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(-) Description

Title :  STRUCTURE OF ESCHERICHIA COLI PGAB C-TERMINAL DOMAIN, P1 CRYSTAL FORM
 
Authors :  D. J. Little, G. Li, C. Ing, B. Difrancesco, N. C. Bamford, H. Robinson, M R. Pomes, P. L. Howell
Date :  27 Mar 14  (Deposition) - 02 Jul 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.48
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta Alpha Barrel, Carbohydrate Binding, Glycosyl Hydrolase Fold, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. J. Little, G. Li, C. Ing, B. R. Difrancesco, N. C. Bamford, H. Robinson, M. Nitz, R. Pomes, P. L. Howell
Modification And Periplasmic Translocation Of The Biofilm Exopolysaccharide Poly-Beta-1, 6-N-Acetyl-D-Glucosamine.
Proc. Natl. Acad. Sci. Usa V. 111 11013 2014
PubMed-ID: 24994902  |  Reference-DOI: 10.1073/PNAS.1406388111

(-) Compounds

Molecule 1 - POLY-BETA-1,6-N-ACETYL-D-GLUCOSAMINE N-DEACETYLASE
    Chains: A, B
    EC Number: 3.5.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 310-672
    Gene: PGAB, YCDR, B1023, JW5142
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: PGAB, POLY-BETA-1,6-GLCNAC N-DEACETYLASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4P7O)

(-) Sites  (0, 0)

(no "Site" information available for 4P7O)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4P7O)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Glu A:474 -Asp A:475
2Tyr A:645 -Pro A:646
3Gln A:653 -Pro A:654
4Glu B:474 -Asp B:475
5Tyr B:645 -Pro B:646
6Gln B:653 -Pro B:654

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4P7O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4P7O)

(-) Exons   (0, 0)

(no "Exon" information available for 4P7O)

(-) 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:345
                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhh...hhhhhhhhhhhhhhhhhhhh..eeeee..........................hhhhhhhhhhhhh..eeeeee.............................hhhhhhhhhhhhhhhhh.....eeee............hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhh..hhhhhhhhh.eeeee........hhhhhhhhhhhhhhhhhh..hhhh.eeeeee.ee..ee.hhhhhhhhhhhhhhh....eeee..hhhhh..hhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4p7o A 312 SPQRIMHIDLDYVYDENLQQMDRNIDVLIQRVKDMQISTVYLQAFADPDGDGLVKEVWFPNRLLPMKADIFSRVAWQLRTRSGVNIYAWMPVLSWDLDPTLTRVKYLPTGEKYHRLSPFDDRVRAQVGMLYEDLAGHAAFDGILFHDDALLSDYEDASAPAITAYQQAGFSGSLSEIRQNPEQFKQWARFKSRALTDFTLELSARVKAIRGPHIKTARNIFALPVIQPESEAWFAQNYADFLKSYDWTAIMAMPYLEGVAEKSADQWLIQLTNQIKNIPQAKDKSILELQAQNWHQAISSQQLAHWMSLLQLNGVKNYGYYPDNFLHNQPEIDLIRPEFSTAWYP 669
                                   321       331       341       351       361       371       381       391       401       411       421 ||    439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609   ||  624       634       644       654       664     
                                                                                                                                         423|                                                                                                                                                                                  613|                                                  
                                                                                                                                          432                                                                                                                                                                                   619                                                  


Chain B from PDB  Type:PROTEIN  Length:346
                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhh...hhhhhhhhhhhhhhhhhhhh..eeeee..........................hhhhhhhhhhhhh..eeeeee.............................hhhhhhhhhhhhhhhhhhh...eeee............hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhh..hhhhhhhhh.eeeee........hhhhhhhhhhhhhhhhhh...hhh.eeeeee.ee...ee.hhhhhhhhhhhhhhh....eeee..hhhhh..hhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4p7o B 312 SPQRIMHIDLDYVYDENLQQMDRNIDVLIQRVKDMQISTVYLQAFADPDGDGLVKEVWFPNRLLPMKADIFSRVAWQLRTRSGVNIYAWMPVLSWDLDPTLTRVKYLPTGEKYHRLSPFDDRVRAQVGMLYEDLAGHAAFDGILFHDDALLSDYEDASAPAITAYQQAGFSGSLSEIRQNPEQFKQWARFKSRALTDFTLELSARVKAIRGPHIKTARNIFALPVIQPESEAWFAQNYADFLKSYDWTAIMAMPYLEGVAEKSADQWLIQLTNQIKNIPQAKDKSILELQAQNWQHQAISSQQLAHWMSLLQLNGVKNYGYYPDNFLHNQPEIDLIRPEFSTAWYP 669
                                   321       331       341       351       361       371       381       391       401       411       421 ||    439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609    || 623       633       643       653       663      
                                                                                                                                         423|                                                                                                                                                                                   614|                                                  
                                                                                                                                          432                                                                                                                                                                                    619
   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 4P7O)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4P7O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4P7O)

(-) Gene Ontology  (9, 9)

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  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 4p7o)
 
  Sites
(no "Sites" information available for 4p7o)
 
  Cis Peptide Bonds
    Gln A:653 - Pro A:654   [ RasMol ]  
    Gln B:653 - Pro B:654   [ RasMol ]  
    Glu A:474 - Asp A:475   [ RasMol ]  
    Glu B:474 - Asp B:475   [ RasMol ]  
    Tyr A:645 - Pro A:646   [ RasMol ]  
    Tyr B:645 - Pro B:646   [ RasMol ]  
 
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  PGAB_ECOLI | P75906
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 Related Entries

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

UniProtKB/Swiss-Prot
        PGAB_ECOLI | P75906: 3vus 4f9d 4f9j 4p7l 4p7n 4p7q 4p7r

(-) Related Entries Specified in the PDB File

4p7l ESCHERICHIA COLI PGAB C-TERMINAL DOMAIN APO FORM, P212121 CRYSTAL FORM
4p7n ESCHERICHIA COLI PGAB C-TERMINAL DOMAIN IN COMPLEX WITH GLUCOSAMINE
4p7q ESCHERICHIA COLI PGAB C-TERMINAL DOMAIN IN COMPLEX WITH N- ACETYLGLUCOSAMINE
4p7r ESCHERICHIA COLI PGAB C-TERMINAL DOMAIN IN COMPLEX WITH A POLY- ALPHA-1,6-N-ACETYL-D-GLUCOSAMINE (PNAG) HEXAMER