2C7M: Human Rabex-5 residues 1-74

Human Rabex-5 residues 1-74 in complex with Ubiquitin. Determined by X-ray diffraction at 2.4 Å resolution. Released 15 Feb 2006.

Method: X-ray diffraction
Resolution: 2.4 Å
Organisms: HOMO SAPIENS, BOS TAURUS
Chains: 2
Atoms: 1,108
Mol. weight: 17.43 kDa
Ligands: ZN
Released: 15 Feb 2006

Explore 2C7M in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2C7M contains 7 α-helices and 9 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 3 helices, 2 β-strands

Element	Residues	Length	Sheet
β-strand	19	1	1
β-strand	27	1	1
α-helix	28	1
α-helix	30-32	3
α-helix	37-74	38

Chain B: 4 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	2-6	5	2
β-strand	12-16	5	2
β-strand	22	1	3
α-helix	23-34	12
α-helix	38-40	3
β-strand	41-45	5	2
β-strand	48-49	2	2
α-helix	50-51	2
β-strand	55	1	3
α-helix	56-59	4
β-strand	66-71	6	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Rab guanine nucleotide exchange factor 1	A	protein	74	HOMO SAPIENS	Q9UJ41 (AlphaFold model)
Ubiquitin	B	protein	76	BOS TAURUS	P0CH28 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>2C7M_1 RAB GUANINE NUCLEOTIDE EXCHANGE FACTOR 1 (chains A)
MSLKSERRGIHVDQSDLLCKKGCGYYGNPAWQGFCSKCWREEYHKARQKQIQEDWELAER
LQREEEEAFASSQS

Sequence of entity 2 (B), FASTA

>2C7M_2 UBIQUITIN (chains B)
MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGG

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	1

Primary citation

Crystal structure of the ubiquitin binding domains of rabex-5 reveals two modes of interaction with ubiquitin. Penengo, L., Mapelli, M., Murachelli, A.G. et al. Cell (2006) 124:1183-1195. DOI 10.1016/j.cell.2006.02.020 · PubMed

Other PDB entries of the same protein (UniProt Q9UJ41 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4N3X 2.0 Å, Crystal structure of Rabex-5 CC domain
2C7N 2.1 Å, Human Rabex-5 residues 1-74 in complex with Ubiquitin
2OT3 2.1 Å, Crystal structure of rabex-5 VPS9 domain in complex with nucleotide free RAB21
4N3Y 2.2 Å, Crystal structure of Rabex-5CC and Rabaptin-5C21 complex
1TXU 2.35 Å, Crystal Structure of the Vps9 Domain of Rabex-5
4N3Z 3.1 Å, Crystal structure of Rabex-5delta and Rabaptin-5C21 complex
4Q9U 4.62 Å, Crystal structure of the Rab5, Rabex-5delta and Rabaptin-5C21 complex

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