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(-) Description

Title :  MOLECULAR MECHANISM OF MDGA1: REGULATION OF NEUROLIGIN 2:NEUREXIN TRANS-SYNAPTIC BRIDGES
 
Authors :  M. Machius, S. P. Gangwar, G. Rudenko
Date :  15 Mar 17  (Deposition) - 05 Jul 17  (Release) - 05 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.72
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (3x)
Keywords :  Synaptic Organizer, Regulatory Molecule, Mdgas, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. P. Gangwar, X. Zhong, S. Seshadrinathan, H. Chen, M. Machius, G. Rudenko
Molecular Mechanism Of Mdga1: Regulation Of Neuroligin 2:Neurexin Trans-Synaptic Bridges.
Neuron V. 94 1132 2017
PubMed-ID: 28641112  |  Reference-DOI: 10.1016/J.NEURON.2017.06.009

(-) Compounds

Molecule 1 - MAM DOMAIN-CONTAINING GLYCOSYLPHOSPHATIDYLINOSITOL ANCHOR PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HIGH FIVE
    Expression System Taxid: 7111
    Expression System Vector: PFASTBAC1-HM
    Expression System Vector Type: BACULOVIRUS
    Gene: MDGA1, MAMDC3
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GPI AND MAM PROTEIN,GPIM,GLYCOSYLPHOSPHATIDYLINOSITOL-MAM, MAM DOMAIN-CONTAINING PROTEIN 3

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 2 (1, 9)
No.NameCountTypeFull Name
1SO49Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:46 , ARG A:123 , ARG A:232binding site for residue SO4 A 301
2AC2SOFTWAREARG A:71 , TYR A:187 , GLU A:188 , LYS A:197binding site for residue SO4 A 302
3AC3SOFTWARELYS A:39 , SER A:211 , ARG A:232binding site for residue SO4 A 303
4AC4SOFTWAREARG A:97binding site for residue CL A 304

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:36 -A:222
2A:60 -A:108
3A:157 -A:214

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1His A:65 -Pro A:66
2Asn A:162 -Pro A:163

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5V5W)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5V5W)

(-) Exons   (0, 0)

(no "Exon" information available for 5V5W)

(-) Sequences/Alignments

Asymmetric 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:199
                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee...eeee....eeeeeee....eeeeeeeeee...eeeeee.....hhhhh..ee....eee...hhhhheeeeeeee......eeeeeeeeeeee...eeeeeee..eeeeeee..ee...eeeee.........eeee........eeeeee.........eeeeeee..hhhhh..eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5v5w A  22 YAPAQAQIVHAGQACVVKEDNISERVYTIREGDTLMLQCLVTGHPRPQVRWTKTAGSASDKFQETSVFNETLRIERIARTQGGRYYCKAENGVGVPAIKSIRVDVQYLDEPMLTVHQTVKTVFLRCTVNSNPPARFIWKRGSDTLSNGVDIYEPLYTQGETKVLKLKNLRPQDYASYTCQVSVRNVCGIPDKAITFRLT 234
                                    31        41        51        61        71        81        91       101       111       121       131       151       161       171     ||185       195       205       215       225         
                                                                                                                                                140|                       177|                                                    
                                                                                                                                                 151                        182
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5V5W)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5V5W)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5V5W)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)

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  5v5w
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 Related Entries

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

UniProtKB/Swiss-Prot
        MDGA1_HUMAN | Q8NFP4: 5v5v 5xeq

(-) Related Entries Specified in the PDB File

5v5v