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(-) Description

Title :  HIGH RESOLUTION CRYSTAL STRUCTURE OF A HUMAN TNF-ALPHA MUTANT
 
Authors :  S. -S. Cha, J. -S. Kim, H. -S. Cho, B. -H. Oh
Date :  22 Apr 99  (Deposition) - 07 May 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Lymphokine, Low Systemic Toxicity, Mutant (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. S. Cha, J. S. Kim, H. S. Cho, N. K. Shin, W. Jeong, H. C. Shin, Y. J. Kim, J. H. Hahn, B. H. Oh
High Resolution Crystal Structure Of A Human Tumor Necrosis Factor-Alpha Mutant With Low Systemic Toxicity.
J. Biol. Chem. V. 273 2153 1998
PubMed-ID: 9442056  |  Reference-DOI: 10.1074/JBC.273.4.2153
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (TUMOR NECROSIS FACTOR-ALPHA)
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5TSW)

(-) Sites  (0, 0)

(no "Site" information available for 5TSW)

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:69 -A:101
2E:69 -E:101
3F:69 -F:101

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5TSW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TSW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TSW)

(-) Exons   (0, 0)

(no "Exon" information available for 5TSW)

(-) 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:149
                                                                                                                                                                                     
               SCOP domains d5tswa_ A: Tumor necrosis factor (TNF)                                                                                                                SCOP domains
               CATH domains 5tswA00 A:9-157  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eee...............eeeeeeeeeeeeee........eeeeeeee.......eeeeeeee..............eeeeeeeeeeeeee....eeeeee..............eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tsw A   9 SDKPVAHVVANPQAEGQLQWSNRRANALLANGVELRDNQLVVPIEGLFLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         


Chain B from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains d5tswb_ B: Tumor necrosis factor (TNF)                                                                                                                SCOP domains
               CATH domains 5tswB00 B:9-157  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eee...eee..eee....eeeeeeeeeeeeee........eeeeeeee......eeeeeeeee..............eeeeeeeeeeeeee....eeeeee..hhh.........eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tsw B   9 SDKPVAHVVANPQAEGQLQWSNRRANALLANGVELRDNQLVVPIEGLFLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         


Chain C from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains d5tswc_ C: Tumor necrosis factor (TNF)                                                                                                                SCOP domains
               CATH domains 5tswC00 C:9-157  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eee...eee..eee....eeeeeeeeeeeeee.......eeeeeeeee......eeeeeeeeee.............eeeeeeeeeeeeee....eeeeee..hhh.........eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tsw C   9 SDKPVAHVVANPQAEGQLQWSNRRANALLANGVELRDNQLVVPIEGLFLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         


Chain D from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains d5tswd_ D: Tumor necrosis factor (TNF)                                                                                                                SCOP domains
               CATH domains 5tswD00 D:9-157  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eee...............eeeeeeeeeeeeee........eeeeeeee......eeeeeeeee..............eeeeeeeeeeeeee....eeeeee..............eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tsw D   9 SDKPVAHVVANPQAEGQLQWSNRRANALLANGVELRDNQLVVPIEGLFLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         


Chain E from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains d5tswe_ E: Tumor necrosis factor (TNF)                                                                                                                SCOP domains
               CATH domains 5tswE00 E:9-157  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..hhh.............eee...............eeeeeeeeeeeeee.......eeeeeeeee......eeeeeeeeee.............eeeeeeeeeeeeee....eeeeee..hhh.........eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tsw E   9 SDKPVAHVVANPQAEGQLQWSNRRANALLANGVELRDNQLVVPIEGLFLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         


Chain F from PDB  Type:PROTEIN  Length:149
                                                                                                                                                                                     
               SCOP domains d5tswf_ F: Tumor necrosis factor (TNF)                                                                                                                SCOP domains
               CATH domains 5tswF00 F:9-157  [code=2.60.120.40, no name defined]                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eee...eee..eee....eeeeeeeeeeeeee........eeeeeeee......eeeeeeeee..............eeeeeeeeeeeeee....eeeeee..hhh.........eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tsw F   9 SDKPVAHVVANPQAEGQLQWSNRRANALLANGVELRDNQLVVPIEGLFLIYSQVLFKGQGCPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEKGDRLSAEINRPDYLDFAESGQVYFGIIAL 157
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148
   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, 6)

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

(-) CATH Domains  (1, 6)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TSW)

(-) Gene Ontology  (147, 147)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        TNFA_HUMAN | P01375: 1a8m 1tnf 2az5 2e7a 2tun 2zjc 2zpx 3alq 3it8 3l9j 3wd5 4g3y 4tsv 4twt 4y6o 5mu8

(-) Related Entries Specified in the PDB File

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