3MKN | Genus

Total Genus 108

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	108
sequence length	310
structure length	303
Chain Sequence	KRKIILDCDPGHDDAIAIMMAAKHPAIDLLGITIVAGNQTLDKTLINGLNVCQKLEINVPVYAGMPQPIMRQQIVADNIHGDTGLDGPVFEPLTRQAESTHAVKYIIDTLMASDGDITLVPVGPLSNIAVAMRMQPAILPKIREIVLMGGAYGTGNFTPSAEFNIFADPEAARVVFTSGVPLVMMGLDLTNQTVCTPDVIARMERAGGPAGELFSDIMNFTLKTQFEPVHDATCIGYLINPDGIKTQEMYVEVDVNSGPCYGRTVCDELGVLGKPANTKVGITIDTDWFWGLVEECVRGYIKT

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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reading 303 atoms

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303 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	Energy Landscapes Associated with Macromolecular Conformational Changes from Endpoint Structures pubmed doi rcsb
molecule keywords	Putative uncharacterized protein YeiK
molecule tags	Hydrolase/hydrolase inhibitor
source organism	Escherichia coli
total genus	108
structure length	303
sequence length	310
chains with identical sequence	B, C, D
ec nomenclature	ec 3.2.2.8: Ribosylpyrimidine nucleosidase.
pdb deposition date	2010-04-15

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01156	IU_nuc_hydro	Inosine-uridine preferring nucleoside hydrolase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.90.245.10	Alpha Beta	Alpha-Beta Complex	Inosine-uridine Nucleoside N-ribohydrolase; Chain A	Ribonucleoside hydrolase-like	3mknA00

1MASA 1HOZA 4I75A 4I74A 1EZRA 3MKNA 4KL0A 3FZ0A 3T8JA 2FF1A 1KICA 3EPXA 2YHGA 4WR2A 4KPNA 3B9XA 5TSQA 3G5IA 4I73A 1KIEA 1YOEA 4I70A 1R4FA 2FF2A 4P5FA 2MASA 1HP0A 1Q8FA 3T8IA 4I71A 2C40A 3EPWA 3B9GA 3MKMA 4KPOA 4I72A
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 1MAS A;  1HOZ A;  4I75 A;  4I74 A;  1EZR A;  3MKN A;  4KL0 A;  3FZ0 A;  3T8J A;  2FF1 A;  1KIC A;  3EPX A;  2YHG A;  4WR2 A;  4KPN A;  3B9X A;  5TSQ A;  3G5I A;  4I73 A;  1KIE A;  1YOE A;  4I70 A;  1R4F A;  2FF2 A;  4P5F A;  2MAS A;  1HP0 A;  1Q8F A;  3T8I A;  4I71 A;  2C40 A;  3EPW A;  3B9G A;  3MKM A;  4KPO A;  4I72 A; 
#chains in the Genus database with same CATH topology
 1MAS A;  1HOZ A;  4I75 A;  4I74 A;  1EZR A;  3MKN A;  4KL0 A;  3FZ0 A;  3T8J A;  2FF1 A;  1KIC A;  3EPX A;  2YHG A;  4WR2 A;  4KPN A;  3B9X A;  5TSQ A;  3G5I A;  4I73 A;  1KIE A;  1YOE A;  4I70 A;  1R4F A;  2FF2 A;  4P5F A;  2MAS A;  1HP0 A;  1Q8F A;  3T8I A;  4I71 A;  2C40 A;  3EPW A;  3B9G A;  3MKM A;  4KPO A;  4I72 A; 
#chains in the Genus database with same CATH homology
 1MAS A;  1HOZ A;  4I75 A;  4I74 A;  1EZR A;  3MKN A;  4KL0 A;  3FZ0 A;  3T8J A;  2FF1 A;  1KIC A;  3EPX A;  2YHG A;  4WR2 A;  4KPN A;  3B9X A;  5TSQ A;  3G5I A;  4I73 A;  1KIE A;  1YOE A;  4I70 A;  1R4F A;  2FF2 A;  4P5F A;  2MAS A;  1HP0 A;  1Q8F A;  3T8I A;  4I71 A;  2C40 A;  3EPW A;  3B9G A;  3MKM A;  4KPO A;  4I72 A;

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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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3MKNA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations