PDB entry 4dkm

View 4dkm on RCSB PDB site
Description: Crystal Structure of Amphioxus GFPc1a
Class: fluorescent protein
Keywords: fluorescent protein, beta-can, chromophore
Deposited on 2012-02-03, released 2013-05-15
The last revision prior to the SCOPe 2.08 freeze date was dated 2013-05-29, with a file datestamp of 2013-05-24.
Experiment type: XRAY
Resolution: 1.95 Å
R-factor: 0.293
AEROSPACI score: 0.35 (click here for full SPACI score report)

Chains and heterogens:

• Chain 'A':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkma_
• Chain 'B':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkmb_
• Chain 'C':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkmc_
• Chain 'D':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkmd_
• Chain 'E':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkme_
• Chain 'F':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkmf_
• Chain 'G':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkmg_
• Chain 'H':
  Compound: Amphioxus Green Fluorescent Protein, GFPc1a
  Species: Branchiostoma floridae [TaxId:7739]
  Gene: BRAFLDRAFT_75523
  Database cross-references and differences (RAF-indexed):
  • Uniprot C3YRA3 (0-215)
    • chromophore (57)
    • conflict (120-121)
    • conflict (168)
    • conflict (181)
    • chromophore (55)
  Domains in SCOPe 2.08: d4dkmh_
• Heterogens: HOH

PDB Chain Sequences:

• Chain 'A':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmA (A:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'B':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmB (B:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'C':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmC (C:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'D':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmD (D:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'E':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmE (E:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'F':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmF (F:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'G':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmG (G:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl
  

  
  
• Chain 'H':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >4dkmH (H:)
  lptthevhvygsingvefdlvgsgkgnpkdgseeiqvkstkgplgfspyivvpnigygfh
  qylpfpdgmspfqaaaddgsgyvvhrtiqfedgasltgnyrysydgghikgefhvvgsgf
  padgpvmtksltavdwsvatmlfpndttvvstidwtcpttsgkryhatlrtnytfakpia
  atilqkqpmfvfrktevkasdaeinlkewqkafhdl