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(-) Description

Title :  OPSIN/G(ALPHA) PEPTIDE COMPLEX STABILIZED BY NONYL-GLUCOSIDE
 
Authors :  E. Blankenship, D. T. Lodowski
Date :  24 Nov 14  (Deposition) - 04 Nov 15  (Release) - 16 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym./Biol. Unit :  A,C
Keywords :  Rhodopsin, Gpcr, Membrane Protein, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Blankenship, A. Vahedi-Faridi, D. T. Lodowski
The High-Resolution Structure Of Activated Opsin Reveals A Conserved Solvent Network In The Transmembrane Region Essential For Activation.
Structure V. 23 2358 2015
PubMed-ID: 26526852  |  Reference-DOI: 10.1016/J.STR.2015.09.015

(-) Compounds

Molecule 1 - RHODOPSIN
    Chains: A
    Organism Common: BOVINE
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Tissue: RETINA
 
Molecule 2 - C-TERMINAL DERIVED PEPTIDE OF GUANINE NUCLEOTIDE-BINDING PROTEIN G(T) SUBUNIT ALPHA-1
    Chains: C
    Engineered: YES
    Organism Scientific: BOS TAURUS
    Organism Taxid: 9913
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2BNG2Ligand/IonB-NONYLGLUCOSIDE
3NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
4PLM2Ligand/IonPALMITIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:118 , GLY A:121 , GLU A:122 , TYR A:191 , MET A:207 , PHE A:212 , TRP A:265 , TYR A:268 , LYS A:296 , HOH A:527binding site for residue BNG A 407
2AC2SOFTWAREARG A:69 , TYR A:74 , ASN A:78 , GLU A:150binding site for residue BNG A 410
3AC3SOFTWAREARG A:252 , MET A:309 , CYS A:322binding site for residue PLM A 1322
4AC4SOFTWAREARG A:252 , VAL A:300 , TYR A:301 , LEU A:321 , CYS A:322 , CYS A:323binding site for residue PLM A 1323
5AC5SOFTWAREASN A:2 , GLY A:280 , SER A:281 , ASP A:282 , HOH A:554binding site for Poly-Saccharide residues NAG A 405 through NAG A 406 bound to ASN A 2
6AC6SOFTWARETHR A:4 , ASN A:15 , GLY A:18 , VAL A:20 , ARG A:21 , HOH A:503 , HOH A:506 , HOH A:513binding site for Poly-Saccharide residues NAG A 401 through BMA A 404 bound to ASN A 15

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:110 -A:187

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4X1H)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4X1H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4X1H)

(-) Exons   (0, 0)

(no "Exon" information available for 4X1H)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:326
                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee..eee.....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh....eeee....eeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4x1h A   1 MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKN 326
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320      


Chain C from PDB  Type:PROTEIN  Length:11
                                           
               SCOP domains ----------- SCOP domains
               CATH domains ----------- CATH domains
               Pfam domains ----------- Pfam domains
         Sec.struct. author .hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------- SAPs(SNPs)
                    PROSITE ----------- PROSITE
                 Transcript ----------- Transcript
                 4x1h C 340 VLEDLKSCGLF 350
                                   349
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4X1H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4X1H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4X1H)

(-) Gene Ontology  (37, 37)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        OPSD_BOVIN | P02699: 1boj 1bok 1eds 1edv 1edw 1edx 1f88 1fdf 1gzm 1hzx 1jfp 1l9h 1ln6 1n3m 1nzs 1ov0 1ov1 1u19 1vqx 1y6y 2g87 2hpy 2i35 2i36 2i37 2iqk 2j4y 2ped 2x72 3c9l 3c9m 3cap 3dqb 3oax 3pqr 3pxo 4a4m 4bey 4bez 4j4q 4pxf 5dys 5en0 5te3 5te5

(-) Related Entries Specified in the PDB File

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