5D2G | Genus

Total Genus 88

The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus	88
sequence length	263
structure length	263
Chain Sequence	NRTLTREQVLALAEHIENAELNVHDIGKVTNDFPEMTFADAYDVQWEIRRRKEARGNKIVGLKMGLTSWAKMAQMGVETPIYGFLADYFSVPDGGVVDCSKLIHPKIEAEISVVTKAPLHGPGCHLGDVIAAIDYVIPTVEVIDSRYENFKFDPISVVADNASSTRFITGGRMASLEEVDLRTLGVVMEKNGEVVELGAGAAVLGHPLSSVAMLANLLAERGEHIPAGTFIMTGGITAAVPVAPGDNITVRYQGLGSVSARFI

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

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The Resolver thinks Pdb

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reading 263 atoms

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263 atoms created

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

publication title	Crystal Structures of Apo and Liganded 4-Oxalocrotonate Decarboxylase Uncover a Structural Basis for the Metal-Assisted Decarboxylation of a Vinylogous beta-Keto Acid. pubmed doi rcsb
molecule keywords	4-oxalocrotonate decarboxylase NahK
molecule tags	Lyase
source organism	Pseudomonas putida
total genus	88
structure length	263
sequence length	263
ec nomenclature	ec 4.1.1.77: 2-oxo-3-hexenedioate decarboxylase.
pdb deposition date	2015-08-05

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.90.850.10	Alpha Beta	Alpha-Beta Complex	Fumarylacetoacetate hydrolase; domain 2	Fumarylacetoacetase-like, C-terminal domain	5d2gA00

3S52A 5D2GA 1QCNA 1NKQA 1SV6A 2Q1AX 2Q1DX 1I7OA 4PFZA 3V77A 5D2IA 2EB6A 2HZYA 5D2KA 4MAQA 1HYOA 3R6OA 1QQJA 1NR9A 3QDFA 1WZOA 3LZKA 3BQBA 2DFUA 3RR6A 2WQTA 5D2JA 4DBHA 2EB4A 2Q1CX 4DBFA 2EB5A 4QKUA 1GTTA 5D2HA 1SAWA 1QCOA 2Q19X 5D2FA 2Q18X
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 3S52 A;  5D2G A;  1QCN A;  1NKQ A;  1SV6 A;  2Q1A X;  2Q1D X;  1I7O A;  4PFZ A;  3V77 A;  5D2I A;  2EB6 A;  2HZY A;  5D2K A;  4MAQ A;  1HYO A;  3R6O A;  1QQJ A;  1NR9 A;  3QDF A;  1WZO A;  3LZK A;  3BQB A;  2DFU A;  3RR6 A;  2WQT A;  5D2J A;  4DBH A;  2EB4 A;  2Q1C X;  4DBF A;  2EB5 A;  4QKU A;  1GTT A;  5D2H A;  1SAW A;  1QCO A;  2Q19 X;  5D2F A;  2Q18 X; 
#chains in the Genus database with same CATH topology
 3S52 A;  5D2G A;  1QCN A;  1NKQ A;  1SV6 A;  2Q1A X;  2Q1D X;  1I7O A;  4PFZ A;  3V77 A;  5D2I A;  2EB6 A;  2HZY A;  5D2K A;  4MAQ A;  1HYO A;  3R6O A;  1QQJ A;  1NR9 A;  3QDF A;  1WZO A;  3LZK A;  3BQB A;  2DFU A;  3RR6 A;  2WQT A;  5D2J A;  4DBH A;  2EB4 A;  2Q1C X;  4DBF A;  2EB5 A;  4QKU A;  1GTT A;  5D2H A;  1SAW A;  1QCO A;  2Q19 X;  5D2F A;  2Q18 X; 
#chains in the Genus database with same CATH homology
 3S52 A;  5D2G A;  1QCN A;  1NKQ A;  1SV6 A;  2Q1A X;  2Q1D X;  1I7O A;  4PFZ A;  3V77 A;  5D2I A;  2EB6 A;  2HZY A;  5D2K A;  4MAQ A;  1HYO A;  3R6O A;  1QQJ A;  1NR9 A;  3QDF A;  1WZO A;  3LZK A;  3BQB A;  2DFU A;  3RR6 A;  2WQT A;  5D2J A;  4DBH A;  2EB4 A;  2Q1C X;  4DBF A;  2EB5 A;  4QKU A;  1GTT A;  5D2H A;  1SAW A;  1QCO A;  2Q19 X;  5D2F A;  2Q18 X;

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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5D2GA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN