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(-) Description

Title :  STRUCTURAL COMPARISON OF TWO SERINE PROTEINASE-PROTEIN INHIBITOR COMPLEXES. EGLIN-C-SUBTILISIN CARLSBERG AND CI-2-SUBTILISIN NOVO
 
Authors :  C. A. Mcphalen, M. N. G. James
Date :  05 Sep 88  (Deposition) - 07 Sep 88  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  E,I
Keywords :  Complex(Serine Proteinase-Inhibitor) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. A. Mcphalen, M. N. James
Structural Comparison Of Two Serine Proteinase-Protein Inhibitor Complexes: Eglin-C-Subtilisin Carlsberg And Ci-2-Subtilisin Novo.
Biochemistry V. 27 6582 1988
PubMed-ID: 3064813  |  Reference-DOI: 10.1021/BI00417A058
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SUBTILISIN CARLSBERG
    Chains: E
    EC Number: 3.4.21.62
    Engineered: YES
    Organism Scientific: BACILLUS LICHENIFORMIS
    Organism Taxid: 1402
 
Molecule 2 - EGLIN C
    Chains: I
    Engineered: YES
    Expression System: UNIDENTIFIED
    Expression System Taxid: 32644
    Organism Common: MEDICINAL LEECH
    Organism Scientific: HIRUDO MEDICINALIS
    Organism Taxid: 6421

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : EI

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN E:2 , ASP E:41 , LEU E:75 , ASN E:77 , THR E:79 , VAL E:81BINDING SITE FOR RESIDUE CA E 276
2AC2SOFTWAREALA E:169 , TYR E:171 , VAL E:174 , HOH E:361 , HOH E:430BINDING SITE FOR RESIDUE CA E 277
3AC3SOFTWAREALA E:37 , HIS E:39 , LEU E:42BINDING SITE FOR RESIDUE CA E 278
4ACTAUTHORASP E:32 , HIS E:64 , SER E:221CATALYTIC SITE
5IO1AUTHORGLN E:2 , ASP E:41 , LEU E:75 , ASN E:77 , THR E:79 , VAL E:81ION BINDING SITE
6IO2AUTHORALA E:169 , TYR E:171 , VAL E:174 , HOH E:361 , HOH E:430ION BINDING SITE
7IO3AUTHORALA E:37 , HIS E:39 , LEU E:42 , HOH E:373 , HOH E:463ION BINDING SITE
8RSBAUTHORLEU I:59 , ASP I:60INHIBITOR REACTIVE SITE

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr E:167 -Pro E:168
2Pro E:210 -Thr E:211

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2SEC)

(-) PROSITE Motifs  (4, 4)

Asymmetric/Biological Unit (4, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1POTATO_INHIBITORPS00285 Potato inhibitor I family signature.ICIC_HIRME10-21  1I:24-35
2SUBTILASE_ASPPS00136 Serine proteases, subtilase family, aspartic acid active site.SUBT_BACLI133-144  1E:28-39
3SUBTILASE_HISPS00137 Serine proteases, subtilase family, histidine active site.SUBT_BACLI168-178  1E:64-74
4SUBTILASE_SERPS00138 Serine proteases, subtilase family, serine active site.SUBT_BACLI323-333  1E:219-229

(-) Exons   (0, 0)

(no "Exon" information available for 2SEC)

(-) 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 E from PDB  Type:PROTEIN  Length:274
 aligned with SUBT_BACLI | P00780 from UniProtKB/Swiss-Prot  Length:379

    Alignment length:274
                                   115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375    
           SUBT_BACLI   106 AQTVPYGIPLIKADKVQAQGFKGANVKVAVLDTGIQASHPDLNVVGGASFVAGEAYNTDGNGHGTHVAGTVAALDNTTGVLGVAPSVSLYAVKVLNSSGSGTYSGIVSGIEWATTNGMDVINMSLGGPSGSTAMKQAVDNAYARGVVVVAAAGNSGSSGNTNTIGYPAKYDSVIAVGAVDSNSNRASFSSVGAELEVMAPGAGVYSTYPTSTYATLNGTSMASPHVAGAAALILSKHPNLSASQVRNRLSSTATYLGSSFYYGKGLINVEAAAQ 379
               SCOP domains d2sece_ E: Subtilisin                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 2secE00 E:1-275  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                               CATH domains
               Pfam domains --------------------------Peptidase_S8-2secE01 E:27-275                                                                                                                                                                                                                            Pfam domains
         Sec.struct. author .....hhhhhh.hhhhhh.......eeeeeee.............eeeee...........hhhhhhhhhhhh..............eeeeeee.......hhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhh..eeeeee.....................eeeeee.................eeeee..eeeee...eeeee..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh......hhhhhh....hhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------SUBTILASE_AS-----------------------SUBTILASE_H------------------------------------------------------------------------------------------------------------------------------------------------SUBTILASE_S---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2sec E   1 AQTVPYGIPLIKADKVQAQGFKGANVKVAVLDTGIQASHPDLNVVGGASFVAGEAYNTDGNGHGTHVAGTVAALDNTTGVLGVAPSVSLYAVKVLNSSGSGSYSGIVSGIEWATTNGMDVINMSLGGASGSTAMKQAVDNAYARGVVVVAAAGNSGNSGSTNTIGYPAKYDSVIAVGAVDSNSNRASFSSVGAELEVMAPGAGVYSTYPTNTYATLNGTSMASPHVAGAAALILSKHPNLSASQVRNRLSSTATYLGSSFYYGKGLINVEAAAQ 275
                                    10        20        30        40        50   ||   61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271    
                                                                                54|                                                                                                                                                                                                                           
                                                                                 56                                                                                                                                                                                                                           


Chain I from PDB  Type:PROTEIN  Length:64
 aligned with ICIC_HIRME | P01051 from UniProtKB/Swiss-Prot  Length:70

    Alignment length:64
                                    16        26        36        46        56        66    
           ICIC_HIRME     7 LKSFPEVVGKTVDQAREYFTLHYPQYDVYFLPEGSPVTLDLRYNRVRVFYNPGTNVVNHVPHVG  70
               SCOP domains d2seci_ I: Eglin C                                               SCOP domains
               CATH domains 2secI00 I:21-83 Trypsin Inhibitor V, subunit A                   CATH domains
               Pfam domains potato_inhibit-2secI01 I:21-83                                   Pfam domains
         Sec.struct. author .eee......hhhhhhhhhhhhh...eeeeeee..........eeeeeee..........eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---POTATO_INHIB------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------- Transcript
                 2sec I  21 LKSFPEVVGKTVDQAREYFTLHYPQYNVYFLPEGSPVTLDLRYNRVRVFYNPGTNVVNHVPHVG  83
                                    30        40        50        60        70  |     79    
                                                                              72A
   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, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: CI-2 (32)
(-)
Clan: no clan defined [family: Peptidase_S8] (104)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain E   (SUBT_BACLI | P00780)
molecular function
    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: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:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0030435    sporulation resulting in formation of a cellular spore    The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
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.

Chain I   (ICIC_HIRME | P01051)
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:0009611    response to wounding    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to the organism.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ICIC_HIRME | P01051: 1acb 1cse 1egl 1egp 1mee 1sbn 1sib 1tec 2tec 3tec 4b1t 4b2a 4b2b 4b2c 4h4f
        SUBT_BACLI | P00780: 1af4 1av7 1avt 1be6 1be8 1bfk 1bfu 1c3l 1cse 1oyv 1r0r 1sbc 1sca 1scb 1scd 1scn 1sel 1vsb 1yu6 2wuv 2wuw 3unx 3vsb 4c3u 4c3v

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