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(-) Description

Title :  MBL-FICOLIN ASSOCIATED PROTEIN-1, MAP-1 AKA MAP44
 
Authors :  M. O. Skjoedt, P. Roversi, T. Hummelshoj, Y. Palarasah, S. Johnson, S. M P. Garred
Date :  16 Apr 12  (Deposition) - 08 Aug 12  (Release) - 03 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Blood Clotting, Mannan-Binding Protein, Complement, Ficolins, Lectin Complement Pathway, Mannose- Binding Lectin, Mbl/Ficolin Associated Protein-1, Mbl/Ficolin Associated Serine Proteases, Map1, Map44 (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. O. Skjoedt, P. Roversi, T. Hummelshoj, Y. Palarasah, A. Rosbjerg, S. Johnson, S. M. Lea, P. Garred
Crystal Structure And Functional Characterization Of The Complement Regulator Mannose-Binding Lectin (Mbl)/Ficolin- Associated Protein-1 (Map-1).
J. Biol. Chem. V. 287 32913 2012
PubMed-ID: 22854970  |  Reference-DOI: 10.1074/JBC.M112.386680

(-) Compounds

Molecule 1 - MANNAN-BINDING LECTIN SERINE PROTEASE 1
    ChainsA
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System Cell LineCHO DG44
    Expression System CommonCHINESE HAMSTER
    Expression System Taxid10029
    Expression System VectorPPCR-SCRIPT AMP
    Expression System Vector TypePLASMID
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymMBL-FICOLIN ASSOCIATED PROTEIN-1, COMPLEMENT FACTOR MASP-3, COMPLEMENT-ACTIVATING COMPONENT OF RA-REACTIVE FACTOR, MANNOSE-BINDING LECTIN-ASSOCIATED SERINE PROTEASE 1, MASP-1, MANNOSE-BINDING PROTEIN-ASSOCIATED SERINE PROTEASE, RA-REACTIVE FACTOR SERINE PROTEASE P100, RARF, SERINE PROTEASE 5, MANNAN-BINDING LECTIN SERINE PROTEASE 1 HEAVY CHAIN
    TissuePLASMA

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 15)

Asymmetric Unit (4, 15)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2CA6Ligand/IonCALCIUM ION
3MAN3Ligand/IonALPHA-D-MANNOSE
4NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (3, 18)
No.NameCountTypeFull Name
1BMA4Ligand/IonBETA-D-MANNOSE
2CA-1Ligand/IonCALCIUM ION
3MAN6Ligand/IonALPHA-D-MANNOSE
4NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:139 , VAL A:140 , GLU A:142 , ASN A:159 , TYR A:160 , GLY A:163 , HOH A:2001BINDING SITE FOR RESIDUE CA A 701
2AC2SOFTWAREGLU A:68 , ASP A:76 , ASP A:121 , SER A:123 , HOH A:2002 , HOH A:2003BINDING SITE FOR RESIDUE CA A 702
3AC3SOFTWAREGLU A:235 , ASP A:245 , ASP A:282 , SER A:284 , HOH A:2004 , HOH A:2005BINDING SITE FOR RESIDUE CA A 703
4AC4SOFTWAREGLU A:23 , ASN A:49 , GLU A:83 , PHE A:113 , SER A:115BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 49 RESIDUES 649 TO 653
5AC5SOFTWAREASN A:178BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 178 RESIDUES 678 TO 681

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:73 -A:91
2A:143 -A:157
3A:153 -A:166
4A:168 -A:181
5A:185 -A:212
6A:242 -A:260
7A:301 -A:349
8A:329 -A:362

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Tyr A:36 -Pro A:37
2Phe A:202 -Pro A:203
3Gly A:257 -Pro A:258
4Glu A:313 -Pro A:314

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (5, 5)

Asymmetric Unit (5, 5)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CUBPS01180 CUB domain profile.MASP1_HUMAN11-138
185-297
  1-
A:185-297
2EGF_CAPS01187 Calcium-binding EGF-like domain signature.MASP1_HUMAN139-166  1A:139-166
3ASX_HYDROXYLPS00010 Aspartic acid and asparagine hydroxylation site.MASP1_HUMAN157-168  1A:157-168
4EGF_2PS01186 EGF-like domain signature 2.MASP1_HUMAN166-181  1A:166-181
5SUSHIPS50923 Sushi/CCP/SCR domain profile.MASP1_HUMAN299-364
365-434
  1A:299-363
-
Biological Unit 1 (5, 10)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CUBPS01180 CUB domain profile.MASP1_HUMAN11-138
185-297
  2-
A:185-297
2EGF_CAPS01187 Calcium-binding EGF-like domain signature.MASP1_HUMAN139-166  2A:139-166
3ASX_HYDROXYLPS00010 Aspartic acid and asparagine hydroxylation site.MASP1_HUMAN157-168  2A:157-168
4EGF_2PS01186 EGF-like domain signature 2.MASP1_HUMAN166-181  2A:166-181
5SUSHIPS50923 Sushi/CCP/SCR domain profile.MASP1_HUMAN299-364
365-434
  2A:299-363
-

(-) Exons   (0, 0)

(no "Exon" information available for 4AQB)

(-) 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:345
 aligned with MASP1_HUMAN | P48740 from UniProtKB/Swiss-Prot  Length:699

    Alignment length:345
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361     
          MASP1_HUMAN    22 VELNNMFGQIQSPGYPDSYPSDSEVTWNITVPDGFRIKLYFMHFNLESSYLCEYDYVKVETEDQVLATFCGRETTDTEQTPGQEVVLSPGSFMSITFRSDFSNEERFTGFDAHYMAVDVDECKEREDEELSCDHYCHNYIGGYYCSCRFGYILHTDNRTCRVECSDNLFTQRTGVITSPDFPNPYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKIKVGPKVLGPFCGEKAPEPISTQSHSVLILFHSDNSGENRGWRLSYRAAGNECPELQPPVHGKIEPSQAKYFFKDQVLVSCDTGYKVLKDNVEMDTFQIECLKDGTWSNKIPTCKIVD 366
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..eeeee...........eeeeeeee....eeeeeeeeeee...hhhhh..eeeee....eeeee................ee....eeeeeeee.........eeeeeeeeee.hhhhhhhhh......eeeee..eeeee.....ee......ee...........eeeee............eeeeeee.....eeeeee.................eeeeee..eeeeee........ee....eeeeeee..........eeeeeee..ee........eeee.....ee...eeeeee...eeeee..eee.eeeee............eeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) CUB  PDB: - UniProt: 11-138                                                                                          EGF_CA  PDB: A:139-166      ------------------CUB  PDB: A:185-297 UniProt: 185-297                                                                             -SUSHI  PDB: A:299-363 UniProt: 299-364                            SU PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------------------------------------ASX_HYDROXYL------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------EGF_2           ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4aqb A  22 VELNNMFGQIQSPGYPDSYPSDSEVTWNITVPDGFRIKLYFMHFNLESSYLCEYDYVKVETEDQVLATFCGRETTDTEQTPGQEVVLSPGSFMSITFRSDFSNEERFTGFDAHYMAVDVDECKEREDEELSCDHYCHNYIGGYYCSCRFGYILHTDNRTCRVECSDNLFTQRTGVITSPDFPNPYPKSSECLYTIELEEGFMVNLQFEDIFDIEDHPEVPCPYDYIKIKVGPKVLGPFCGEKAPEPISTQSHSVLILFHSDNSGENRGWRLSYRAAGNECPELQPPVHGKIEPSQAKYFFKDQVLVSCDTGYKVLKDNVEMDTFQIECLKDGTWSNKIPTCKKNE 366
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361     

   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 4AQB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)
Chain A   (MASP1_HUMAN | P48740)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0048306    calcium-dependent 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), in the presence of calcium.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    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:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
    GO:0008236    serine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0006956    complement activation    Any process involved in the activation of any of the steps of the complement cascade, which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes; the initial steps of complement activation involve one of three pathways, the classical pathway, the alternative pathway, and the lectin pathway, all of which lead to the terminal complement pathway.
    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:0045916    negative regulation of complement activation    Any process that stops, prevents, or reduces the frequency, rate or extent of complement activation.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    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.
cellular component
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        MASP1_HUMAN | P487403dem 3gov 4djz 4igd 4iw4 4kkd

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4AQB)