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(-) Description

Title :  THE STRUCTURE OF ACTIVE SERPIN K FROM MANDUCA SEXTA AND A MODEL FOR SERPIN-PROTEASE COMPLEX FORMATION
 
Authors :  J. Li, Z. Wang, B. Canagarajah, H. Jiang, M. Kanost, E. J. Goldsmith
Date :  06 Mar 98  (Deposition) - 23 Mar 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Serine Protease Inhibitor, Serpin, Protease (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Li, Z. Wang, B. Canagarajah, H. Jiang, M. Kanost, E. J. Goldsmith
The Structure Of Active Serpin 1K From Manduca Sexta.
Structure Fold. Des. V. 7 103 1999
PubMed-ID: 10368276  |  Reference-DOI: 10.1016/S0969-2126(99)80013-6
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SERPIN K
    Cellular Location: EXTRACELLULAR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cellular Location: CYTOPLASM
    Expression System Plasmid: H6PQE-60
    Expression System Strain: XL1-BLUE
    Expression System Taxid: 562
    Organism Common: TOBACCO HORNWORM
    Organism Scientific: MANDUCA SEXTA
    Organism Taxid: 7130
    Tissue: HEMOLYMPH

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1SEK)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1SEK)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SEK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SERPINPS00284 Serpins signature.SERA_MANSE367-377  1A:361-371
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SERPINPS00284 Serpins signature.SERA_MANSE367-377  2A:361-371

(-) Exons   (0, 0)

(no "Exon" information available for 1SEK)

(-) 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:376
 aligned with Q25526_MANSE | Q25526 from UniProtKB/TrEMBL  Length:392

    Alignment length:376
                                    26        36        46        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      
         Q25526_MANSE    17 GETDLQKILRESNDQFTAQMFSEVVKANPGQNVVLSAFSVLPPLGQLALASVGESHDELLRALALPNDNVTKDVFADLNRGVRAVKGVDLKMASKIYVAKGLELNDDFAAVSRDVFGSEVQNVDFVKSVEAAGAINKWVEDQTNNRIKNLVDPDALDETTRSVLVNAIYFKGSWKDKFVKERTMDRDFHVSKDKTIKVPTMIGKKDVRYADVPELDAKMIEMSYEGDQASMIIILPNQVDGITALEQKLKDPKALSRAEERLYNTEVEIYLPKFKIETTTDLKEVLSNMNIKKLFTPGAARLENLLKTKESLYVDAAIQKAFIEVNEEGAEAAAANAFKITTYSFHFVPKVEINKPFFFSLKYNRNSMFSGVCVQP 392
               SCOP domains d1seka_ A: Serpin K                                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ---------------------------------1sekA01 A:44-179,A:287-332,A:343-352 Antithrombin, subunit I, domain 2                                                                  1sekA02 A:180-286,A:333-342 Alpha-1-antitrypsin, domain 1                                                  1sekA01 A:44-179,A:287-332,A:343-352          1sekA02   1sekA01   ---------------------------------- CATH domains
               Pfam domains ----------Serpin-1sekA01 A:21-386                                                                                                                                                                                                                                                                                                                                                        Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh......eee..hhhhhhhhhhhhh..hhhhhhhhhhh....hhhhhhhhhhhhhh......eeeeeeeeeeee......hhhhhhhhh....eeeee.hhhhhhhhhhhhhhhhhh..........hhh......eeeeeeeeeee.......hhh.eeeeee.....eeeeeeeeeeeeeeeeeehhh.eeeeeee.hhh.eeeeeeee.....hhhhhhhhh...hhhhhhhh.eeeeeeeeee.eeeeeeeehhhhhhh....hhh....................eeeeeeeeee.......................eeeee...eeeeeee..eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sek A  11 GETDLQKILRESNDQFTAQMFSEVVKANPGQNVVLSAFSVLPPLGQLALASVGESHDELLRALALPNDNVTKDVFADLNRGVRAVKGVDLKMASKIYVAKGLELNDDFAAVSRDVFGSEVQNVDFVKSVEAAGAINKWVEDQTNNRIKNLVDPDALDETTRSVLVNAIYFKGSWKDKFNKERTMDRDFHVSKDKTIKVPTMIGKKDVRYADVPELDAKMIEMSYEGDQASMIIILPNQVDGITALEQKLKDPKALSRAEERLYNTEVEIYLPKFKIETTTDLKEVLSNMNIKKLFTPGAARLENLLKTKESLYVDAAIQKAFIEVNEEGAEAAAANAFKITTYSFHFVPKVEINKPFFFSLKYNRNSMFSGVCVQP 386
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380      


Chain A from PDB  Type:PROTEIN  Length:376
 aligned with SERA_MANSE | P14754 from UniProtKB/Swiss-Prot  Length:392

    Alignment length:376
                                    26        36        46        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      
           SERA_MANSE    17 GETDLQKILRESNDQFTAQMFSEVVKANPGQNVVLSAFSVLPPLGQLALASVGESHDELLRALALPNDNVTKDVFADLNRGVRAVKGVDLKMASKIYVAKGLELNDDFAAVSRDVFGSEVQNVDFVKSVEAAGAINKWVEDQTNNRIKNLVDPDALDETTRSVLVNAIYFKGSWKDKFVKERTMDRDFHVSKDKTIKVPTMIGKKDVRYADVPELDAKMIEMSYEGDQASMIIILPNQVDGITALEQKLKDPKALSRAEERLYNTEVEIYLPKFKIETTTDLKEVLSNMNIKKLFTPGAARLENLLKTKESLYVDAAIQKAFIEVNEEGAEAAAANAFGIVPASLILYPEVHIDRPFYFELKIDGIPMFNGKVIEP 392
               SCOP domains d1seka_ A: Serpin K                                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ---------------------------------1sekA01 A:44-179,A:287-332,A:343-352 Antithrombin, subunit I, domain 2                                                                  1sekA02 A:180-286,A:333-342 Alpha-1-antitrypsin, domain 1                                                  1sekA01 A:44-179,A:287-332,A:343-352          1sekA02   1sekA01   ---------------------------------- CATH domains
               Pfam domains ----------Serpin-1sekA01 A:21-386                                                                                                                                                                                                                                                                                                                                                        Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhh......eee..hhhhhhhhhhhhh..hhhhhhhhhhh....hhhhhhhhhhhhhh......eeeeeeeeeeee......hhhhhhhhh....eeeee.hhhhhhhhhhhhhhhhhh..........hhh......eeeeeeeeeee.......hhh.eeeeee.....eeeeeeeeeeeeeeeeeehhh.eeeeeee.hhh.eeeeeeee.....hhhhhhhhh...hhhhhhhh.eeeeeeeeee.eeeeeeeehhhhhhh....hhh....................eeeeeeeeee.......................eeeee...eeeeeee..eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     --------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1sek A  11 GETDLQKILRESNDQFTAQMFSEVVKANPGQNVVLSAFSVLPPLGQLALASVGESHDELLRALALPNDNVTKDVFADLNRGVRAVKGVDLKMASKIYVAKGLELNDDFAAVSRDVFGSEVQNVDFVKSVEAAGAINKWVEDQTNNRIKNLVDPDALDETTRSVLVNAIYFKGSWKDKFNKERTMDRDFHVSKDKTIKVPTMIGKKDVRYADVPELDAKMIEMSYEGDQASMIIILPNQVDGITALEQKLKDPKALSRAEERLYNTEVEIYLPKFKIETTTDLKEVLSNMNIKKLFTPGAARLENLLKTKESLYVDAAIQKAFIEVNEEGAEAAAANAFKITTYSFHFVPKVEINKPFFFSLKYNRNSMFSGVCVQP 386
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380
   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 Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: Serpin] (63)

(-) Gene Ontology  (8, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q25526_MANSE | Q25526)
molecular function
    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.
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    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.

Chain A   (SERA_MANSE | P14754)
molecular function
    GO:0030414    peptidase inhibitor activity    Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
    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: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.
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

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        SERA_MANSE | P14754: 1k9o

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