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(-) Description

Title :  HIGH RESOLUTION STRUCTURES OF MONOMERIC S. PYOGENES SPEB REVEALS ROLE OF GLYCINE-RICH ACTIVE SITE LOOP
 
Authors :  G. E. Gonzalez, D. W. Wolan
Date :  10 Jan 12  (Deposition) - 06 Jun 12  (Release) - 27 Feb 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.38
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Papain Fold, Cysteine Protease, Secreted, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. E. Gonzalez-Paez, D. W. Wolan
Ultrahigh And High Resolution Structures And Mutational Analysis Of Monomeric Streptococcus Pyogenes Speb Reveal A Functional Role For The Glycine-Rich C-Terminal Loop.
J. Biol. Chem. V. 287 24412 2012
PubMed-ID: 22645124  |  Reference-DOI: 10.1074/JBC.M112.361576

(-) Compounds

Molecule 1 - STREPTOPAIN
    Chains: A
    EC Number: 3.4.22.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23B
    Expression System Strain: PLASMID
    Expression System Taxid: 469008
    Expression System Vector Type: BL21(DE3)PLYSS
    Gene: HMPREF0841_0152, SPEB
    Organism Scientific: STREPTOCOCCUS PYOGENES
    Organism Taxid: 864568
    Strain: ATCC 10782
 
Molecule 2 - ACE-AEIK-CHO ALDEHYDE (BOUND FORM)
    Chains: B
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2LYJ1Mod. Amino Acid(2S)-2,6-DIAMINOHEXAN-1-OL
3NO31Ligand/IonNITRATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:164 , PRO A:165 , LYS A:258 , ASN A:373 , SER A:375 , HOH A:727 , HOH A:953BINDING SITE FOR RESIDUE NO3 A 501
2AC2SOFTWAREGLN A:162 , CYS A:192 , VAL A:193 , ASN A:208 , LYS A:209 , SER A:279 , SER A:280 , GLY A:281 , SER A:282 , ALA A:283 , GLN A:332 , VAL A:334 , GLY A:339 , HIS A:340 , ALA A:341 , HOH A:637 , HOH A:736 , HOH B:101 , HOH B:103 , HOH B:105 , HOH B:106 , HOH B:107 , HOH B:108BINDING SITE FOR CHAIN B OF ACE-AEIK-CHO ALDEHYDE (BOUND FORM)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4D8I)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Asn A:164 -Pro A:165
2Tyr A:206 -Pro A:207
3His A:227 -Pro A:228

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4D8I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4D8I)

(-) Exons   (0, 0)

(no "Exon" information available for 4D8I)

(-) 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:254
                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.hhhhhh..................................hhhhhhhhhhhhhhh........eeee............eeeehhhhh...............hhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhh.......eeee.hhhhhhhhhhhhhhhhhh...eeeeeee..eeeeeeeeeee....eeee........eee....................eeeeeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4d8i A 146 QPVVKSLLNSKGIHYNQGNPYNLLTPVIEKVKPGEQSFVGQHAATGCVATATAQIMKYHNYPNKGLKDYTYTLSSNNPYFNHPKNLFAAISTRQYNWNNILPTYSGRESNVQKMAISELMADVGISVDMDYGPSSGSAGSSRVQRALKENFGYNQSVHQINRSDFSKQDWEAQIDKELSQNQPVYYQGVGKVGGHAFVIDGADGRNFYHVNWGWGGVSDGFFRLDALNPSALGTGGGAGGFNGYQSAVVGIKPL 399
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395    


Chain B from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 4d8i B   1 xAEIx   5
                            |   |
                            1-ACE
                                5-LYJ
   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 4D8I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4D8I)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4D8I)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4D8I)

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  Cis Peptide Bonds
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1dki
2jtc
2uzj
4d8b HIGH RESOLUTION APO S. PYOGENES SPEB STRUCTURE
4d8e S. PYOGENES SPEB IN COMPLEX WITH E64