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PDBsum entry 5szj
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protein ligands metals Protein-protein interface(s) links
Endocytosis PDB id
5szj

 

 

 

 

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JSmol PyMol  
Contents
Protein chains
175 a.a.
145 a.a.
Ligands
GNP
PEG
Metals
_MG
Waters ×39
PDB id:
5szj
Name: Endocytosis
Title: Structure of human rab10 in complex with the bmerb domain of mical-cl
Structure: Ras-related protein rab-10. Chain: a. Engineered: yes. Mical c-terminal-like protein. Chain: b. Synonym: erk2-binding testicular protein 1,ebitein-1. Engineered: yes
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: rab10. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: micalcl. Expression_system_taxid: 562
Resolution:
2.66Å     R-factor:   0.226     R-free:   0.266
Authors: A.Rai,A.Oprisko,J.Campos,Y.Fu,T.Friese,A.Itzen,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    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P61026  (RAB10_HUMAN) -  Ras-related protein Rab-10 from Homo sapiens
Seq:
Struc: 		200 a.a.
175 a.a.
Protein chain
Pfam   ArchSchema ?
O94851  (MICA2_HUMAN) -  [F-actin]-monooxygenase MICAL2 from Homo sapiens
Seq:
Struc: 		 
Seq:
Struc: 		 
Seq:
Struc: 		 
Seq:
Struc: 		1957 a.a.
145 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 3 residue positions (black crosses)

 Enzyme reactions 
   Enzyme class 1: Chain A: E.C.3.6.5.2  - small monomeric GTPase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: GTP + H2O = GDP + phosphate + H+
GTP
 + H2O
 =
GDP
Bound ligand (Het Group name = GNP)
matches with 81.82% similarity 		+ phosphate
 + H(+)
   Enzyme class 2: Chain B: E.C.1.14.13.225  - F-actin monooxygenase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      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
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

 

 

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