PDB entry 3evw
View 3evw on RCSB PDB site
Description: Crystal structure of the Mimivirus NDK R107G mutant complexed with dTDP
Class: transferase
Keywords: phosphotransferase nucleotide binding, ATP-binding, Kinase, Magnesium, Metal-binding, Nucleotide metabolism, Nucleotide-binding, Phosphoprotein, Transferase
Deposited on
2008-10-13, released
2009-08-11
The last revision prior to the SCOPe 2.04 freeze date was dated
2009-08-11, with a file datestamp of
2009-08-07.
Experiment type: XRAY
Resolution: 2.6 Å
R-factor: 0.201
AEROSPACI score: 0.29
(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 (3-5)
- engineered (111)
Domains in SCOPe 2.04: d3evwa_ - 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 (111)
Domains in SCOPe 2.04: d3evwb_ - 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 (111)
Domains in SCOPe 2.04: d3evwc_ - 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 (111)
Domains in SCOPe 2.04: d3evwd_ - 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 (4-5)
- engineered (111)
Domains in SCOPe 2.04: d3evwe_ - 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 (4-5)
- engineered (111)
Domains in SCOPe 2.04: d3evwf_ - Heterogens: MG, TYD, HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>3evwA (A:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3evwA (A:)
aglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsy
fndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdsed
savdeisiwfpet
- Chain 'B':
Sequence, based on SEQRES records: (download)
>3evwB (B:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3evwB (B:)
lqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyfn
dncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdsedsa
vdeisiwfpe
- Chain 'C':
Sequence, based on SEQRES records: (download)
>3evwC (C:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3evwC (C:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfpet
- Chain 'D':
Sequence, based on SEQRES records: (download)
>3evwD (D:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3evwD (D:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfpet
- Chain 'E':
Sequence, based on SEQRES records: (download)
>3evwE (E:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3evwE (E:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfpet
- Chain 'F':
Sequence, based on SEQRES records: (download)
>3evwF (F:)
ykkaglqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehse
qsyfndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasd
sedsavdeisiwfpetkmetdn
Sequence, based on observed residues (ATOM records): (download)
>3evwF (F:)
glqrtlvlikpdaferslvaeimgriekknfkivsmkfwskaprnlieqhykehseqsyf
ndncdfmvsgpiisivyegtdaiskirrlqgniltpgtirgdlandigenlihasdseds
avdeisiwfp