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(-) Description

Title :  STRUCTURE OF A C-TYPE CARBOHYDRATE-RECOGNITION DOMAIN (CRD-4) FROM THE MACROPHAGE MANNOSE RECEPTOR
 
Authors :  H. Feinberg, S. Park-Snyder, A. R. Kolatkar, C. T. Heise, M. E. Taylor, W. I. Weis
Date :  15 Feb 00  (Deposition) - 30 Aug 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  C-Type Lectin, Mannose Receptor, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Feinberg, S. Park-Snyder, A. R. Kolatkar, C. T. Heise, M. E. Taylor, W. I. Weis
Structure Of A C-Type Carbohydrate Recognition Domain From The Macrophage Mannose Receptor.
J. Biol. Chem. V. 275 21539 2000
PubMed-ID: 10779515  |  Reference-DOI: 10.1074/JBC.M002366200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MACROPHAGE MANNOSE RECEPTOR
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System VectorOMPA
    FragmentCARBOHYDRATE-RECOGNITION DOMAIN 4
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:10 , GLU A:725 , ASN A:727 , ASN A:728 , ASN A:747 , ASP A:748BINDING SITE FOR RESIDUE CA A 201
2AC2SOFTWAREHOH B:5 , GLU B:725 , ASN B:727 , ASN B:728 , ASN B:747 , ASP B:748BINDING SITE FOR RESIDUE CA B 202
3AC3SOFTWAREHOH A:7 , GLU A:725 , HOH B:38 , GLU B:719BINDING SITE FOR RESIDUE CA A 203

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:628 -A:641
2A:662 -A:759
3A:735 -A:751
4B:628 -B:641
5B:662 -B:759
6B:735 -B:751

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:725 -Pro A:726
2Glu B:725 -Pro B:726

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1EGG)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1C_TYPE_LECTIN_2PS50041 C-type lectin domain profile.MRC1_HUMAN225-341
369-487
511-626
655-778
 
807-923
952-1080
1102-1213
1241-1356
  2-
-
-
A:637-760
B:637-760
-
-
-
-
2C_TYPE_LECTIN_1PS00615 C-type lectin domain signature.MRC1_HUMAN316-340
463-486
753-777
 
899-922
1052-1079
1332-1355
  2-
-
A:735-759
B:735-759
-
-
-

(-) Exons   (0, 0)

(no "Exon" information available for 1EGG)

(-) 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:132
 aligned with MRC1_HUMAN | P22897 from UniProtKB/Swiss-Prot  Length:1456

    Alignment length:136
                                   655       665       675       685       695       705       715       725       735       745       755       765       775      
           MRC1_HUMAN   646 CPEDWGASSRTSLCFKLYAKGKHEKKTWFESRDFCRALGGDLASINNKEEQQTIWRLITASGSYHKLFWLGLTYGSPSEGFTWSDGSPVSYENWAYGEPNNYQNVEYCGELKGDPTMSWNDINCEHLNNWICQIQK 781
               SCOP domains d1egga_ A: Macrophage mannose receptor, CRD4                                                                                             SCOP domains
               CATH domains 1eggA00 A:628-763 Mannose-Binding Protein A, subunit A                                                                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee......eeeee..hhhhh.hhhhhhhhhhh...ee....hhhhhhhhhhhhhhhh....eeeeeee..----....................hhhhh..eeeeee......eeeee.....eeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------C_TYPE_LECTIN_2  PDB: A:637-760 UniProt: 655-778                                                                            --- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------C_TYPE_LECTIN_1          ---- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1egg A 628 CPEDWGASSRTSLCFKLYAKGKHEKKTWFESRDFCRALGGDLASINNKEEQQTIWRLITASGSYHKLFWLGLTYG----GFTWSDGSPVSYENWAYGEPNNYQNVEYCGELKGDPTMSWNDINCEHLNNWICQIQK 763
                                   637       647       657       667       677       687       697    |  707       717       727       737       747       757      
                                                                                                    702  707                                                        

Chain B from PDB  Type:PROTEIN  Length:144
 aligned with MRC1_HUMAN | P22897 from UniProtKB/Swiss-Prot  Length:1456

    Alignment length:144
                                   652       662       672       682       692       702       712       722       732       742       752       762       772       782    
           MRC1_HUMAN   643 EPKCPEDWGASSRTSLCFKLYAKGKHEKKTWFESRDFCRALGGDLASINNKEEQQTIWRLITASGSYHKLFWLGLTYGSPSEGFTWSDGSPVSYENWAYGEPNNYQNVEYCGELKGDPTMSWNDINCEHLNNWICQIQKGQTPK 786
               SCOP domains d1eggb_ B: Macrophage mannose receptor, CRD4                                                                                                     SCOP domains
               CATH domains 1eggB00 B:625-768 Mannose-Binding Protein A, subunit A                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........ee.....eeeeee..hhhhh.hhhhhhhhhhhhh.ee....hhhhhhhhhhhhhhh.....eeeeeee..........................hhhhh..eeeeee......eeeee.....eeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ------------C_TYPE_LECTIN_2  PDB: B:637-760 UniProt: 655-778                                                                            -------- PROSITE (1)
                PROSITE (2) --------------------------------------------------------------------------------------------------------------C_TYPE_LECTIN_1          --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1egg B 625 IPKCPEDWGASSRTSLCFKLYAKGKHEKKTWFESRDFCRALGGDLASINNKEEQQTIWRLITASGSYHKLFWLGLTYGSPSEGFTWSDGSPVSYENWAYGEPNNYQNVEYCGELKGDPTMSWNDINCEHLNNWICQIQKGQTPK 768
                                   634       644       654       664       674       684       694       704       714       724       734       744       754       764    

   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  (1, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1EGG)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (MRC1_HUMAN | P22897)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0005537    mannose binding    Interacting selectively and non-covalently with mannose, a monosaccharide hexose, stereoisomeric with glucose, that occurs naturally only in polymerized forms called mannans.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0004872    receptor activity    Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
    GO:0004888    transmembrane signaling receptor activity    Combining with an extracellular or intracellular signal and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity or state as part of signal transduction.
    GO:0001618    virus receptor activity    Combining with a virus component and mediating entry of the virus into the cell.
biological process
    GO:0071346    cellular response to interferon-gamma    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interferon-gamma stimulus. Interferon gamma is the only member of the type II interferon found so far.
    GO:0071353    cellular response to interleukin-4    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interleukin-4 stimulus.
    GO:0071222    cellular response to lipopolysaccharide    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipopolysaccharide stimulus; lipopolysaccharide is a major component of the cell wall of gram-negative bacteria.
    GO:0006897    endocytosis    A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.
    GO:0006898    receptor-mediated endocytosis    An endocytosis process in which cell surface receptors ensure specificity of transport. A specific receptor on the cell surface binds tightly to the extracellular macromolecule (the ligand) that it recognizes; the plasma-membrane region containing the receptor-ligand complex then undergoes endocytosis, forming a transport vesicle containing the receptor-ligand complex and excluding most other plasma-membrane proteins. Receptor-mediated endocytosis generally occurs via clathrin-coated pits and vesicles.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    GO:0010008    endosome membrane    The lipid bilayer surrounding an endosome.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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        MRC1_HUMAN | P228971egi

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1egi