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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LG1-3 REGION OF THE LAMININ ALPHA2 CHAIN
 
Authors :  F. Carafoli, N. J. Clout, E. Hohenester
Date :  28 May 09  (Deposition) - 23 Jun 09  (Release) - 25 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Integrin, Secreted, Coiled Coil, Glycoprotein, Laminin Egf-Like Domain, Extracellular Matrix, Laminin G-Like Domain, Cell Adhesion, Disulfide Bond, Basement Membrane (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. Carafoli, N. J. Clout, E. Hohenester
Crystal Structure Of The Lg1-3 Region Of The Laminin {Alpha}2 Chain.
J. Biol. Chem. V. 284 22786 2009
PubMed-ID: 19553699  |  Reference-DOI: 10.1074/JBC.M109.026658

(-) Compounds

Molecule 1 - LAMININ SUBUNIT ALPHA-2
    ChainsA
    EngineeredYES
    Expression SystemHOMO SAPIENS
    Expression System Cell Line293-EBNA
    Expression System PlasmidPCEP-PU
    Expression System Taxid9606
    FragmentLG1-3,RESIDUES 2136-2475,2480-2565,2579-2746
    Organism CommonMOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    Other DetailsPROTEIN EXPRESSED IN PRESENCE OF KIFUNENSINE AND DIGESTED WITH ENDOGLYCOSIDASE H
    SynonymLAMININ M CHAIN, MEROSIN HEAVY CHAIN, LAMININ ALPHA2 CHAIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:2059 , ASN A:2236 , HIS A:2257BINDING SITE FOR RESIDUE NAG A4001
2AC2SOFTWARETYR A:2354 , ASN A:2356 , PHE A:2454BINDING SITE FOR RESIDUE NAG A4002
3AC3SOFTWARELYS A:2285 , SER A:2424 , ILE A:2426 , GLN A:2429 , ASN A:2431BINDING SITE FOR RESIDUE NAG A4003
4AC4SOFTWAREHOH A:2017 , ARG A:2227 , ASN A:2306 , ASN A:2554BINDING SITE FOR RESIDUE NAG A4004
5AC5SOFTWAREASP A:2189 , VAL A:2206 , TYR A:2264 , ILE A:2266 , ASP A:2268BINDING SITE FOR RESIDUE CA A5001
6AC6SOFTWAREASP A:2383 , LEU A:2400 , GLY A:2455 , ASP A:2457 , CA A:5003BINDING SITE FOR RESIDUE CA A5002
7AC7SOFTWAREASP A:2383 , LEU A:2400 , ASN A:2453 , CA A:5002BINDING SITE FOR RESIDUE CA A5003

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:2150 -A:2321
2A:2298 -A:2324
3A:2491 -A:2517
4A:2679 -A:2706

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2WJS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2WJS)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LAM_G_DOMAINPS50025 Laminin G domain profile.LAMA2_MOUSE2141-2324
2336-2517
2522-2706
2759-2930
2935-3115
  2-
A:2336-2517
A:2522-2706
-
-

(-) Exons   (0, 0)

(no "Exon" information available for 2WJS)

(-) 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:520
 aligned with LAMA2_MOUSE | Q60675 from UniProtKB/Swiss-Prot  Length:3118

    Alignment length:567
                                  2151      2161      2171      2181      2191      2201      2211      2221      2231      2241      2251      2261      2271      2281      2291      2301      2311      2321      2331      2341      2351      2361      2371      2381      2391      2401      2411      2421      2431      2441      2451      2461      2471      2481      2491      2501      2511      2521      2531      2541      2551      2561      2571      2581      2591      2601      2611      2621      2631      2641      2651      2661      2671      2681      2691      2701       
         LAMA2_MOUSE   2142 VSVSSGGDCVRTYRPEIKKGSYNNIVVHVKTAVADNLLFYLGSAKFIDFLAIEMRKGKVSFLWDVGSGVGRVEYPDLTIDDSYWYRIEASRTGRNGSISVRALDGPKASMVPSTYHSVSPPGYTILDVDANAMLFVGGLTGKIKKADAVRVITFTGCMGETYFDNKPIGLWNFREKEGDCKGCTVSPQVEDSEGTIQFDGEGYALVSRPIRWYPNISTVMFKFRTFSSSALLMYLATRDLKDFMSVELSDGHVKVSYDLGSGMTSVVSNQNHNDGKWKAFTLSRIQKQANISIVDIDSNQEENVATSSSGNNFGLDLKADDKIYFGGLPTLRNLSMKARPEVNVKKYSGCLKDIEISRTPYNILSSPDYVGVTKGCSLENVYTVSFPKPGFVELAAVSIDVGTEINLSFSTRNESGIILLGSGGTLTPPRRKRRQTTQAYYAIFLNKGRLEVHLSSGTRTMRKIVIKPEPNLFHDGREHSVHVERTRGIFTVQIDEDRRHMQNLTEEQPIEVKKLFVGGAPPEFQPSPLRNIPAFQGCVWNLVINSIPMDFAQPIAFKNADIGRCTY 2708
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Lami    nin_II-2wjsA04      --------------------------------------------------------------------------------------------------------------------------------------------    -----------        -----------------------------------------------------------------------------------------------------------------------------------------------    ----------------------------------------------------------------------Laminin_G_1-2w               jsA01 A:2550-2691                                                                                                ----------------- Pfam domains (1)
           Pfam domains (2) ----    ----------------------------------------------------------------------------------------------------------------------------------------------------------------    -----------        -----------------------------------------------------------------------------------------------------------------------------------------------    ----------------------------------------------------------------------Laminin_G_1-2w               jsA02 A:2550-2691                                                                                                ----------------- Pfam domains (2)
           Pfam domains (3) ----    ----------------------------------------------------------------------------------------------------------------------------------------------------------------    -----------        -----------------------------------------------------------------------------------------------------------------------------------------------    ----------------------------------------------------------------------Laminin_G_1-2w               jsA03 A:2550-2691                                                                                                ----------------- Pfam domains (3)
         Sec.struct. author ....----.eeee.........eeeeeee......eeeeee.......eeeeee....eeeeee.......ee...........eeeeeee......eeeee...............................eee.........................ee.....----..eee......--------...ee.......eeee........eeeeeeee.....eeeeeeee......eeeeeee...eeeeee.....eeee..........eeeeeeee..eeeeeeee.....eeeeeee..............eeee.........----............eeeeee.....hhhhh................ee.......eee.........eeeeee.............---------------..eeeeee....eeeeee.----.eeeee............eeeeeee....eeeee.....eee............eee.....--------........eeeeee...........ee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE LAM_G_DOMAIN  PDB: - UniProt: 2141-2324                                                                                                                                                -----------LAM_G_DOMAIN  PDB: A:2336-2517 UniProt: 2336-2517                                                                                                                                     ----LAM_G_DOMAIN  PDB: A:2522-2706 UniProt: 2522-2706                                                                                                                                        -- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2wjs A 2142 VSVS----CVRTYRPEIKKGSYNNIVVHVKTAVADNLLFYLGSAKFIDFLAIEMRKGKVSFLWDVGSGVGRVEYPDLTIDDSYWYRIEASRTGRNGSISVRALDGPKASMVPSTYHSVSPPGYTILDVDANAMLFVGGLTGKIKKADAVRVITFTGCMGETYFDNKPI----FREKEGDCKGC--------SEGTIQFDGEGYALVSRPIRWYPNISTVMFKFRTFSSSALLMYLATRDLKDFMSVELSDGHVKVSYDLGSGMTSVVSNQNHNDGKWKAFTLSRIQKQANISIVDIDSNQEENVATSSSGNNFGLDLKADDKIYFGGLPTLRNL----RPEVNVKKYSGCLKDIEISRTPYNILSSPDYVGVTKGCSLENVYTVSFPKPGFVELAAVSIDVGTEINLSFSTRNESGIILLGS---------------QAYYAIFLNKGRLEVHLSS----MRKIVIKPEPNRFHDGREHSVHVERTRGIFTVQIDEDRRHMQNLTEEQPIEVKKLFVGGAPP--------NIPAFQGCVWNLVINSIPMDFAQPIAFKNADIGRCTY 2708
                               |  2151      2161      2171      2181      2191      2201      2211      2221      2231      2241      2251      2261      2271      2281      2291      2301       | -  |   2321  |      - |    2341      2351      2361      2371      2381      2391      2401      2411      2421      2431      2441      2451      2461      2471   |  2481      2491      2501      2511      2521      2531      2541      2551      2561 |       -      2581      2591     |   -|     2611      2621      2631      2641      2651      2661 |       -|     2681      2691      2701       
                               | 2150                                                                                                                                                           2309 2314      2324     2333                                                                                                                                          2475 2480                                                                               2563            2579              2597 2602                                                         2663     2672                                    
                            2145                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   

   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 2WJS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2WJS)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit

(-) Gene Ontology  (16, 16)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LAMA2_MOUSE | Q60675)
molecular function
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
biological process
    GO:0007411    axon guidance    The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues.
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0030198    extracellular matrix organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix.
    GO:0022011    myelination in peripheral nervous system    The process in which neuronal axons and dendrites become coated with a segmented lipid-rich sheath (myelin) to enable faster and more energetically efficient conduction of electrical impulses. The sheath is formed by the cell membranes of Schwann cells in the peripheral nervous system. Adjacent myelin segments are separated by a non-myelinated stretch of axon called a node of Ranvier.
    GO:0032224    positive regulation of synaptic transmission, cholinergic    Any process that activates, maintains or increases the frequency, rate or extent of cholinergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter acetylcholine.
    GO:0030155    regulation of cell adhesion    Any process that modulates the frequency, rate or extent of attachment of a cell to another cell or to the extracellular matrix.
    GO:0030334    regulation of cell migration    Any process that modulates the frequency, rate or extent of cell migration.
    GO:0045995    regulation of embryonic development    Any process that modulates the frequency, rate or extent of embryonic development.
cellular component
    GO:0005605    basal lamina    A thin sheet of proteoglycans and glycoproteins, especially laminin, secreted by cells as an extracellular matrix.
    GO:0005604    basement membrane    A thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue. It consists of the basal lamina plus an associated layer of reticulin fibers.
    GO:0043197    dendritic spine    A small, membranous protrusion from a dendrite that forms a postsynaptic compartment - typically receiving input from a single presynapse. They function as partially isolated biochemical and an electrical compartments. Spine morphology is variable including "thin", "stubby", "mushroom", and "branched", with a continuum of intermediate morphologies. They typically terminate in a bulb shape, linked to the dendritic shaft by a restriction. Spine remodeling is though to be involved in synaptic plasticity.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005578    proteinaceous extracellular matrix    A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. An example of this component is found in Mus musculus.
    GO:0042383    sarcolemma    The outer membrane of a muscle cell, consisting of the plasma membrane, a covering basement membrane (about 100 nm thick and sometimes common to more than one fiber), and the associated loose network of collagen fibers.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LAMA2_MOUSE | Q606751dyk 1okq 1qu0 5ik4 5ik5 5ik7 5ik8

(-) Related Entries Specified in the PDB File

1dyk LAMININ ALPHA 2 CHAIN LG4-5 DOMAIN PAIR
1okq LAMININ ALPHA 2 CHAIN LG4-5 DOMAIN PAIR, CA1 SITE MUTANT
1qu0 CRYSTAL STRUCTURE OF THE FIFTH LAMININ G- LIKE MODULE OF THE MOUSE LAMININ ALPHA2 CHAIN