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(-) Description

Title :  STRUCTURE OF A NOVEL HYALURONIDASE (HYAL_SK) FROM STREPTOMYCES KOGANEIENSIS.
 
Authors :  J. A. Gavira, L. Messina, S. Pernagallo, J. D. Unciti-Broceta, M. Conej Muriel, J. J. Diaz-Mochon, S. Vaccaro, S. Caruso, L. Musumeci, S. Bisi R. Di Pasquale
Date :  18 Mar 15  (Deposition) - 13 Apr 16  (Release) - 29 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  B  (3x)
Biol. Unit 2:  A  (3x)
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Messina, J. A. Gavira, S. Pernagallo, J. D. Unciti-Broceta, R. M. Sanchez Martin, J. J. Diaz-Mochon, S. Vaccaro, M. Conejero-Muriel, E. Pineda-Molina, S. Caruso, L. Musumeci, R. Di Pasquale, A. Pontillo, F. Sincinelli, M. Pavan, C. Secchieri
Identification And Characterization Of A Bacterial Hyaluronidase And Its Production In Recombinant Form.
Febs Lett. V. 590 2180 2016
PubMed-ID: 27311405  |  Reference-DOI: 10.1002/1873-3468.12258

(-) Compounds

Molecule 1 - HYALURONIDASE
    Atcc: 31394
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCR-TOPO-BLUNTII
    Expression System Strain: TOP10
    Expression System Taxid: 562
    Expression System Vector: PCR DIRECTLY-BLUNTII-TOPO
    Organism Scientific: STREPTOMYCES KOGANEIENSIS
    Organism Taxid: 1684313

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x):  B
Biological Unit 2 (3x): A 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 20)

Asymmetric Unit (6, 20)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3MSE2Mod. Amino AcidSELENOMETHIONINE
4NA5Ligand/IonSODIUM ION
5PEG5Ligand/IonDI(HYDROXYETHYL)ETHER
6SO45Ligand/IonSULFATE ION
Biological Unit 1 (3, 15)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL6Ligand/IonGLYCEROL
3MSE3Mod. Amino AcidSELENOMETHIONINE
4NA-1Ligand/IonSODIUM ION
5PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
6SO46Ligand/IonSULFATE ION
Biological Unit 2 (3, 27)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL-1Ligand/IonGLYCEROL
3MSE3Mod. Amino AcidSELENOMETHIONINE
4NA-1Ligand/IonSODIUM ION
5PEG15Ligand/IonDI(HYDROXYETHYL)ETHER
6SO49Ligand/IonSULFATE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA B:74 , ARG B:75 , GLY B:76 , LYS B:79 , SER B:97 , GOL B:1222 , HOH B:2039BINDING SITE FOR RESIDUE SO4 B 1218
02AC2SOFTWAREASN B:122 , ARG B:127 , LYS B:138 , ALA B:150 , HOH B:2084 , HOH B:2093 , HOH B:2181 , HOH B:2182 , HOH B:2183BINDING SITE FOR RESIDUE SO4 B 1219
03AC3SOFTWAREALA A:74 , ARG A:75 , GLY A:76 , LYS A:79 , SER A:97 , HOH A:2089 , HOH A:2216BINDING SITE FOR RESIDUE SO4 A 1218
04AC4SOFTWAREASN A:122 , ARG A:127 , LYS A:138 , ALA A:150 , HOH A:2132 , HOH A:2145 , HOH A:2220BINDING SITE FOR RESIDUE SO4 A 1219
05AC5SOFTWAREASP A:148 , ARG A:149 , ARG A:162 , HOH A:2141 , HOH A:2166BINDING SITE FOR RESIDUE SO4 A 1220
06AC6SOFTWAREGLU A:17 , THR A:23 , THR A:24BINDING SITE FOR RESIDUE NA A 1221
07AC7SOFTWAREARG B:142 , ASP B:164 , HOH B:2097 , HOH B:2122 , HOH B:2124BINDING SITE FOR RESIDUE NA B 1220
08AC8SOFTWARETHR A:212 , THR A:213 , HOH A:2222BINDING SITE FOR RESIDUE NA A 1222
09AC9SOFTWARETHR A:47 , HOH A:2030 , HOH A:2223 , GLU B:172 , HOH B:2135BINDING SITE FOR RESIDUE NA A 1223
10BC1SOFTWAREARG A:101 , HOH A:2230 , HOH A:2231BINDING SITE FOR RESIDUE NA A 1230
11BC2SOFTWAREALA A:86 , ASP A:87 , VAL B:211 , THR B:212 , THR B:213 , HOH B:2172 , HOH B:2184BINDING SITE FOR RESIDUE GOL B 1221
12BC3SOFTWAREALA B:74 , ASP B:92 , TYR B:111 , SO4 B:1218 , HOH B:2185 , HOH B:2186BINDING SITE FOR RESIDUE GOL B 1222
13BC4SOFTWARELYS A:31 , TYR A:43BINDING SITE FOR RESIDUE CL A 1224
14BC5SOFTWAREARG A:142 , THR A:152 , HOH A:2149 , HOH A:2150 , HOH A:2161BINDING SITE FOR RESIDUE PEG A 1225
15BC6SOFTWARETHR A:140 , ARG A:142 , GLN A:156 , ARG A:162 , ASP A:164 , ALA A:165 , HOH A:2146 , HOH A:2224 , HOH A:2225 , HOH A:2226BINDING SITE FOR RESIDUE PEG A 1226
16BC7SOFTWAREASP A:22 , LYS A:31 , HOH A:2025 , HOH A:2227 , ARG B:162 , GLY B:163 , HOH B:2117 , HOH B:2121BINDING SITE FOR RESIDUE PEG A 1227
17BC8SOFTWARETHR A:41 , ASN A:55 , ILE A:57BINDING SITE FOR RESIDUE PEG A 1228
18BC9SOFTWAREALA A:150 , THR A:152 , ARG A:154 , HOH A:2228 , HOH A:2229BINDING SITE FOR RESIDUE PEG A 1229

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4UFQ)

(-) 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:212
                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......................................................................................................................eee.....ee.eee.....eee.ee........eee..................................eeeee..eeeee.....eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ufq A   6 ATTTFDGPVAAERFSADTTLEAAFLKTTSETNHAATIYQAGTSGDGAALNVISDNPGTSAmYLSGTETARGTLKITHRGYADGSDKDAAALSLDLRVAGTAAQGIYVTATNGPTKGNLIALRNNTGLDDFVVKGTGRIGVGIDRAATPRAQVHIVQRGDALAALLVEGSVRIGNAATVPTSVDSSGGGALYASGGALLWRGSNGTVTTIAPA 217
                                    15        25        35        45        55        65|       75        85        95       105       115       125       135       145       155       165       175       185       195       205       215  
                                                                                       66-MSE                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................................................................................................................eee.....ee.eee.....eee.ee........eee.................................eeeeee..eeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ufq B   7 TTTFDGPVAAERFSADTTLEAAFLKTTSETNHAATIYQAGTSGDGAALNVISDNPGTSAmYLSGTETARGTLKITHRGYADGSDKDAAALSLDLRVAGTAAQGIYVTATNGPTKGNLIALRNNTGLDDFVVKGTGRIGVGIDRAATPRAQVHIVQRGDALAALLVEGSVRIGNAATVPTSVDSSGGGALYASGGALLWRGSNGTVTTIAPA 217
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216 
                                                                                      66-MSE
   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 4UFQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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