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(-) Description

Title :  ELUCIDATING THE STRUCTURAL CHEMISTRY OF GLYCOSAMINOGLYCAN RECOGNITION BY PROTEIN C INHIBITOR
 
Authors :  L. A. Kuhn, J. H. Griffin, C. L. Fisher, J. S. Greengard, J. A. Tainer
Date :  24 Jul 90  (Deposition) - 15 Apr 93  (Release) - 15 Oct 94  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B
Keywords :  Proteinase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  L. A. Kuhn, J. H. Griffin, C. L. Fisher, J. S. Greengard, B. N. Bouma, F. Espana, J. A. Tainer
Elucidating The Structural Chemistry Of Glycosaminoglycan Recognition By Protein C Inhibitor.
Proc. Natl. Acad. Sci. Usa V. 87 8506 1990
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN C INHIBITOR (CHAIN A)
    ChainsA
    EngineeredYES
 
Molecule 2 - PROTEIN C INHIBITOR (CHAIN B)
    ChainsB
    EngineeredYES

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2PAI)

(-) Sites  (0, 0)

(no "Site" information available for 2PAI)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2PAI)

(-) Cis Peptide Bonds  (2, 2)

Theoretical Model
No.Residues
1Leu A:19 -His A:20
2Ala B:360 -Arg B:361

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (8, 8)

Theoretical Model (8, 8)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_013080S44GIPSP_HUMANPolymorphism2069975AS29G
2UniProtVAR_007100A55VIPSP_HUMANPolymorphism6118AA40V
3UniProtVAR_013081S64NIPSP_HUMANPolymorphism6115AN49N
4UniProtVAR_013082G94VIPSP_HUMANPolymorphism2069976AG79V
5UniProtVAR_007101K105EIPSP_HUMANPolymorphism6119AK90E
6UniProtVAR_013083L115PIPSP_HUMANPolymorphism2069999AL100P
7UniProtVAR_013900P121AIPSP_HUMANPolymorphism6120AP106A
8UniProtVAR_013084G217RIPSP_HUMANPolymorphism6114AG202R

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

(-) PROSITE Motifs  (1, 1)

Theoretical Model (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SERPINPS00284 Serpins signature.IPSP_HUMAN382-392  1B:367-377

(-) Exons   (4, 5)

Theoretical Model (4, 5)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003295971ENSE00001765110chr14:95047731-9504782797IPSP_HUMAN-00--
1.2ENST000003295972ENSE00001514145chr14:95047952-9504804796IPSP_HUMAN-00--
1.3aENST000003295973aENSE00001382261chr14:95053683-95054318636IPSP_HUMAN1-2072071A:5-192
-
188
-
1.4ENST000003295974ENSE00001098004chr14:95056378-95056648271IPSP_HUMAN207-297911A:192-282
-
91
-
1.5ENST000003295975ENSE00001098000chr14:95057086-95057233148IPSP_HUMAN297-346501A:282-331
-
50
-
1.6ENST000003295976ENSE00001376792chr14:95058394-950594571064IPSP_HUMAN347-406602A:332-358
B:359-391
27
33

(-) Sequences/Alignments

Theoretical Model
   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:354
 aligned with IPSP_HUMAN | P05154 from UniProtKB/Swiss-Prot  Length:406

    Alignment length:354
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369    
           IPSP_HUMAN    20 HRHHPREMKKRVEDLHVGATVAPSSRRDFTFDLYRALASAAPSQSIFFSPVSISMSLAMLSLGAGSSTKMQILEGLGLNLQKSSEKELHRGFQQLLQELNQPRDGFQLSLGNALFTDLVVDLQDTFVSAMKTLYLADTFPTNFRDSAGAMKQINDYVAKQTKGKIVDLLKNLDSNAVVIMVNYIFFKAKWETSFNHKGTQEQDFYVTSETVVRVPMMSREDQYHYLLDRNLSCRVVGVPYQGNATALFILPSEGKMQQVENGLSEKTLRKWLKMFKKRQLELYLPKFSIEGSYQLEKVLPSLGISNVFTSHADLSGISNHSNIQVSEMVHKAVVEVDESGTRAAAATGTIFTFR 373
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhh..hhhhhhhhhhh........hhhhhhhhhhhhhhhhh....eeeeeeeeeeee.....hhhhhhhhhhh.eeeeeee....hhhhhhhhhhhhhhhh...............eeeeeeeeeeeeee...................eeeeeeeeeeeeeeeeeee...eeeeeeeeee..eeeeeeeee...hhhhhhh..hhhhhhhhh....eeeeeee.eeeeeeeee.hhhhhhh...................eeeeeeeeeeeeeeee..eeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------G----------V--------N-----------------------------V----------E---------P-----A-----------------------------------------------------------------------------------------------R------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.3a  PDB: A:5-192 UniProt: 1-207 [INCOMPLETE]                                                                                                                                         -----------------------------------------------------------------------------------------Exon 1.5  PDB: A:282-331 UniProt: 297-346         Exon 1.6  PDB: A:332-358    Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.4  PDB: A:192-282 UniProt: 207-297                                                  ---------------------------------------------------------------------------- Transcript 1 (2)
                 2pai A   5 HRHHPREMKKRVEDLHVGATVAPSSRRDFTFDLYRALASAAPSQNIFFSPVSISMSLAMLSLGAGSSTKMQILEGLGLNLQKSSEKELHRGFQQLLQELNQPRDGFQLSLGNALFTDLVVDLQDTFVSAMKTLYLADTFPTNFRDSAGAMKQINDYVAKQTKGKIVDLLKNLDSNAVVIMVNYIFFKAKWETSFNHKGTQEQDFYVTSETVVRVPMMSREDQYHYLLDRNLSCRVVGVPYQGNATALFILPSEGKMQQVENGLSEKTLRKWLKMFKKRQLELYLPKFSIEGSYQLEKVLPSLGISNVFTSHADLSRISNHSNIQVSEMVHKAVVEVDESGTRAAAATGTIFTFR 358
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354    

Chain B from PDB  Type:PROTEIN  Length:33
 aligned with IPSP_HUMAN | P05154 from UniProtKB/Swiss-Prot  Length:406

    Alignment length:33
                                   383       393       403   
           IPSP_HUMAN   374 SARLNSQRLVFNRPFLMFIVDNNILFLGKVNRP 406
               SCOP domains --------------------------------- SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author ...eeeee..eeeeeeee...eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------SERPIN     -------------- PROSITE
           Transcript 1 (1) Exon 1.6  PDB: B:359-391          Transcript 1 (1)
           Transcript 1 (2) --------------------------------- Transcript 1 (2)
                 2pai B 359 SARLNSQRLVFNRPFLMFIVDNNILFLGKVNRP 391
                                   368       378       388   

   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 2PAI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2PAI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2PAI)

(-) Gene Ontology  (38, 38)

Theoretical Model(hide GO term definitions)
Chain A,B   (IPSP_HUMAN | P05154)
molecular function
    GO:0032190    acrosin binding    Interacting selectively and non-covalently with acrosin, a protein that is found in the acrosomes of sperm and possesses protease and carbohydrate binding activities.
    GO:0005539    glycosaminoglycan binding    Interacting selectively and non-covalently with any glycan (polysaccharide) containing a substantial proportion of aminomonosaccharide residues.
    GO:0008201    heparin binding    Interacting selectively and non-covalently with heparin, any member of a group of glycosaminoglycans found mainly as an intracellular component of mast cells and which consist predominantly of alternating alpha-(1->4)-linked D-galactose and N-acetyl-D-glucosamine-6-sulfate residues.
    GO:0030414    peptidase inhibitor activity    Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
    GO:0031210    phosphatidylcholine binding    Interacting selectively and non-covalently with phosphatidylcholine, a class of glycophospholipids in which a phosphatidyl group is esterified to the hydroxyl group of choline.
    GO:0002020    protease binding    Interacting selectively and non-covalently with any protease or peptidase.
    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:0001972    retinoic acid binding    Interacting selectively and non-covalently with retinoic acid, 3,7-dimethyl-9-(2,6,-trimethyl-1-cyclohexen-1-yl)-2,4,6,8-nonatetraenoic acid.
    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:0007596    blood coagulation    The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers.
    GO:0007342    fusion of sperm to egg plasma membrane    The binding and fusion of a sperm, having penetrated the zona pellucida, with the plasma membrane of the oocyte. Binding occurs at the posterior (post-acrosomal) region of the sperm head.
    GO:0006869    lipid transport    The directed movement of lipids into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Lipids are compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    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:0051346    negative regulation of hydrolase activity    Any process that stops or reduces the rate of hydrolase activity, the catalysis of the hydrolysis of various bonds.
    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:0045861    negative regulation of proteolysis    Any process that stops, prevents, or reduces the frequency, rate or extent of the hydrolysis of a peptide bond or bonds within a protein.
    GO:0007338    single fertilization    The union of male and female gametes to form a zygote.
    GO:0007283    spermatogenesis    The process of formation of spermatozoa, including spermatocytogenesis and spermiogenesis.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0002080    acrosomal membrane    The membrane that surrounds the acrosomal lumen. The acrosome is a special type of lysosome in the head of a spermatozoon that contains acid hydrolases and is concerned with the breakdown of the outer membrane of the ovum during fertilization.
    GO:0009897    external side of plasma membrane    The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0031091    platelet alpha granule    A secretory organelle found in blood platelets, which is unique in that it exhibits further compartmentalization and acquires its protein content via two distinct mechanisms: (1) biosynthesis predominantly at the megakaryocyte (MK) level (with some vestigial platelet synthesis) (e.g. platelet factor 4) and (2) endocytosis and pinocytosis at both the MK and circulating platelet levels (e.g. fibrinogen (Fg) and IgG).
    GO:0031094    platelet dense tubular network    A network of membrane-bounded compartments found in blood platelets, where they regulate platelet activation by sequestering or releasing calcium. The dense tubular network exists as thin elongated membranes in resting platelets, and undergoes a major ultrastructural change, to a rounded vesicular form, upon addition of thrombin.
    GO:0036029    protein C inhibitor-KLK3 complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and prostate-specific antigen (KLK3); formation of the complex inhibits the serine protease activity of prostate-specific antigen.
    GO:0036026    protein C inhibitor-PLAT complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and tissue-type plasminogen activator (PLAT); formation of the complex inhibits the serine protease activity of tissue-type plasminogen activator.
    GO:0036027    protein C inhibitor-PLAU complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and urokinase-type plasminogen activator (PLAU); formation of the complex inhibits the serine protease activity of urokinase-type plasminogen activator.
    GO:0036025    protein C inhibitor-TMPRSS11E complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and transmembrane protease serine 11E (TMPRSS11E); formation of the complex inhibits the serine protease activity of transmembrane protease serine 11E.
    GO:0036024    protein C inhibitor-TMPRSS7 complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and transmembrane protease serine 7 (TMPRSS7); formation of the complex inhibits the serine protease activity of transmembrane protease serine 7.
    GO:0097181    protein C inhibitor-coagulation factor V complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and coagulation factor V (F5); formation of the complex inhibits the serine protease activity of coagulation factor V.
    GO:0097183    protein C inhibitor-coagulation factor XI complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and coagulation factor XI (F11); formation of the complex inhibits the serine protease activity of coagulation factor XI.
    GO:0097182    protein C inhibitor-coagulation factor Xa complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and coagulation factor Xa (F10); formation of the complex inhibits the serine protease activity of coagulation factor Xa.
    GO:0036030    protein C inhibitor-plasma kallikrein complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and plasma kallikrein (KLK1B); formation of the complex inhibits the serine protease activity of plasma kallikrein.
    GO:0036028    protein C inhibitor-thrombin complex    A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and thrombin (F2); formation of the complex inhibits the serine protease activity of thrombin.
    GO:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

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 Related Entries

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

UniProtKB/Swiss-Prot
        IPSP_HUMAN | P051541lq8 1pai 2hi9 2ol2 3dy0

(-) Related Entries Specified in the PDB File

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