PDB entry 4eb8

View 4eb8 on RCSB PDB site
Description: Crystal structure of purine nucleoside phosphorylase (W16Y, W94Y, W178Y, H257W) mutant from human complexed with DADMe-ImmG and phosphate
Class: transferase/transferase inhibitor
Keywords: PNP,Immucillin, purine nucleoside phosphorylase, nucleoside binding, purine base binding, purine-nucleoside phosphorylase activity, drug binding, transferase activity, transferring glycosyl groups, phosphate ion binding, intracellular, cytosol, TRANSFERASE-TRANSFERASE INHIBITOR complex
Deposited on 2012-03-23, released 2013-02-06
The last revision prior to the SCOPe 2.08 freeze date was dated 2013-03-13, with a file datestamp of 2013-03-08.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: 0.183
AEROSPACI score: 0.37 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: purine nucleoside phosphorylase
    Species: Homo sapiens [TaxId:9606]
    Gene: NP, PNP, X00737.1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P00491 (35-End)
      • expression tag (33-34)
      • engineered mutation (50)
      • engineered mutation (85)
      • engineered mutation (128)
      • engineered mutation (212)
      • engineered mutation (291)
    Domains in SCOPe 2.08: d4eb8a1, d4eb8a2
  • Chain 'B':
    Compound: purine nucleoside phosphorylase
    Species: Homo sapiens [TaxId:9606]
    Gene: NP, PNP, X00737.1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P00491 (35-End)
      • expression tag (33-34)
      • engineered mutation (50)
      • engineered mutation (85)
      • engineered mutation (128)
      • engineered mutation (212)
      • engineered mutation (291)
    Domains in SCOPe 2.08: d4eb8b1, d4eb8b2
  • Chain 'C':
    Compound: purine nucleoside phosphorylase
    Species: Homo sapiens [TaxId:9606]
    Gene: NP, PNP, X00737.1
    Database cross-references and differences (RAF-indexed):
    • Uniprot P00491
      • engineered mutation (50)
      • engineered mutation (85)
      • engineered mutation (128)
      • engineered mutation (212)
      • engineered mutation (291)
    Domains in SCOPe 2.08: d4eb8c_
  • Heterogens: PO4, IM5, EDO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >4eb8A (A:)
    mrgshhhhhhgmasmtggqqmgrdlyddddkdptlmengytyedykntaeyllshtkhrp
    qvaiicgsglggltdkltqaqifdyseipnfprstvpghagrlvfgflngracvmmqgrf
    hmyegyplykvtfpvrvfhllgvdtlvvtnaagglnpkfevgdimlirdhinlpgfsgqn
    plrgpnderfgdrfpamsdaydrtmrqralstykqmgeqrelqegtyvmvagpsfetvae
    crvlqklgadavgmstvpevivarhcglrvfgfslitnkvimdyeslekanweevlaagk
    qaaqkleqfvsilmasiplpdkas
    

    Sequence, based on observed residues (ATOM records): (download)
    >4eb8A (A:)
    tlmengytyedykntaeyllshtkhrpqvaiicgsglggltdkltqaqifdyseipnfpr
    stvpghagrlvfgflngracvmmqgrfhmyegyplykvtfpvrvfhllgvdtlvvtnaag
    glnpkfevgdimlirdhinlpgfsgqnplrgpnderfgdrfpamsdaydrtmrqralsty
    kqmgeqrelqegtyvmvagpsfetvaecrvlqklgadavgmstvpevivarhcglrvfgf
    slitnkvimdyeslekanweevlaagkqaaqkleqfvsilmasiplpd
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >4eb8B (B:)
    mrgshhhhhhgmasmtggqqmgrdlyddddkdptlmengytyedykntaeyllshtkhrp
    qvaiicgsglggltdkltqaqifdyseipnfprstvpghagrlvfgflngracvmmqgrf
    hmyegyplykvtfpvrvfhllgvdtlvvtnaagglnpkfevgdimlirdhinlpgfsgqn
    plrgpnderfgdrfpamsdaydrtmrqralstykqmgeqrelqegtyvmvagpsfetvae
    crvlqklgadavgmstvpevivarhcglrvfgfslitnkvimdyeslekanweevlaagk
    qaaqkleqfvsilmasiplpdkas
    

    Sequence, based on observed residues (ATOM records): (download)
    >4eb8B (B:)
    tlmengytyedykntaeyllshtkhrpqvaiicgsglggltdkltqaqifdyseipnfpr
    stvpghagrlvfgflngracvmmqgrfhmyegyplykvtfpvrvfhllgvdtlvvtnaag
    glnpkfevgdimlirdhinlpgfsgqnplrgpnderfgdrfpamsdaydrtmrqralsty
    kqmgeqrelqegtyvmvagpsfetvaecrvlqklgadavgmstvpevivarhcglrvfgf
    slitnkvimdyeslekanweevlaagkqaaqkleqfvsilmasiplpd
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >4eb8C (C:)
    mrgshhhhhhgmasmtggqqmgrdlyddddkdptlmengytyedykntaeyllshtkhrp
    qvaiicgsglggltdkltqaqifdyseipnfprstvpghagrlvfgflngracvmmqgrf
    hmyegyplykvtfpvrvfhllgvdtlvvtnaagglnpkfevgdimlirdhinlpgfsgqn
    plrgpnderfgdrfpamsdaydrtmrqralstykqmgeqrelqegtyvmvagpsfetvae
    crvlqklgadavgmstvpevivarhcglrvfgfslitnkvimdyeslekanweevlaagk
    qaaqkleqfvsilmasiplpdkas
    

    Sequence, based on observed residues (ATOM records): (download)
    >4eb8C (C:)
    gytyedykntaeyllshtkhrpqvaiicgsglggltdkltqaqifdyseipnfprstvpg
    hagrlvfgflngracvmmqgrfhmyegyplykvtfpvrvfhllgvdtlvvtnaagglnpk
    fevgdimlirdhinlpgfsgqnplrgpnderfgdrfpamsdaydrtmrqralstykqmge
    qrelqegtyvmvagpsfetvaecrvlqklgadavgmstvpevivarhcglrvfgfslitn
    kvimdyeslekanweevlaagkqaaqkleqfvsilmasiplpd