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PDBsum entry 1kpw
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Membrane protein PDB id
1kpw

 

 

 

 

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Contents
Protein chain
364 a.a.
Ligands
RET
Theoretical model
PDB id:
1kpw
Name: Membrane protein
Title: Theoretical model of green cone pigment
Structure: Green cone pigment. Chain: a. Synonym: green-sensitive opsin, green cone photoreceptor pigment
Source: Homo sapiens. Human
Authors: R.E.Stenkamp,S.Filipek,C.A.G.G.Driessen,D.C.Teller, K.Palczewski
Key ref: R.E.Stenkamp et al. (2002). Crystal structure of rhodopsin: a template for cone visual pigments and other G protein-coupled receptors. Biochim Biophys Acta, 1565, 168-182. PubMed id: 12409193 DOI: 10.1016/S0005-2736(02)00567-9
Date:
03-Jan-02     Release date:   16-Jan-02    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P04001  (OPSG_HUMAN) -  Medium-wave-sensitive opsin 1
Seq:
Struc: 		364 a.a.
364 a.a.
Key:    PfamA domain  Secondary structure

 

 
DOI no: 10.1016/S0005-2736(02)00567-9 Biochim Biophys Acta 1565:168-182 (2002)
PubMed id: 12409193  
 
 
Crystal structure of rhodopsin: a template for cone visual pigments and other G protein-coupled receptors.
R.E.Stenkamp, S.Filipek, C.A.Driessen, D.C.Teller, K.Palczewski.
 
  ABSTRACT  
 
The crystal structure of rhodopsin has provided the first three-dimensional molecular model for a G-protein-coupled receptor (GPCR). Alignment of the molecular model from the crystallographic structure with the helical axes seen in cryo-electron microscopic (cryo-EM) studies provides an opportunity to investigate the properties of the molecule as a function of orientation and location within the membrane. In addition, the structure provides a starting point for modeling and rational experimental approaches of the cone pigments, the GPCRs in cone cells responsible for color vision. Homology models of the cone pigments provide a means of understanding the roles of amino acid sequence differences that shift the absorption maximum of the retinal chromophore in the environments of different opsins.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
20579627 J.C.Gardner, T.R.Webb, N.Kanuga, A.G.Robson, G.E.Holder, A.Stockman, C.Ripamonti, N.D.Ebenezer, O.Ogun, S.Devery, G.A.Wright, E.R.Maher, M.E.Cheetham, A.T.Moore, M.Michaelides, and A.J.Hardcastle (2010).
X-linked cone dystrophy caused by mutation of the red and green cone opsins.
  Am J Hum Genet, 87, 26-39.  
19630373 A.Altun, S.Yokoyama, and K.Morokuma (2009).
Color tuning in short wavelength-sensitive human and mouse visual pigments: ab initio quantum mechanics/molecular mechanics studies.
  J Phys Chem A, 113, 11685-11692.  
19348429 P.S.Park, K.T.Sapra, B.Jastrzebska, T.Maeda, A.Maeda, W.Pulawski, M.Kono, J.Lem, R.K.Crouch, S.Filipek, D.J.Müller, and K.Palczewski (2009).
Modulation of molecular interactions and function by rhodopsin palmitylation.
  Biochemistry, 48, 4294-4304.  
19189139 S.P.Thirumuruganandham, and H.M.Urbassek (2009).
Low-frequency vibrational modes and infrared absorbance of red, blue and green opsin.
  J Mol Model, 15, 959-969.  
18315847 N.Yanamala, K.C.Tirupula, and J.Klein-Seetharaman (2008).
Preferential binding of allosteric modulators to active and inactive conformational states of metabotropic glutamate receptors.
  BMC Bioinformatics, 9, S16.  
17704167 D.Marsh (2007).
Lateral pressure profile, spontaneous curvature frustration, and the incorporation and conformation of proteins in membranes.
  Biophys J, 93, 3884-3899.  
17429491 R.C.Baraas, J.Carroll, K.L.Gunther, M.Chung, D.R.Williams, D.H.Foster, and M.Neitz (2007).
Adaptive optics retinal imaging reveals S-cone dystrophy in tritan color-vision deficiency.
  J Opt Soc Am A Opt Image Sci Vis, 24, 1438-1447.  
17009357 A.Dreuw (2006).
Quantum chemical methods for the investigation of photoinitiated processes in biological systems: theory and applications.
  Chemphyschem, 7, 2259-2274.  
16584119 B.E.Kane, B.Svensson, and D.M.Ferguson (2006).
Molecular recognition of opioid receptor ligands.
  AAPS J, 8, E126-E137.  
15952240 R.E.Stenkamp, D.C.Teller, and K.Palczewski (2005).
Rhodopsin: a structural primer for G-protein coupled receptors.
  Arch Pharm (Weinheim), 338, 209-216.  
15784611 S.Balasubramanian, Y.Xia, E.Freinkman, and M.Gerstein (2005).
Sequence variation in G-protein-coupled receptors: analysis of single nucleotide polymorphisms.
  Nucleic Acids Res, 33, 1710-1721.  
15851469 Z.Wang, X.H.Wen, Z.Ablonczy, R.K.Crouch, C.L.Makino, and J.Lem (2005).
Enhanced shutoff of phototransduction in transgenic mice expressing palmitoylation-deficient rhodopsin.
  J Biol Chem, 280, 24293-24300.  
15475355 J.M.Janz, and D.L.Farrens (2004).
Role of the retinal hydrogen bond network in rhodopsin Schiff base stability and hydrolysis.
  J Biol Chem, 279, 55886-55894.  
15764373 K.Suda, S.Filipek, K.Palczewski, A.Engel, and D.Fotiadis (2004).
The supramolecular structure of the GPCR rhodopsin in solution and native disc membranes.
  Mol Membr Biol, 21, 435-446.  
14660633 S.U.Miedlich, L.Gama, K.Seuwen, R.M.Wolf, and G.E.Breitwieser (2004).
Homology modeling of the transmembrane domain of the human calcium sensing receptor and localization of an allosteric binding site.
  J Biol Chem, 279, 7254-7263.  
15041649 T.Huber, A.V.Botelho, K.Beyer, and M.F.Brown (2004).
Membrane model for the G-protein-coupled receptor rhodopsin: hydrophobic interface and dynamical structure.
  Biophys J, 86, 2078-2100.  
14630336 D.C.Teller, R.E.Stenkamp, and K.Palczewski (2003).
Evolutionary analysis of rhodopsin and cone pigments: connecting the three-dimensional structure with spectral tuning and signal transfer.
  FEBS Lett, 555, 151-159.  
12764131 G.Bhave, B.M.Nadin, D.J.Brasier, K.S.Glauner, R.D.Shah, S.F.Heinemann, F.Karim, and R.W.Gereau (2003).
Membrane topology of a metabotropic glutamate receptor.
  J Biol Chem, 278, 30294-30301.  
12860986 M.Natochin, K.G.Gasimov, M.Moussaif, and N.O.Artemyev (2003).
Rhodopsin determinants for transducin activation: a gain-of-function approach.
  J Biol Chem, 278, 37574-37581.  
12574068 S.Filipek, D.C.Teller, K.Palczewski, and R.Stenkamp (2003).
The crystallographic model of rhodopsin and its use in studies of other G protein-coupled receptors.
  Annu Rev Biophys Biomol Struct, 32, 375-397.  
12471166 S.Filipek, R.E.Stenkamp, D.C.Teller, and K.Palczewski (2003).
G protein-coupled receptor rhodopsin: a prospectus.
  Annu Rev Physiol, 65, 851-879.  
12627940 T.Mirzadegan, G.Benkö, S.Filipek, and K.Palczewski (2003).
Sequence analyses of G-protein-coupled receptors: similarities to rhodopsin.
  Biochemistry, 42, 2759-2767.  
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.

 

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