OCA Atlas for 1H26

1H26

Cell Cycle

date

Jul 31, 2002

title

Cdk2cyclin A In Complex With An 11-Residue Recruitment Peptide From P53

authors

I.Tews, K.Y.Cheng, E.D.Lowe, M.E.M.Noble, N.R.Brown, S.Gul, S.Gamblin, L.N.Johnson

compound

source

Molecule: Cell Division Protein Kinase 2
Chain: A, C
Synonym: Cyclin-Dependent Kinase 2, P33 Protein Kinase
Ec: 2.7.1.-
Engineered: Yes
Other_details: Phosphorylated On Thr160

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834
Expression_system_plasmid: Pgex

Molecule: Cyclin A2
Chain: B, D
Fragment: Cyclin Fold, Residues 175-432
Synonym: Cyclin A
Engineered: Yes

Molecule: Cellular Tumor Antigen P53
Chain: E
Fragment: Residues 376-386
Synonym: P53 Recruitment Peptide 11mer

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

symmetry

Space Group: P 21 21 21

R_factor

0.216

R_Free

0.268

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
73.667	134.035	147.936	90.00	90.00	90.00

method

X-Ray Diffraction

resolution

2.24 Å

ligand

TPO

enzyme

Transferase E.C.2.7.1 BRENDA

related structures

by homologous chain: 1JSU, 1P5E, 1UNG

Gene
Ontology

Chain	Function	Process	Component
A, C	nucleotide binding protein kinase activity protein serine/threonine kin... cyclin-dependent protein ser... protein binding ATP binding kinase activity transferase activity transferase activity, transf... cyclin binding histone kinase activity metal ion binding	cell cycle checkpoint G1/S transition of mitotic c... S phase of mitotic cell cycl... G2 phase of mitotic cell cyc... G2/M transition of mitotic c... mitotic cell cycle DNA replication DNA repair protein phosphorylation potassium ion transport response to DNA damage stimu... DNA damage response, signal ... cell cycle mitosis meiosis Ras protein signal transduct... blood coagulation positive regulation of cell ... phosphorylation histone phosphorylation anaphase-promoting complex-d... mitotic G1 DNA damage checkp... positive regulation of DNA-d... positive regulation of trans... centrosome duplication cell division regulation of ubiquitin-prot... regulation of gene silencing... cellular response to nitric ...	cyclin-dependent protein kin... chromosome, telomeric region... condensed chromosome X chromosome Y chromosome nucleus nucleoplasm transcription factor complex... cytoplasm endosome centrosome microtubule organizing cente... cytosol cytoskeleton Cajal body

Primary reference

Specificity determinants of recruitment peptides bound to phospho-CDK2/cyclin A., Lowe ED, Tews I, Cheng KY, Brown NR, Gul S, Noble ME, Gamblin SJ, Johnson LN, Biochemistry 2002 Dec 31;41(52):15625-34. PMID:12501191

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (187 Kb) [Save to disk]

Biological Unit Coordinates (1h26.pdb1.gz) 97 Kb

Biological Unit Coordinates (1h26.pdb2.gz) 89 Kb

LPC: Ligand-Protein Contacts for 1H26

CSU: Contacts of Structural Units for 1H26

Likely Quarternary Molecular Structure file(s) for 1H26

Structure Factors (536 Kb)

Retrieve 1H26 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1H26 from S2C, [Save to disk]

Re-refined 1h26 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1H26 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 1H26

Cartoon representation from PDB Cartoon

Ramachandran plot from PDBSum

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 1H26, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1h26a_, region A [Jmol] [rasmolscript] [script source]
- Domain d1h26b1, region B:175-309 [Jmol] [rasmolscript] [script source]
- Domain d1h26b2, region B:310-432 [Jmol] [rasmolscript] [script source]
- Domain d1h26c_, region C [Jmol] [rasmolscript] [script source]
- Domain d1h26d1, region D:175-309 [Jmol] [rasmolscript] [script source]
- Domain d1h26d2, region D:310-432 [Jmol] [rasmolscript] [script source]

Fold representative 1h26 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: [1h26_A] [1h26_B] [1h26_C] [1h26_D] [1h26_E]

SWISS-PROT database: [P20248] [P24941] [P04637]

Domain organization of [CCNA2_HUMAN] [CDK2_HUMAN] [P53_HUMAN] by SWISSPFAM

Domains found in 1H26: [CYCLIN] [S_TKc ] by SMART

Alignments of the sequence of 1H26 with the sequences similar proteins can be viewed for 1H26's classification [CCNA2_HUMAN] [CDK2_HUMAN] [P53_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 [CCNA2_HUMAN] [CDK2_HUMAN] [P53_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1H26

Community annotation for 1H26 at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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