| Data retrieval |
- Asymmetric unit, PDB entry:
[header only] [complete with coordinates] (137 Kb) [Save to disk]
 - Biological Unit Coordinates (1d8d.pdb1.gz) 132 Kb
- LPC: Ligand-Protein Contacts for 1D8D
- CSU: Contacts of Structural Units for 1D8D
- Likely Quarternary Molecular Structure file(s) for 1D8D
- Structure Factors (579 Kb)
- Retrieve 1D8D in mmCIF format [Save to disk]
- SEQRES to COORDINATES
correlation for 1D8D
from S2C,
[Save to disk]
- Re-refined 1d8d structure
from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
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| View 1D8D in 3D |
-
Proteopedia, because life has more than 2D.
- On Jmol, a nice Rasmol like molecule viewer.
This is good for easiest viewing of basic structure.
- On FirstGlance, an
excellent tool for a guided tour on the structure components, by
E. Martz.
- On AstexViewer, from
MSD-EBI
(viewer documentation).
- On RasMol
(Install RasMol freeware)
Here's help on
how to use RasMol.
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| Visual 3D analysis of 1D8D |
- Cartoon
representation from PDB Cartoon
- Ramachandran
plot from PDBSum
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| Structure-derived information |
- Electron Density
related parameters from EDS Electron Density Server, at Upsala
- Dipole moment, from Dipole Server at Weizmann Institute
- Crystal Contacts, from CryCo at Weizmann Institute
- 3D motif for 1D8D,
from MSDmotif at EBI
- Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1d8da_, region A
[Jmol]
[rasmolscript]
[script source]
- Domain d1d8db_, region B
[Jmol]
[rasmolscript]
[script source]
- Fold representative 1d8d from FSSP and Dali (Families of Structurally Similar Proteins)
- Class (fold), Architecture (subfold), Topology, Homologous superfamily from
CATH
- Summaries and structural analyses of PDB data files from
PDBSum
- Identification of Protein Pockets & Cavities at
CASTp
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| Sequence-derived information |
- View one-letter amino acid or nucleotide sequence for each chain: [1d8d_A] [1d8d_B] [1d8d_P]
- SWISS-PROT database: [Q04631] [Q02293] [P01116]
- Domain organization of [FNTA_RAT] [FNTB_RAT] [RASK_HUMAN] by SWISSPFAM
- Alignments of the sequence of 1D8D with the sequences
similar proteins can be viewed for 1D8D's classification [FNTA_RAT] [FNTB_RAT] [RASK_HUMAN] at ProtoMap.
Click on "Neighbors List", then on the "See Alignments" button below the list.
- A sequence distance tree ("phylogenetic tree")
can be viewed for 1ACL's classification [FNTA_RAT] [FNTB_RAT] [RASK_HUMAN] at ProtoMap. Click on the Cluster number.
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Other resources with information on 1D8D |
- Community annotation for 1D8D at PDBWiki (http://pdbwiki.org)
- MMDB (Entrez's Structure Database)
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| Movements, Movies and Images |
- Images
from IMB Jena Image Library
of Biological Macromolecules.
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