PDBsum entry 1zbd

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protein ligands metals Protein-protein interface(s) links
G protein PDB id
Protein chains
177 a.a. *
124 a.a. *
_ZN ×2
Waters ×46
* Residue conservation analysis
PDB id:
Name: G protein
Title: Structural basis of rab effector specificity: crystal structure of the small g protein rab3a complexed with the effector domain of rabphilin-3a
Structure: Rabphilin-3a. Chain: a. Fragment: 19-217. Synonym: ras-related protein rab-3a. Engineered: yes. Mutation: yes. Rabphilin-3a. Chain: b. Fragment: 40-170, effector domain.
Source: Rattus norvegicus. Norway rat. Organism_taxid: 10116. Organ: brain. Tissue: neurons. Cellular_location: synaptic vesicles. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Expression_system_variant: (de3).
Biol. unit: Tetramer (from PQS)
2.60Å     R-factor:   0.226     R-free:   0.263
Authors: C.Ostermeier,A.T.Brunger
Key ref:
C.Ostermeier and A.T.Brunger (1999). Structural basis of Rab effector specificity: crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A. Cell, 96, 363-374. PubMed id: 10025402 DOI: 10.1016/S0092-8674(00)80549-8
06-Nov-98     Release date:   02-Apr-99    
Go to PROCHECK summary

Protein chain
Pfam   ArchSchema ?
P63012  (RAB3A_RAT) -  Ras-related protein Rab-3A
220 a.a.
177 a.a.*
Protein chain
Pfam   ArchSchema ?
P47709  (RP3A_RAT) -  Rabphilin-3A
684 a.a.
124 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 5 residue positions (black crosses)

 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     vesicle   13 terms 
  Biological process     transport   29 terms 
  Biochemical function     nucleotide binding     11 terms  


DOI no: 10.1016/S0092-8674(00)80549-8 Cell 96:363-374 (1999)
PubMed id: 10025402  
Structural basis of Rab effector specificity: crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A.
C.Ostermeier, A.T.Brunger.
The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of activated Rab3A/GTP/Mg2+ bound to the effector domain of rabphilin-3A was solved to 2.6 A resolution. Rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion.
  Selected figure(s)  
Figure 2.
Figure 2. Sequence Alignment of Rab ProteinsNumbering and secondary structural elements (green α helix; blue arrow β strand) are shown for Rab3A. Switch I and II regions and the RabCDR are shaded in yellow and blue, respectively. A residue marked in red indicates a contact between the particular residue and rabphilin-3A in the crystal structure of the Rab3A/rabphilin-3A complex.
Figure 5.
  The above figures are reprinted by permission from Cell Press: Cell (1999, 96, 363-374) copyright 1999.  
  Figures were selected by an automated process.  

Literature references that cite this PDB file's key reference Google scholar

  PubMed id Reference
21378754 X.Hou, N.Hagemann, S.Schoebel, W.Blankenfeldt, R.S.Goody, K.S.Erdmann, and A.Itzen (2011).
A structural basis for Lowe syndrome caused by mutations in the Rab-binding domain of OCRL1.
  EMBO J, 30, 1659-1670.
PDB code: 3qbt
20534488 A.Mishra, S.Eathiraj, S.Corvera, and D.G.Lambright (2010).
Structural basis for Rab GTPase recognition and endosome tethering by the C2H2 zinc finger of Early Endosomal Autoantigen 1 (EEA1).
  Proc Natl Acad Sci U S A, 107, 10866-10871.
PDB code: 3mjh
20059749 A.Sclafani, S.Chen, F.Rivera-Molina, K.Reinisch, P.Novick, and S.Ferro-Novick (2010).
Establishing a role for the GTPase Ypt1p at the late Golgi.
  Traffic, 11, 520-532.  
20943950 K.Tabata, K.Matsunaga, A.Sakane, T.Sasaki, T.Noda, and T.Yoshimori (2010).
Rubicon and PLEKHM1 negatively regulate the endocytic/autophagic pathway via a novel Rab7-binding domain.
  Mol Biol Cell, 21, 4162-4172.  
20179338 T.C.Terwilliger (2010).
Rapid model building of alpha-helices in electron-density maps.
  Acta Crystallogr D Biol Crystallogr, 66, 268-275.  
20179339 T.C.Terwilliger (2010).
Rapid model building of beta-sheets in electron-density maps.
  Acta Crystallogr D Biol Crystallogr, 66, 276-284.  
20179340 T.C.Terwilliger (2010).
Rapid chain tracing of polypeptide backbones in electron-density maps.
  Acta Crystallogr D Biol Crystallogr, 66, 285-294.  
19797056 C.T.Eggers, J.C.Schafer, J.R.Goldenring, and S.S.Taylor (2009).
D-AKAP2 interacts with Rab4 and Rab11 through its RGS domains and regulates transferrin receptor recycling.
  J Biol Chem, 284, 32869-32880.  
19453973 J.Kashiwazaki, T.Iwaki, K.Takegawa, C.Shimoda, and T.Nakamura (2009).
Two fission yeast rab7 homologs, ypt7 and ypt71, play antagonistic roles in the regulation of vacuolar morphology.
  Traffic, 10, 912-924.  
19119858 J.Wei, Y.Liu, K.Bose, G.D.Henry, and J.D.Baleja (2009).
Disorder and structure in the Rab11 binding domain of Rab11 family interacting protein 2.
  Biochemistry, 48, 549-557.
PDB code: 2k6s
19456344 M.M.Malagón, D.Cruz-García, A.Díaz-Ruiz, J.R.Peinado, M.R.Pulido, J.Araújo, S.Garcia-Navarro, F.Gracia-Navarro, J.P.Castaño, and R.Vázquez-Martínez (2009).
Identification of novel genes involved in the plasticity of pituitary melanotropes in amphibians.
  Ann N Y Acad Sci, 1163, 233-240.  
19522756 M.T.Lee, A.Mishra, and D.G.Lambright (2009).
Structural mechanisms for regulation of membrane traffic by rab GTPases.
  Traffic, 10, 1377-1389.  
19442299 P.Mackiewicz, and E.Wyroba (2009).
Phylogeny and evolution of Rab7 and Rab9 proteins.
  BMC Evol Biol, 9, 101.  
19141279 R.Recacha, A.Boulet, F.Jollivet, S.Monier, A.Houdusse, B.Goud, and A.R.Khan (2009).
Structural basis for recruitment of Rab6-interacting protein 1 to Golgi via a RUN domain.
  Structure, 17, 21-30.
PDB code: 3cwz
19465773 T.C.Terwilliger, P.D.Adams, R.J.Read, A.J.McCoy, N.W.Moriarty, R.W.Grosse-Kunstleve, P.V.Afonine, P.H.Zwart, and L.W.Hung (2009).
Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard.
  Acta Crystallogr D Biol Crystallogr, 65, 582-601.  
18243103 A.S.Burguete, T.D.Fenn, A.T.Brunger, and S.R.Pfeffer (2008).
Rab and Arl GTPase family members cooperate in the localization of the golgin GCC185.
  Cell, 132, 286-298.
PDB code: 3bbp
18199329 B.Schuster-Böckler, and A.Bateman (2008).
Protein interactions in human genetic diseases.
  Genome Biol, 9, R9.  
18596818 J.Rizo, and C.Rosenmund (2008).
Synaptic vesicle fusion.
  Nat Struct Mol Biol, 15, 665-674.  
18618940 J.Rizo, and C.Rosenmund (2008).
Synaptic vesicle fusion.
  Nat Struct Mol Biol, 15, 665-674.  
17177074 P.Kursula (2008).
Structural properties of proteins specific to the myelin sheath.
  Amino Acids, 34, 175-185.  
18799741 P.S.Kaeser, H.B.Kwon, J.Blundell, V.Chevaleyre, W.Morishita, R.C.Malenka, C.M.Powell, P.E.Castillo, and T.C.Südhof (2008).
RIM1alpha phosphorylation at serine-413 by protein kinase A is not required for presynaptic long-term plasticity or learning.
  Proc Natl Acad Sci U S A, 105, 14680-14685.  
19026641 S.H.Lee, K.Baek, and R.Dominguez (2008).
Large nucleotide-dependent conformational change in Rab28.
  FEBS Lett, 582, 4107-4111.
PDB code: 3e5h
18201387 W.C.Lo, and P.C.Lyu (2008).
CPSARST: an efficient circular permutation search tool applied to the detection of novel protein structural relationships.
  Genome Biol, 9, R11.  
17289591 G.Dong, M.Medkova, P.Novick, and K.M.Reinisch (2007).
A catalytic coiled coil: structural insights into the activation of the Rab GTPase Sec4p by Sec2p.
  Mol Cell, 25, 455-462.
PDB code: 2ocy
17581628 G.Zhu, J.Chen, J.Liu, J.S.Brunzelle, B.Huang, N.Wakeham, S.Terzyan, X.Li, Z.Rao, G.Li, and X.C.Zhang (2007).
Structure of the APPL1 BAR-PH domain and characterization of its interaction with Rab5.
  EMBO J, 26, 3484-3493.
PDB codes: 2q12 2q13
17347647 J.Ménétrey, M.Perderiset, J.Cicolari, T.Dubois, N.Elkhatib, F.El Khadali, M.Franco, P.Chavrier, and A.Houdusse (2007).
Structural basis for ARF1-mediated recruitment of ARHGAP21 to Golgi membranes.
  EMBO J, 26, 1953-1962.
PDB code: 2j59
17582168 L.M.Chavas, S.Torii, H.Kamikubo, M.Kawasaki, K.Ihara, R.Kato, M.Kataoka, T.Izumi, and S.Wakatsuki (2007).
Structure of the small GTPase Rab27b shows an unexpected swapped dimer.
  Acta Crystallogr D Biol Crystallogr, 63, 769-779.
PDB codes: 2iey 2iez 2if0
17702760 M.Pajunen, H.Turakainen, E.Poussu, J.Peränen, M.Vihinen, and H.Savilahti (2007).
High-precision mapping of protein protein interfaces: an integrated genetic strategy combining en masse mutagenesis and DNA-level parallel analysis on a yeast two-hybrid platform.
  Nucleic Acids Res, 35, e103.  
17513864 N.C.Geething, and J.A.Spudich (2007).
Identification of a minimal myosin Va binding site within an intrinsically unstructured domain of melanophilin.
  J Biol Chem, 282, 21518-21528.  
17937392 N.Li, J.N.Volff, and A.Wizenmann (2007).
Rab23 GTPase is expressed asymmetrically in Hensen's node and plays a role in the dorsoventral patterning of the chick neural tube.
  Dev Dyn, 236, 2993-3006.  
16734774 S.Yang, M.Farias, D.Kapfhamer, J.Tobias, G.Grant, T.Abel, and M.Bućan (2007).
Biochemical, molecular and behavioral phenotypes of Rab3A mutations in the mouse.
  Genes Brain Behav, 6, 77-96.  
17664848 T.Izumi (2007).
Physiological roles of Rab27 effectors in regulated exocytosis.
  Endocr J, 54, 649-657.  
16882731 B.L.Grosshans, D.Ortiz, and P.Novick (2006).
Rabs and their effectors: achieving specificity in membrane traffic.
  Proc Natl Acad Sci U S A, 103, 11821-11827.  
16769818 D.Aivazian, R.L.Serrano, and S.Pfeffer (2006).
TIP47 is a key effector for Rab9 localization.
  J Cell Biol, 173, 917-926.  
16901698 E.Kerkhoff (2006).
Cellular functions of the Spir actin-nucleation factors.
  Trends Cell Biol, 16, 477-483.  
16732694 J.Lu, M.Machius, I.Dulubova, H.Dai, T.C.Südhof, D.R.Tomchick, and J.Rizo (2006).
Structural basis for a Munc13-1 homodimer to Munc13-1/RIM heterodimer switch.
  PLoS Biol, 4, e192.
PDB codes: 2cjs 2cjt
17031879 L.Brunsveld, J.Kuhlmann, K.Alexandrov, A.Wittinghofer, R.S.Goody, and H.Waldmann (2006).
Lipidated ras and rab peptides and proteins--synthesis, structure, and function.
  Angew Chem Int Ed Engl, 45, 6622-6646.  
16782791 P.J.Kundrotas, and E.Alexov (2006).
Electrostatic properties of protein-protein complexes.
  Biophys J, 91, 1724-1736.  
16644267 T.G.Kutateladze (2006).
Phosphatidylinositol 3-phosphate recognition and membrane docking by the FYVE domain.
  Biochim Biophys Acta, 1761, 868-877.  
16571673 T.R.Mahoney, Q.Liu, T.Itoh, S.Luo, G.Hadwiger, R.Vincent, Z.W.Wang, M.Fukuda, and M.L.Nonet (2006).
Regulation of synaptic transmission by RAB-3 and RAB-27 in Caenorhabditis elegans.
  Mol Biol Cell, 17, 2617-2625.  
16416449 T.Uno, A.Nakao, Y.Fujiwara, C.Katsurauma, T.Nakada, and O.Itoh (2006).
Molecular cloning and expression of protein kinase C from Bombyx mori.
  Arch Insect Biochem Physiol, 61, 65-76.  
16905101 W.N.Jagoe, A.J.Lindsay, R.J.Read, A.J.McCoy, M.W.McCaffrey, and A.R.Khan (2006).
Crystal structure of rab11 in complex with rab11 family interacting protein 2.
  Structure, 14, 1273-1283.
PDB codes: 2gzd 2gzh
15785799 A.Watzke, L.Brunsveld, T.Durek, K.Alexandrov, A.Rak, R.S.Goody, and H.Waldmann (2005).
Chemical biology of protein lipidation: semi-synthesis and structure elucidation of prenylated RabGTPases.
  Org Biomol Chem, 3, 1157-1164.  
16043482 G.Baldini, A.M.Martelli, G.Tabellini, C.Horn, K.Machaca, P.Narducci, and G.Baldini (2005).
Rabphilin localizes with the cell actin cytoskeleton and stimulates association of granules with F-actin cross-linked by {alpha}-actinin.
  J Biol Chem, 280, 34974-34984.  
16052212 I.Dulubova, X.Lou, J.Lu, I.Huryeva, A.Alam, R.Schneggenburger, T.C.Südhof, and J.Rizo (2005).
A Munc13/RIM/Rab3 tripartite complex: from priming to plasticity?
  EMBO J, 24, 2839-2850.
PDB code: 2a20
15998322 J.L.Johnson, S.Pacquelet, W.S.Lane, B.Eam, and S.D.Catz (2005).
Akt regulates the subcellular localization of the Rab27a-binding protein JFC1 by phosphorylation.
  Traffic, 6, 667-681.  
15796781 M.Bayer, J.Fischer, J.Kremerskothen, E.Ossendorf, T.Matanis, M.Konczal, T.Weide, and A.Barnekow (2005).
Identification and characterization of Iporin as a novel interaction partner for rab1.
  BMC Cell Biol, 6, 15.  
15548590 M.Neeft, M.Wieffer, Jong, G.Negroiu, C.H.Metz, A.van Loon, J.Griffith, J.Krijgsveld, N.Wulffraat, H.Koch, A.J.Heck, N.Brose, M.Kleijmeer, and P.van der Sluijs (2005).
Munc13-4 is an effector of rab27a and controls secretion of lysosomes in hematopoietic cells.
  Mol Biol Cell, 16, 731-741.  
15933719 M.Wu, T.Wang, E.Loh, W.Hong, and H.Song (2005).
Structural basis for recruitment of RILP by small GTPase Rab7.
  EMBO J, 24, 1491-1501.
PDB codes: 1t91 1yhn
16034420 S.Eathiraj, X.Pan, C.Ritacco, and D.G.Lambright (2005).
Structural basis of family-wide Rab GTPase recognition by rabenosyn-5.
  Nature, 436, 415-419.
PDB codes: 1yu9 1yvd 1yzk 1yzl 1yzm 1yzn 1yzq 1yzt 1yzu 1z06 1z07 1z08 1z0a 1z0d 1z0f 1z0i 1z0j 1z0k 1z22 1z2a
15837192 S.Pasqualato, and J.Cherfils (2005).
Crystallographic evidence for substrate-assisted GTP hydrolysis by a small GTP binding protein.
  Structure, 13, 533-540.
PDB code: 1oix
15746102 S.R.Pfeffer (2005).
Structural clues to Rab GTPase functional diversity.
  J Biol Chem, 280, 15485-15488.  
16155582 S.Wu, S.Q.Mehta, F.Pichaud, H.J.Bellen, and F.A.Quiocho (2005).
Sec15 interacts with Rab11 via a novel domain and affects Rab11 localization in vivo.
  Nat Struct Mol Biol, 12, 879-885.
PDB code: 2a2f
16203731 T.Tsuboi, and M.Fukuda (2005).
The C2B domain of rabphilin directly interacts with SNAP-25 and regulates the docking step of dense core vesicle exocytosis in PC12 cells.
  J Biol Chem, 280, 39253-39259.  
15653425 E.J.Helmreich (2004).
Structural flexibility of small GTPases. Can it explain their functional versatility?
  Biol Chem, 385, 1121-1136.  
15378032 G.Zhu, P.Zhai, J.Liu, S.Terzyan, G.Li, and X.C.Zhang (2004).
Structural basis of Rab5-Rabaptin5 interaction in endocytosis.
  Nat Struct Mol Biol, 11, 975-983.
PDB codes: 1tu3 1tu4
14993700 J.G.Wittmann, and M.G.Rudolph (2004).
Purification, crystallization and preliminary X-ray analysis of the GTP-binding protein Rab9 implicated in endosome-to-TGN vesicle trafficking.
  Acta Crystallogr D Biol Crystallogr, 60, 580-582.  
14983005 K.Ginalski, L.Rychlewski, D.Baker, and N.V.Grishin (2004).
Protein structure prediction for the male-specific region of the human Y chromosome.
  Proc Natl Acad Sci U S A, 101, 2305-2310.  
15261679 M.C.Seabra, and C.Wasmeier (2004).
Controlling the location and activation of Rab GTPases.
  Curr Opin Cell Biol, 16, 451-457.  
15576038 M.D.Tibbetts, E.N.Shiozaki, L.Gu, E.R.McDonald, W.S.El-Deiry, and Y.Shi (2004).
Crystal structure of a FYVE-type zinc finger domain from the caspase regulator CARP2.
  Structure, 12, 2257-2263.
PDB code: 1y02
14722103 M.Fukuda, E.Kanno, and A.Yamamoto (2004).
Rabphilin and Noc2 are recruited to dense-core vesicles through specific interaction with Rab27A in PC12 cells.
  J Biol Chem, 279, 13065-13075.  
15330860 M.Fukuda (2004).
Alternative splicing in the first alpha-helical region of the Rab-binding domain of Rim regulates Rab3A binding activity: is Rim a Rab3 effector protein during evolution?
  Genes Cells, 9, 831-842.  
15199131 M.Shipitsin, and L.A.Feig (2004).
RalA but not RalB enhances polarized delivery of membrane proteins to the basolateral surface of epithelial cells.
  Mol Cell Biol, 24, 5746-5756.  
15265865 S.Giovedì, P.Vaccaro, F.Valtorta, F.Darchen, P.Greengard, G.Cesareni, and F.Benfenati (2004).
Synapsin is a novel Rab3 effector protein on small synaptic vesicles. I. Identification and characterization of the synapsin I-Rab3 interactions in vitro and in intact nerve terminals.
  J Biol Chem, 279, 43760-43768.  
14699104 S.Pasqualato, F.Senic-Matuglia, L.Renault, B.Goud, J.Salamero, and J.Cherfils (2004).
The structural GDP/GTP cycle of Rab11 reveals a novel interface involved in the dynamics of recycling endosomes.
  J Biol Chem, 279, 11480-11488.
PDB codes: 1oiv 1oiw
15378570 T.Uno, A.Nakao, and C.Katsurauma (2004).
Phosphorylation of Rab proteins from the brain of Bombyx mori.
  Arch Insect Biochem Physiol, 57, 68-77.  
14580338 B.Panic, O.Perisic, D.B.Veprintsev, R.L.Williams, and S.Munro (2003).
Structural basis for Arl1-dependent targeting of homodimeric GRIP domains to the Golgi apparatus.
  Mol Cell, 12, 863-874.
PDB code: 1upt
12581669 C.Herrmann (2003).
Ras-effector interactions: after one decade.
  Curr Opin Struct Biol, 13, 122-129.  
14514689 D.Owen, P.N.Lowe, D.Nietlispach, C.E.Brosnan, D.Y.Chirgadze, P.J.Parker, T.L.Blundell, and H.R.Mott (2003).
Molecular dissection of the interaction between the small G proteins Rac1 and RhoA and protein kinase C-related kinase 1 (PRK1).
  J Biol Chem, 278, 50578-50587.
PDB code: 1urf
14570876 E.J.Tisdale (2003).
Rab2 interacts directly with atypical protein kinase C (aPKC) iota/lambda and inhibits aPKCiota/lambda-dependent glyceraldehyde-3-phosphate dehydrogenase phosphorylation.
  J Biol Chem, 278, 52524-52530.  
12493736 E.Merithew, C.Stone, S.Eathiraj, and D.G.Lambright (2003).
Determinants of Rab5 interaction with the N terminus of early endosome antigen 1.
  J Biol Chem, 278, 8494-8500.  
  12897212 G.Ménasché, C.H.Ho, O.Sanal, J.Feldmann, I.Tezcan, F.Ersoy, A.Houdusse, A.Fischer, and Saint Basile (2003).
Griscelli syndrome restricted to hypopigmentation results from a melanophilin defect (GS3) or a MYO5A F-exon deletion (GS1).
  J Clin Invest, 112, 450-456.  
12624092 H.R.Mott, D.Nietlispach, L.J.Hopkins, G.Mirey, J.H.Camonis, and D.Owen (2003).
Structure of the GTPase-binding domain of Sec5 and elucidation of its Ral binding site.
  J Biol Chem, 278, 17053-17059.
PDB code: 1hk6
12578829 M.Fukuda (2003).
Distinct Rab binding specificity of Rim1, Rim2, rabphilin, and Noc2. Identification of a critical determinant of Rab3A/Rab27A recognition by Rim2.
  J Biol Chem, 278, 15373-15380.  
  12937130 M.P.Rastaldi, S.Armelloni, S.Berra, M.Li, M.Pesaresi, H.Poczewski, B.Langer, D.Kerjaschki, A.Henger, S.M.Blattner, M.Kretzler, R.Wanke, and G.D'Amico (2003).
Glomerular podocytes possess the synaptic vesicle molecule Rab3A and its specific effector rabphilin-3a.
  Am J Pathol, 163, 889-899.  
12531900 P.Bahadoran, R.Busca, C.Chiaverini, W.Westbroek, J.Lambert, K.Bille, G.Valony, M.Fukuda, J.M.Naeyaert, J.P.Ortonne, and R.Ballotti (2003).
Characterization of the molecular defects in Rab27a, caused by RAB27A missense mutations found in patients with Griscelli syndrome.
  J Biol Chem, 278, 11386-11392.  
12805377 R.M.Prieto-Sánchez, and X.R.Bustelo (2003).
Structural basis for the signaling specificity of RhoG and Rac1 GTPases.
  J Biol Chem, 278, 37916-37925.  
12600314 S.Pfeffer (2003).
Membrane domains in the secretory and endocytic pathways.
  Cell, 112, 507-517.  
14745138 T.Izumi, H.Gomi, K.Kasai, S.Mizutani, and S.Torii (2003).
The roles of Rab27 and its effectors in the regulated secretory pathways.
  Cell Struct Funct, 28, 465-474.  
11964381 A.El-Amraoui, J.S.Schonn, P.Küssel-Andermann, S.Blanchard, C.Desnos, J.P.Henry, U.Wolfrum, F.Darchen, and C.Petit (2002).
MyRIP, a novel Rab effector, enables myosin VIIa recruitment to retinal melanosomes.
  EMBO Rep, 3, 463-470.  
11937061 A.T.Constantinescu, A.Rak, K.Alexandrov, H.Esters, R.S.Goody, and A.J.Scheidig (2002).
Rab-subfamily-specific regions of Ypt7p are structurally different from other RabGTPases.
  Structure, 10, 569-579.
PDB codes: 1ky2 1ky3
12105226 D.J.Strick, D.M.Francescutti, Y.Zhao, and L.A.Elferink (2002).
Mammalian suppressor of Sec4 modulates the inhibitory effect of Rab15 during early endocytosis.
  J Biol Chem, 277, 32722-32729.  
12244319 D.Kapfhamer, O.Valladares, Y.Sun, P.M.Nolan, J.J.Rux, S.E.Arnold, S.C.Veasey, and M.Bućan (2002).
Mutations in Rab3a alter circadian period and homeostatic response to sleep loss in the mouse.
  Nat Genet, 32, 290-295.  
12192047 D.Riedel, W.Antonin, R.Fernandez-Chacon, G.Alvarez de Toledo, T.Jo, M.Geppert, J.A.Valentijn, K.Valentijn, J.D.Jamieson, T.C.Südhof, and R.Jahn (2002).
Rab3D is not required for exocrine exocytosis but for maintenance of normally sized secretory granules.
  Mol Cell Biol, 22, 6487-6497.  
  12438124 L.Sun, M.A.Bittner, and R.W.Holz (2002).
Rim and exocytosis: Rab3a-binding and secretion-enhancing domains are separate and function independently.
  Ann N Y Acad Sci, 971, 244-247.  
11856727 M.Fukuda, T.S.Kuroda, and K.Mikoshiba (2002).
Slac2-a/melanophilin, the missing link between Rab27 and myosin Va: implications of a tripartite protein complex for melanosome transport.
  J Biol Chem, 277, 12432-12436.  
12189142 M.Fukuda (2002).
Synaptotagmin-like protein (Slp) homology domain 1 of Slac2-a/melanophilin is a critical determinant of GTP-dependent specific binding to Rab27A.
  J Biol Chem, 277, 40118-40124.  
12221080 M.Fukuda, and T.S.Kuroda (2002).
Slac2-c (synaptotagmin-like protein homologue lacking C2 domains-c), a novel linker protein that interacts with Rab27, myosin Va/VIIa, and actin.
  J Biol Chem, 277, 43096-43103.  
11953426 M.Hekman, H.Hamm, A.V.Villar, B.Bader, J.Kuhlmann, J.Nickel, and U.R.Rapp (2002).
Associations of B- and C-Raf with cholesterol, phosphatidylserine, and lipid second messengers: preferential binding of Raf to artificial lipid rafts.
  J Biol Chem, 277, 24090-24102.  
12186851 N.M.Alto, J.Soderling, and J.D.Scott (2002).
Rab32 is an A-kinase anchoring protein and participates in mitochondrial dynamics.
  J Cell Biol, 158, 659-668.  
11917121 S.K.Loftus, D.M.Larson, L.L.Baxter, A.Antonellis, Y.Chen, X.Wu, Y.Jiang, M.Bittner, J.A.Hammer, and W.J.Pavan (2002).
Mutation of melanosome protein RAB38 in chocolate mice.
  Proc Natl Acad Sci U S A, 99, 4471-4476.  
12393015 S.Rutherford, and I.Moore (2002).
The Arabidopsis Rab GTPase family: another enigma variation.
  Curr Opin Plant Biol, 5, 518-528.  
12101244 S.Torii, S.Zhao, Z.Yi, T.Takeuchi, and T.Izumi (2002).
Granuphilin modulates the exocytosis of secretory granules through interaction with syntaxin 1a.
  Mol Cell Biol, 22, 5518-5526.  
12134072 T.Bondeva, A.Balla, P.Várnai, and T.Balla (2002).
Structural determinants of Ras-Raf interaction analyzed in live cells.
  Mol Biol Cell, 13, 2323-2333.  
12058058 T.Coppola, C.Frantz, V.Perret-Menoud, S.Gattesco, H.Hirling, and R.Regazzi (2002).
Pancreatic beta-cell protein granuphilin binds Rab3 and Munc-18 and controls exocytosis.
  Mol Biol Cell, 13, 1906-1915.  
11784320 X.Bao, A.E.Faris, E.K.Jang, and R.J.Haslam (2002).
Molecular cloning, bacterial expression and properties of Rab31 and Rab32.
  Eur J Biochem, 269, 259-271.  
11343654 A.Betz, P.Thakur, H.J.Junge, U.Ashery, J.S.Rhee, V.Scheuss, C.Rosenmund, J.Rettig, and N.Brose (2001).
Functional interaction of the active zone proteins Munc13-1 and RIM1 in synaptic vesicle priming.
  Neuron, 30, 183-196.  
11340056 A.T.Brunger (2001).
Structure of proteins involved in synaptic vesicle fusion in neurons.
  Annu Rev Biophys Biomol Struct, 30, 157-171.  
11297924 A.T.Brunger (2001).
Structural insights into the molecular mechanism of calcium-dependent vesicle-membrane fusion.
  Curr Opin Struct Biol, 11, 163-173.  
11747823 E.Kerkhoff, J.C.Simpson, C.B.Leberfinger, I.M.Otto, T.Doerks, P.Bork, U.R.Rapp, T.Raabe, and R.Pepperkok (2001).
The Spir actin organizers are involved in vesicle transport processes.
  Curr Biol, 11, 1963-1968.  
11384750 E.Kerkhoff, and U.R.Rapp (2001).
The Ras-Raf relationship: an unfinished puzzle.
  Adv Enzyme Regul, 41, 261-267.  
11454198 E.Vassella, R.Krämer, C.M.Turner, M.Wankell, C.Modes, M.van den Bogaard, and M.Boshart (2001).
Deletion of a novel protein kinase with PX and FYVE-related domains increases the rate of differentiation of Trypanosoma brucei.
  Mol Microbiol, 41, 33-46.  
  11387043 H.Stenmark, and V.M.Olkkonen (2001).
The Rab GTPase family.
  Genome Biol, 2, REVIEWS3007.  
11179890 J.H.Laity, B.M.Lee, and P.E.Wright (2001).
Zinc finger proteins: new insights into structural and functional diversity.
  Curr Opin Struct Biol, 11, 39-46.  
11738594 K.D.Corbett, and T.Alber (2001).
The many faces of Ras: recognition of small GTP-binding proteins.
  Trends Biochem Sci, 26, 710-716.  
11504925 L.E.Matesic, R.Yip, A.E.Reuss, D.A.Swing, T.N.O'Sullivan, C.F.Fletcher, N.G.Copeland, and N.A.Jenkins (2001).
Mutations in Mlph, encoding a member of the Rab effector family, cause the melanosome transport defects observed in leaden mice.
  Proc Natl Acad Sci U S A, 98, 10238-10243.  
11707398 M.Boehm, R.C.Aguilar, and J.S.Bonifacino (2001).
Functional and physical interactions of the adaptor protein complex AP-4 with ADP-ribosylation factors (ARFs).
  EMBO J, 20, 6265-6276.  
11423412 M.L.Wagner, and L.K.Tamm (2001).
Reconstituted syntaxin1a/SNAP25 interacts with negatively charged lipids as measured by lateral diffusion in planar supported bilayers.
  Biophys J, 81, 266-275.  
11454458 N.Segev (2001).
Ypt and Rab GTPases: insight into functions through novel interactions.
  Curr Opin Cell Biol, 13, 500-511.  
11292843 N.V.Grishin (2001).
Treble clef finger--a functionally diverse zinc-binding structural motif.
  Nucleic Acids Res, 29, 1703-1714.  
11481332 R.Prekeris, J.M.Davies, and R.H.Scheller (2001).
Identification of a novel Rab11/25 binding domain present in Eferin and Rip proteins.
  J Biol Chem, 276, 38966-38970.  
  11071909 A.Echard, F.J.Opdam, Leeuw, F.Jollivet, P.Savelkoul, W.Hendriks, J.Voorberg, B.Goud, and J.A.Fransen (2000).
Alternative splicing of the human Rab6A gene generates two close but functionally different isoforms.
  Mol Biol Cell, 11, 3819-3833.  
10851178 A.T.Brunger (2000).
Structural insights into the molecular mechanism of Ca(2+)-dependent exocytosis.
  Curr Opin Neurobiol, 10, 293-302.  
10652369 D.C.Lawe, V.Patki, R.Heller-Harrison, D.Lambright, and S.Corvera (2000).
The FYVE domain of early endosome antigen 1 is required for both phosphatidylinositol 3-phosphate and Rab5 binding. Critical role of this dual interaction for endosomal localization.
  J Biol Chem, 275, 3699-3705.  
10944341 D.Chattopadhyay, C.D.Smith, J.Barchue, and G.Langsley (2000).
Plasmodium falciparum rab6 GTPase: expression, purification, crystallization and preliminary crystallographic studies.
  Acta Crystallogr D Biol Crystallogr, 56, 1017-1019.  
10944329 D.Chattopadhyay, G.Langsley, M.Carson, R.Recacha, L.DeLucas, and C.Smith (2000).
Structure of the nucleotide-binding domain of Plasmodium falciparum rab6 in the GDP-bound form.
  Acta Crystallogr D Biol Crystallogr, 56, 937-944.
PDB code: 1d5c
10684602 D.Owen, H.R.Mott, E.D.Laue, and P.N.Lowe (2000).
Residues in Cdc42 that specify binding to individual CRIB effector proteins.
  Biochemistry, 39, 1243-1250.  
10865125 F.Darchen, and B.Goud (2000).
Multiple aspects of Rab protein action in the secretory pathway: focus on Rab3 and Rab6.
  Biochimie, 82, 375-384.  
11208133 J.A.Ybe, D.E.Wakeham, F.M.Brodsky, and P.K.Hwang (2000).
Molecular structures of proteins involved in vesicle fusion.
  Traffic, 1, 474-479.  
10716627 J.Armstrong (2000).
How do Rab proteins function in membrane traffic?
  Int J Biochem Cell Biol, 32, 303-307.  
10940243 J.H.Hurley, and S.Misra (2000).
Signaling and subcellular targeting by membrane-binding domains.
  Annu Rev Biophys Biomol Struct, 29, 49-79.  
11114503 K.M.Misura, A.P.May, and W.I.Weis (2000).
Protein-protein interactions in intracellular membrane fusion.
  Curr Opin Struct Biol, 10, 662-671.  
11053839 L.M.Rice, T.N.Earnest, and A.T.Brunger (2000).
Single-wavelength anomalous diffraction phasing revisited.
  Acta Crystallogr D Biol Crystallogr, 56, 1413-1420.  
10861786 M.Igarashi, A.Ohyama, K.Ohbayashi, S.Kozaki, and Y.Komiya (2000).
The mechanism of the neurotransmitter release in growth cones.
  J Neurosci Res, 60, 743-753.  
10954749 M.Michaut, C.N.Tomes, G.De Blas, R.Yunes, and L.S.Mayorga (2000).
Calcium-triggered acrosomal exocytosis in human spermatozoa requires the coordinated activation of Rab3A and N-ethylmaleimide-sensitive factor.
  Proc Natl Acad Sci U S A, 97, 9996.  
11031229 R.C.Lin, and R.H.Scheller (2000).
Mechanisms of synaptic vesicle exocytosis.
  Annu Rev Cell Dev Biol, 16, 19-49.  
10707984 S.D.Fenster, W.J.Chung, R.Zhai, C.Cases-Langhoff, B.Voss, A.M.Garner, U.Kaempf, S.Kindler, E.D.Gundelfinger, and C.C.Garner (2000).
Piccolo, a presynaptic zinc finger protein structurally related to bassoon.
  Neuron, 25, 203-214.  
10367892 I.R.Vetter, A.Arndt, U.Kutay, D.Görlich, and A.Wittinghofer (1999).
Structural view of the Ran-Importin beta interaction at 2.3 A resolution.
  Cell, 97, 635-646.
PDB code: 1ibr
10591105 J.Ménétrey, and J.Cherfils (1999).
Structure of the small G protein Rap2 in a non-catalytic complex with GTP.
  Proteins, 37, 465-473.
PDB code: 3rap
10497219 J.Wang, T.Takeuchi, H.Yokota, and T.Izumi (1999).
Novel rabphilin-3-like protein associates with insulin-containing granules in pancreatic beta cells.
  J Biol Chem, 274, 28542-28548.  
10102263 L.Gonzalez, and R.H.Scheller (1999).
Regulation of membrane trafficking: structural insights from a Rab/effector complex.
  Cell, 96, 755-758.  
10449335 P.Chavrier, and B.Goud (1999).
The role of ARF and Rab GTPases in membrane transport.
  Curr Opin Cell Biol, 11, 466-475.  
10619026 R.Maesaki, K.Ihara, T.Shimizu, S.Kuroda, K.Kaibuchi, and T.Hakoshima (1999).
The structural basis of Rho effector recognition revealed by the crystal structure of human RhoA complexed with the effector domain of PKN/PRK1.
  Mol Cell, 4, 793-803.
PDB code: 1cxz
10489451 R.W.Grosse-Kunstleve, and A.T.Brunger (1999).
A highly automated heavy-atom search procedure for macromolecular structures.
  Acta Crystallogr D Biol Crystallogr, 55, 1568-1577.  
10508155 S.Albert, E.Will, and D.Gallwitz (1999).
Identification of the catalytic domains and their functionally critical arginine residues of two yeast GTPase-activating proteins specific for Ypt/Rab transport GTPases.
  EMBO J, 18, 5216-5225.  
10364266 S.H.Chung, G.Joberty, E.A.Gelino, I.G.Macara, and R.W.Holz (1999).
Comparison of the effects on secretion in chromaffin and PC12 cells of Rab3 family members and mutants. Evidence that inhibitory effects are independent of direct interaction with Rabphilin3.
  J Biol Chem, 274, 18113-18120.  
10367894 S.Misra, and J.H.Hurley (1999).
Crystal structure of a phosphatidylinositol 3-phosphate-specific membrane-targeting motif, the FYVE domain of Vps27p.
  Cell, 97, 657-666.
PDB code: 1vfy
10545100 T.Coppola, V.Perret-Menoud, S.Lüthi, C.C.Farnsworth, J.A.Glomset, and R.Regazzi (1999).
Disruption of Rab3-calmodulin interaction, but not other effector interactions, prevents Rab3 inhibition of exocytosis.
  EMBO J, 18, 5885-5891.  
10394369 T.G.Kutateladze, K.D.Ogburn, W.T.Watson, Beer, S.D.Emr, C.G.Burd, and M.Overduin (1999).
Phosphatidylinositol 3-phosphate recognition by the FYVE domain.
  Mol Cell, 3, 805-811.  
10508862 X.Wang, M.Kibschull, M.M.Laue, B.Lichte, E.Petrasch-Parwez, and M.W.Kilimann (1999).
Aczonin, a 550-kD putative scaffolding protein of presynaptic active zones, shares homology regions with Rim and Bassoon and binds profilin.
  J Cell Biol, 147, 151-162.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.