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(-) Description

Title :  VISUALIZATION OF A POLYTOPIC MEMBRANE PROTEIN DURING SECY-MEDIATED MEMBRANE INSERTION
 
Authors :  L. Bischoff, S. Wickles, O. Berninghausen, E. Vandersluis, R. Beckman
Date :  05 Aug 15  (Deposition) - 19 Aug 15  (Release) - 19 Aug 15  (Revision)
Method :  ELECTRON MICROSCOPY
Resolution :  8.00
Chains :  Asym./Biol. Unit :  A,B,Z
Keywords :  Translation, Ribosome, Membrane Protein, Translocon (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Bischoff, S. Wickles, O. Berninghausen, E. O. Van Der Sluis, R. Beckmann
Visualization Of A Polytopic Membrane Protein During Secy- Mediated Membrane Insertion.
Nat. Commun. V. 5 4103 2014
PubMed-ID: 24912953  |  Reference-DOI: 10.1038/NCOMMS5103

(-) Compounds

Molecule 1 - PROTEIN TRANSLOCASE SUBUNIT SECY
    Chains: A
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
 
Molecule 2 - PROTEIN TRANSLOCASE SUBUNIT SECE
    Chains: B
    Fragment: UNP RESIDUES 12-127
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
 
Molecule 3 - GREEN-LIGHT ABSORBING PROTEORHODOPSIN
    Chains: Z
    Fragment: UNP RESIDUES 19-83
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: GPR

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABZ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5ABB)

(-) Sites  (0, 0)

(no "Site" information available for 5ABB)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5ABB)

(-) Cis Peptide Bonds  (14, 14)

Asymmetric/Biological Unit
No.Residues
1Gly A:14 -Gly A:15
2Arg A:251 -Gln A:252
3Gln A:261 -Ser A:262
4Asn A:301 -Trp A:302
5Gly A:313 -Gln A:314
6Gly A:350 -Ala A:351
7Ala A:351 -Phe A:352
8Glu A:430 -Ser A:431
9Lys A:434 -Lys A:435
10Met B:17 -Lys B:18
11Gln B:88 -Glu B:89
12Ser Z:55 -Ala Z:56
13Trp Z:58 -Lys Z:59
14Thr Z:84 -Ala Z:85

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5ABB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5ABB)

(-) Exons   (0, 0)

(no "Exon" information available for 5ABB)

(-) 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:443
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhhhhhhhhhh........hhhhhhhhhh.........hhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh...............................hhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhh........................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5abb A   1 MAKQPGLDFQSAKGGLGELKRRLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLLTVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLPPAIAHTIEQARQGDLHFLVLLLVAVLVFAVTFFVVFVERGQRRIVVNYAKRQQGRRVYAAQSTHLPLKVNMAGVIPAIFASSIILFPATIASWFGGGTGWNWLTTISLYLQPGQPLYVLLYASAIIFFCFFYTALVFNPRETADNLKKSGAFVPGIRPGEQTAKYIDKVMTRLTLVGALYITFICLIPEFMRDAMKVPFYFGGTSLLIVVVVIMDFMAQVQTLMMSSQYESALKKANLKGYGR 443
                                    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       330       340       350       360       370       380       390       400       410       420       430       440   


Chain B from PDB  Type:PROTEIN  Length:116
                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..............hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 5abb B  12 RGLEAMKWVVVVALLLVAIVGNYLYRDIMLPLRALAVVILIAAAGGVALLTTKGKATVAFAREARTEVRKVIWPTRQETLHTTLIVAAVTAVMSLILWGLDGILVRLVSFITGLRF 127
                                    21        31        41        51        61        71        81        91       101       111       121      


Chain Z from PDB  Type:PROTEIN  Length:69
                                                                                                     
               SCOP domains --------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 5abb Z  19 GGGDLDASDYTGVSFWLVTAALLASTVFFFVERDRVSAKWKTSLTVSGLVTGIAFWHYMYMRGVWTAGR  87
                                    28        38        48        58        68        78
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5ABB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5ABB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5ABB)

(-) Gene Ontology  (24, 47)

Asymmetric/Biological Unit(hide GO term definitions)

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  Ligands, Modified Residues, Ions
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  Sites
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  Cis Peptide Bonds
    Ala A:351 - Phe A:352   [ RasMol ]  
    Arg A:251 - Gln A:252   [ RasMol ]  
    Asn A:301 - Trp A:302   [ RasMol ]  
    Gln A:261 - Ser A:262   [ RasMol ]  
    Gln B:88 - Glu B:89   [ RasMol ]  
    Glu A:430 - Ser A:431   [ RasMol ]  
    Gly A:14 - Gly A:15   [ RasMol ]  
    Gly A:313 - Gln A:314   [ RasMol ]  
    Gly A:350 - Ala A:351   [ RasMol ]  
    Lys A:434 - Lys A:435   [ RasMol ]  
    Met B:17 - Lys B:18   [ RasMol ]  
    Ser Z:55 - Ala Z:56   [ RasMol ]  
    Thr Z:84 - Ala Z:85   [ RasMol ]  
    Trp Z:58 - Lys Z:59   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        PRRG_PRB01 | Q9F7P4: 2l6x
        SECY_ECOLI | P0AGA2: 2akh 2aki 3j45 3j46 4v6m 5gae 5mg3

(-) Related Entries Specified in the PDB File

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