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(-) Description

Title :  CRYSTAL STRUCTURE OF YLDV 14L IL-18 BINDING PROTEIN IN COMPLEX WITH HUMAN IL-18
 
Authors :  B. E. Krumm, Y. Xiang, J. Deng
Date :  10 Apr 12  (Deposition) - 26 Sep 12  (Release) - 03 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Binding Protein, Beta Trefoil, Immunoglobulin Fold, Yldv, Yaba, Yatapoxvirus, 14L, Cytokine Signaling, Cytokine-Viral Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Krumm, X. Meng, Z. Wang, Y. Xiang, J. Deng
A Unique Bivalent Binding And Inhibition Mechanism By The Yatapoxvirus Interleukin 18 Binding Protein.
Plos Pathog. V. 8 02876 2012
PubMed-ID: 22927815  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1002876

(-) Compounds

Molecule 1 - 14L PROTEIN
    Chains: C, A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSKB3
    Expression System Strain: ROSETTA-GAMI 2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 22-136
    Gene: 14L
    Mutation: YES
    Organism Common: YLDV
    Organism Scientific: YABA-LIKE DISEASE VIRUS
    Organism Taxid: 132475
 
Molecule 2 - INTERLEUKIN-18
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSKB3
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: IGIF, IL-18, IL18, IL1F4
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: IL-18, IBOCTADEKIN, INTERFERON GAMMA-INDUCING FACTOR, IFN- GAMMA-INDUCING FACTOR, INTERLEUKIN-1 GAMMA, IL-1 GAMMA

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): ABCD
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): AB  

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4EKX)

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:43 -A:111
2C:43 -C:111

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EKX)

(-) 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:101
                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.....eeeeeeeee.......eeeeee...ee.hhh.....eeeee.....eeeeeee..hhhhhhh.eeeeee.....eeeeehhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 4ekx A  24 TRSVNIHVPVKETSKVVLECRGDSYFRHFSYVYWIIGKNKTVDQLPPNSGYRERIYLNRPRADLILTNITDEMRNEKLTCVLIDPKDPLKESVILSKIWNS 132
                                    33        43        53        63        73      ||91       101       111       121       131 
                                                                                   80|                                           
                                                                                    89                                           


Chain B from PDB  Type:PROTEIN  Length:142
                                                                                                                                                                              
               SCOP domains d4ekxb_ B: automated matches                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee.....eeee.....eeee.....eeeeeeee.....eeeeeee.....eeehhhhh.eee......ee........eeeeee..eeeeeeeee......eeeeeee..eeeeeee..........eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ekx B   1 YFGKLESKLSVIRNLNDQVLFIDQGNRPLFEDMRTIFIISMYKDSQPRGMAVTISVASAASTLSSENKIISFKEMNPPDNIKDTKSDIIFFQRSVPGHDNKMQFESSSYEGYFLASEKERDLFKLILKKELGDRSIMFTVQN 155
                                    10        20        30  ||    50        60        71        81        91       101       111       121       131       143       153  
                                                           33|                       69|                                                                  140|            
                                                            44                        71                                                                   143            


Chain C from PDB  Type:PROTEIN  Length:100
                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.....eeeeeeeee.......eeeeee...ee.hhh.....eeeee....eeeeeee..hhhhhhheeeeeee.....eeeeeehhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 4ekx C  24 TRSVNIHVPVKETSKVVLECRGDSYFRHFSYVYWIIGKNKTVDQLPPNSGYRERIYLRPRADLILTNITDEMRNEKLTCVLIDPKDPLKESVILSKIWNS 132
                                    33        43        53        63        73      ||92       102       112       122       132
                                                                                   80|                                          
                                                                                    90                                          


Chain D from PDB  Type:PROTEIN  Length:155
                                                                                                                                                                                           
               SCOP domains d4ekxd_ D: automated matches                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee...eeeee.....eeeee.hhh..........eeeeeeee.....eeeeeee......eeehhhhh.eee......ee........eeeeee..eeeeeeeee.....eeeeeeee..eeeeeeee....hhhh.eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ekx D   1 YFGKLESKLSVIRNLNDQVLFIDQGNRPLFEDMTDSDSRDNAPRTIFIISMYKDSQPRGMAVTISVASAAASTLSSENKIISFKEMNPPDNIKDTKSDIIFFQRSVPGHDNKMQFESSSYEGYFLASEKERDLFKLILKKEELGDRSIMFTVQNE 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140||     151     
                                                                                                                                                                      141|             
                                                                                                                                                                       143
   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  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (38, 38)

Asymmetric Unit(hide GO term definitions)

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  Q9DHU8_YLDV | Q9DHU8
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 Related Entries

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

UniProtKB/Swiss-Prot
        IL18_HUMAN | Q14116: 1j0s 2vxt 3f62 3wo2 3wo3 3wo4 4eee 4hjj 4r6u 4xfs 4xft 4xfu
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        Q9DHU8_YLDV | Q9DHU8: 4eee

(-) Related Entries Specified in the PDB File

4eee