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A unique supramolecular organization of photosystem I in the moss physcomitrella patens

Analyse A unique supramolecular organization of photosystem I in the moss… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6MEM
Type: protein
Length: 4,931 residues
Chains: 24
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Chlorophyll A/B binding protein 1; Chlorophyll A/B binding protein 5; Chlorophyll A/B…
Pockets: 20 · best druggability 0.82

Structure

electron microscopy · 21 distinct chains · 54% helix, 5% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Chlorophyll A/B binding protein 1	protein	193	57% helix, 2% strand	—
B	Chlorophyll A/B binding protein 5	protein	195	52% helix, 2% strand	—
C	Chlorophyll A/B binding protein 3	protein	208	51% helix, 1% strand	—
D	Chlorophyll A/B binding protein 7	protein	206	52% helix, 1% strand	—
E	Chlorophyll A/B binding protein 4	protein	221	49% helix, 0% strand	—
F, G	Chlorophyll A/B binding protein 9	protein	218	52% helix, 1% strand	—
H	Chlorophyll A/B binding protein 2	protein	198	52% helix, 2% strand	—
I	Chlorophyll A/B binding protein 6	protein	196	54% helix, 2% strand	—
J	Psaa	protein	743	61% helix, 5% strand	—
K, M, O	Chlorophyll A/B binding protein 10	protein	223	50% helix, 4% strand	—
L	Psab	protein	733	62% helix, 2% strand	—
N	Psac	protein	80	16% helix, 21% strand	—
P	Psad	protein	143	17% helix, 28% strand	—
Q	Psae	protein	66	5% helix, 35% strand	—
R	Psaf	protein	154	69% helix, 5% strand	—
S	Psag	protein	97	61% helix, 4% strand	—
T	Psah	protein	88	45% helix, 1% strand	—
U	Psai	protein	30	87% helix, 0% strand	—
V	Psaj	protein	41	71% helix, 2% strand	—
W	Psak	protein	77	53% helix, 6% strand	—
X	Psal	protein	157	59% helix, 5% strand	—

Pockets

20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	494	0.82	0.89	104	empty
2	677	0.81	0.86	118	empty
3	968	0.79	0.81	143	empty
4	1076	0.79	0.81	141	empty
5	223	0.76	0.90	46	empty

Interfaces

44 interfaces between chains.

J–L · 1409 Å² buried · 7 hydrogen bonds · protein-protein
N–P · 734 Å² buried · 6 hydrogen bonds · protein-protein
T–X · 730 Å² buried · 2 hydrogen bonds · protein-protein
L–S · 702 Å² buried · 3 hydrogen bonds · protein-protein
L–T · 433 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

6MEM · A unique supramolecular organization of photosystem I in the moss Physcomitrella patens · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 6MEM · PDBe 6MEM

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