1URY: Cytoglobin cavities

cytoglobin cavities. Determined by X-ray diffraction at 2.4 Å resolution. Released 15 Dec 2004.

Method: X-ray diffraction
Resolution: 2.4 Å
Organism: HOMO SAPIENS
Chains: 2
Atoms: 2,639
Mol. weight: 45.38 kDa
Ligands: FC6, XE, HEM
Released: 15 Dec 2004

Explore 1URY in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1URY contains 20 α-helices and 0 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 10 helices, 0 β-strands

Element	Residues	Length
α-helix	21-35	15
α-helix	38-52	15
α-helix	54-59	6
α-helix	69-72	4
α-helix	76-94	19
α-helix	99-111	13
α-helix	112-116	5
α-helix	122-138	17
α-helix	140-142	3
α-helix	145-169	25

Chain B: 10 helices, 0 β-strands

Element	Residues	Length
α-helix	21-35	15
α-helix	38-52	15
α-helix	54-59	6
α-helix	69-74	6
α-helix	76-94	19
α-helix	99-112	14
α-helix	113-117	5
α-helix	122-138	17
α-helix	140-142	3
α-helix	145-168	24

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Cytoglobin	A, B	protein	190	HOMO SAPIENS	Q8WWM9 (AlphaFold model)

Sequence of entity 1 (A, B), FASTA

>1URY_1 CYTOGLOBIN (chains A, B)
MEKVPGEMEIERRERSEELSEAERKAVQAMWARLYANSEDVGVAILVRFFVNFPSAKQYF
SQFKHMEDPLEMERSPQLRKHASRVMGALNTVVENLHDPDKVSSVLALVGKAHALKHKVE
PVYFKILSGVILEVVAEEFASDFPPETQRAWAKLRGLIYSHVTAAYKEVGWVQQVPNATT
PPATLPSSGP

Ligands and cofactors

ID	Name	Formula	Copies
FC6	HEXACYANOFERRATE(3-)	C6 Fe N6	2
XE	Xenon	Xe	7
HEM	Protoporphyrin IX containing FE	C34 H32 Fe N4 O4	2

Primary citation

Cytoglobin Cavities. de Sanctis, D., Dewilde, S., Pesce, A. et al. Biochem Biophys Res Commun (2004) 316:1217. DOI 10.1016/J.BBRC.2004.03.007 · PubMed

Other PDB entries of the same protein (UniProt Q8WWM9 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2DC3 1.68 Å, Crystal structure of human cytoglobin at 1.68 angstroms resolution
1URV 2.0 Å, Crystal structure of cytoglobin: the fourth globin type discovered in man displays heme…
1UT0 2.1 Å, Crystal structure of cytoglobin: the fourth globin type discovered in man displays heme…
1UX9 2.4 Å, Mapping protein matrix cavities in human cytoglobin through Xe atom binding: a…
1V5H 2.4 Å, Crystal Structure of Human Cytoglobin (Ferric Form)
1UMO 2.59 Å, The crystal structure of cytoglobin: the fourth globin type discovered in man
3AG0 2.6 Å, Crystal structure of carbonmonoxy human cytoglobin
4B3W 2.8 Å, Crystal structure of human cytoglobin H(E7)Q mutant

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