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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN INTERLEUKIN-18
 
Authors :  N. Tsutsumi, T. Kimura, K. Arita, M. Ariyoshi, H. Ohnishi, N. Kondo, M. S Z. Kato, H. Tochio
Date :  19 Dec 13  (Deposition) - 17 Dec 14  (Release) - 20 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.33
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Beta Trefoil Fold, Il-1 Superfamily, Immunity, Inflammation, Autoimmunity, Allergy, Interleukin-18 Receptor Alpha, Interleukin-18 Receptor Beta, Serum, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Tsutsumi, T. Kimura, K. Arita, M. Ariyoshi, H. Ohnishi, T. Yamamoto X. Zuo, K. Maenaka, E. Y. Park, N. Kondo, M. Shirakawa, H. Tochio, Z. Kat
The Structural Basis For Receptor Recognition Of Human Interleukin-18
Nat Commun V. 5 5340 2014
PubMed-ID: 25500532  |  Reference-DOI: 10.1038/NCOMMS6340

(-) Compounds

Molecule 1 - INTERLEUKIN-18
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: IL18
    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): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 16)

Asymmetric Unit (2, 16)
No.NameCountTypeFull Name
1CPS12Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
2SO44Ligand/IonSULFATE ION
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1CPS3Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
2SO42Ligand/IonSULFATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1CPS3Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
2SO41Ligand/IonSULFATE ION
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
1CPS3Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
2SO41Ligand/IonSULFATE ION
Biological Unit 4 (1, 3)
No.NameCountTypeFull Name
1CPS3Ligand/Ion3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE
2SO4-1Ligand/IonSULFATE ION

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:43 , ILE A:48 , LYS A:67 , ILE A:71 , HOH A:318 , HOH A:375BINDING SITE FOR RESIDUE CPS A 201
02AC2SOFTWAREASP A:35 , GLN A:154 , ASN A:155 , GLU A:156BINDING SITE FOR RESIDUE CPS A 202
03AC3SOFTWARELYS A:4 , SER A:7BINDING SITE FOR RESIDUE CPS A 203
04AC4SOFTWAREARG A:104 , SER A:105BINDING SITE FOR RESIDUE SO4 A 204
05AC5SOFTWAREARG A:147BINDING SITE FOR RESIDUE SO4 A 205
06AC6SOFTWAREASP B:35 , GLN B:154 , ASN B:155 , GLU B:156BINDING SITE FOR RESIDUE CPS B 201
07AC7SOFTWAREPRO B:43 , LYS B:67 , CPS B:203BINDING SITE FOR RESIDUE CPS B 202
08AC8SOFTWARELYS B:4 , SER B:7 , LEU B:9 , ASN B:87 , CPS B:202 , HOH B:390BINDING SITE FOR RESIDUE CPS B 203
09AC9SOFTWAREARG B:147 , HOH B:384BINDING SITE FOR RESIDUE SO4 B 204
10BC1SOFTWARELEU C:9 , ASP C:35 , GLN C:154 , ASN C:155 , GLU C:156BINDING SITE FOR RESIDUE CPS C 201
11BC2SOFTWARELEU C:9 , ILE C:71 , ASN C:87 , PRO C:88 , ASP C:90 , ASN C:91BINDING SITE FOR RESIDUE CPS C 202
12BC3SOFTWAREPRO C:43 , LYS C:67 , ILE C:71 , HOH C:315BINDING SITE FOR RESIDUE CPS C 203
13BC4SOFTWAREHIS C:109 , ASP C:110 , ASN C:111BINDING SITE FOR RESIDUE SO4 C 204
14BC5SOFTWAREARG D:39 , ASP D:40 , ALA D:42 , PRO D:43 , ILE D:48 , LYS D:67 , ILE D:71 , HOH D:314BINDING SITE FOR RESIDUE CPS D 201
15BC6SOFTWARESER D:10 , VAL D:11 , GLN D:154 , GLU D:156 , ASP D:157BINDING SITE FOR RESIDUE CPS D 202
16BC7SOFTWARELEU D:9 , ASN D:87 , PRO D:89 , ASP D:90 , ASN D:91BINDING SITE FOR RESIDUE CPS D 203

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3WO2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3WO2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3WO2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3WO2)

(-) Exons   (0, 0)

(no "Exon" information available for 3WO2)

(-) 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:157
                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee.....eeee.....eeee..hhhhhhhhhhhhheeeeeeee.....eeeeeeee...eeeeehhhhh.eeee.....ee........eeeee......eeeeee.....eeeeeeee..eeeeeeee.....hhhhheeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wo2 A   1 YFGKLESKLSVIRNLNDQVLFIDQGNRPLFEDMTDSDCRDNAPRTIFIISMYKDSQPRGMAVTISVKCEKISTLSCENKIISFKEMNPPDNIKDTKSDIIFFQRSVPGHDNKMQFESSSYEGYFLACEKERDLFKLILKKEDELGDRSIMFTVQNED 157
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       


Chain B from PDB  Type:PROTEIN  Length:156
                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeeee.....eeee.....eeee..hhhhhhhhhhhhheeeeeeee.....eeeeeeee...eeeeehhhhh.eeee.....ee........eeeee......eeeeee.....eeeeeeee..eeeeeeee.....hhhhheeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3wo2 B   1 YFGKLESKLSVIRNLNDQVLFIDQGNRPLFEDMTDSDCRDNAPRTIFIISMYKDSQPRGMAVTISVKCEKISTLSCENKIISFKEMNPPDNIKDTKSDIIFFQRSVPGHDNKMQFESSSYEGYFLACEKERDLFKLILKKEDELGDRSIMFTVQNE 156
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150      


Chain C from PDB  Type:PROTEIN  Length:157
                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee.....eeee.....eeee..hhhhhhhhhhhhheeeeeeee.....eeeeeeee...eeeeehhhhh.eeee.....ee........eeeee.......eeeee.....eeeeeeee..eeeeeeee.....hhhhh.eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wo2 C   1 YFGKLESKLSVIRNLNDQVLFIDQGNRPLFEDMTDSDCRDNAPRTIFIISMYKDSQPRGMAVTISVKCEKISTLSCENKIISFKEMNPPDNIKDTKSDIIFFQRSVPGHDNKMQFESSSYEGYFLACEKERDLFKLILKKEDELGDRSIMFTVQNED 157
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       


Chain D from PDB  Type:PROTEIN  Length:157
                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeee.....eeee.....eeee..hhhhhhhhhhhhheeeeeeee.....eeeeeeee...eeeeehhhhh.eeee.....ee........eeeee......eeeeee.....eeeeeeee..eeeeeeee.....hhhhheeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wo2 D   1 YFGKLESKLSVIRNLNDQVLFIDQGNRPLFEDMTDSDCRDNAPRTIFIISMYKDSQPRGMAVTISVKCEKISTLSCENKIISFKEMNPPDNIKDTKSDIIFFQRSVPGHDNKMQFESSSYEGYFLACEKERDLFKLILKKEDELGDRSIMFTVQNED 157
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150
   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 3WO2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3WO2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3WO2)

(-) Gene Ontology  (34, 34)

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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

3wo3 3wo4