PDB entry 1ynf

View 1ynf on RCSB PDB site
Description: Crystal Structure of N-Succinylarginine Dihydrolase, AstB, bound to Substrate and Product, an Enzyme from the Arginine Catabolic Pathway of Escherichia coli
Class: hydrolase
Keywords: Succinylarginine, Dihydrolase
Deposited on 2005-01-24, released 2005-02-15
The last revision prior to the SCOP 1.73 freeze date was dated 2006-01-24, with a file datestamp of 2007-06-28.
Experiment type: XRAY
Resolution: 1.9 Å
R-factor: 0.214
AEROSPACI score: 0.43 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Succinylarginine Dihydrolase
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
    • Uniprot P76216 (12-End)
      • modified residue (59)
      • modified residue (116)
      • modified residue (201)
      • modified residue (295)
      • modified residue (327-328)
      • modified residue (367)
      • modified residue (395-396)
    Domains in SCOP 1.73: d1ynfa1
  • Chain 'B':
    Compound: Succinylarginine Dihydrolase
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
    • Uniprot P76216 (12-End)
      • modified residue (59)
      • modified residue (116)
      • modified residue (201)
      • modified residue (295)
      • modified residue (327-328)
      • modified residue (367)
      • modified residue (395-396)
    Domains in SCOP 1.73: d1ynfb1
  • Chain 'C':
    Compound: Succinylarginine Dihydrolase
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
    • Uniprot P76216 (12-End)
      • modified residue (59)
      • modified residue (116)
      • modified residue (201)
      • modified residue (295)
      • modified residue (327-328)
      • modified residue (367)
      • modified residue (395-396)
    Domains in SCOP 1.73: d1ynfc1
  • Chain 'D':
    Compound: Succinylarginine Dihydrolase
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
    • Uniprot P76216 (12-End)
      • modified residue (59)
      • modified residue (116)
      • modified residue (201)
      • modified residue (295)
      • modified residue (327-328)
      • modified residue (367)
      • modified residue (395-396)
    Domains in SCOP 1.73: d1ynfd1
  • Chain 'E':
    Compound: Succinylarginine Dihydrolase
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
    • Uniprot P76216 (12-End)
      • modified residue (59)
      • modified residue (116)
      • modified residue (201)
      • modified residue (295)
      • modified residue (327-328)
      • modified residue (367)
      • modified residue (395-396)
    Domains in SCOP 1.73: d1ynfe1
  • Chain 'F':
    Compound: Succinylarginine Dihydrolase
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
    • Uniprot P76216 (12-End)
      • modified residue (59)
      • modified residue (116)
      • modified residue (201)
      • modified residue (295)
      • modified residue (327-328)
      • modified residue (367)
      • modified residue (395-396)
    Domains in SCOP 1.73: d1ynff1
  • Heterogens: K, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >1ynfA (A:)
mgsshhhhhhgsnawevnfdglvglthhyaglsfgneastrhrfqvsnprlaakqgllkm
kaladagfpqavippherpfipvlrqlgfsgsdeqvlekvarqaphwlssvssaspmwva
naatiapsadtldgkvhltvanlnnkfhrsleapvtesllkaifndeekfsvhsalpqva
llgdegaanhnrlgghygepgmqlfvygreegndtrpsryparqtreaseavarlnqvnp
qqvifaqqnpdvidqgvfhndviavsnrqvlfchqqafarqsqllanlrarvngfmaiev
patqvsvsdtvstylfnsqllsrddgsmmlvlpqecrehagvwgylnellaadnpiselk
vfdlresmangggpaclrlrvvlteeerravnpavmmndtlfnalndwvdryyrdrltaa
dladpqllregrealdvlsqllnlgsvypfqregggng

    Sequence, based on observed residues (ATOM records): (download) 
    >1ynfA (A:)
nawevnfdglvglthhyahrfqvsnprlaakqgllkmkaladagfpqavippherpfipv
lrqlgfsgsdeqvlekvarqaphwlssvssaspmwvanaatiapsadtldgkvhltvanl
nnkfhrsleapvtesllkaifndeekfsvhsalpqvallgdegaanhnrlgghygepgmq
lfvygreegndtrpsryparqtreaseavarlnqvnpqqvifaqqnpdvidqgvfhndvi
avsnrqvlfchqqafarqsqllanlrarvngfmaievpatqvsvsdtvstylfnsqllsr
ddgsmmlvlpqecrehagvwgylnellaadnpiselkvfdlresmangggpaclrlrvvl
teeerravnpavmmndtlfnalndwvdryyrdrltaadladpqllregrealdvlsqlln
lgsvypfqr

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >1ynfB (B:)
mgsshhhhhhgsnawevnfdglvglthhyaglsfgneastrhrfqvsnprlaakqgllkm
kaladagfpqavippherpfipvlrqlgfsgsdeqvlekvarqaphwlssvssaspmwva
naatiapsadtldgkvhltvanlnnkfhrsleapvtesllkaifndeekfsvhsalpqva
llgdegaanhnrlgghygepgmqlfvygreegndtrpsryparqtreaseavarlnqvnp
qqvifaqqnpdvidqgvfhndviavsnrqvlfchqqafarqsqllanlrarvngfmaiev
patqvsvsdtvstylfnsqllsrddgsmmlvlpqecrehagvwgylnellaadnpiselk
vfdlresmangggpaclrlrvvlteeerravnpavmmndtlfnalndwvdryyrdrltaa
dladpqllregrealdvlsqllnlgsvypfqregggng

    Sequence, based on observed residues (ATOM records): (download) 
    >1ynfB (B:)
nawevnfdglvglthhyahrfqvsnprlaakqgllkmkaladagfpqavippherpfipv
lrqlgfsgsdeqvlekvarqaphwlssvssaspmwvanaatiapsadtldgkvhltvanl
nnkfhrsleapvtesllkaifndeekfsvhsalpqvallgdegaanhnrlgghygepgmq
lfvygreegndtrpsryparqtreaseavarlnqvnpqqvifaqqnpdvidqgvfhndvi
avsnrqvlfchqqafarqsqllanlrarvngfmaievpatqvsvsdtvstylfnsqllsr
ddgsmmlvlpqecrehagvwgylnellaadnpiselkvfdlresmangggpaclrlrvvl
teeerravnpavmmndtlfnalndwvdryyrdrltaadladpqllregrealdvlsqlln
lgsvypfqr

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >1ynfC (C:)
mgsshhhhhhgsnawevnfdglvglthhyaglsfgneastrhrfqvsnprlaakqgllkm
kaladagfpqavippherpfipvlrqlgfsgsdeqvlekvarqaphwlssvssaspmwva
naatiapsadtldgkvhltvanlnnkfhrsleapvtesllkaifndeekfsvhsalpqva
llgdegaanhnrlgghygepgmqlfvygreegndtrpsryparqtreaseavarlnqvnp
qqvifaqqnpdvidqgvfhndviavsnrqvlfchqqafarqsqllanlrarvngfmaiev
patqvsvsdtvstylfnsqllsrddgsmmlvlpqecrehagvwgylnellaadnpiselk
vfdlresmangggpaclrlrvvlteeerravnpavmmndtlfnalndwvdryyrdrltaa
dladpqllregrealdvlsqllnlgsvypfqregggng

    Sequence, based on observed residues (ATOM records): (download) 
    >1ynfC (C:)
nawevnfdglvglthhyahrfqvsnprlaakqgllkmkaladagfpqavippherpfipv
lrqlgfsgsdeqvlekvarqaphwlssvssaspmwvanaatiapsadtldgkvhltvanl
nnkfhrsleapvtesllkaifndeekfsvhsalpqvallgdegaanhnrlgghygepgmq
lfvygreegndtrpsryparqtreaseavarlnqvnpqqvifaqqnpdvidqgvfhndvi
avsnrqvlfchqqafarqsqllanlrarvngfmaievpatqvsvsdtvstylfnsqllsr
ddgsmmlvlpqecrehagvwgylnellaadnpiselkvfdlresmangggpaclrlrvvl
teeerravnpavmmndtlfnalndwvdryyrdrltaadladpqllregrealdvlsqlln
lgsvypfqr

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >1ynfD (D:)
mgsshhhhhhgsnawevnfdglvglthhyaglsfgneastrhrfqvsnprlaakqgllkm
kaladagfpqavippherpfipvlrqlgfsgsdeqvlekvarqaphwlssvssaspmwva
naatiapsadtldgkvhltvanlnnkfhrsleapvtesllkaifndeekfsvhsalpqva
llgdegaanhnrlgghygepgmqlfvygreegndtrpsryparqtreaseavarlnqvnp
qqvifaqqnpdvidqgvfhndviavsnrqvlfchqqafarqsqllanlrarvngfmaiev
patqvsvsdtvstylfnsqllsrddgsmmlvlpqecrehagvwgylnellaadnpiselk
vfdlresmangggpaclrlrvvlteeerravnpavmmndtlfnalndwvdryyrdrltaa
dladpqllregrealdvlsqllnlgsvypfqregggng

    Sequence, based on observed residues (ATOM records): (download) 
    >1ynfD (D:)
nawevnfdglvglthhyahrfqvsnprlaakqgllkmkaladagfpqavippherpfipv
lrqlgfsgsdeqvlekvarqaphwlssvssaspmwvanaatiapsadtldgkvhltvanl
nnkfhrsleapvtesllkaifndeekfsvhsalpqvallgdegaanhnrlgghygepgmq
lfvygreegndtrpsryparqtreaseavarlnqvnpqqvifaqqnpdvidqgvfhndvi
avsnrqvlfchqqafarqsqllanlrarvngfmaievpatqvsvsdtvstylfnsqllsr
ddgsmmlvlpqecrehagvwgylnellaadnpiselkvfdlresmangggpaclrlrvvl
teeerravnpavmmndtlfnalndwvdryyrdrltaadladpqllregrealdvlsqlln
lgsvypfqr

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >1ynfE (E:)
mgsshhhhhhgsnawevnfdglvglthhyaglsfgneastrhrfqvsnprlaakqgllkm
kaladagfpqavippherpfipvlrqlgfsgsdeqvlekvarqaphwlssvssaspmwva
naatiapsadtldgkvhltvanlnnkfhrsleapvtesllkaifndeekfsvhsalpqva
llgdegaanhnrlgghygepgmqlfvygreegndtrpsryparqtreaseavarlnqvnp
qqvifaqqnpdvidqgvfhndviavsnrqvlfchqqafarqsqllanlrarvngfmaiev
patqvsvsdtvstylfnsqllsrddgsmmlvlpqecrehagvwgylnellaadnpiselk
vfdlresmangggpaclrlrvvlteeerravnpavmmndtlfnalndwvdryyrdrltaa
dladpqllregrealdvlsqllnlgsvypfqregggng

    Sequence, based on observed residues (ATOM records): (download) 
    >1ynfE (E:)
nawevnfdglvglthhyahrfqvsnprlaakqgllkmkaladagfpqavippherpfipv
lrqlgfsgsdeqvlekvarqaphwlssvssaspmwvanaatiapsadtldgkvhltvanl
nnkfhrsleapvtesllkaifndeekfsvhsalpqvallgdegaanhnrlgghygepgmq
lfvygreegndtrpsryparqtreaseavarlnqvnpqqvifaqqnpdvidqgvfhndvi
avsnrqvlfchqqafarqsqllanlrarvngfmaievpatqvsvsdtvstylfnsqllsr
ddgsmmlvlpqecrehagvwgylnellaadnpiselkvfdlresmangggpaclrlrvvl
teeerravnpavmmndtlfnalndwvdryyrdrltaadladpqllregrealdvlsqlln
lgsvypfqr

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >1ynfF (F:)
mgsshhhhhhgsnawevnfdglvglthhyaglsfgneastrhrfqvsnprlaakqgllkm
kaladagfpqavippherpfipvlrqlgfsgsdeqvlekvarqaphwlssvssaspmwva
naatiapsadtldgkvhltvanlnnkfhrsleapvtesllkaifndeekfsvhsalpqva
llgdegaanhnrlgghygepgmqlfvygreegndtrpsryparqtreaseavarlnqvnp
qqvifaqqnpdvidqgvfhndviavsnrqvlfchqqafarqsqllanlrarvngfmaiev
patqvsvsdtvstylfnsqllsrddgsmmlvlpqecrehagvwgylnellaadnpiselk
vfdlresmangggpaclrlrvvlteeerravnpavmmndtlfnalndwvdryyrdrltaa
dladpqllregrealdvlsqllnlgsvypfqregggng

    Sequence, based on observed residues (ATOM records): (download) 
    >1ynfF (F:)
nawevnfdglvglthhyahrfqvsnprlaakqgllkmkaladagfpqavippherpfipv
lrqlgfsgsdeqvlekvarqaphwlssvssaspmwvanaatiapsadtldgkvhltvanl
nnkfhrsleapvtesllkaifndeekfsvhsalpqvallgdegaanhnrlgghygepgmq
lfvygreegndtrpsryparqtreaseavarlnqvnpqqvifaqqnpdvidqgvfhndvi
avsnrqvlfchqqafarqsqllanlrarvngfmaievpatqvsvsdtvstylfnsqllsr
ddgsmmlvlpqecrehagvwgylnellaadnpiselkvfdlresmangggpaclrlrvvl
teeerravnpavmmndtlfnalndwvdryyrdrltaadladpqllregrealdvlsqlln
lgsvypfqr