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(-) Description

Title :  ANTICHYMOTRYPSIN
 
Authors :  S. C. Feil
Date :  29 Jun 08  (Deposition) - 07 Jul 09  (Release) - 25 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Act, Partial Insertion, Loop, Acute Phase, Disease Mutation, Glycoprotein, Protease Inhibitor, Secreted, Serine Protease Inhibitor, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. C. Pearce, G. A. Powers, S. C. Feil, G. Hansen, M. W. Parker, S. P. Bottomley
Identification And Characterization Of A Misfolded Monomeri Serpin Formed At Physiological Temperature
J. Mol. Biol. V. 403 459 2010
PubMed-ID: 20837024  |  Reference-DOI: 10.1016/J.JMB.2010.09.007

(-) Compounds

Molecule 1 - ALPHA-1-ANTICHYMOTRYPSIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPQE31
    Expression System StrainSG130009
    Expression System Taxid562
    Expression System Vector TypePLASMID
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymACT, CELL GROWTH-INHIBITING GENE 24/25 PROTEIN, ALPHA-1- ANTICHYMOTRYPSIN HIS-PRO-LESS

 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 3DLW)

(-) Sites  (0, 0)

(no "Site" information available for 3DLW)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3DLW)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gln A:105 -Ser A:106

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (6, 6)

Asymmetric/Biological Unit (6, 6)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_006974L78PAACT_HUMANPolymorphism1800463AL55P
2UniProtVAR_006975A167GAACT_HUMANPolymorphism  ---AA144G
3UniProtVAR_006976P252AAACT_HUMANPolymorphism17473AP229A
4UniProtVAR_037902K267RAACT_HUMANPolymorphism17853314AK244R
5UniProtVAR_006977M401VAACT_HUMANUnclassified  ---AM378V
6UniProtVAR_011742D407GAACT_HUMANPolymorphism10956AD384G

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SERPINPS00284 Serpins signature.AACT_HUMAN393-403  1A:371-380

(-) Exons   (4, 4)

Asymmetric/Biological Unit (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003930801aENSE00001870556chr14:95078634-95078784151AACT_HUMAN1-23230--
1.2dENST000003930802dENSE00001641595chr14:95080771-95081421651AACT_HUMAN23-2402181A:24-217194
1.3bENST000003930803bENSE00001368068chr14:95085532-95085805274AACT_HUMAN240-331921A:217-30892
1.4aENST000003930804aENSE00001373796chr14:95088678-95088828151AACT_HUMAN331-381511A:308-35043
1.5cENST000003930805cENSE00001944703chr14:95089948-95090397450AACT_HUMAN382-448671A:368-40033

(-) 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:360
 aligned with AACT_HUMAN | P01011 from UniProtKB/Swiss-Prot  Length:423

    Alignment length:377
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       
           AACT_HUMAN    47 LGLASANVDFAFSLYKQLVLKAPDKNVIFSPLSISTALAFLSLGAHNTTLTEILKGLKFNLTETSEAEIHQSFQHLLRTLNQSSDELQLSMGNAMFVKEQLSLLDRFTEDAKRLYGSEAFATDFQDSAAAKKLINDYVKNGTRGKITDLIKDLDSQTMMVLVNYIFFKAKWEMPFDPQDTHQSRFYLSKKKWVMVPMMSLHHLTIPYFRDEELSCTVVELKYTGNASALFILPDQDKMEEVEAMLLPETLKRWRDSLEFREIGELYLPKFSISRDYNLNDILLQLGIEEAFTSKADLSGITGARNLAVSQVVHKAVLDVFEEGTEASAATAVKITLLSALVETRTIVRFNRPFLMIIVPTDTQNIFFMSKVTNPKQA 423
               SCOP domains d3dlwa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 3dlwA01 A:24-193,A:291-344 Antithrombin, subunit I, domain 2                                                                                                              3dlwA02 A:194-290,A:350-397 Alpha-1-antitrypsin, domain 1                                        3dlwA01 A:24-193,A:291-344                            -----3                 dlwA02 A:194-290,A:350-397    --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh....eeehhhhhhhhhhhhhh..hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeeeeeeeeee.....hhhhhhhhhhhhh..eeee...hhhhhhhhhhhhh..eeeeeeee........eeeeeeeeeeeeee.....hhhhheeeeee.....eeeeeeeeeeeeeeeeeee....eeeeeee.....eeeeeee...hhhhhhhh.hhhhhhhhhhhheeeeeeeeeee.eeeeeeeehhhhhhhh..hhhhh....hhhhhh...eeeeeeeeeeeeee...eee..-----------------.eee....eeeeee........eeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------P----------------------------------------------------------------------------------------G------------------------------------------------------------------------------------A--------------R-------------------------------------------------------------------------------------------------------------------------------------V-----G---------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     -------------------- PROSITE
           Transcript 1 (1) Exon 1.2d  PDB: A:24-217 UniProt: 23-240 [INCOMPLETE]                                                                                                                                             ------------------------------------------------------------------------------------------Exon 1.4a  PDB: A:308-350 UniProt: 331-381         Exon 1.5c  PDB: A:368-400 UniProt: 382-448 Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.3b  PDB: A:217-308 UniProt: 240-331                                                  -------------------------------------------------------------------------------------------- Transcript 1 (2)
                 3dlw A  24 LGLASANVDFAFSLYKQLVLKAPDKNVIFSPLSISTALAFLSLGAHNTTLTEILKGLKFNLTETSEAEIHQSFQHLLRTLNQSSDELQLSMGNAMFVKEQLSLLDRFTEDAKRLYGSEAFATDFQDSAAAKKLINDYVKNGTRGKITDLIKDLDSQTMMVLVNYIFFKAKWEMPFDPQDTHQSRFYLSKKKWVMVPMMSLHHLTIPYFRDEELSCTVVELKYTGNASALFILPDQDKMEEVEAMLLPETLKRWRDSLEFREIGELYLPKFSISRDYNLNDILLQLGIEEAFTSKADLSGITGARNLAVSQVVHKAVLDVFEEGTEAS-----------------TITRFNRPFLMIIVPTDTQNIFFMSKVTNPKQA 400
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343      |  -         -    |  373       383       393       
                                                                                                                                                                                                                                                                                                                                                                350               368                                

   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, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3DLW)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (AACT_HUMAN | P01011)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0030414    peptidase inhibitor activity    Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
    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:0004867    serine-type endopeptidase inhibitor activity    Stops, prevents or reduces the activity of serine-type endopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide bonds in a polypeptide chain; a serine residue (and a histidine residue) are at the active center of the enzyme.
biological process
    GO:0006953    acute-phase response    An acute inflammatory response that involves non-antibody proteins whose concentrations in the plasma increase in response to infection or injury of homeothermic animals.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0030277    maintenance of gastrointestinal epithelium    Protection of epithelial surfaces of the gastrointestinal tract from proteolytic and caustic digestive agents.
    GO:0010951    negative regulation of endopeptidase activity    Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
    GO:0010466    negative regulation of peptidase activity    Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins.
    GO:0002576    platelet degranulation    The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
    GO:0019216    regulation of lipid metabolic process    Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving lipids.
cellular component
    GO:0072562    blood microparticle    A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
    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: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.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0031093    platelet alpha granule lumen    The volume enclosed by the membrane of the platelet alpha granule.

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    Gln A:105 - Ser A:106   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        AACT_HUMAN | P010111as4 1qmn 2ach 3caa 4caa

(-) Related Entries Specified in the PDB File

1as4 CLEAVED ANTICHYMOTRYPSIN A349R
1qmn ALPHA1-ANTICHYMOTRYPSIN
1yxa SERPIN 3N, A MURINE ORTHOLOGUE OF HUMAN ANTICHYMOTRYPSIN
2ach CRYSTAL STRUCTURE OF CLEAVED HUMAN ALPHA1-ANTICHYMOTRYPSIN
3caa CLEAVED ANTICHYMOTRYPSIN A347R
4caa CLEAVED ANTICHYMOTRYPSIN T345R