Rhodopsin 3D structures

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(New page: ==3D structures of rhodopsin== Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}} {{#tree:id=OrganizedByTopic|openlevels=0| *Rhodopsin (Rn) **5te5, [[5te3...)
Current revision (09:57, 28 May 2025) (edit) (undo)
 
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*Rhodopsin (Rn)
*Rhodopsin (Rn)
-
**[[5te5]], [[5te3]] – bRn - bovine<br />
+
**[[3cap]], [[5te3]], [[5te5]] – bRn - bovine<br />
**[[6ofj]] – bRn – Cryo EM<br />
**[[6ofj]] – bRn – Cryo EM<br />
 +
**[[2j4y]], [[4bez]] - bRn (mutant)<br />
**[[1vqx]], [[1nzs]] – bRn C terminal – NMR<BR />
**[[1vqx]], [[1nzs]] – bRn C terminal – NMR<BR />
**[[1edx]] - bRn N terminal – NMR<BR />
**[[1edx]] - bRn N terminal – NMR<BR />
**[[1eds]], [[1edv]], [[1edw]] – bRn intradiskal loop – NMR<BR />
**[[1eds]], [[1edv]], [[1edw]] – bRn intradiskal loop – NMR<BR />
**[[1fdf]] – bRn helix 7 - NMR<BR />
**[[1fdf]] – bRn helix 7 - NMR<BR />
-
**[[2x72]] – bRn + retinal + guanine nucleotide-binding protein peptide <br />
 
**[[3qc9]] – bRn + Mg + ADP<br />
**[[3qc9]] – bRn + Mg + ADP<br />
-
**[[3oax]], [[3c9l]], [[2ped]], [[2i35]], [[2i36]], [[2i37]], [[1u19]], [[1gzm]], [[1l9h]], [[1hzx]] - bRn + retinal<br />
+
**[[1f88]], [[1gzm]], [[1hzx]], [[1jfp]], [[1l9h]], [[1u19]], [[2i35]], [[2i36]], [[2i37]], [[2ped]], [[3c9l]], [[3oax]] - bRn + retinal<br />
-
**[[6fk6]], [[6fk7]], [[6fk8]], [[6fk9]], [[6fka]], [[6fkb]], [[6fkc]], [[6fkd]], [[5dys]] - bRn (mutant) + detergents + retinal derivative<br />
+
**[[7zbc]], [[7zbe]], [[8a6c]], [[8a6d]], [[8a6e]] - bRn + detergents + retinal – cubic phase<br />
**[[3cap]], [[5te3]] - bRn <br />
**[[3cap]], [[5te3]] - bRn <br />
 +
**[[2j4y]], [[4bez]] - bRn (mutant)<br />
**[[1jfp]], [[1f88]], [[5te5]] - bRn + retinal<br />
**[[1jfp]], [[1f88]], [[5te5]] - bRn + retinal<br />
**[[3c9m]], [[5dys]] - bRn (mutant) + retinal<br />
**[[3c9m]], [[5dys]] - bRn (mutant) + retinal<br />
-
**[[2j4y]], [[4bez]] - bRn (mutant)<br />
 
-
**[[3dqb]], [[4a4m]], [[4j4q]] - bRn + guanine nucleotide-binding protein peptide <br />
 
-
**[[4bey]] - bRn (mutant) + guanine nucleotide-binding protein peptide <br />
 
-
**[[5en0]] - bRN (mutant) + guanine nucleotide-binding protein peptide + retinal<br />
 
-
**[[4pxf]] – bRn + arrestin peptide<br />
 
-
**[[5wkt]] – bRn + transducin peptide<br />
 
-
**[[6fuf]] – bRn + G0 + retinal <br />
 
-
**[[6oy9]] – bRn (mutant) + transducin + GI + retinal – Cryo EM<br />
 
-
**[[6qno]], [[6oya]] – bRn (mutant) + transducin + antibody + GI + retinal – Cryo EM<br />
 
**[[3aym]], [[3ayn]], [[2z73]], [[2ziy]], [[4ww3]] – Rn + retinal – Flying squid<br />
**[[3aym]], [[3ayn]], [[2z73]], [[2ziy]], [[4ww3]] – Rn + retinal – Flying squid<br />
 +
**[[6i9k]] – Rn1 + retinal + lipid – spider<br />
**[[1xio]] – AnRn - ''Anabaena''<br />
**[[1xio]] – AnRn - ''Anabaena''<br />
**[[2m3g]] – AnRn – NMR<br />
**[[2m3g]] – AnRn – NMR<br />
Line 38: Line 31:
**[[4tl3]] – AaRn-1 (mutant) <br />
**[[4tl3]] – AaRn-1 (mutant) <br />
**[[6sqg]] - Rn + retinal + lipid – lake phycodnavirus<br />
**[[6sqg]] - Rn + retinal + lipid – lake phycodnavirus<br />
 +
**[[6kfq]] - Rn + retinal + lipid – ''Rubrobacter xylanophilus''<br />
 +
 +
*Rhodopsin complex with protein
 +
 +
**[[2x72]] – bRn + retinal + guanine nucleotide-binding protein peptide <br />
 +
**[[3dqb]], [[4a4m]], [[4j4q]] - bRn + guanine nucleotide-binding protein peptide <br />
 +
**[[4bey]] - bRn (mutant) + guanine nucleotide-binding protein peptide <br />
 +
**[[6nwe]] - bRn + peptide + detergents<br />
 +
**[[6pel]] - bRn + peptide + detergents + citronellol<br />
 +
**[[6pgs]] - bRn + peptide + detergents + geraniol<br />
 +
**[[6ph7]] - bRn + peptide + detergents + nerol<br />
 +
**[[5en0]] - bRN (mutant) + guanine nucleotide-binding protein peptide + retinal<br />
 +
**[[4pxf]] – bRn + arrestin peptide<br />
 +
**[[5wkt]] – bRn + transducin peptide<br />
 +
**[[6fuf]] – bRn + G0 + retinal <br />
 +
**[[8fcz]], [[8fd1]] – bRn + nanobody<br />
 +
**[[6oy9]] – bRn (mutant) + transducin + GI + retinal – Cryo EM<br />
 +
**[[6qno]], [[6oya]] – bRn (mutant) + transducin + antibody + GI + retinal – Cryo EM<br />
*Sensory rhodopsin II
*Sensory rhodopsin II
Line 43: Line 54:
**[[1gu8]], [[1gue]], [[1h68]], [[1jgj]], [[3qap]], [[3qdc]] – NpSRII – ''Natronomonas pharaonis''<br />
**[[1gu8]], [[1gue]], [[1h68]], [[1jgj]], [[3qap]], [[3qdc]] – NpSRII – ''Natronomonas pharaonis''<br />
**[[2ksy]] – NpSRII - NMR<br />
**[[2ksy]] – NpSRII - NMR<br />
 +
**[[9h20]] - NpSRII + retinal<br />
**[[1h2s]], [[2f93]], [[2f95]], [[5jjn]], [[5jjj]], [[5jjf]], [[5jje]] – NpSRII + Rn II transducer<br />
**[[1h2s]], [[2f93]], [[2f95]], [[5jjn]], [[5jjj]], [[5jjf]], [[5jje]] – NpSRII + Rn II transducer<br />
**[[4gyc]] - NpSRII (mutant) + Rn II transducer<br />
**[[4gyc]] - NpSRII (mutant) + Rn II transducer<br />
Line 50: Line 62:
**[[4xtl]], [[4xtn]], [[4xto]], [[3x3b]], [[3x3c]], [[5jrf]] – DeRn – ''Dokdonia eikastra''<br />
**[[4xtl]], [[4xtn]], [[4xto]], [[3x3b]], [[3x3c]], [[5jrf]] – DeRn – ''Dokdonia eikastra''<br />
**[[5jrf]] – DeRn + detergent + I<br />
**[[5jrf]] – DeRn + detergent + I<br />
-
**[[6rew]], [[6rex]], [[6rez]], [[6rf0]], [[6rf1]], [[6rf4]], [[6rf5]], [[6rf6]], [[6rf7]] – DeRn + detergent + Na + retinal<br />
+
**[[6yc3]], [[6rex]], [[6rez]], [[6rf0]], [[6rf1]], [[6rf4]], [[6rf5]], [[6rf6]], [[6rf7]], [[6tk1]], [[6tk2]], [[6tk3]], [[6tk4]], [[6tk5]], [[6tk6]], [[6tk7]], [[6xyt]], [[6yby]], [[6ybz]], [[6yc0]], [[6yc1]], [[6yc2]], [[6yc4]], [[7q36]] – DeRn + detergent + Na + retinal<br />
-
**[[6rf3]], [[6rf9]], [[6rfa]], [[6rfb]], [[6rfc]] – DeRn (mutant) + detergent + Na + retinal<br />
+
**[[6rf3]], [[6rf9]], [[6rfa]], [[6rfb]], [[6rfc]], [[6yt4]] – DeRn (mutant) + detergent + Na + retinal<br />
*Chloride pump rhodopsin
*Chloride pump rhodopsin
-
**[[5g28]], [[5g2a]], [[5b2n]], [[5fjg]], [[5g54]], [[5ztk]], [[5ztl]], [[6ab9]], [[6aba]] – NmRn + retinal – ''Nonlabens marinus''<br />
+
**[[5g28]], [[5g2a]], [[5b2n]], [[5fjg]], [[5g54]], [[5ztk]], [[5ztl]], [[6ab9]], [[6aba]], [[6jy6]], [[6jy7]], [[6jy8]], [[6jy9]], [[6jya]], [[6jyb]], [[6jyc]], [[6jyd]], [[6jye]], [[6jyf]], [[7cri]], [[7crj]], [[7crk]], [[7crl]], [[7crs]], [[7crt]], [[7crx]], [[7cry]], [[7vgt]], [[7vgu]], [[7vgv]] – NmRn + retinal – ''Nonlabens marinus''<br />
 +
**[[7o8f]], [[7o8g]], [[7o8h]], [[7o8i]], [[7o8j]], [[7o8k]], [[7o8l]], [[7o8m]], [[7o8n]], [[7o8o]], [[7o8p]], [[7o8r]], [[7o8q]], [[7o8s]], [[7o8t]], [[7o8u]], [[7o8v]], [[7o8y]], [[7o8z]] – NmRn + retinal – serial millisecond crystallography<br />
**[[5g2c]], [[5g2d]] - NmRn (mutant) + retinal<br />
**[[5g2c]], [[5g2d]] - NmRn (mutant) + retinal<br />
 +
**[[6wp8]], [[6xl3]] – Rn (mutant) + detergent + retinal – ''Mastigocladopsis repens''<br />
*Metarhodopsin II
*Metarhodopsin II
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**[[2hpy]] - bLRn + retinal<br />
**[[2hpy]] - bLRn + retinal<br />
-
*Halorhodopsin
+
*Halorhodopsin see [[Bacteriorhodopsin]]
 +
 
 +
*Archaerhodopsin see [[Bacteriorhodopsin]]
-
**[[1e12]], [[2jaf]], [[5ahy]], [[5ahz]] - HRn + detergents + retinal – ''Halobacterium salinarium''<br />
+
*Proteorhodopsin see [[Bacteriorhodopsin]]
-
**[[2jag]] - HRn (mutant) + detergents + retinal<br />
+
-
**[[3a7k]], [[3abw]], [[3qbg]], [[3qbi]], [[3qbk]], [[3qbl]], [[3vvk]] – NpRn + detergents + retinal<br />
+
-
*Archaerhodopsin
+
*Xanthorhodopsin see [[Bacteriorhodopsin]]
-
**[[1uaz]] – HRn-1 + retinal – ''Halobacterium'' <br />
+
*Bestrhodopsin (Rn-Rn-bestrophin)
-
**[[1vgo]], [[2z55]], [[3wqj]] - HRn-2 + retinal<br />
+
-
**[[2ei4]] - HRn-2 + retinal + bacterioruberin<br />
+
-
*Proteorhodopsin
+
**[[7pl9]] - Rn + retinal – ''Phaeocystis'' – Cryo EM<br />
-
**[[2l6x]] - GpPRn + detergents + retinal – ''Gamma proteobacterium''<br />
+
*Deltarhodopsin see [[Bacteriorhodopsin]]
-
**[[4kly]], [[4knf]] - GpPRn + retinal<br />
+
-
**[[4jq6]] – PRn + retinal + lipid<br />
+
-
*Xanthorhodopsin
+
*Cyanorhodopsin
-
**[[3ddl]] - XRn + detergents + retinal – ''Salinibacter ruber''<br />
+
**[[6lm0]] - CRn + detergents + retinal – ''Cyanobacteria calothrix''<br />
 +
**[[6lm1]] - CRn + detergents + retinal – ''Cyanobacteria tolypothrix''<br />
-
*Deltarhodopsin
+
*Viral rhodopsin
-
**[[4fbz]] - Rn + bacterioruberin + retinal – ''Haloterrigena thermotolerans''<br />
+
**[[6sqg]], [[7akw]], [[7akx]], [[7aky]] - Rn + detergents – organic lake phycodnavirus<br />
}}
}}
[[Category:Topic Page]]
[[Category:Topic Page]]

Current revision

3D structures of rhodopsin

Updated on 28-May-2025

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel, Jaime Prilusky, Joel L. Sussman

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