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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CLOSTRIDIUM HISTOLYTICUM COLH COLLAGENASE POLYCYSTIC KIDNEY DISEASE-LIKE DOMAIN 2A AT 1.76 ANGSTROM RESOLUTION
 
Authors :  R. Bauer, K. Janowska, J. Sakon, O. Matsushita, E. Latimer
Date :  29 Jul 14  (Deposition) - 11 Mar 15  (Release) - 10 Jun 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.76
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Calcium-Binding Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Bauer, K. Janowska, K. Taylor, B. Jordan, S. Gann, T. Janowski, E. C. Latimer, O. Matsushita, J. Sakon
Structures Of Three Polycystic Kidney Disease-Like Domains From Clostridium Histolyticum Collagenases Colg And Colh.
Acta Crystallogr. , Sect. D V. 71 565 2015
PubMed-ID: 25760606  |  Reference-DOI: 10.1107/S1399004714027722

(-) Compounds

Molecule 1 - COLH PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(RIL)
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: POLYCYSTIC KIDNEY DISEASE-LIKE DOMAIN (UNP RESIDUES 725- 810)
    Gene: COLH
    Organism Scientific: CLOSTRIDIUM HISTOLYTICUM
    Organism Taxid: 1498
    Synonym: COLLAGENASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1P335Ligand/Ion3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1P332Ligand/Ion3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1P331Ligand/Ion3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1P332Ligand/Ion3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1P33-1Ligand/Ion3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:718 , HOH A:984 , HOH A:1069 , HOH A:1070 , HOH A:1111 , HOH A:1130 , HOH A:1132 , HOH A:1136 , HOH A:1159 , HOH A:1170 , HOH A:1177 , HOH A:1192 , HOH A:1212 , HOH B:949binding site for residue P33 A 801
2AC2SOFTWAREASN A:685 , SER A:686 , LEU A:687 , HOH A:902 , HOH A:914 , HOH A:930 , HOH A:996 , HOH A:1167 , ASN B:685 , ASP B:715 , LYS B:756 , HOH B:914 , LYS D:691 , HOH D:820 , HOH D:823binding site for residue P33 A 802
3AC3SOFTWAREHOH A:984 , HOH A:1212 , LYS B:705 , GLU B:734 , ASN B:735 , HOH B:902 , HOH B:913 , HOH B:924 , HOH B:928 , HOH B:930 , HOH B:955 , HOH B:971 , HOH B:972 , HOH B:1052 , HOH B:1062 , HOH B:1070 , HOH B:1083 , HOH B:1086 , HOH B:1162 , HOH B:1164 , HOH B:1172binding site for residue P33 B 801
4AC4SOFTWARESER B:759 , ASN C:693 , GLY C:694 , THR C:695 , HOH C:973 , HOH C:974 , HOH C:1010 , HOH C:1025 , HOH C:1028 , HOH C:1087 , HOH C:1090 , HOH C:1144binding site for residue P33 C 801
5AC5SOFTWAREGLY A:726 , ASP A:727 , ASN C:732 , HOH C:901 , HOH C:906 , HOH C:909 , HOH C:914 , HOH C:943 , HOH C:944 , HOH C:952 , HOH C:977 , HOH C:986 , HOH C:1098 , HOH C:1129binding site for residue P33 C 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4U6T)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gly A:694 -Thr A:695
2Gly B:694 -Thr B:695
3Gly C:694 -Thr C:695
4Gly D:694 -Thr D:695

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4U6T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4U6T)

(-) Exons   (0, 0)

(no "Exon" information available for 4U6T)

(-) Sequences/Alignments

Asymmetric 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:86
                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee....ee............eeeeeee.....ee.....ee.....eeeeeeeeeee....eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 4u6t A 685 NSLPYGKINGTYKGTEKEKIKFSSEGSFDPDGKIVSYEWDFGDGNKSNEENPEHSYDKVGTYTVKLKVTDDKGESSVSTTTAEIKD 770
                                   694       704       714       724       734       744       754       764      


Chain B from PDB  Type:PROTEIN  Length:86
                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee....ee............eeeeeee.....ee.....ee.....eeeeeeeeeee....eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 4u6t B 685 NSLPYGKINGTYKGTEKEKIKFSSEGSFDPDGKIVSYEWDFGDGNKSNEENPEHSYDKVGTYTVKLKVTDDKGESSVSTTTAEIKD 770
                                   694       704       714       724       734       744       754       764      


Chain C from PDB  Type:PROTEIN  Length:86
                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee....ee............eeeeeee.....ee.....ee.....eeeeeeeeeee....eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 4u6t C 685 NSLPYGKINGTYKGTEKEKIKFSSEGSFDPDGKIVSYEWDFGDGNKSNEENPEHSYDKVGTYTVKLKVTDDKGESSVSTTTAEIKD 770
                                   694       704       714       724       734       744       754       764      


Chain D from PDB  Type:PROTEIN  Length:86
                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeee...eee............eeeeeee.....ee.....eee....eeeeeeeeeee....eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 4u6t D 685 NSLPYGKINGTYKGTEKEKIKFSSEGSFDPDGKIVSYEWDFGDGNKSNEENPEHSYDKVGTYTVKLKVTDDKGESSVSTTTAEIKD 770
                                   694       704       714       724       734       744       754       764
   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 4U6T)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4U6T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4U6T)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:694 - Thr A:695   [ RasMol ]  
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        Q46085_HATHI | Q46085: 3jqw 3jqx 4ar1 4arf 4jgu 4u7k

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4u7k