PDBsum entry 5szh

Endocytosis

PDB id: 5szh

Contents

Protein chains

143 a.a.

175 a.a.

Ligands

GNP

Metals

_MG

Waters ×27

PDB id:

5szh

Name:

Endocytosis

Title:

Structure of human rab1b in complex with the bmerb domain of mical-cl

Structure:

Mical c-terminal-like protein. Chain: a. Synonym: erk2-binding testicular protein 1,ebitein-1. Engineered: yes. Ras-related protein rab-1b. Chain: b. Engineered: yes

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: micalcl. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: rab1b. Expression_system_taxid: 562

Resolution:

2.30Å R-factor: 0.181 R-free: 0.207

Authors:

A.Rai,A.Oprisko,J.Campos,Y.Fu,T.Friese,R.S.Goody,M.P.Mueller, E.M.Gazdag

Key ref:

A.Rai et al. Bmerb domains are bivalent rab8 family effectors evol gene duplication. To be published, . PubMed id: 27552051

Date:

14-Aug-16 Release date: 24-Aug-16

Protein chain

O94851  (MICA2_HUMAN) -  [F-actin]-monooxygenase MICAL2 from Homo sapiens

Seq: 1957 a.a.

Struc: 143 a.a.*

Protein chain

Q9H0U4  (RAB1B_HUMAN) -  Ras-related protein Rab-1B from Homo sapiens

Seq: 201 a.a.

Struc: 175 a.a.

* PDB and UniProt seqs differ at 3 residue positions (black crosses)

Enzyme reactions

• Enzyme class 2: Chain A: E.C.1.14.13.225 - F-actin monooxygenase.
• Reaction: L-methionyl-[F-actin] + NADPH + O2 + H⁺ = L-methionyl-(R)-S-oxide- [F-actin] + NADP⁺ + H2O

L-methionyl-[F-actin] + NADPH + O2 (Bound ligand (Het Group name = GNP) matches with 48.15% similarity) + H(+) = L-methionyl-(R)-S-oxide- [F-actin] + NADP(+) + H2O

• Enzyme class 3: Chain B: E.C.3.6.5.2 - small monomeric GTPase.
• Reaction: GTP + H2O = GDP + phosphate + H⁺

GTP + H2O = GDP (Bound ligand (Het Group name = GNP) matches with 81.82% similarity) + phosphate + H(+)

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site