PDB entry 3fbc
View 3fbc on RCSB PDB site
Description: Crystal structure of the Mimivirus NDK N62L-R107G double mutant complexed with dTDP
Class: transferase
Keywords: phosphotransferase nucleotide binding, ATP-binding, Kinase, Magnesium, Metal-binding, Nucleotide metabolism, Nucleotide-binding, Phosphoprotein, Transferase
Deposited on
2008-11-19, released
2009-08-11
The last revision prior to the SCOPe 2.08 freeze date was dated
2019-07-24, with a file datestamp of
2019-07-19.
Experiment type: XRAY
Resolution: 2.6 Å
R-factor: N/A
AEROSPACI score: 0.19
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: Nucleoside diphosphate kinase
Species: Acanthamoeba polyphaga mimivirus [TaxId:212035]
Gene: MIMI_R418, NDK
Database cross-references and differences (RAF-indexed):
- Uniprot Q5UQL3 (6-End)
- expression tag (4-5)
- engineered (66)
- engineered (111)
Domains in SCOPe 2.08: d3fbca1, d3fbca2 - Chain 'B':
Compound: Nucleoside diphosphate kinase
Species: Acanthamoeba polyphaga mimivirus [TaxId:212035]
Gene: MIMI_R418, NDK
Database cross-references and differences (RAF-indexed):
- Uniprot Q5UQL3 (6-End)
- expression tag (5)
- engineered (66)
- engineered (111)
Domains in SCOPe 2.08: d3fbcb1, d3fbcb2 - Chain 'C':
Compound: Nucleoside diphosphate kinase
Species: Acanthamoeba polyphaga mimivirus [TaxId:212035]
Gene: MIMI_R418, NDK
Database cross-references and differences (RAF-indexed):
- Uniprot Q5UQL3 (6-End)
- expression tag (4-5)
- engineered (66)
- engineered (111)
Domains in SCOPe 2.08: d3fbcc1, d3fbcc2 - Chain 'D':
Compound: Nucleoside diphosphate kinase
Species: Acanthamoeba polyphaga mimivirus [TaxId:212035]
Gene: MIMI_R418, NDK
Database cross-references and differences (RAF-indexed):
- Uniprot Q5UQL3 (6-End)
- expression tag (4-5)
- engineered (66)
- engineered (111)
Domains in SCOPe 2.08: d3fbcd1, d3fbcd2 - Chain 'E':
Compound: Nucleoside diphosphate kinase
Species: Acanthamoeba polyphaga mimivirus [TaxId:212035]
Gene: MIMI_R418, NDK
Database cross-references and differences (RAF-indexed):
- Uniprot Q5UQL3 (6-End)
- expression tag (5)
- engineered (66)
- engineered (111)
Domains in SCOPe 2.08: d3fbce1, d3fbce2 - Chain 'F':
Compound: Nucleoside diphosphate kinase
Species: Acanthamoeba polyphaga mimivirus [TaxId:212035]
Gene: MIMI_R418, NDK
Database cross-references and differences (RAF-indexed):
- Uniprot Q5UQL3 (6-End)
- expression tag (5)
- engineered (66)
- engineered (111)
Domains in SCOPe 2.08: d3fbcf1, d3fbcf2 - Heterogens: MG, TYD, PO4, HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>3fbcA (A:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3fbcA (A:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfpe
- Chain 'B':
Sequence, based on SEQRES records: (download)
>3fbcB (B:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3fbcB (B:)
lqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyfn
dlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdsedsa
vdeisiwfpe
- Chain 'C':
Sequence, based on SEQRES records: (download)
>3fbcC (C:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3fbcC (C:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfpet
- Chain 'D':
Sequence, based on SEQRES records: (download)
>3fbcD (D:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3fbcD (D:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfpe
- Chain 'E':
Sequence, based on SEQRES records: (download)
>3fbcE (E:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3fbcE (E:)
lqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyfn
dlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdsedsa
vdeisiwfpe
- Chain 'F':
Sequence, based on SEQRES records: (download)
>3fbcF (F:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3fbcF (F:)
lqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyfn
dlcdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdsedsa
vdeisiwfp