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(-) Description

Title :  THE PENTAMERIC LIGAND-GATED ION CHANNEL GLIC IN COMPLEX WITH SE-DDM
 
Authors :  L. Sauguet, L. Malherbe, P. J. Corringer, M. Delarue
Date :  29 Dec 12  (Deposition) - 20 Feb 13  (Release) - 20 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym./Biol. Unit :  A,B,C,D,E
Keywords :  Pentameric Ligand-Gated Ion Channel, Ion Channel, Membrane, Membrane Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Sauguet, F. Poitevin, S. Murail, C. Van Renterghem, G. Moraga-Cid L. Malherbe, A. W. Thompson, P. Koehl, P. J. Corringer, M. Baaden, M. Delarue
Structural Basis For Ion Permeation Mechanism In Pentameric Ligand-Gated Ion Channels.
Embo J. V. 32 728 2013
PubMed-ID: 23403925  |  Reference-DOI: 10.1038/EMBOJ.2013.17

(-) Compounds

Molecule 1 - PROTON-GATED ION CHANNEL
    Chains: A, B, C, D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 C43
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 44-359
    Gene: GLVI, GLR4197
    Organism Scientific: GLOEOBACTER VIOLACEUS
    Organism Taxid: 251221
    Strain: PCC 7421
    Synonym: GLIC, LIGAND-GATED ION CHANNEL, LGIC

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : ABCDE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 29)

Asymmetric/Biological Unit (4, 29)
No.NameCountTypeFull Name
1ACT10Ligand/IonACETATE ION
2CL7Ligand/IonCHLORIDE ION
3LSM6Ligand/IonDODECYL 4-O-ALPHA-D-GLUCOPYRANOSYL-1-SELENO-BETA-D-GLUCOPYRANOSIDE
4NA6Ligand/IonSODIUM ION

(-) Sites  (28, 28)

Asymmetric Unit (28, 28)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:77 , ILE A:131 , GLU A:181 , PHE E:42 , ARG E:105BINDING SITE FOR RESIDUE ACT A 401
02AC2SOFTWAREPHE A:78 , ARG A:85BINDING SITE FOR RESIDUE CL A 402
03AC3SOFTWAREASN A:139 , LEU A:180 , ALA D:175BINDING SITE FOR RESIDUE CL A 403
04AC4SOFTWAREALA A:175 , ASN D:139 , LEU D:180BINDING SITE FOR RESIDUE CL A 404
05AC5SOFTWAREPRO A:68 , ILE A:71 , ILE A:73BINDING SITE FOR RESIDUE NA A 405
06AC6SOFTWAREILE A:73 , PRO A:74 , ILE A:76 , ARG A:85 , TYR A:102BINDING SITE FOR RESIDUE ACT A 407
07AC7SOFTWAREALA A:237 , ALA E:237BINDING SITE FOR RESIDUE LSM A 408
08AC8SOFTWAREPHE A:42 , ARG A:105 , ARG B:77 , ILE B:131 , GLU B:181BINDING SITE FOR RESIDUE ACT B 401
09AC9SOFTWAREPHE B:78 , ARG B:85BINDING SITE FOR RESIDUE CL B 402
10BC1SOFTWAREPRO B:68 , ILE B:71 , TRP B:72 , ILE B:73BINDING SITE FOR RESIDUE NA B 403
11BC2SOFTWAREILE B:73 , PRO B:74 , ILE B:76 , ARG B:85 , TYR B:102BINDING SITE FOR RESIDUE ACT B 404
12BC3SOFTWAREALA A:237 , ALA B:237BINDING SITE FOR RESIDUE LSM B 405
13BC4SOFTWAREPHE B:42 , ARG B:105 , ARG C:77 , ILE C:131 , GLU C:181BINDING SITE FOR RESIDUE ACT C 401
14BC5SOFTWAREPHE C:78 , ARG C:85BINDING SITE FOR RESIDUE CL C 402
15BC6SOFTWAREPRO C:68 , ILE C:71 , ILE C:73BINDING SITE FOR RESIDUE NA C 403
16BC7SOFTWAREILE C:73 , PRO C:74 , ILE C:76 , ARG C:85 , TYR C:102BINDING SITE FOR RESIDUE ACT C 404
17BC8SOFTWARELSM D:406BINDING SITE FOR RESIDUE LSM C 405
18BC9SOFTWAREPHE C:42 , ARG C:105 , ARG D:77 , ILE D:131 , GLU D:181BINDING SITE FOR RESIDUE ACT D 401
19CC1SOFTWAREPHE D:78 , ARG D:85BINDING SITE FOR RESIDUE CL D 402
20CC2SOFTWAREVAL D:5 , ILE D:71 , ILE D:73BINDING SITE FOR RESIDUE NA D 403
21CC3SOFTWAREILE D:73 , PRO D:74 , ILE D:76 , ARG D:85 , TYR D:102BINDING SITE FOR RESIDUE ACT D 404
22CC4SOFTWAREILE D:233 , ALA D:237 , ILE D:240 , THR D:244BINDING SITE FOR RESIDUE LSM D 405
23CC5SOFTWARELSM C:405 , LSM E:405BINDING SITE FOR RESIDUE LSM D 406
24CC6SOFTWAREPHE D:42 , ARG D:105 , ARG E:77 , ILE E:131 , GLU E:181BINDING SITE FOR RESIDUE ACT E 401
25CC7SOFTWAREPHE E:78 , ARG E:85BINDING SITE FOR RESIDUE CL E 402
26CC8SOFTWAREPRO E:68 , ILE E:71 , ILE E:73BINDING SITE FOR RESIDUE NA E 403
27CC9SOFTWAREPRO E:74 , ILE E:76 , ARG E:85 , TYR E:102BINDING SITE FOR RESIDUE ACT E 404
28DC1SOFTWARELSM D:406 , ILE E:240BINDING SITE FOR RESIDUE LSM E 405

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IL4)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Tyr A:119 -Pro A:120
2Tyr B:119 -Pro B:120
3Tyr C:119 -Pro C:120
4Tyr D:119 -Pro D:120
5Tyr E:119 -Pro E:120

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IL4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IL4)

(-) Exons   (0, 0)

(no "Exon" information available for 4IL4)

(-) 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:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh.hhhhhh...ee.hhhhh....eee.......eeeeeeeee....eeeeeeeeeeeee...........eeeeeeeeeee......eeeee.hhhhee........eeeeeeeeeeeeeeee....eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4il4 A   5 VSPPPPIADEPLTVNTGIYLIECYSLDDKAETFKVNAFLSLSWKDRRLAFDPVRSGVRVKTYEPEAIWIPEIRFVNVENARDADVVDISVSPDGTVQYLERFSARVLSPLDFRRYPFDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFALEDRLESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWSTSYEANVTLVVSTLIAHIAFNILVETNLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFF 315
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314 


Chain B from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh.hhhhhh...ee..........eee.......eeeeeeeee....eeeeeeeeeeeee...........eeeeeeeeeee......eeeee.hhhhee........eeeeeeeeeeeeeeee....eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4il4 B   5 VSPPPPIADEPLTVNTGIYLIECYSLDDKAETFKVNAFLSLSWKDRRLAFDPVRSGVRVKTYEPEAIWIPEIRFVNVENARDADVVDISVSPDGTVQYLERFSARVLSPLDFRRYPFDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFALEDRLESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWSTSYEANVTLVVSTLIAHIAFNILVETNLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFF 315
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314 


Chain C from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh.hhhhhh...ee..........eee.......eeeeeeeee....eeeeeeeeeeeee...........eeeeeeeeeee......eeeee.hhhhee........eeeeeeeeeeeeeeeee..eeeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4il4 C   5 VSPPPPIADEPLTVNTGIYLIECYSLDDKAETFKVNAFLSLSWKDRRLAFDPVRSGVRVKTYEPEAIWIPEIRFVNVENARDADVVDISVSPDGTVQYLERFSARVLSPLDFRRYPFDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFALEDRLESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWSTSYEANVTLVVSTLIAHIAFNILVETNLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFF 315
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314 


Chain D from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh.hhhhhh...ee.hhhhh....eee.......eeeeeeeee....eeeeeeeeeeeee...........eeeeeeeeeee......eeeee.hhhhee........eeeeeeeeeeeeeeee....eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4il4 D   5 VSPPPPIADEPLTVNTGIYLIECYSLDDKAETFKVNAFLSLSWKDRRLAFDPVRSGVRVKTYEPEAIWIPEIRFVNVENARDADVVDISVSPDGTVQYLERFSARVLSPLDFRRYPFDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFALEDRLESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWSTSYEANVTLVVSTLIAHIAFNILVETNLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFF 315
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314 


Chain E from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh.hhhhhh...ee.hhhhh....eee.......eeeeeeeee....eeeeeeeeeeeee...........eeeeeeeeeee......eeeee.hhhhee........eeeeeeeeeeeeeeee....eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4il4 E   5 VSPPPPIADEPLTVNTGIYLIECYSLDDKAETFKVNAFLSLSWKDRRLAFDPVRSGVRVKTYEPEAIWIPEIRFVNVENARDADVVDISVSPDGTVQYLERFSARVLSPLDFRRYPFDSQTLHIYLIVRSVDTRNIVLAVDLEKVGKNDDVFLTGWDIESFTAVVKPANFALEDRLESKLDYQLRISRQYFSYIPNIILPMLFILFISWTAFWSTSYEANVTLVVSTLIAHIAFNILVETNLPKTPYMTYTGAIIFMIYLFYFVAVIEVTVQHYLKVESQPARAASITRASRIAFPVVFLLANIILAFLFF 315
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314
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  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 4IL4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IL4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IL4)

(-) Gene Ontology  (12, 12)

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
        GLIC_GLOVI | Q7NDN8: 2xq3 2xq4 2xq5 2xq6 2xq7 2xq8 2xq9 2xqa 3eam 3ehz 3ei0 3igq 3lsv 3p4w 3p50 3tls 3tlt 3tlu 3tlv 3tlw 3uu3 3uu4 3uu5 3uu6 3uu8 3uub 4f8h 4hfb 4hfc 4hfd 4hfe 4hfh 4hfi 4il9 4ila 4ilb 4ilc 4ire 4lmj 4lmk 4lml 4npp 4npq 4qh1 4qh4 4qh5 4x5t 4yeu 4zzb 4zzc 5hcj 5hcm 5heg 5heh 5iux 5j0z 5l47 5l4e 5l4h

(-) Related Entries Specified in the PDB File

4hfi 4il9 4ila 4ilb 4ilc