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(-) Description

Title :  CRYSTAL STRUCTURE OF MOUSE NEUROSERPIN (CLEAVED FORM)
 
Authors :  C. Briand, S. V. Kozlov, P. Sonderegger, M. G. Gruetter
Date :  09 Jul 01  (Deposition) - 09 Jan 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.06
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Serpin, Serine Protease Inhibitor, Neuronal Serpin, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Briand, S. V. Kozlov, P. Sonderegger, M. G. Grutter
Crystal Structure Of Neuroserpin: A Neuronal Serpin Involved In A Conformational Disease.
Febs Lett. V. 505 18 2001
PubMed-ID: 11557034  |  Reference-DOI: 10.1016/S0014-5793(01)02764-8
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NEUROSERPIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAK400
    Expression System Strain: DH5ALPHA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SERPINI1 OR PI12 OR SPI17
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: PROTEASE INHIBITOR 17
 
Molecule 2 - NEUROSERPIN
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAK400
    Expression System Strain: DH5ALPHA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SERPINI1 OR PI12 OR SPI17
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: PROTEASE INHIBITOR 17
 
Molecule 3 - NEUROSERPIN
    Chains: E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAK400
    Expression System Strain: DH5ALPHA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SERPINI1 OR PI12 OR SPI17
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: PROTEASE INHIBITOR 17

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1JJO)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SERPINPS00284 Serpins signature.NEUS_MOUSE370-380
 		  2E:364-374
F:364-374

(-) Exons   (0, 0)

(no "Exon" information available for 1JJO)

(-) 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:40
 aligned with NEUS_MOUSE | O35684 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:40
                                    34        44        54        64
          NEUS_MOUSE     25 TITEWSVNMYNHLRGTGEDENILFSPLSIALAMGMMELGA   64
               SCOP domains d1jjo.1 A:,C:,E: Neuroserpin             SCOP domains
               CATH domains 1jjoA00 A:29-68 Helix hairpin bin        CATH domains
               Pfam domains ---------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh...........eeehhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------- PROSITE
                 Transcript ---------------------------------------- Transcript
                1jjo A   29 TITEWSVNMYNHLRGTGEDENILFSPLSIALAMGMMELGA   68
                                    38        48        58        68


Chain B from PDB  Type:PROTEIN  Length:40
 aligned with NEUS_MOUSE | O35684 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:40
                                    34        44        54        64
          NEUS_MOUSE     25 TITEWSVNMYNHLRGTGEDENILFSPLSIALAMGMMELGA   64
               SCOP domains d1jjo.2 B:,D:,F: Neuroserpin             SCOP domains
               CATH domains 1jjoB00 B:29-68 Helix hairpin bin        CATH domains
               Pfam domains ---------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhh...........eeehhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------- PROSITE
                 Transcript ---------------------------------------- Transcript
                1jjo B   29 TITEWSVNMYNHLRGTGEDENILFSPLSIALAMGMMELGA   68
                                    38        48        58        68


Chain C from PDB  Type:PROTEIN  Length:244
 aligned with NEUS_MOUSE | O35684 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:261
                                   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 
          NEUS_MOUSE    101 ENQYVMKLANSLFVQNGFHVNEEFLQMLKMYFNAEVNHVDFSQNVAVANSINKWVENYTNSLLKDLVSPEDFDGVTNLALINAVYFKGNWKSQFRPENTRTFSFTKDDESEVQIPMMYQQGEFYYGEFSDGSNEAGGIYQVLEIPYEGDEISMMLALSRQEVPLATLEPLLKAQLIEEWANSVKKQKVEVYLPRFTVEQEIDLKDILKALGVTEIFIKDANLTAMSDKKELFLSKAVHKSCIEVNEEGSEAAAASGMIAIS  361
               SCOP domains d1jjo.1 A:,C:,E: Neuroserpin                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1jjoC01 C:107-203,C:290-356 Antithrombin, subunit I, domain 2                                      1jjoC02 C:204-289 Alpha-1-antitrypsin, domain 1                                               1jjoC01 C:107-203,C:2                 90-356 Antithrombin, subunit - CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee.....hhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhh..................eeeeeeeeeeee..........eeeee.......eeeeeeeee...eeeeee........eeeeeeee.....eeeeeee.....hhhhh....hhhhhhhhhhh.ee...eeeee..eeee..hhhhhhhh.....-----------------...eeeeeeeee....eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1jjo C  107 ENQYVMKLANSLFVQNGFHVNEEFLQMLKMYFNAEVNHVDFSQNVAVANSINKWVENYTNSLLKDLVSPEDFDGVTNLALINAVYFKGNWKSQFRPENTRTFSFTKDDESEVQIPMMYQQGEFYYGEFSDGSNEAGGIYQVLEIPYEGDEISMMLALSRQEVPLATLEPLLKAQLIEEWANSVKKQKVEVYLPRFTVEQEIDLKDILKALGVTE-----------------FLSKAVHKSCIEVNEEGSEAAAASGMIAIS  357
                                   116       126       136       146       156       166       176   ||  184       194       204       214       224       234 ||||||238       247       257 |     266       276       286       296       306   |     -         - |     336       346       356 
                                                                                                  179A|                                                     235A|||||        246A         258A                                                 310               328                             
                                                                                                   179B                                                      235B||||                                                                                                                            
                                                                                                                                                              235C|||                                                                                                                            
                                                                                                                                                               235D||                                                                                                                            
                                                                                                                                                                235E|                                                                                                                            
                                                                                                                                                                 235F                                                                                                                            


Chain D from PDB  Type:PROTEIN  Length:244
 aligned with NEUS_MOUSE | O35684 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:261
                                   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 
          NEUS_MOUSE    101 ENQYVMKLANSLFVQNGFHVNEEFLQMLKMYFNAEVNHVDFSQNVAVANSINKWVENYTNSLLKDLVSPEDFDGVTNLALINAVYFKGNWKSQFRPENTRTFSFTKDDESEVQIPMMYQQGEFYYGEFSDGSNEAGGIYQVLEIPYEGDEISMMLALSRQEVPLATLEPLLKAQLIEEWANSVKKQKVEVYLPRFTVEQEIDLKDILKALGVTEIFIKDANLTAMSDKKELFLSKAVHKSCIEVNEEGSEAAAASGMIAIS  361
               SCOP domains d1jjo.2 B:,D:,F: Neuroserpin                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1jjoD01 D:107-203,D:290-356 Antithrombin, subunit I, domain 2                                      1jjoD02 D:204-289 Alpha-1-antitrypsin, domain 1                                               1jjoD01 D:107-203,D:2                 90-356 Antithrombin, subunit - CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeee.....hhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhh..................eeeeeeeeeeee..........eeeee.......eeeeeeeee...eeeeee........eeeeeeee.....eeeeeee.....hhhhh....hhhhhhhhhhh.ee...eeeee..eeee..hhhhhhhh.....-----------------...eeeeeeeee....eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1jjo D  107 ENQYVMKLANSLFVQNGFHVNEEFLQMLKMYFNAEVNHVDFSQNVAVANSINKWVENYTNSLLKDLVSPEDFDGVTNLALINAVYFKGNWKSQFRPENTRTFSFTKDDESEVQIPMMYQQGEFYYGEFSDGSNEAGGIYQVLEIPYEGDEISMMLALSRQEVPLATLEPLLKAQLIEEWANSVKKQKVEVYLPRFTVEQEIDLKDILKALGVTE-----------------FLSKAVHKSCIEVNEEGSEAAAASGMIAIS  357
                                   116       126       136       146       156       166       176   ||  184       194       204       214       224       234 ||||||238       247       257 |     266       276       286       296       306   |     -         - |     336       346       356 
                                                                                                  179A|                                                     235A|||||        246A         258A                                                 310               328                             
                                                                                                   179B                                                      235B||||                                                                                                                            
                                                                                                                                                              235C|||                                                                                                                            
                                                                                                                                                               235D||                                                                                                                            
                                                                                                                                                                235E|                                                                                                                            
                                                                                                                                                                 235F                                                                                                                            


Chain E from PDB  Type:PROTEIN  Length:33
 aligned with NEUS_MOUSE | O35684 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:39
                                   376       386       396         
          NEUS_MOUSE    367 YPQVIVDHPFLYLIRNRKSGIILFMGRVMNPETMNTSGH  405
               SCOP domains d1jjo.1 A:,C:,E: Neuroserpin            SCOP domains
               CATH domains --------------------------------------- CATH domains
               Pfam domains --------------------------------------- Pfam domains
         Sec.struct. author ..eee....eeeeeee.....eeeeeee....------. Sec.struct. author
                 SAPs(SNPs) --------------------------------------- SAPs(SNPs)
                    PROSITE ---SERPIN     ------------------------- PROSITE
                 Transcript --------------------------------------- Transcript
                1jjo E  361 YPQVIVDHPFLYLIRNRKSGIILFMGRVMNPH------H  393
                                   370       380       390 |      |
                                                         392    393


Chain F from PDB  Type:PROTEIN  Length:33
 aligned with NEUS_MOUSE | O35684 from UniProtKB/Swiss-Prot  Length:410

    Alignment length:39
                                   376       386       396         
          NEUS_MOUSE    367 YPQVIVDHPFLYLIRNRKSGIILFMGRVMNPETMNTSGH  405
               SCOP domains d1jjo.2 B:,D:,F: Neuroserpin            SCOP domains
               CATH domains --------------------------------------- CATH domains
           Pfam domains (1) Serpin-1jjoF01 F:361-391       -------- Pfam domains (1)
           Pfam domains (2) Serpin-1jjoF02 F:361-391       -------- Pfam domains (2)
           Pfam domains (3) Serpin-1jjoF03 F:361-391       -------- Pfam domains (3)
           Pfam domains (4) Serpin-1jjoF04 F:361-391       -------- Pfam domains (4)
           Pfam domains (5) Serpin-1jjoF05 F:361-391       -------- Pfam domains (5)
           Pfam domains (6) Serpin-1jjoF06 F:361-391       -------- Pfam domains (6)
         Sec.struct. author ..eee....eeeeeee.....eeeeeee....------. Sec.struct. author
                 SAPs(SNPs) --------------------------------------- SAPs(SNPs)
                    PROSITE ---SERPIN     ------------------------- PROSITE
                 Transcript --------------------------------------- Transcript
                1jjo F  361 YPQVIVDHPFLYLIRNRKSGIILFMGRVMNPH------H  393
                                   370       380       390 |      |
                                                         392    393
   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, 2)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Serpin] (63)
(-)
Family: Serpin (63)
(-)
Mus musculus (Mouse) (7)
1aSerpin-1jjoF01F:361-391
1bSerpin-1jjoF02F:361-391
1cSerpin-1jjoF03F:361-391
1dSerpin-1jjoF04F:361-391
1eSerpin-1jjoF05F:361-391
1fSerpin-1jjoF06F:361-391

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (NEUS_MOUSE | O35684)
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.
    GO:0030155    regulation of cell adhesion    Any process that modulates the frequency, rate or extent of attachment of a cell to another cell or to the extracellular matrix.
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.
    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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