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PDBsum entry 1nya
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protein metals links
Metal binding protein PDB id
1nya

 

 

 

 

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Contents
Protein chain
176 a.a. *
Metals
_CA ×3
* Residue conservation analysis
PDB id:
1nya
Name: Metal binding protein
Title: Nmr solution structure of calerythrin, an ef-hand calcium-binding protein
Structure: Calerythrin. Chain: a. Synonym: calcium-binding protein. Engineered: yes. Mutation: yes
Source: Saccharopolyspora erythraea. Organism_taxid: 1836. Expressed in: escherichia coli. Expression_system_taxid: 562
NMR struc: 20 models
Authors: H.Tossavainen,P.Permi,A.Annila,I.Kilpelainen,T.Drakenberg
Key ref:
H.Tossavainen et al. (2003). NMR solution structure of calerythrin, an EF-hand calcium-binding protein from Saccharopolyspora erythraea. Eur J Biochem, 270, 2505-2512. PubMed id: 12755706 DOI: 10.1046/j.1432-1033.2003.03623.x
Date:
12-Feb-03     Release date:   05-Aug-03    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P06495  (CBP_SACER) -  Calerythrin from Saccharopolyspora erythraea
Seq:
Struc: 		177 a.a.
176 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 2 residue positions (black crosses)

 

 
DOI no: 10.1046/j.1432-1033.2003.03623.x Eur J Biochem 270:2505-2512 (2003)
PubMed id: 12755706  
 
 
NMR solution structure of calerythrin, an EF-hand calcium-binding protein from Saccharopolyspora erythraea.
H.Tossavainen, P.Permi, A.Annila, I.Kilpeläinen, T.Drakenberg.
 
  ABSTRACT  
 
The structure of calerythrin, a prokaryotic 20 kDa calcium-binding protein has been determined by solution NMR spectroscopy. Distance, dihedral angle, J coupling, secondary chemical shift, residual dipolar coupling and radius of gyration restraints reveal four EF-hand motifs arranged in a compact globular structure. A tight turn in the middle of the amino acid sequence brings the two halves, each comprising a pair of EF-hands, close together. The structural similarity between calerythrin and the eukaryotic sarcoplasmic calcium-binding proteins is notable.
 
  Selected figure(s)  
 
Figure 4.
Fig. 4. Ribbon representation of the refined lowest-energy structure. EF-hands are represented by different colours, EF-1 yellow, EF-2 red, EF-3 green and EF-4 blue. The short -sheet is represented by arrows. The kink between the halves can be seen between helix D (red) and helix E (green). Calcium ions are represented as orange spheres. 		Figure 5.
Fig. 5. A stereo view of calerythrin superimposed with N-SCP. The colour code is the same as in Fig. 4 Go-.
 
  The above figures are reprinted by permission from the Federation of European Biochemical Societies: Eur J Biochem (2003, 270, 2505-2512) copyright 2003.  
  Figures were selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
18375559 S.L.Wang, K.Q.Fan, X.Yang, Z.X.Lin, X.P.Xu, and K.Q.Yang (2008).
CabC, an EF-hand calcium-binding protein, is involved in Ca2+-mediated regulation of spore germination and aerial hypha formation in Streptomyces coelicolor.
  J Bacteriol, 190, 4061-4068.  
  18765912 X.Zhao, S.Wang, H.Pang, K.Yang, and M.Bartlam (2008).
Crystallization and preliminary X-ray diffraction studies of the calcium-binding protein CalD from Streptomyces coelicolor.
  Acta Crystallogr Sect F Struct Biol Cryst Commun, 64, 816-818.  
17701275 M.Louhivuori, R.Otten, T.Salminen, and A.Annila (2007).
Evidence of molecular alignment fluctuations in aqueous dilute liquid crystalline media.
  J Biomol NMR, 39, 141-152.  
17268593 U.Ryde (2007).
Accurate metal-site structures in proteins obtained by combining experimental data and quantum chemistry.
  Dalton Trans, (), 607-625.  
16981205 Y.Zhou, W.Yang, M.Kirberger, H.W.Lee, G.Ayalasomayajula, and J.J.Yang (2006).
Prediction of EF-hand calcium-binding proteins and analysis of bacterial EF-hand proteins.
  Proteins, 65, 643-655.  
15819893 G.Rabah, R.Popescu, J.A.Cox, Y.Engelborghs, and C.T.Craescu (2005).
Solution structure and internal dynamics of NSCP, a compact calcium-binding protein.
  FEBS J, 272, 2022-2036.
PDB code: 1q80
15808221 J.H.Prestegard, K.L.Mayer, H.Valafar, and G.C.Benison (2005).
Determination of protein backbone structures from residual dipolar couplings.
  Methods Enzymol, 394, 175-209.  
15772750 Y.W.Hsiao, T.Drakenberg, and U.Ryde (2005).
NMR structure determination of proteins supplemented by quantum chemical calculations: detailed structure of the Ca2+ sites in the EGF34 fragment of protein S.
  J Biomol NMR, 31, 97.  
14744980 Y.Qu, J.T.Guo, V.Olman, and Y.Xu (2004).
Protein structure prediction using sparse dipolar coupling data.
  Nucleic Acids Res, 32, 551-561.  
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.

 

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