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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ZYMOGEN CATALYTIC REGION OF HUMAN MASP-2
 
Authors :  P. Gal, V. Harmat, A. Kocsis, T. Bian, L. Barna, G. Ambrus, B. Vegh, J. Bal R. B. Sim, G. Naray-Szabo, P. Zavodszky
Date :  29 Apr 05  (Deposition) - 26 Jul 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.18
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta Barrel, Modular Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. Gal, V. Harmat, A. Kocsis, T. Bian, L. Barna, G. Ambrus, B. Vegh, J. Balczer, R. B. Sim, G. Naray-Szabo, P. Zavodszky
A True Autoactivating Enzyme: Structural Insight Into Mannose-Binding Lectin-Associated Serine Protease-2 Activations
J. Biol. Chem. V. 280 33435 2005
PubMed-ID: 16040602  |  Reference-DOI: 10.1074/JBC.M506051200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MANNAN-BINDING LECTIN SERINE PROTEASE 2
    ChainsA
    EC Number3.4.21.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET-17B
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentCOMPLEMENT CONTROL PROTEIN MODULES 1,2 AND SERINE PROTEASE DOMAIN
    GeneMASP2
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymMANNOSE-BINDING PROTEIN ASSOCIATED SERINE PROTEASE 2, MASP- 2, MBL- ASSOCIATED SERINE PROTEASE 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1ZJK)

(-) SS Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1A:300 -A:348
2A:328 -A:361
3A:366 -A:412
4A:396 -A:430
5A:434 -A:552
6A:598 -A:618
7A:629 -A:660

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro A:605 -Pro A:606

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (4, 4)

Asymmetric/Biological Unit (4, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_028785D371YMASP2_HUMANPolymorphism12711521AD371Y
2UniProtVAR_028786V377AMASP2_HUMANPolymorphism2273346AV377A
3UniProtVAR_075088V405MMASP2_HUMANPolymorphism61735594AV405M
4UniProtVAR_028787R439HMASP2_HUMANPolymorphism12085877AR439H

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (3, 4)

Asymmetric/Biological Unit (3, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SUSHIPS50923 Sushi/CCP/SCR domain profile.MASP2_HUMAN298-363
364-432
  2A:300-363
A:364-432
2TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.MASP2_HUMAN445-684  1A:445-684
3TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.MASP2_HUMAN627-638  1A:627-638

(-) Exons   (6, 6)

Asymmetric/Biological Unit (6, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1dENST000004008971dENSE00001833377chr1:11107280-1110726021MASP2_HUMAN1-220--
1.2ENST000004008972ENSE00000818831chr1:11107176-11106948229MASP2_HUMAN2-78770--
1.3aENST000004008973aENSE00000472116chr1:11106790-11106613178MASP2_HUMAN79-138600--
1.3cENST000004008973cENSE00000743093chr1:11105596-11105465132MASP2_HUMAN138-182450--
1.4ENST000004008974ENSE00000472118chr1:11103592-11103396197MASP2_HUMAN182-247660--
1.5bENST000004008975bENSE00000743090chr1:11103079-11102932148MASP2_HUMAN248-297501A:296-2972
1.6ENST000004008976ENSE00000472120chr1:11097868-11097750119MASP2_HUMAN297-336401A:297-33640
1.7ENST000004008977ENSE00000743085chr1:11094963-1109488579MASP2_HUMAN337-363271A:337-36327
1.8ENST000004008978ENSE00000743084chr1:11090939-11090805135MASP2_HUMAN363-408461A:363-40846
1.9ENST000004008979ENSE00000472123chr1:11090307-1109023375MASP2_HUMAN408-433261A:408-43326
1.10ENST0000040089710ENSE00000818830chr1:11087705-110865801126MASP2_HUMAN433-6862541A:433-686 (gaps)254

(-) 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:390
 aligned with MASP2_HUMAN | O00187 from UniProtKB/Swiss-Prot  Length:686

    Alignment length:391
                                   305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685 
          MASP2_HUMAN   296 TAQPCPYPMAPPNGHVSPVQAKYILKDSFSIFCETGYELLQGHLPLKSFTAVCQKDGSWDRPMPACSIVDCGPPDDLPSGRVEYITGPGVTTYKAVIQYSCEETFYTMKVNDGKYVCEADGFWTSSKGEKSLPVCEPVCGLSARTTGGRIYGGQKAKPGDFPWQVLILGGTTAAGALLYDNWVLTAAHAVYEQKHDASALDIRMGTLKRLSPHYTQAWSEAVFIHEGYTHDAGFDNDIALIKLNNKVVINSNITPICLPRKEAESFMRTDDIGTASGWGLTQRGFLARNLMYVDIPIVDHQKCTAAYEKPPYPRGSVTANMLCAGLESGGKDSCRGDSGGALVFLDSETERWFVGGIVSWGSMNCGEAGQYGVYTKVINYIPWIENIISDF 686
               SCOP domains ---------------d1zjka2 A:311-363                                    --d1zjka3 A:366-440 Mannan-binding lectin serine protease 2 (MASP-2) domains ----d1zjka1 A:445-686 Mannan-binding lectin serine protease 2 (MASP-2), catalytic domain                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------------------------------------------------------------------Sushi-1zjkA02 A:366-430                                          --------------Trypsin-1zjkA01 A:445-679                                                                                                                                                                                                                  ------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------Sushi-1zjkA03 A:366-430                                          ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .............eee...........eeeeee...eeeee..ee....eee............eeee...........eeeee...........eeeeee....eeee....eeee.....eee........eeee................ee........eeeeee...eeeeee...eeeehhhhhhhhh.....eeeee..........eeeeeeeeee..............eeeee................hhhhhhhh....eeeeee.............eeeeeeeehhhhhhhhh.............eeee................eeeeee....eeeeeeeeeee....-.....eeeee...hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------Y-----A---------------------------M---------------------------------H------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --SUSHI  PDB: A:300-363 UniProt: 298-363                            SUSHI  PDB: A:364-432 UniProt: 364-432                               ------------TRYPSIN_DOM  PDB: A:445-684 UniProt: 445-684                                                                                                                                                                                                    -- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ------------------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.---------------------------------------Exon 1.7  PDB: A:337-363   ---------------------------------------------------------------------Exon 1.10  PDB: A:433-686 (gaps) UniProt: 433-686                                                                                                                                                                                                              Transcript 1 (1)
           Transcript 1 (2) -Exon 1.6  PDB: A:297-336                --------------------------Exon 1.8  PDB: A:363-408 UniProt: 363-408     -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
           Transcript 1 (3) ----------------------------------------------------------------------------------------------------------------Exon 1.9  PDB: A:408-433  ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (3)
                 1zjk A 296 TAHACPYPMAPPNGHVSPVQAKYILKDSFSIFCETGYELLQGHLPLKSFTAVCQKDGSWDRPMPACSIVDCGPPDDLPSGRVEYITGPGVTTYKAVIQYSCEETFYTMKVNDGKYVCEADGFWTSSKGEKSLPVCEPVCGLSARTTGGQIYGGQKAKPGDFPWQVLILGGTTAAGALLYDNWVLTAAHAVYEQKHDASALDIRMGTLKRLSPHYTQAWSEAVFIHEGYTHDAGFDNDIALIKLNNKVVINSNITPICLPRKEAESFMRTDDIGTASGWGLTQRGFLARNLMYVDIPIVDHQKCTAAYEKPPYPRGSVTANMLCAGLESGGKDSCRGDSGGALVFLDSETERWFVGGIVSWGSMNC-EAGQYGVYTKVINYIPWIENIISDF 686
                                   305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655    | |665       675       685 
                                                                                                                                                                                                                                                                                                                                                                                                      660 |                        
                                                                                                                                                                                                                                                                                                                                                                                                        662                        

   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  (2, 3)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1ZJK)

(-) Pfam Domains  (2, 3)

Asymmetric/Biological Unit
(-)
Family: Sushi (50)
2aSushi-1zjkA02A:366-430
2bSushi-1zjkA03A:366-430

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MASP2_HUMAN | O00187)
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:0001855    complement component C4b binding    Interacting selectively and non-covalently with the C4b product of the classical complement cascade.
    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: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: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:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    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.

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  Cis Peptide Bonds
    Pro A:605 - Pro A:606   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        MASP2_HUMAN | O001871q3x 1szb 3tvj 4fxg 5jpm

(-) Related Entries Specified in the PDB File

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