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(-) Description

Title :  STRUCTURE OF THE RBP FROM LACTOCOCCAL PHAGE 1358 IN COMPLEX WITH 2 GLCNAC MOLECULES
 
Authors :  C. Farenc, S. Spinelli, C. Bebeacua, D. Tremblay, I. Orlov, S. Blangy, B. P. Klaholz, S. Moineau, C. Cambillau
Date :  18 Jun 13  (Deposition) - 30 Apr 14  (Release) - 30 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B  (3x)
Keywords :  Beta Sandwich Domain, Phage Receptor Binding Protein, Lactococcus Lactis Pellicle Saccharide, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Farenc, S. Spinelli, C. Bebeacua, D. Tremblay, I. Orlov, S. Blangy, B. P. Klaholz, S. Moineau, C. Cambillau
A Virulent Siphophage Cyoem Structure And Host Recognition And Infection Mechanism
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RECEPTOR BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PERG20A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: ORF20
    Organism Scientific: LACTOCOCCUS PHAGE 1358
    Organism Taxid: 741942
    Synonym: RBP

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
2NDG1Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
3ZN6Ligand/IonZINC ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
2NDG3Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
3ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
2NDG-1Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
3ZN-1Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:237 , ASN A:244 , ASN A:289 , SER A:291 , ALA A:292 , ASN A:341 , PHE A:343 , HOH A:514 , HOH A:765 , HOH A:788 , HOH A:838 , HOH A:920BINDING SITE FOR RESIDUE NDG A 401
2AC2SOFTWAREVAL A:200 , GLN A:201 , SER A:202 , LYS A:239 , PHE A:240 , ASP A:243 , GLN A:345 , HOH A:517 , HOH A:611 , HOH A:689 , HOH A:788 , HOH A:838 , HOH A:844BINDING SITE FOR RESIDUE NAG A 402
3AC3SOFTWAREARG A:254BINDING SITE FOR RESIDUE ZN A 403
4AC4SOFTWAREASP A:133 , HIS A:303 , LYS A:338 , HOH A:535 , HOH A:913BINDING SITE FOR RESIDUE ZN A 404
5AC5SOFTWAREGLU A:16 , SER A:20 , HIS A:137BINDING SITE FOR RESIDUE ZN A 405
6AC6SOFTWAREARG B:237 , PHE B:240 , ASN B:244 , ASN B:289 , SER B:291 , ALA B:292 , ASN B:341 , PHE B:343 , HOH B:504 , HOH B:575 , HOH B:783BINDING SITE FOR RESIDUE NAG B 401
7AC7SOFTWAREGLU B:16 , SER B:20 , HIS B:137BINDING SITE FOR RESIDUE ZN B 403
8AC8SOFTWAREASP B:133 , HIS B:303 , LYS B:338BINDING SITE FOR RESIDUE ZN B 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L92)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:71 -Pro A:72

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L92)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L92)

(-) Exons   (0, 0)

(no "Exon" information available for 4L92)

(-) 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:390
                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhh....eeeee...hhhhh...eeee..eeeee..eeeee.......eeee......eeeeeeeeee.....eee........eee...eeeeeehhhhhhhh...............eeeeeeeeeee.......eeee.hhhh...........eeeeee..eeee.....eeee....eeeee.....eeeee..eee....eee..........eee...eeeeeeeeeeee.......hhhhh......eeeeeeeee......hhhhh...........eeeeeeee.....eeeeeeeeeeee....eeeeeeee.............hhhhh.eeeeeeeeeeeee....hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l92 A   2 VLKGINFDRSIVTPENEASILDLAMQNRSGVLDGMTIDILNTTSNQLALFHGTAVLQGYGIEITRAAAPDVLVDTTGQSNETMLLCLTIDLNQVNVPSGTVGTNTYAVDYKQIRLEFLDVPTLLKQYWRDHSLHDLIDPRRVISMPLYWITFGQTGTTPLYEQIKSNYIDGGNSGNPAYGIAARCENFNHFINKVAVQSIPINGVANRPVSSTASQLTNYKVWRNPYLCSQDPRDKFAPDNLVIEEDGIYRIDISGSINIANYTFPASGNSWRVGGRYFQIVCARNSSANNLAEFGAEQHLPPSGVWTRRVLVGEYTAGMTEQAFSSVATISLFKGDNFFLQFETGTNTSRDSAYNNGYGTSGTHLRNFSYTLERVGDLNGTAYYDNGTF 393
                                    11        21        31        41        51        61      ||73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393
                                                                                             68|                                                                                                                                                                                                                                                                                                                                  
                                                                                              71                                                                                                                                                                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:391
                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhh....eeeee...hhhhh...eeee..eeeee..eeeee........eeee......eeeeeeeeee.....eee........eee...eeeeeehhhhhhhh...............eeeeeeeeeee.......eeee.hhhh...........eeeeee..eeee.....eeee....eeeee.....eeeee..eee....eee..........eee...eeeeeeeeeeee.......hhhhh......eeeeeeeee......hhhhh...........eeeeeeee.....eeeeeeeeeeee....eeeeeeee.............hhhhh.eeeeeeeeeeeee....hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l92 B   2 VLKGINFDRSIVTPENEASILDLAMQNRSGVLDGMTIDILNTTSNQLALFHGTAVLQGYGIEITRAANAPDVLVDTTGQSNETMLLCLTIDLNQVNVPSGTVGTNTYAVDYKQIRLEFLDVPTLLKQYWRDHSLHDLIDPRRVISMPLYWITFGQTGTTPLYEQIKSNYIDGGNSGNPAYGIAARCENFNHFINKVAVQSIPINGVANRPVSSTASQLTNYKVWRNPYLCSQDPRDKFAPDNLVIEEDGIYRIDISGSINIANYTFPASGNSWRVGGRYFQIVCARNSSANNLAEFGAEQHLPPSGVWTRRVLVGEYTAGMTEQAFSSVATISLFKGDNFFLQFETGTNTSRDSAYNNGYGTSGTHLRNFSYTLERVGDLNGTAYYDNGTF 393
                                    11        21        31        41        51        61       |72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392 
                                                                                              69|                                                                                                                                                                                                                                                                                                                                  
                                                                                               71
   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 4L92)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L92)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L92)

(-) Gene Ontology  (1, 1)

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 Related Entries

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        D3W0F1_9CAUD | D3W0F1: 4l97 4l99 4l9b 4rga 4rgg

(-) Related Entries Specified in the PDB File

4l97 4l99 4l9b