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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN IL-1BETA IN COMPLEX WITH THERAPEUTIC ANTIBODY BINDING FRAGMENT OF GEVOKIZUMAB
 
Authors :  M. Blech, S. Hoerer
Date :  19 Jul 12  (Deposition) - 19 Dec 12  (Release) - 14 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.81
Chains :  Asym./Biol. Unit :  A,H,L
Keywords :  Immunoglobulin Fold, Immune System, Interleukine-1Beta (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Blech, D. Peter, P. Fischer, M. M. Bauer, M. Hafner, M. Zeeb, H. Nar
Crystal Structure Of Human Il-1Beta In Complex With Therapeutic Antibody Binding Fragment Of Gevokizumab
J. Mol. Biol. V. 425 94 2013
PubMed-ID: 23041424  |  Reference-DOI: 10.1016/J.JMB.2012.09.021

(-) Compounds

Molecule 1 - INTERLEUKIN-1 BETA
    ChainsA
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System Cell LineCHO
    Expression System Taxid10029
    FragmentUNP RESIDUES 117-267
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymIL-1 BETA, CATABOLIN
 
Molecule 2 - HEAVY CHAIN OF GEVOKIZUMAB ANTIBODY BINDING FRAGMENT
    ChainsH
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System Cell LineCHO
    Expression System Taxid10029
    Organism CommonHUMAN, MOUSE
    Organism ScientificHOMO SAPIENS, MUS MUSCULUS
    Organism Taxid9606, 10090
 
Molecule 3 - LIGHT CHAIN OF GEVOKIZUMAB ANTIBODY BINDING FRAGMENT
    ChainsL
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System Cell LineCHO
    Expression System Taxid10029
    Organism CommonHUMAN, MOUSE
    Organism ScientificHOMO SAPIENS, MUS MUSCULUS
    Organism Taxid9606, 10090

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit AHL

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4G6M)

(-) Sites  (0, 0)

(no "Site" information available for 4G6M)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:97
2H:147 -H:203
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Tyr A:90 -Pro A:91
2Asp H:103 -Pro H:104
3Phe H:153 -Pro H:154
4Glu H:155 -Pro H:156
5Leu H:196 -Gly H:197
6Leu L:94 -Pro L:95
7Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4G6M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4G6M)

(-) Exons   (0, 0)

(no "Exon" information available for 4G6M)

(-) Sequences/Alignments

Asymmetric/Biological 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:150
                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeee....eeeeee..eeeee.....hhhhh..eeeee........eeeeeeee....eeeeeeee..eeeeeeee...........hhh.eeeeeee..eeeeee......eee......ee.eee................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4g6m A   2 PVRSLNCTLRDSQQKSLVMSGPYELKALHLQGQDMEQQVVFSMSFVQGEESNDKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPKNYPKKKMEKRFVFNKIEINNKLEFESAQFPNWYISTSQAENMPVFLGGTKGGQDITDFTMQFV 151
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151

Chain H from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee........eeeeeeee......eeeeeee....eee...hhh.eeeeee....eeeeee...hhhhheeeeeeeee.......ee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g6m H   1 QVQLQESGPGLVKPSQTLSLTCSFSGFSLSTSGMGVGWIRQPSGKGLEWLAHIWWDGDESYNPSLKSRLTISKDTSKNQVSLKITSVTAADTAVYFCARNRYDPPWFVDWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEP 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

Chain L from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee....eeeee....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeeee......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4g6m L   1 DIQMTQSTSSLSASVGDRVTITCRASQDISNYLSWYQQKPGKAVKLLIYYTSKLHSGVPSRFSGSGSGTDYTLTISSLQQEDFATYFCLQGKMLPWTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGE 213
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210   

   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 4G6M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4G6M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4G6M)

(-) Gene Ontology  (146, 146)

Asymmetric/Biological Unit(hide GO term definitions)

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Asymmetric/Biological Unit
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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 4g6m)
 
  Cis Peptide Bonds
    Asp H:103 - Pro H:104   [ RasMol ]  
    Glu H:155 - Pro H:156   [ RasMol ]  
    Leu H:196 - Gly H:197   [ RasMol ]  
    Leu L:94 - Pro L:95   [ RasMol ]  
    Phe H:153 - Pro H:154   [ RasMol ]  
    Tyr A:90 - Pro A:91   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        IL1B_HUMAN | P015841hib 1i1b 1iob 1itb 1l2h 1s0l 1t4q 1too 1tp0 1twe 1twm 21bi 2i1b 2kh2 2nvh 31bi 3ltq 3o4o 3pok 41bi 4dep 4g6j 4gaf 4gai 4i1b 5bvp 5i1b 5mvz 6i1b 7i1b 9ilb

(-) Related Entries Specified in the PDB File

4g5z 4g6j 4g6k