1AK4	Viral Protein Isomerase	date	May 28, 1997
title	Human Cyclophilin A Bound To The Amino-Terminal Domain Of Hi
authors	C.P.Hill, T.R.Gamble, F.F.Vajdos, D.K.Worthylake, W.I.Sundquist
compound		source
Molecule: Cyclophilin A Chain: A, B Ec: 5.2.1.8 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: Bl21 Gene: Cyclophilin Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector: Pet3a Expression_system_plasmid: Wisp94-1 Expression_system_gene: Cyclophilin
Molecule: Hiv-1 Capsid Chain: C, D Fragment: N-Terminal Domain Engineered: Yes Mutation: Yes		Organism_scientific: Human Immunodeficiency Virus 1 Organism_taxid: 11676 Cell_line: Bl21 Gene: Cyclophilin Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector: Pet11a Expression_system_plasmid: Wisp95-69 Expression_system_gene: Cyclophilin
symmetry	Space Group: P 1 21 1	R_factor 0.238 R_Free 0.306
crystal cell	length a length b length c angle alpha angle beta angle gamma 38.600 113.100 67.000 90.00 100.70 90.00
method	X-Ray Diffraction	resolution	2.36 Å
ligand		enzyme	Isomerase E.C.5.2.1.8 BRENDA
note	1AK4 (Molecule of the Month:pdb163)
related structures	by homologous chain: 1M9C, 1RMH, 1VBT
Gene Ontology	Chain Function Process Component A, B D, C
Primary reference	Crystal structure of human cyclophilin A bound to the amino-terminal domain of HIV-1 capsid., Gamble TR, Vajdos FF, Yoo S, Worthylake DK, Houseweart M, Sundquist WI, Hill CP, Cell 1996 Dec 27;87(7):1285-94. PMID:8980234

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (123 Kb) [Save to disk] Biological Unit Coordinates (1ak4.pdb1.gz) 61 Kb Biological Unit Coordinates (1ak4.pdb2.gz) 60 Kb CSU: Contacts of Structural Units for 1AK4 Likely Quarternary Molecular Structure file(s) for 1AK4 Structure Factors (206 Kb) Retrieve 1AK4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1AK4 from S2C, [Save to disk] Re-refined 1ak4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1AK4 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.

Visual 3D analysis of 1AK4

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 3D motif for 1AK4, from MSDmotif at EBI Genome occurence of 1AK4's fold from GeneCensus Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1ak4a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1ak4b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1ak4c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1ak4d_, region D [Jmol] [rasmolscript] [script source] 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: [1ak4_D] [1ak4_C] [1ak4_A] [1ak4] [1ak4_B] SWISS-PROT database: [P12497] [P62937] Domain organization of [POL_HV1N5] [PPIA_HUMAN] by SWISSPFAM

Other resources with information on 1AK4

Community annotation for 1AK4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 1AK4 from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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