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PDBsum entry 1oqp

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protein Protein-protein interface(s) links
Protein binding PDB id
1oqp
Jmol
Contents
Protein chains
77 a.a. *
19 a.a. *
* Residue conservation analysis
PDB id:
1oqp
Name: Protein binding
Title: Structure of the ca2+/c-terminal domain of caltractin in complex with the cdc31p-binding domain from kar1p
Structure: Caltractin. Chain: a. Synonym: centrin, 20 kda calcium-binding protein. Engineered: yes. Cell division control protein kar1. Chain: b. Engineered: yes
Source: Chlamydomonas reinhardtii. Organism_taxid: 3055. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Other_details: the peptide consists of the cdc31p-binding domain from kar1p, residues 239-257, and has been chemically synthesized using solid phase f-moc chemistry. The sequence is naturally found in saccharomyces
NMR struc: 20 models
Authors: H.T.Hu,W.J.Chazin
Key ref:
H.Hu and W.J.Chazin (2003). Unique features in the C-terminal domain provide caltractin with target specificity. J Mol Biol, 330, 473-484. PubMed id: 12842464 DOI: 10.1016/S0022-2836(03)00619-3
Date:
10-Mar-03     Release date:   24-Jun-03    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P05434  (CATR_CHLRE) -  Caltractin
Seq:
Struc:
169 a.a.
77 a.a.*
Protein chain
Pfam   ArchSchema ?
P11927  (KAR1_YEAST) -  Cell division control protein KAR1
Seq:
Struc:
433 a.a.
19 a.a.
Key:    PfamA domain  PfamB domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 2 residue positions (black crosses)

 Gene Ontology (GO) functional annotation 
  GO annot!
  Biochemical function     calcium ion binding     1 term  

 

 
DOI no: 10.1016/S0022-2836(03)00619-3 J Mol Biol 330:473-484 (2003)
PubMed id: 12842464  
 
 
Unique features in the C-terminal domain provide caltractin with target specificity.
H.Hu, W.J.Chazin.
 
  ABSTRACT  
 
Caltractin (centrin) is a member of the calmodulin (CaM) superfamily of EF-hand calcium-binding proteins. It is an essential component of the centrosomal structures in a wide range of organisms. Caltractin and calmodulin apparently function in distinct calcium signaling pathways despite substantial sequence similarity. In an effort to understand the structural basis for such differences, the high-resolution three-dimensional solution structure of the complex between the Ca(2+)-activated C-terminal domain of Chlamydomonas reinhardtii caltractin (CRC-C) and a 19 residue peptide fragment comprising the putative cdc31p-binding region of Kar1p (K(19)) has been determined by multi-dimensional heteronuclear NMR spectroscopy. Formation of the complex is calcium-dependent and is stabilized by extensive interactions between CRC-C and three key hydrophobic anchors (Trp10, Leu13 and Leu14) in the peptide as well as favorable electrostatic interactions at the protein-peptide interface. In-depth comparisons have been made to the structure of the complex of Ca(2+)-activated calmodulin and R(20), the CaM-binding domain of smooth muscle myosin light-chain kinase. Although the overall structures of CRC and CaM domains in their respective complexes are very similar, differences in critical regions in the sequences of these proteins and their targets lead to clear differences in the complementarity of their respective binding surfaces. These subtle differences reveal the structural basis for the Ca(2+)-dependent regulation of distinct cellular signaling events by CRC and CaM.
 
  Selected figure(s)  
 
Figure 1.
Figure 1. Stereo view of the final family of 20 conformers representing the structure of CRC-C in complex with K[19] (PDB entry code 1OQP). The protein is shown in blue, and the K[19] peptide in red. The first six residues of CRC-C are highly disordered and not shown here. Superposition of the structures was based on the backbone atoms of the secondary structural elements in CRC-C and K[19] defined as: (CRC-C) helix I, 99-110; b-strand I, 117-119; helix II, 120-130; helix III, 136-146; b-strand II, 153-155; helix IV, 156-165; (K[19]) helix I', 5-15.
Figure 3.
Figure 3. Detailed comparison of the CRC-C/K[19] and CaM/R[20] complexes (PDB entry codes 1OQP and 1CDL, respectively). (a) Ribbon representation of the superimposed structures of CRC-C (blue) and CaM (red) complexes. The overlay is based on the secondary structural elements in CRC-C and CaM-C. For clarity, the N-terminal domain of CaM is not displayed. (b) Comparison of intermolecular contacts between K[19] and CRC-C to those between R[20] and CaM-C. Residues within 7 Å are considered to be in contact. The peptides are aligned on the basis of the common tryptophan residue. The helical portions of the peptides are drawn in continuous lines, and the disordered regions in broken lines. Note that two residues at the N terminus of K[19] and two C-terminal residues of R[20] have been removed for clarity. The three anchoring residues in K[19] (Trp10, Leu13, Leu14) and the corresponding Trp5, Thr8, and Gly9 in R[20] are highlighted in red. The additional hydrophobic anchor in R[20] (Val12) and the corresponding residue in K[19] (Asp17) are highlighted in green. The pseudo numbering scheme used to align the homologous residues in CRC-C and CaM-C subtracts 92 and 74 from the CRC and the CaM residue numbers, respectively. Contacts involving homologous residues in the two complexes are indicated by red lettering. (c) Overlay of the structures of CRC-C (blue) and CaM-C (red) from their respective complexes. The side-chains of methionine and phenylalanine residues in CaM-C and the corresponding residues in CRC-C are highlighted. The superposition was made using the backbone heavy atoms of the helices only. (d) Comparison of the hydrophobic molecular surfaces (upper panel) and the electrostatic potential surfaces (lower panel) of CRC-C and CaM-C. The deep hydrophobic pockets accommodating the tryptophan residues on the surfaces of both proteins are indicated by the thick arrows. The additional hydrophobic pocket accommodating Leu13 in K[19] on the surface of CRC-C is indicated by the wavy arrow. A positively charged patch unique to CRC-C is indicated by the circle.
 
  The above figures are reprinted by permission from Elsevier: J Mol Biol (2003, 330, 473-484) copyright 2003.  
  Figures were selected by the author.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
19328066 D.Jani, S.Lutz, N.J.Marshall, T.Fischer, A.Köhler, A.M.Ellisdon, E.Hurt, and M.Stewart (2009).
Sus1, Cdc31, and the Sac3 CID region form a conserved interaction platform that promotes nuclear pore association and mRNA export.
  Mol Cell, 33, 727-737.
PDB codes: 3fwb 3fwc
19465563 S.Mana-Capelli, R.Gräf, and D.A.Larochelle (2009).
Dictyostelium discoideum CenB is a bona fide centrin essential for nuclear architecture and centrosome stability.
  Eukaryot Cell, 8, 1106-1117.  
  18453711 E.Alfaro, L.d.e.l. .V.Sosa, Z.Sanoguet, B.Pastrana-Ríos, and E.R.Schreiter (2008).
Crystallization and preliminary X-ray characterization of full-length Chlamydomonas reinhardtii centrin.
  Acta Crystallogr Sect F Struct Biol Cryst Commun, 64, 402-404.  
18160718 L.Chen, and K.Madura (2008).
Centrin/Cdc31 is a novel regulator of protein degradation.
  Mol Cell Biol, 28, 1829-1840.  
18329314 P.Trojan, N.Krauss, H.W.Choe, A.Giessl, A.Pulvermüller, and U.Wolfrum (2008).
Centrins in retinal photoreceptor cells: regulators in the connecting cilium.
  Prog Retin Eye Res, 27, 237-259.  
17694534 J.L.Salisbury (2007).
A mechanistic view on the evolutionary origin for centrin-based control of centriole duplication.
  J Cell Physiol, 213, 420-428.  
16317001 J.H.Sheehan, C.G.Bunick, H.Hu, P.A.Fagan, S.M.Meyn, and W.J.Chazin (2006).
Structure of the N-terminal calcium sensor domain of centrin reveals the biochemical basis for domain-specific function.
  J Biol Chem, 281, 2876-2881.
PDB code: 2ami
16627479 J.R.Thompson, Z.C.Ryan, J.L.Salisbury, and R.Kumar (2006).
The structure of the human centrin 2-xeroderma pigmentosum group C protein complex.
  J Biol Chem, 281, 18746-18752.
PDB code: 2ggm
16785321 S.Li, A.M.Sandercock, P.Conduit, C.V.Robinson, R.L.Williams, and J.V.Kilmartin (2006).
Structural role of Sfi1p-centrin filaments in budding yeast spindle pole body duplication.
  J Cell Biol, 173, 867-877.
PDB codes: 2doq 2gv5
  16511082 J.H.Park, N.Krauss, A.Pulvermüller, P.Scheerer, W.Höhne, A.Giessl, U.Wolfrum, K.P.Hofmann, O.P.Ernst, and H.W.Choe (2005).
Crystallization and preliminary X-ray studies of mouse centrin1.
  Acta Crystallogr Sect F Struct Biol Cryst Commun, 61, 510-513.  
16002651 S.Geimer, and M.Melkonian (2005).
Centrin scaffold in Chlamydomonas reinhardtii revealed by immunoelectron microscopy.
  Eukaryot Cell, 4, 1253-1263.  
15452116 H.Hu, J.H.Sheehan, and W.J.Chazin (2004).
The mode of action of centrin. Binding of Ca2+ and a peptide fragment of Kar1p to the C-terminal domain.
  J Biol Chem, 279, 50895-50903.  
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 codes are shown on the right.