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(-) Description

Title :  APO-MANNOSE-BINDING PROTEIN-C
 
Authors :  K. K. -S. Ng, W. I. Weis
Date :  22 Sep 98  (Deposition) - 13 Jan 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  C-Type Lectin, Calcium-Binding Protein, Collectin, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. K. Ng, S. Park-Snyder, W. I. Weis
Ca2+-Dependent Structural Changes In C-Type Mannose-Binding Proteins.
Biochemistry V. 37 17965 1998
PubMed-ID: 9922165  |  Reference-DOI: 10.1021/BI981972A
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (MANNOSE-BINDING PROTEIN-C)
    ChainsA, B, C, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Cellular LocationPERIPLASM
    Expression System PlasmidPINOMPAII
    Expression System StrainJA221
    Expression System Taxid562
    FragmentSUBTILISIN FRAGMENT
    OrganLIVER
    Organism CommonNORWAY RAT
    Organism ScientificRATTUS NORVEGICUS
    Organism Taxid10116

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1BV4)

(-) Sites  (0, 0)

(no "Site" information available for 1BV4)

(-) SS Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1A:133 -A:222
2A:200 -A:214
3B:133 -B:222
4B:200 -B:214
5C:133 -C:222
6C:200 -C:214
7D:133 -D:222
8D:200 -D:214

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu B:190 -Pro B:191
2Glu D:190 -Pro D:191

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1BV4)

(-) PROSITE Motifs  (2, 8)

Asymmetric/Biological Unit (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1C_TYPE_LECTIN_2PS50041 C-type lectin domain profile.MBL2_RAT134-241
 
 
 
  4A:116-223
B:116-223
C:116-223
D:116-223
2C_TYPE_LECTIN_1PS00615 C-type lectin domain signature.MBL2_RAT218-240
 
 
 
  4A:200-222
B:200-222
C:200-222
D:200-222

(-) Exons   (0, 0)

(no "Exon" information available for 1BV4)

(-) 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:112
 aligned with MBL2_RAT | P08661 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:112
                                   142       152       162       172       182       192       202       212       222       232       242  
             MBL2_RAT   133 KYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVPCSDSFLVVCEFSD 244
               SCOP domains d1bv4a_ A: Mannose-binding protein A, C-lectin domain                                                            SCOP domains
               CATH domains 1bv4A00 A:115-226 Mannose-Binding Protein A, subunit A                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhh.........hhhhhhhhhh...........................................eeeee.....eeeee.......eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -C_TYPE_LECTIN_2  PDB: A:116-223 UniProt: 134-241                                                            --- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------C_TYPE_LECTIN_1        ---- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1bv4 A 115 KYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVPCSDSFLVVCEFSD 226
                                   124       134       144       154       164       174       184       194       204       214       224  

Chain B from PDB  Type:PROTEIN  Length:110
 aligned with MBL2_RAT | P08661 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:112
                                   142       152       162       172       182       192       202       212       222       232       242  
             MBL2_RAT   133 KYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVPCSDSFLVVCEFSD 244
               SCOP domains d1bv4b_ B: Mannose-binding protein A, C-lectin domain                                                            SCOP domains
               CATH domains 1bv4B00 B:115-226 Mannose-Binding Protein A, subunit A                                                           CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhh.........hhhhhhhhhh....eeeeee....--...........................eeeee.....eeeee.......eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -C_TYPE_LECTIN_2  PDB: B:116-223 UniProt: 134-241                                                            --- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------C_TYPE_LECTIN_1        ---- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1bv4 B 115 KYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRT--VFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVPCSDSFLVVCEFSD 226
                                   124       134       144       154       164    |  174       184       194       204       214       224  
                                                                                169  |                                                      
                                                                                   172                                                      

Chain C from PDB  Type:PROTEIN  Length:81
 aligned with MBL2_RAT | P08661 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:111
                                   142       152       162       172       182       192       202       212       222       232       242 
             MBL2_RAT   133 KYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVPCSDSFLVVCEFS 243
               SCOP domains d1bv4c_ C: Mannose-binding protein A, C-lectin dom         ain                                                  SCOP domains
               CATH domains 1bv4C00 C:115-225 Mannose-Binding Protein A, subun         it A                                                 CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhh..........hhhhhhhhhh.........---------.....---------------------eeee.....eeee........eeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -C_TYPE_LECTIN_2  PDB: C:116-223 UniProt: 134-241                                                            -- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------C_TYPE_LECTIN_1        --- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 1bv4 C 115 KYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGI---------EDLTG---------------------CVVLLTNGKWNDVPCSDSFLVVCEFS 225
                                   124       134       144       154       164       174   |     -         -     | 204       214       224 
                                                                           164       174 178                   200                         

Chain D from PDB  Type:PROTEIN  Length:109
 aligned with MBL2_RAT | P08661 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:113
                                   141       151       161       171       181       191       201       211       221       231       241   
             MBL2_RAT   132 KKYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNNVGSGENCVVLLTNGKWNDVPCSDSFLVVCEFSD 244
               SCOP domains d1bv4d_ D: Mannose-binding protein A, C-lectin domain                                                             SCOP domains
               CATH domains 1bv4D00 D:114-226 Mannose-Binding Protein A, subunit A                                                            CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee......hhhhhhhhhhh.........hhhhhhhhhh......................................----.eeeee.....eeeee.......eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --C_TYPE_LECTIN_2  PDB: D:116-223 UniProt: 134-241                                                            --- PROSITE (1)
                PROSITE (2) --------------------------------------------------------------------------------------C_TYPE_LECTIN_1        ---- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1bv4 D 114 KKYFMSSVRRMPLNRAKALCSELQGTVATPRNAEENRAIQNVAKDVAFLGITDQRTENVFEDLTGNRVRYTNWNEGEPNN----ENCVVLLTNGKWNDVPCSDSFLVVCEFSD 226
                                   123       133       143       153       163       173       183       193    |  203       213       223   
                                                                                                         193  198                            

   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, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1BV4)

(-) Gene Ontology  (19, 19)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (MBL2_RAT | P08661)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    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:0005534    galactose binding    Interacting selectively and non-covalently with the aldohexose galactose (galacto-hexose), a common constituent of many oligo- and polysaccharides.
    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:0070273    phosphatidylinositol-4-phosphate binding    Interacting selectively and non-covalently with phosphatidylinositol-4-phosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 4' position.
    GO:0002020    protease binding    Interacting selectively and non-covalently with any protease or peptidase.
    GO:0043621    protein self-association    Interacting selectively and non-covalently with a domain within the same polypeptide.
biological process
    GO:0006958    complement activation, classical pathway    Any process involved in the activation of any of the steps of the classical pathway of the complement cascade which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes.
    GO:0001867    complement activation, lectin pathway    Any process involved in the activation of any of the steps of the lectin pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0045917    positive regulation of complement activation    Any process that activates or increases the frequency, rate or extent of complement activation.
    GO:0010954    positive regulation of protein processing    Any process that increases the rate, frequency or extent of protein maturation by peptide bond cleavage.
    GO:0051260    protein homooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of identical component monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    GO:0070207    protein homotrimerization    The formation of a protein homotrimer, a macromolecular structure consisting of three noncovalently associated identical subunits.
    GO:0051259    protein oligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of component monomers; protein oligomers may be composed of different or identical monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
cellular component
    GO:0005581    collagen trimer    A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures.
    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:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

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  Cis Peptide Bonds
    Glu B:190 - Pro B:191   [ RasMol ]  
    Glu D:190 - Pro D:191   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        MBL2_RAT | P086611kza 1kzb 1kzc 1kzd 1kze 1rdi 1rdj 1rdk 1rdl 1rdm 1rdn 1rdo

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1BV4)