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(-) Description

Title :  STRUCTURE OF CATHEPSIN K-DERMATAN SULFATE COMPLEX
 
Authors :  A. H. Aguda, N. T. Nguyen, D. Bromme, G. D. Brayer
Date :  15 Oct 13  (Deposition) - 26 Nov 14  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.62
Chains :  Asym./Biol. Unit :  A
Keywords :  Collaginase, Glycosaminoglycan, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. H. Aguda, P. Panwar, X. Du, N. T. Nguyen, G. D. Brayer, D. Bromme
Structural Basis Of Collagen Fiber Degradation By Cathepsin K.
Proc. Natl. Acad. Sci. Usa V. 111 17474 2014
PubMed-ID: 25422423  |  Reference-DOI: 10.1073/PNAS.1414126111

(-) Compounds

Molecule 1 - CATHEPSIN K
    ChainsA
    EC Number3.4.22.38
    EngineeredYES
    Expression SystemPICHIA PASTORIS
    Expression System Taxid4922
    GeneCTSK, CTSO, CTSO2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCATHEPSIN O, CATHEPSIN O2, CATHEPSIN X

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1ASG3Ligand/Ion2-DEOXY-2-ACETAMIDO-BETA-D-GALACTOSE-4-SULFATE
2IDR3Ligand/IonL-IDURONIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASG A:302BINDING SITE FOR RESIDUE IDR A 301
2AC2SOFTWAREIDR A:301 , IDR A:303BINDING SITE FOR RESIDUE ASG A 302
3AC3SOFTWAREGLN A:92 , ASG A:302 , ASG A:304BINDING SITE FOR RESIDUE IDR A 303
4AC4SOFTWAREALA A:1 , LYS A:119 , IDR A:303 , IDR A:305 , HOH A:464BINDING SITE FOR RESIDUE ASG A 304
5AC5SOFTWAREARG A:123 , ASG A:304 , ASG A:306 , HOH A:474BINDING SITE FOR RESIDUE IDR A 305
6AC6SOFTWAREARG A:123 , ARG A:127 , IDR A:305 , HOH A:475BINDING SITE FOR RESIDUE ASG A 306

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:22 -A:63
2A:56 -A:96
3A:155 -A:204

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4N79)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N79)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N79)

(-) Exons   (0, 0)

(no "Exon" information available for 4N79)

(-) 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:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee.................hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh...hhhhh.hhhhhhhhhhhhh.ee................hhh.eee...eeee....hhhhhhhhhhhh..eeeee...hhhhhh....ee...........eeeeeeeeeee..eeeeeee...........eeeee....hhhhh....eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n79 A   1 APDSVDYRKKGYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLSPQNLVDCVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMYNPTGKAAKCRGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNLNHAVLAVGYGIQKGNKHWIIKNSWGENWGNKGYILMARNKNNACGIANLASFPKM 215
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210     

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  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 4N79)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N79)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N79)

(-) Gene Ontology  (23, 23)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4n79
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 Related Entries

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

UniProtKB/Swiss-Prot
        CATK_HUMAN | P432351atk 1au0 1au2 1au3 1au4 1ayu 1ayv 1ayw 1bgo 1by8 1mem 1nl6 1nlj 1q6k 1snk 1tu6 1u9v 1u9w 1u9x 1vsn 1yk7 1yk8 1yt7 2ato 2aux 2auz 2bdl 2r6n 3c9e 3h7d 3kw9 3kwb 3kwz 3kx1 3o0u 3o1g 3ovz 4dmx 4dmy 4n8w 4x6h 4x6i 4x6j 4yv8 4yva 5j94 5ja7 5jh3 5tdi 5tun 7pck

(-) Related Entries Specified in the PDB File

4n8w