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(-) Description

Title :  PEPTIDE-BOUND STATE OF THERMUS THERMOPHILUS SECYEG
 
Authors :  Y. Tanaka, Y. Sugano, M. Takemoto, T. Kusakizako, K. Kumazaki, R. Ishit O. Nureki, T. Tsukazaki
Date :  10 Jul 15  (Deposition) - 25 Nov 15  (Release) - 23 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.64
Chains :  Asym./Biol. Unit :  E,G,Y
Keywords :  Translocon, Membrane Protein, Protein Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Tanaka, Y. Sugano, M. Takemoto, T. Mori, A. Furukawa, T. Kusakizako K. Kumazaki, A. Kashima, R. Ishitani, Y. Sugita, O. Nureki, T. Tsukazaki
Crystal Structures Of Secyeg In Lipidic Cubic Phase Elucidate A Precise Resting And A Peptide-Bound State.
Cell Rep V. 13 1561 2015
PubMed-ID: 26586438  |  Reference-DOI: 10.1016/J.CELREP.2015.10.025

(-) Compounds

Molecule 1 - PROTEIN TRANSLOCASE SUBUNIT SECY
    Chains: Y
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21-GOLD(DE3)PLYSS AG
    Expression System Taxid: 866768
    Gene: SECY, TTHA1672
    Mutation: YES
    Organism Scientific: THERMUS THERMOPHILUS (STRAIN HB8 / ATCC 27634 / DSM 579)
    Organism Taxid: 300852
    Strain: HB8 / ATCC 27634 / DSM 579
 
Molecule 2 - PROTEIN TRANSLOCASE SUBUNIT SECE
    Chains: E
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21-GOLD(DE3)PLYSS AG
    Expression System Taxid: 866768
    Gene: SECE, TTHA0249
    Organism Scientific: THERMUS THERMOPHILUS (STRAIN HB8 / ATCC 27634 / DSM 579)
    Organism Taxid: 300852
    Strain: HB8 / ATCC 27634 / DSM 579
 
Molecule 3 - PUTATIVE PREPROTEIN TRANSLOCASE, SECG SUBUNIT
    Chains: G
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21-GOLD(DE3)PLYSS AG
    Expression System Taxid: 866768
    Fragment: UNP RESIDUES 43-117
    Gene: TTHA1784
    Organism Scientific: THERMUS THERMOPHILUS (STRAIN HB8 / ATCC 27634 / DSM 579)
    Organism Taxid: 300852
    Strain: HB8 / ATCC 27634 / DSM 579

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : EGY

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5CH4)

(-) Sites  (0, 0)

(no "Site" information available for 5CH4)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CH4)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Glu Y:138 -Gly Y:139
2Tyr Y:245 -Ala Y:246
3Gly Y:251 -Tyr Y:255
4Gly Y:256 -Gly Y:257
5Ala Y:268 -Ala Y:269
6Ala E:3 -Arg E:4
7Gly G:31 -Ala G:32

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CH4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CH4)

(-) Exons   (0, 0)

(no "Exon" information available for 5CH4)

(-) 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 E from PDB  Type:PROTEIN  Length:60
                                                                                            
               SCOP domains ------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------ Pfam domains
         Sec.struct. author .......hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------ Transcript
                 5ch4 E   1 MFARLIRYFQEARAELARVTWPTREQVVEGTQAILLFTLAFMVILGLYDTVFRFLIGLLR  60
                                    10        20        30        40        50        60


Chain G from PDB  Type:PROTEIN  Length:74
                                                                                                          
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                 5ch4 G   1 MDLLYTLVILFYLGVAGLLVYLVLVQEPKQGAGDLMGGSADLFSARGVTGGLYRLTVILGVVFAALALVIGLWP  74
                                    10        20        30        40        50        60        70    


Chain Y from PDB  Type:PROTEIN  Length:421
                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh.hhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.eeeee...............eeeee.....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ch4 Y   1 MVKAFWSALQIPELRQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFERFSIFALGIMPYITAAIIMQILVTVVPALEKLSKEGEEGRRIINQYTRIGGIALGAFQGFFLATAFLGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITEYGIGNGTSLIIFAGIVVEWLPQILRTIGLIRTGEVNLVAFLFFLAFIVLAFAGMAAVQQAERRIPVQYARGAAGYGGQATYIPIKLNAAGVIPIIFAAAILQIPIFLAAPFQDNPVLQGIANFFNPTRPSGLFIEVLLVILFTYVYTAVQFDPKRIAESLREYGGFIPGIRPGEPTVKFLEHIVSRLTLWGALFLGLVTLLPQIIQNLTGIHSIAFSGIGLLIVVGVALDTLRQVESQLMLRSY 424
                                    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||     263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423 
                                                                                                                                                                                                                                                                                    251|                                                                                                                                                                         
                                                                                                                                                                                                                                                                                     255
   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 5CH4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CH4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CH4)

(-) Gene Ontology  (14, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 5ch4)
 
  Cis Peptide Bonds
    Ala E:3 - Arg E:4   [ RasMol ]  
    Ala Y:268 - Ala Y:269   [ RasMol ]  
    Glu Y:138 - Gly Y:139   [ RasMol ]  
    Gly G:31 - Ala G:32   [ RasMol ]  
    Gly Y:251 - Tyr Y:255   [ RasMol ]  
    Gly Y:256 - Gly Y:257   [ RasMol ]  
    Tyr Y:245 - Ala Y:246   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        SECE_THET8 | P38383: 2zjs 2zqp 5aww
        SECY_THET8 | Q5SHQ8: 2zjs 2zqp 5aww
UniProtKB/TrEMBL
        Q5SHE6_THET8 | Q5SHE6: 5aww

(-) Related Entries Specified in the PDB File

5aww