SMTL ID : 8imx.1

Cryo-EM structure of GPI-T with a chimeric GPI-anchored protein

Coordinates
PDB Format
Method
ELECTRON MICROSCOPY
Oligo State
hetero-1-1-1-1-1-1-mer
Ligands
1 x MET- SER- SER: Met-Ser-Ser peptide(Non-covalent)
1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
13 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)
1 x MG: MAGNESIUM ION(Non-covalent)
4 x 6OU: [(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{Z})-octadec-9-enoate(Non-covalent)
1 x AJP: Digitonin(Non-covalent)
1 x CA: CALCIUM ION(Non-covalent)
2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
1 x LBN: 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine(Non-covalent)
1 x 80T: [(2R)-1-hexadecanoyloxy-3-[[3-[[(2R)-3-hexadecanoyloxy-2-[(Z)-octadec-9-enoyl]oxy-propoxy]-oxidanyl-phosphoryl]oxy-2-oxidanyl-propoxy]-oxidanyl-phosphoryl]oxy-propan-2-yl] (Z)-octadec-9-enoate(Non-covalent)
2 x 80Y: 2-azanylethyl [(2R,3S,4S,5S,6S)-3,4,5,6-tetrakis(oxidanyl)oxan-2-yl]methyl hydrogen phosphate(Non-covalent)
1 x PA1: 2-amino-2-deoxy-alpha-D-glucopyranose(Non-covalent)
1 x 05E: 2-azanylethyl [(2~{S},3~{S},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl] hydrogen phosphate(Non-covalent)
1 x 81Q: [(2R)-1-[[(1S,2R,3R,4S,5S,6R)-2-hexadecanoyloxy-3,4,5,6-tetrakis(oxidanyl)cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-3-octadecoxy-propan-2-yl] (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate(Non-covalent)
Links
RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP
Citation
Xu, Y. et al., Structures of liganded glycosylphosphatidylinositol transamidase illuminate GPI-AP biogenesis. Nat Commun (2023)
Release Date
2023-08-16
Peptides
UL16-binding protein 2,GFP-like fluorescent chromoprotein cFP484: A
Glycosylphosphatidylinositol anchor attachment 1 protein,GFP-like fluorescent chromoprotein cFP484: B
GPI-anchor transamidase,GFP-like fluorescent chromoprotein cFP484: C
GPI transamidase component PIG-S,GFP-like fluorescent chromoprotein cFP484: D
GPI transamidase component PIG-T,GFP-like fluorescent chromoprotein cFP484: E
Phosphatidylinositol glycan anchor biosynthesis class U protein,GFP-like fluorescent chromoprotein cFP484: F
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
D
B
G
C
K
D
S
E
T
F
U
Membrane
We predict this structure to be a membrane protein.

UL16-binding protein 2,GFP-like fluorescent chromoprotein cFP484

Glycosylphosphatidylinositol anchor attachment 1 protein,GFP-like fluorescent chromoprotein cFP484

GPI-anchor transamidase,GFP-like fluorescent chromoprotein cFP484

GPI transamidase component PIG-S,GFP-like fluorescent chromoprotein cFP484

GPI transamidase component PIG-T,GFP-like fluorescent chromoprotein cFP484

Phosphatidylinositol glycan anchor biosynthesis class U protein,GFP-like fluorescent chromoprotein cFP484

Related Entries With Identical Sequence

7wld.1 | 8imy.1