PDB entry 5ify

View 5ify on RCSB PDB site
Description: Crystal structure of Glucose-1-phosphate thymidylyltransferase from Burkholderia vietnamiensis in complex with 2 -Deoxyuridine-5'-monophosphate and 2'-Deoxy-Thymidine-B-L-Rhamnose
Class: transferase
Keywords: SSGCID, Glucose-1-phosphate thymidylyltransferase, 2'-Deoxy-Thymidine-B-L-Rhamnose, 2 -Deoxyuridine-5'-monophosphate, Structural Genomics, Seattle Structural Genomics Center for Infectious Disease, TRANSFERASE
Deposited on 2016-02-26, released 2016-03-09
The last revision prior to the SCOPe 2.08 freeze date was dated 2016-03-09, with a file datestamp of 2016-03-04.
Experiment type: XRAY
Resolution: 2.25 Å
R-factor: N/A
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: glucose-1-phosphate thymidylyltransferase
    Species: Burkholderia vietnamiensis (strain G4 / LMG 22486) [TaxId:269482]
    Gene: Bcep1808_0806
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ifya_
  • Chain 'B':
    Compound: glucose-1-phosphate thymidylyltransferase
    Species: Burkholderia vietnamiensis (strain G4 / LMG 22486) [TaxId:269482]
    Gene: Bcep1808_0806
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ifyb_
  • Chain 'C':
    Compound: glucose-1-phosphate thymidylyltransferase
    Species: Burkholderia vietnamiensis (strain G4 / LMG 22486) [TaxId:269482]
    Gene: Bcep1808_0806
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ifyc_
  • Chain 'D':
    Compound: glucose-1-phosphate thymidylyltransferase
    Species: Burkholderia vietnamiensis (strain G4 / LMG 22486) [TaxId:269482]
    Gene: Bcep1808_0806
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ifyd_
  • Chain 'E':
    Compound: glucose-1-phosphate thymidylyltransferase
    Species: Burkholderia vietnamiensis (strain G4 / LMG 22486) [TaxId:269482]
    Gene: Bcep1808_0806
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ifye_
  • Chain 'F':
    Compound: glucose-1-phosphate thymidylyltransferase
    Species: Burkholderia vietnamiensis (strain G4 / LMG 22486) [TaxId:269482]
    Gene: Bcep1808_0806
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5ifyf_
  • Heterogens: TRH, UMP, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5ifyA (A:)
mahhhhhhmarkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvl
iistpqdtprfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdni
fyghdlakqlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyav
tglyfydrqvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdsl
ieagtfiatlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqv
awqst

    Sequence, based on observed residues (ATOM records): (download) 
    >5ifyA (A:)
arkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvliistpqdtp
rfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdnifyghdlakq
lerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyavtglyfydrq
vcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdslieagtfiat
lqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqvaw

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5ifyB (B:)
mahhhhhhmarkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvl
iistpqdtprfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdni
fyghdlakqlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyav
tglyfydrqvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdsl
ieagtfiatlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqv
awqst

    Sequence, based on observed residues (ATOM records): (download) 
    >5ifyB (B:)
markgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvliistpqdt
prfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdnifyghdlak
qlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyavtglyfydr
qvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdslieagtfia
tlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqva

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5ifyC (C:)
mahhhhhhmarkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvl
iistpqdtprfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdni
fyghdlakqlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyav
tglyfydrqvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdsl
ieagtfiatlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqv
awqst

    Sequence, based on observed residues (ATOM records): (download) 
    >5ifyC (C:)
arkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvliistpqdtp
rfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdnifyghdlakq
lerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyavtglyfydrq
vcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdslieagtfiat
lqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllth

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5ifyD (D:)
mahhhhhhmarkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvl
iistpqdtprfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdni
fyghdlakqlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyav
tglyfydrqvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdsl
ieagtfiatlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqv
awqst

    Sequence, based on observed residues (ATOM records): (download) 
    >5ifyD (D:)
arkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvliistpqdtp
rfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdnifyghdlakq
lerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyavtglyfydrq
vcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdslieagtfiat
lqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqvaw

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5ifyE (E:)
mahhhhhhmarkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvl
iistpqdtprfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdni
fyghdlakqlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyav
tglyfydrqvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdsl
ieagtfiatlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqv
awqst

    Sequence, based on observed residues (ATOM records): (download) 
    >5ifyE (E:)
arkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvliistpqdtp
rfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdnifyghdlakq
lerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyavtglyfydrq
vcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdslieagtfiat
lqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqvaw

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >5ifyF (F:)
mahhhhhhmarkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvl
iistpqdtprfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdni
fyghdlakqlerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyav
tglyfydrqvcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdsl
ieagtfiatlqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqv
awqst

    Sequence, based on observed residues (ATOM records): (download) 
    >5ifyF (F:)
arkgiilaggsgtrlypithavskqllpvydkpmiyyplstlmiagirdvliistpqdtp
rfesmlgdgsqwgmniqyatqpspdglaqafvigrdfvgnepsalilgdnifyghdlakq
lerasakdtgatvfayhvqdperygvvefdrefraisieekpakprssyavtglyfydrq
vcdiaadikpsargeleitdvnsrylaagqldvelmgrgyawldtgthdslieagtfiat
lqkrqglmvacpeeiayrrnwidaeqvlklaqplaknaygqylrnllthqva