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(-) Description

Title :  THERMOBACULUM TERRENUM O-GLCNAC HYDROLASE MUTANT - D120N
 
Authors :  A. Ostrowski, M. Gundogdu, A. T. Ferenbach, A. Lebedev, D. M. F. Van Aal
Date :  01 Sep 15  (Deposition) - 28 Oct 15  (Release) - 30 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.06
Chains :  Asym. Unit :  A,B,P,Q
Biol. Unit 1:  A,P  (1x)
Biol. Unit 2:  B,Q  (1x)
Keywords :  Gh84, Oga, O-Glcnac Hydrolase, O-Glcnacase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Ostrowski, M. Gundogdu, A. T. Ferenbach, A. A. Lebedev, D. M. Van Aalten
Evidence For A Functional O-Linked N-Acetylglucosamine (O-Glcnac) System In The Thermophilic Bacterium Thermobaculum Terrenum.
J. Biol. Chem. V. 290 30291 2015
PubMed-ID: 26491011  |  Reference-DOI: 10.1074/JBC.M115.689596

(-) Compounds

Molecule 1 - TGF-BETA-ACTIVATED KINASE 1 AND MAP3K7-BINDING PROTEIN 1
    Chains: P, Q
    Engineered: YES
    Fragment: UNP RESIDUES 392-398
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: HEPTAMERIC TAB1-O-GLCNAC PEPTIDE.
    Other Details - Source: THIS SEQUENCE OCCURS NATURALLY IN HUMANS.
    Synonym: MITOGEN-ACTIVATED PROTEIN KINASE KINASE KINASE 7-INTERACTING PROTEIN 1,TGF-BETA-ACTIVATED KINASE 1-BINDING PROTEIN 1,TAK1-BINDING PROTEIN 1
    Synthetic: YES
 
Molecule 2 - HYALURONIDASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Taxid: 511693
    Gene: TTER_0116
    Mutation: YES
    Organism Scientific: THERMOBACULUM TERRENUM
    Organism Taxid: 166501

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABPQ
Biological Unit 1 (1x): A P 
Biological Unit 2 (1x):  B Q

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:12 , PHE A:13 , TYR A:14 , LYS A:43 , ASP A:119 , ASN A:120 , TYR A:168 , VAL A:197 , TRP A:221 , ASN A:223 , ASP A:228 , ASN A:257 , PRO P:2 , TYR P:3 , SER P:4binding site for Mono-Saccharide NAG P 101 bound to SER P 4
2AC2SOFTWAREGLY B:12 , PHE B:13 , LYS B:43 , ASP B:119 , CYS B:164 , TYR B:168 , VAL B:197 , TRP B:221 , ASN B:223 , ASP B:228 , ASN B:257 , PRO Q:2 , TYR Q:3 , SER Q:4binding site for Mono-Saccharide NAG Q 101 bound to SER Q 4

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Tyr A:224 -Pro A:225
2Pro A:468 -Pro A:469
3Tyr B:224 -Pro B:225
4Pro B:468 -Pro B:469

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5DIY)

(-) 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:463
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.......hhhhhhhhhhhhhhh...eeee....hhhhh.......hhhhhhhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhh.hhhhhhhhhhhhhhhhhhh.....eeeee.........hhhhhhhhhhh....eeee..........hhhhhhhhhhhhh..eeeee.....hhhhh.............hhhh.eeeeee....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..hhhhhhhhhh...........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5diy A   2 EYFRYRGIIEGFYGKPWEHQERLDMFEFMQANNLNAYIYAPKQDLYHRELWREPYKEEQLQLFKELIEKAGSCGINFTFAISPGLSLVYSSEEELETLIRKITPFLEMGVHSIGIFFDNVPFDLIHEEDRNSYSNLAEAQADFLTRVLQRLESTISTPQIIMCPTFYCNDPNLEYLRILGQRLPKNIDVFWTGPNVCSHEITTSHMQEVQKSLQRPATLWDNYPVNDGGMMPELHIGPYDHRDPELHTHVVGIYANPMALPEASKLPLYTFAQYLNSPSQYNPQDSWRQAVSTLLGEDNLSAMEKFYQSNTISCLEPEEPAYLTNLFKKVQEDFASFRFEQGLRTLREEIISMQTTYSRLSTQDSKFFWEIRPWLEEYKLWTDYLDQAMITFSNLFTGESLQKALQGRTYLREVLKDAVDFRTRVCGDVVRNFLQQVLRSTVSIELQAEGKEWTALPPGIVRD 474
                                    11        21        31        41        51        61        71        81        91       101       111       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       411       421       431       441       451       461       471   
                                                                                                                                                                                                                                                                                                                                                                                                                                       399|                                                                
                                                                                                                                                                                                                                                                                                                                                                                                                                        410                                                                


Chain B from PDB  Type:PROTEIN  Length:462
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee.......hhhhhhhhhhhhhhh...eeee................hhhhhhhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhh.hhhhhhhhhhhhhhhhhhh.....eeeee.........hhhhhhhhhhh....eeee..........hhhhhhhhhhhhh..eeeee.....hhhhh.............hhhh.eeeeee....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..hhhhhhhhhh...........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5diy B   2 EYFRYRGIIEGFYGKPWEHQERLDMFEFMQANNLNAYIYAPKQDLYHRELWREPYKEEQLQLFKELIEKAGSCGINFTFAISPGLSLVYSSEEELETLIRKITPFLEMGVHSIGIFFDNVPFDLIHEEDRNSYSNLAEAQADFLTRVLQRLESTISTPQIIMCPTFYCNDPNLEYLRILGQRLPKNIDVFWTGPNVCSHEITTSHMQEVQKSLQRPATLWDNYPVNDGGMMPELHIGPYDHRDPELHTHVVGIYANPMALPEASKLPLYTFAQYLNSPSQYNPQDSWRQAVSTLLGEDNLSAMEKFYQSNTISCLEPEEPAYLTNLFKKVQEDFASFRFEQGLRTLREEIISMQTTYSRLSTQDSKFFWEIRPWLEEYKLWTDYLDQAMITFSNLFARESLQKALQGRTYLREVLKDAVDFRTRVCGDVVRNFLQQVLRSTVSIELQAEGKEWTALPPGIVR 473
                                    11        21        31        41        51        61        71        81        91       101       111       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     ||411       421       431       441       451       461       471  
                                                                                                                                                                                                                                                                                                                                                                                                                                     397|                                                                 
                                                                                                                                                                                                                                                                                                                                                                                                                                      408                                                                 


Chain P from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 5diy P   1 VPYSS   5


Chain Q from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 5diy Q   1 VPYSS   5
   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 5DIY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (26, 26)

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        TAB1_HUMAN | Q15750: 2j4o 2pom 2pop 2yds 2yiy 4ay5 4ay6 4gs6 4ka3 4l3p 4l52 4l53 4o91 5e7r 5gjd 5gjf 5gjg 5j7s 5j8i 5j9l 5jga 5jgb 5jgd 5jh6 5jk3

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