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(-) Description

Title :  ACTIVE HUMAN C1-INHIBITOR IN COMPLEX WITH DEXTRAN SULFATE
 
Authors :  M. Dijk, J. Holkers, P. Voskamp, B. M. Giannetti, W. J. Waterreus, H. A. V N. S. Pannu
Date :  20 Sep 15  (Deposition) - 31 Aug 16  (Release) - 25 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Serine Protein Inhibitor, Complex With Glycosaminoglycan, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Dijk, J. Holkers, P. Voskamp, B. M. Giannetti, W. J. Waterreus, H. A. Van Veen, N. S. Pannu
How Dextran Sulfate Affects C1-Inhibitor Activity: A Model For Polysaccharide Potentiation.
Structure V. 24 2182 2016
PubMed-ID: 27818099  |  Reference-DOI: 10.1016/J.STR.2016.09.013

(-) Compounds

Molecule 1 - PLASMA PROTEASE C1 INHIBITOR
    ChainsA, B
    EngineeredYES
    Expression SystemORYCTOLAGUS CUNICULUS
    Expression System Taxid9986
    GeneSERPING1, C1IN, C1NH
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymC1INH,C1 ESTERASE INHIBITOR,C1-INHIBITING FACTOR,SERPIN G1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GLC2Ligand/IonALPHA-D-GLUCOSE
3NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
4SO31Ligand/IonSULFITE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:284binding site for residue GLC A 502
2AC2SOFTWAREASN A:216 , THR A:220 , ASP B:257binding site for Mono-Saccharide NAG A 501 bound to ASN A 216
3AC3SOFTWAREASN B:216binding site for Mono-Saccharide NAG B 501 bound to ASN B 216
4AC4SOFTWARELYS B:284binding site for Poly-Saccharide residues GLC B 502 through SO3 B 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5DUQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5DUQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5DUQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5DUQ)

(-) Exons   (0, 0)

(no "Exon" information available for 5DUQ)

(-) 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:362
                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhh.hhhhhhhhhhhh.......hhhhhhhhhh...eeee..eee......hhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.................eee..eeee...eee..hhhhh.eeee......eeeeeeeeeeeeeeeeee....eeeeeee....eeeeeeee.....hhhhhhh..hhhhhhhhhhhhhhh..eeeeeeee.eeeeeeeehhhhhhhh.......................eeeeeeeeee...eee.hhhhhh.......eee....eeeeeee....eeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5duq A 115 STEAVLGDALVDFSLKLYHAFSAMKKVETNMAFSPFSIASLLTQVLLGAGENTKTNLESILSYPKDFTCVHQALKGFTTKGVTSVSQIFHSPDLAIRDTFVNASRTLYSSSPRVLSNNSDANLELINTWVAKNTNNKISRLLDSLPSDTRLVLLNAIYLSAKWKTTFDPKKTRMEPFHFKNSVIKVPMMNSKKYPVAHFIDQTLKAKVGQLQLSHNLSLVILVPQNLKHRLEDMEQALSPSVFKAIMEKLEMSKFQPTLLTLPRIKVTTSQDMLSIMEKLEFFDFSYDLNLCGLTEDPDLQVSAMQHQTVLELTETGVEAAAASAISVARTLLVFEVQQPFLFMLWDQQHKFPVFMGRVYDP 476
                                   124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474  

Chain B from PDB  Type:PROTEIN  Length:365
                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhh.hhhhhhhhhhhh.......hhhhhhhhhh...eeee..eee......hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhh................eee..eeee...eee..hhhhh.eeee......eeeeeeeeeeeeeeeeee....eeeeeee....eeeeeeee.....hhhhhhh..hhhhhhhhhhhhhhh..eeeeeeee.eeeeeeeehhhhhhhh.......................eeeeeeeeee...eee.hhhhhh.......eee....eeeeeee....eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5duq B 112 ESHSTEAVLGDALVDFSLKLYHAFSAMKKVETNMAFSPFSIASLLTQVLLGAGENTKTNLESILSYPKDFTCVHQALKGFTTKGVTSVSQIFHSPDLAIRDTFVNASRTLYSSSPRVLSNNSDANLELINTWVAKNTNNKISRLLDSLPSDTRLVLLNAIYLSAKWKTTFDPKKTRMEPFHFKNSVIKVPMMNSKKYPVAHFIDQTLKAKVGQLQLSHNLSLVILVPQNLKHRLEDMEQALSPSVFKAIMEKLEMSKFQPTLLTLPRIKVTTSQDMLSIMEKLEFFDFSYDLNLCGLTEDPDLQVSAMQHQTVLELTETGVEAAAASAISVARTLLVFEVQQPFLFMLWDQQHKFPVFMGRVYDP 476
                                   121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471     

   Legend:   → Mismatch (orange background)
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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 5DUQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5DUQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5DUQ)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        IC1_HUMAN | P051551m6q 2oay 5du3

(-) Related Entries Specified in the PDB File

5du3 5DU3 IS UNCOMPLEXED ACTIVE HUMAN C1-INHIBITOR