycobilisome 7.8 kDa linker polypeptide, allophycocyanin-associated, core69Gloeobacter violaceus PCC 7421Mutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Phycobiliprotein ApcEXC [auth j3],
YC [auth k3]		1,155Gloeobacter violaceus PCC 7421Mutation(s): 0 
UniProt
Find proteins for Q7NL81 (Gloeobacter violaceus (strain ATCC 29082 / PCC 7421))
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Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CYC (Subject of Investigation/LOI)
Query on CYC
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AD [auth A1]
AE [auth S2]
AF [auth D3]
AG [auth e3]
BD [auth C1]
AD [auth A1],
AE [auth S2],
AF [auth D3],
AG [auth e3],
BD [auth C1],
BE [auth T2],
BF [auth E3],
BG [auth f3],
CD [auth F1],
CE [auth U2],
CF [auth F3],
CG [auth g3],
DD [auth E1],
DE [auth V2],
DF [auth G3],
DG [auth z3],
ED [auth H1],
EE [auth W2],
EF [auth H3],
EG [auth j3],
FD [auth J1],
FE [auth X2],
FF [auth I3],
FG [auth j3],
GD [auth K1],
GE [auth Y2],
GF [auth J3],
GG [auth j3],
HD [auth L1],
HE [auth a2],
HF [auth K3],
HG [auth j3],
ID [auth z1],
IE [auth b2],
IF [auth L3],
IG [auth j3],
JD [auth M1],
JE [auth c2],
JF [auth M3],
JG [auth j3],
KD [auth A2],
KE [auth e2],
KF [auth N3],
KG [auth k3],
LD [auth B2],
LE [auth g2],
LF [auth O3],
LG [auth k3],
MD [auth C2],
ME [auth h2],
MF [auth Q3],
MG [auth k3],
ND [auth E2],
NE [auth i2],
NF [auth R3],
NG [auth k3],
OD [auth F2],
OE [auth k2],
OF [auth S3],
OG [auth k3],
PD [auth G2],
PE [auth m2],
PF [auth T3],
PG [auth k3],
QD [auth H2],
QE [auth o2],
QF [auth U3],
QG [auth k3],
RD [auth I2],
RE [auth p2],
RF [auth V3],
RG [auth h3],
SD [auth K2],
SE [auth q2],
SF [auth W3],
TD [auth L2],
TE [auth s2],
TF [auth X3],
UD [auth M2],
UE [auth u2],
UF [auth Y3],
VD [auth N2],
VE [auth v2],
VF [auth Z3],
WD [auth O2],
WE [auth x2],
WF [auth a3],
XD [auth P2],
XE [auth y2],
XF [auth b3],
YD [auth Q2],
YE [auth A3],
YF [auth c3],
ZD [auth R2],
ZE [auth C3],
ZF [auth d3]
PHYCOCYANOBILIN
C33 H40 N4 O6
VXTXPYZGDQPMHK-GMXXPEQVSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MEN
Query on MEN
B [auth B1]
BA [auth N2]
BB [auth n2]
BC [auth N3]
D [auth D1]
B [auth B1],
BA [auth N2],
BB [auth n2],
BC [auth N3],
D [auth D1],
DA [auth P2],
DB [auth p2],
DC [auth P3],
E [auth F1],
FA [auth R2],
FB [auth r2],
FC [auth R3],
G [auth G1],
HA [auth T2],
HB [auth t2],
HC [auth T3],
I [auth I1],
J [auth J1],
JA [auth V2],
JB [auth v2],
JC [auth V3],
LA [auth X2],
LC [auth X3],
NA [auth Z2],
NC [auth Z3],
P [auth B2],
PA [auth b2],
PB [auth B3],
PC [auth b3],
R [auth D2],
RA [auth d2],
RB [auth D3],
RC [auth d3],
T [auth F2],
TA [auth f2],
TB [auth F3],
TC [auth f3],
UC [auth g3],
V [auth H2],
VA [auth h2],
VB [auth H3],
X [auth J2],
XA [auth j2],
XB [auth J3],
Z [auth L2],
ZA [auth l2],
ZB [auth L3],
ZC [auth h3]
L-PEPTIDE LINKINGC5 H10 N2 O3ASN
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.37 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONcryoSPARC4.0.2

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31670745
National Natural Science Foundation of China (NSFC)China31861143048

Revision History  (Full details and data files)

  • Version 1.0: 2025-12-24
    Type: Initial release