PDB entry 2vi6
View 2vi6 on RCSB PDB site
Description: crystal structure of the nanog homeodomain
Class: transcription
Keywords: homeodomain, DNA-binding, transcription, transcription factor, developmental protein, transcription regulation, nanog, nucleus, homeobox, activator, repressor
Deposited on
2007-11-28, released
2008-01-15
The last revision prior to the SCOPe 2.08 freeze date was dated
2011-07-13, with a file datestamp of
2011-05-31.
Experiment type: XRAY
Resolution: 2.6 Å
R-factor: 0.223
AEROSPACI score: 0.28
(click here for full SPACI score report)
Chains and heterogens:
- Chain 'A':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6a_ - Chain 'B':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6b_ - Chain 'C':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6c_ - Chain 'D':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6d_ - Chain 'E':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6e_ - Chain 'F':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6f_ - Chain 'G':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6g_ - Chain 'H':
Compound: homeobox protein nanog
Species: Mus musculus [TaxId:10090]
Database cross-references and differences (RAF-indexed):
- PDB 2VI6
- Uniprot Q80Z64 (Start-61)
Domains in SCOPe 2.08: d2vi6h_ - Heterogens: HOH
PDB Chain Sequences:
- Chain 'A':
Sequence, based on SEQRES records: (download)
>2vi6A (A:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6A (A:)
tvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'B':
Sequence, based on SEQRES records: (download)
>2vi6B (B:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6B (B:)
vfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'C':
Sequence, based on SEQRES records: (download)
>2vi6C (C:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6C (C:)
tvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'D':
Sequence, based on SEQRES records: (download)
>2vi6D (D:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6D (D:)
tvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'E':
Sequence, based on SEQRES records: (download)
>2vi6E (E:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6E (E:)
vfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'F':
Sequence, based on SEQRES records: (download)
>2vi6F (F:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6F (F:)
tvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'G':
Sequence, based on SEQRES records: (download)
>2vi6G (G:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6G (G:)
tvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq
- Chain 'H':
Sequence, based on SEQRES records: (download)
>2vi6H (H:)
gtkqkmrtvfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckr
wq
Sequence, based on observed residues (ATOM records): (download)
>2vi6H (H:)
vfsqaqlcalkdrfqkqkylslqqmqelssilnlsykqvktwfqnqrmkckrwq