| Data retrieval |
- Asymmetric unit, PDB entry:
[header only] [complete with coordinates] (318 Kb) [Save to disk]
 - CSU: Contacts of Structural Units for 1ROD
- Retrieve 1ROD in mmCIF format [Save to disk]
- SEQRES to COORDINATES
correlation for 1ROD
from S2C,
[Save to disk]
|
| View 1ROD 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.
|
| Visual 3D analysis of 1ROD |
- Cartoon
representation from PDB Cartoon
- Ramachandran
plot from PDBSum
|
| Structure-derived information |
- Dipole moment, from Dipole Server at Weizmann Institute
- Crystal Contacts, from CryCo at Weizmann Institute
- 3D motif for 1ROD,
from MSDmotif at EBI
- Genome occurence of
1ROD's fold
from GeneCensus
- Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1roda_, region A
[Jmol]
[rasmolscript]
[script source]
- Domain d1rodb_, region B
[Jmol]
[rasmolscript]
[script source]
- Fold representative 1rod 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
|
| Sequence-derived information |
- View one-letter amino acid or nucleotide sequence for each chain: [1rod_A] [1rod_B]
- SWISS-PROT database: [P09341] [P10145]
- Domain organization of [GROA_HUMAN] [IL8_HUMAN] by SWISSPFAM
- Domain found in 1ROD: [SCY
] by SMART
- Alignments of the sequence of 1ROD with the sequences
similar proteins can be viewed for 1ROD's classification [GROA_HUMAN] [IL8_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 [GROA_HUMAN] [IL8_HUMAN] at ProtoMap. Click on the Cluster number.
|
|
Other resources with information on 1ROD |
- Community annotation for 1ROD at PDBWiki (http://pdbwiki.org)
- NMR Ensemble (OLDERADO: core, domain and representative structure database)
- MMDB (Entrez's Structure Database)
|
| Movements, Movies and Images |
- Domain movements in
1ROD from the Database of
Macromolecular Movements.
- Images
from IMB Jena Image Library
of Biological Macromolecules.
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