1TU4
Crystal Structure of Rab5-GDP Complex
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003924 | molecular_function | GTPase activity |
| A | 0005525 | molecular_function | GTP binding |
| B | 0003924 | molecular_function | GTPase activity |
| B | 0005525 | molecular_function | GTP binding |
| C | 0003924 | molecular_function | GTPase activity |
| C | 0005525 | molecular_function | GTP binding |
| D | 0003924 | molecular_function | GTPase activity |
| D | 0005525 | molecular_function | GTP binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CO A 1201 |
| Chain | Residue |
| A | SER34 |
| A | HOH301 |
| A | HOH302 |
| A | HOH308 |
| A | GDP1200 |
| D | HOH303 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CO B 2201 |
| Chain | Residue |
| B | HOH306 |
| B | HOH307 |
| B | GDP2200 |
| B | SER34 |
| B | HOH304 |
| B | HOH305 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CO C 3201 |
| Chain | Residue |
| C | SER34 |
| C | HOH309 |
| C | HOH310 |
| C | HOH311 |
| C | HOH312 |
| C | GDP3200 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CO D 4201 |
| Chain | Residue |
| D | SER34 |
| D | HOH313 |
| D | HOH314 |
| D | HOH315 |
| D | HOH316 |
| D | GDP4200 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CO B 251 |
| Chain | Residue |
| A | HIS83 |
| A | HOH395 |
| B | GLU80 |
| B | HIS83 |
| B | HOH396 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CO D 252 |
| Chain | Residue |
| C | HIS83 |
| C | HOH397 |
| C | HOH398 |
| D | GLU80 |
| D | HIS83 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 B 261 |
| Chain | Residue |
| B | GLN79 |
| B | GLU80 |
| B | ARG81 |
| B | HOH353 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 D 262 |
| Chain | Residue |
| D | ALA77 |
| D | GLY78 |
| D | GLN79 |
| D | HOH315 |
| D | HOH316 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 D 263 |
| Chain | Residue |
| D | GLN79 |
| D | GLU80 |
| D | ARG81 |
| D | HOH490 |
| site_id | BC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE SO4 B 264 |
| Chain | Residue |
| B | ALA77 |
| B | GLY78 |
| B | GLN79 |
| B | HOH306 |
| B | HOH307 |
| B | HOH608 |
| site_id | BC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE SO4 D 265 |
| Chain | Residue |
| A | ARG81 |
| A | HOH552 |
| B | GLN121 |
| D | ASN16 |
| site_id | BC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE SO4 D 266 |
| Chain | Residue |
| D | GLN121 |
| D | HOH522 |
| D | HOH563 |
| site_id | BC4 |
| Number of Residues | 20 |
| Details | BINDING SITE FOR RESIDUE GDP A 1200 |
| Chain | Residue |
| A | GLU28 |
| A | ALA30 |
| A | VAL31 |
| A | GLY32 |
| A | LYS33 |
| A | SER34 |
| A | SER35 |
| A | ASN133 |
| A | LYS134 |
| A | ASP136 |
| A | LEU137 |
| A | SER163 |
| A | ALA164 |
| A | LYS165 |
| A | HOH302 |
| A | HOH308 |
| A | HOH414 |
| A | HOH433 |
| A | HOH461 |
| A | CO1201 |
| site_id | BC5 |
| Number of Residues | 26 |
| Details | BINDING SITE FOR RESIDUE GDP B 2200 |
| Chain | Residue |
| B | HOH317 |
| B | HOH339 |
| B | HOH345 |
| B | HOH435 |
| B | HOH521 |
| B | HOH595 |
| B | CO2201 |
| A | GLN119 |
| A | ARG120 |
| A | ALA122 |
| A | SER123 |
| A | PRO124 |
| B | ALA30 |
| B | VAL31 |
| B | GLY32 |
| B | LYS33 |
| B | SER34 |
| B | SER35 |
| B | ASN133 |
| B | LYS134 |
| B | ASP136 |
| B | LEU137 |
| B | SER163 |
| B | ALA164 |
| B | LYS165 |
| B | HOH307 |
| site_id | BC6 |
| Number of Residues | 18 |
| Details | BINDING SITE FOR RESIDUE GDP C 3200 |
| Chain | Residue |
| C | GLU28 |
| C | ALA30 |
| C | VAL31 |
| C | GLY32 |
| C | LYS33 |
| C | SER34 |
| C | SER35 |
| C | ASN133 |
| C | LYS134 |
| C | ASP136 |
| C | SER163 |
| C | ALA164 |
| C | LYS165 |
| C | HOH310 |
| C | HOH311 |
| C | HOH422 |
| C | HOH523 |
| C | CO3201 |
| site_id | BC7 |
| Number of Residues | 20 |
| Details | BINDING SITE FOR RESIDUE GDP D 4200 |
| Chain | Residue |
| C | GLN119 |
| C | ARG120 |
| C | ALA122 |
| C | SER123 |
| C | PRO124 |
| D | ALA30 |
| D | VAL31 |
| D | GLY32 |
| D | LYS33 |
| D | SER34 |
| D | SER35 |
| D | ASN133 |
| D | LYS134 |
| D | ASP136 |
| D | LEU137 |
| D | SER163 |
| D | ALA164 |
| D | HOH313 |
| D | HOH316 |
| D | CO4201 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 24 |
| Details | Motif: {"description":"Switch 1","evidences":[{"source":"PubMed","id":"20534488","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3MJH","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 46 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"12433916","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20534488","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1N6L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3MJH","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"20534488","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3MJH","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 8 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"12433916","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"14684892","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15378032","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20534488","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1N6H","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6I","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6K","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6L","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6N","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6O","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6P","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1N6R","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1R2Q","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"1TU3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3MJH","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | Modified residue: {"description":"Phosphoserine; by LRRK2","evidences":[{"source":"PubMed","id":"29125462","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | Glycosylation: {"description":"(Microbial infection) N-beta-linked (GlcNAc) arginine","evidences":[{"source":"PubMed","id":"32974215","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| A | GLN79 |
| site_id | CSA2 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| B | GLN79 |
| site_id | CSA3 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| C | GLN79 |
| site_id | CSA4 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| D | GLN79 |
| site_id | CSA5 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| A | ALA30 |
| site_id | CSA6 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| B | ALA30 |
| site_id | CSA7 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| C | ALA30 |
| site_id | CSA8 |
| Number of Residues | 1 |
| Details | Annotated By Reference To The Literature 1ksj |
| Chain | Residue | Details |
| D | ALA30 |
