Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF BHGH81 MUTANT IN COMPLEX WITH LAMINARO-TETRAOSE
 
Authors :  B. Pluvinage, A. B. Boraston
Date :  03 Feb 17  (Deposition) - 28 Jun 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  (Alpha/Beta)6 Barrel, Glycoside Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Pluvinage, A. Fillo, P. Massel, A. B. Boraston
The Quaternary Structure Of Beta-1, 3-Glucan Contributes To Its Recognition And Hydrolysis By A Multimodular Family 81 Glycoside Hydrolase
Structure 2017
PubMed: search

(-) Compounds

Molecule 1 - BH0236 PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 28-779
    Gene: BH0236
    Mutation: YES
    Organism Scientific: BACILLUS HALODURANS (STRAIN ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
    Organism Taxid: 272558
    Strain: ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 27)

Asymmetric/Biological Unit (4, 27)
No.NameCountTypeFull Name
1BGC10Ligand/IonBETA-D-GLUCOSE
2EDO7Ligand/Ion1,2-ETHANEDIOL
3GLC1Ligand/IonALPHA-D-GLUCOSE
4PO49Ligand/IonPHOSPHATE ION

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:463 , ASP A:530 , PHE A:535 , TRP A:615 , BGC A:802 , EDO A:821 , HOH A:923 , HOH A:1024 , HOH A:1200 , HOH A:1440 , HOH A:1534binding site for residue BGC A 801
02AC2SOFTWAREHIS A:458 , ASN A:465 , ASP A:466 , ALA A:529 , ASP A:530 , ASN A:540 , BGC A:801 , BGC A:803 , EDO A:821 , HOH A:1292binding site for residue BGC A 802
03AC3SOFTWARETYR A:387 , HIS A:458 , ASP A:466 , PHE A:469 , HIS A:470 , GLN A:542 , GLU A:546 , TRP A:615 , BGC A:802 , BGC A:804 , GLC A:805 , BGC A:806 , HOH A:909 , HOH A:948binding site for residue BGC A 803
04AC4SOFTWARETYR A:387 , LYS A:391 , HIS A:458 , TRP A:664 , ARG A:704 , BGC A:803 , GLC A:805 , BGC A:806 , BGC A:807 , HOH A:915 , HOH A:948 , HOH A:1038binding site for residue BGC A 804
05AC5SOFTWAREGLU A:280 , GLU A:559 , ARG A:567 , HIS A:732 , PRO A:733 , HOH A:939 , HOH A:1216 , HOH A:1262binding site for residue PO4 A 808
06AC6SOFTWAREHIS A:315 , SER A:579 , ASN A:582 , GLU A:583 , HIS A:589 , HOH A:982 , HOH A:1005 , HOH A:1144binding site for residue PO4 A 809
07AC7SOFTWAREASP A:201 , TRP A:203 , SER A:213 , HIS A:217 , HIS A:219 , LYS A:253 , HOH A:1059 , HOH A:1234binding site for residue PO4 A 810
08AC8SOFTWAREHIS A:641 , PRO A:642 , ASP A:643 , TYR A:644 , HOH A:917 , HOH A:926binding site for residue PO4 A 811
09AC9SOFTWAREHIS A:170 , ASP A:189 , HOH A:1022binding site for residue PO4 A 812
10AD1SOFTWAREMET A:578 , ASN A:582 , HIS A:640 , HOH A:1005 , HOH A:1015 , HOH A:1144 , HOH A:1145 , HOH A:1209 , HOH A:1368binding site for residue PO4 A 813
11AD2SOFTWAREGLU A:124 , GLU A:413 , ARG A:416 , ALA A:484binding site for residue PO4 A 814
12AD3SOFTWAREASP A:365 , ARG A:368 , GLU A:685 , TYR A:712 , HIS A:716 , HOH A:1163binding site for residue PO4 A 815
13AD4SOFTWAREARG A:509 , ASP A:510 , TYR A:516 , HOH A:967 , HOH A:984 , HOH A:1161 , HOH A:1226 , HOH A:1278binding site for residue PO4 A 816
14AD5SOFTWARETYR A:313 , GLY A:335 , THR A:336 , GLU A:591 , HOH A:904 , HOH A:919 , HOH A:989binding site for residue EDO A 817
15AD6SOFTWAREALA A:113 , PRO A:114 , HIS A:115 , HOH A:1218binding site for residue EDO A 818
16AD7SOFTWAREASP A:155 , ASN A:157 , TYR A:160 , ARG A:162 , THR A:175 , VAL A:269 , ARG A:270 , HOH A:1160binding site for residue EDO A 819
17AD8SOFTWAREGLN A:171 , GLU A:186 , GLU A:188 , HOH A:1285binding site for residue EDO A 820
18AD9SOFTWAREBGC A:801 , BGC A:802 , HOH A:1024 , HOH A:1219 , HOH A:1220binding site for residue EDO A 821
19AE1SOFTWAREGLU A:262 , GLN A:263 , TYR A:266 , HOH A:979 , HOH A:1325binding site for residue EDO A 822
20AE2SOFTWARETYR A:691 , GLY A:692 , LEU A:693 , LYS A:708 , HOH A:1179 , HOH A:1395binding site for residue EDO A 823
21AE3SOFTWARETYR A:387 , LYS A:391 , HIS A:458 , ASP A:466 , PHE A:469 , HIS A:470 , GLN A:542 , GLU A:546 , TRP A:615 , ILE A:626 , TRP A:664 , GLU A:699 , ARG A:704 , BGC A:803 , BGC A:804 , HOH A:909 , HOH A:915 , HOH A:948 , HOH A:1038 , HOH A:1128binding site for Poly-Saccharide residues GLC A 805 through BGC A 807
22AE4SOFTWAREMET A:91 , TYR A:387 , LYS A:391 , HIS A:458 , PHE A:535 , ASP A:536 , ALA A:537 , TRP A:606 , LYS A:609 , ASP A:611 , THR A:614 , TRP A:615 , TRP A:616 , ASN A:617 , TRP A:664 , GLU A:699 , ARG A:704 , BGC A:803 , BGC A:804 , GLC A:805 , HOH A:915 , HOH A:948 , HOH A:1035 , HOH A:1038 , HOH A:1128 , HOH A:1142 , HOH A:1170 , HOH A:1200 , HOH A:1217 , HOH A:1261 , HOH A:1344 , HOH A:1489binding site for Poly-Saccharide residues BGC A 824 through BGC A 827

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1His A:96 -Pro A:97
2Tyr A:454 -His A:455
3Leu A:629 -Pro A:630

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5UPN)

(-) 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:752
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee............hhhhhhhh.......................hhhhhh...........eeeee..eeeee..hhhhheeeee....eeeee......eeeee.......eeeeeee...eeeeeeee..eeeeeeee....eeeeeee...eeee.....eeeee...eeeee.....eeeee.............eeee...eeeeee....hhhhhhhhhhhh.eeeeeeeeeeeee....eeeeeeeeeeee........eeeeehhhhhhhhhhhhhh.eeeeeeeee..eeeeeeee.eeeeeee..............hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.............eeeee....eeeee...........hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh............ee....ee............ee.hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..................eee..eeee........hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh..hhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhee..........eeeeee..eeeeeeee.....eeee.....eeee...ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5upn A  28 HAVSVGKGSYATEFPEIDFGGINDPGFRDQQGEPPATIYRSDRVTGPMQTNSWWGSLAVDRFSMNQYPHPFSVRHRAEGLHVFYDAPHNMVVHENREAGTWHIHGAIGTDFTIKHSGTANFEQAVVDDYNDWYVRGLLENGAHQMAITYGVGSPYIFVEYEDGSAVLDFDIAPDVWEMNGHVIGFSTHDHKHYAAFAPPGQNWSGIGSKTLTNNADYIAIAKLPEKDGNMLAKFEQYAYSVVRDAVADWTYDEATGTVTTTFEVTTEAKVQGAPDGTIFALYPHQYRHLASSSENQLLQNYQYEIIRGTMIGLEGKRFTTELTYPGVLPSLPDLGDYDRERLIGYLHDATSDYPTGSDTYELGKYIGKLATLAPIADQMGEYELAEQFRGELKDILEDWLQATNASGQLKGKNLFYYNENWGTILGYHAAHSSATRINDHHFHYGYFVKAAAEIARADQEWAKSENWGGMIDLLIRDFMADRDDDLFPYLRMFDPYSGNSWADGLATFDAGNNQQSSSEAMHAWTNVILWAEATGNKALRDRAIYLYTTEMSAINEYFFDVHQEIFPEEYGPEIVTINWGGKMDHATWWNSGKVEKYAINWLPFHGGSLYLGHHPDYVDRAYEELRRDIGSTDWNLWSNLVWMYRAFTNPDDALQQMEASIDDYGLFDPGNEKIIERGSTKAQTYHWIHNLAELGRVDPTVTANHPIYAVFNKNGNRTYIVYNFSDSPITVQFSDGHSIQVEPHSFNIGNGD 779
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777
   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 5UPN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BGC  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    EDO  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GLC  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    PO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    AD1  [ RasMol ]  +environment [ RasMol ]
    AD2  [ RasMol ]  +environment [ RasMol ]
    AD3  [ RasMol ]  +environment [ RasMol ]
    AD4  [ RasMol ]  +environment [ RasMol ]
    AD5  [ RasMol ]  +environment [ RasMol ]
    AD6  [ RasMol ]  +environment [ RasMol ]
    AD7  [ RasMol ]  +environment [ RasMol ]
    AD8  [ RasMol ]  +environment [ RasMol ]
    AD9  [ RasMol ]  +environment [ RasMol ]
    AE1  [ RasMol ]  +environment [ RasMol ]
    AE2  [ RasMol ]  +environment [ RasMol ]
    AE3  [ RasMol ]  +environment [ RasMol ]
    AE4  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    His A:96 - Pro A:97   [ RasMol ]  
    Leu A:629 - Pro A:630   [ RasMol ]  
    Tyr A:454 - His A:455   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  5upn
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q9KG76_BACHD | Q9KG76
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q9KG76_BACHD | Q9KG76
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        Q9KG76_BACHD | Q9KG76: 5t49 5t4a 5t4c 5t4g 5upi 5upm 5upo 5v1w
UniProtKB/TrEMBL
        Q9KG76_BACHD | Q9KG76: 1w9s 1w9t 1w9w

(-) Related Entries Specified in the PDB File

5upi 5upm 5upo