3KNP | Genus

Total Genus 35

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	35
sequence length	159
structure length	159
Chain Sequence	MRVVIQRVKGAILSVRKENIGENEKELEIISEIKNGLICFLGIHKNDTWEDALYIIRKCLNLRLWNNDNKTWDKNVKDLNYELLIVSQFTLFGNTKKGNKPDFHLAKEPNEALIFYNKIIDEFKKQYNDDKIKIGKFGNYMNIDVTNDGPVTIYIDTHD

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 159 atoms

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159 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

molecule tags	Hydrolase
source organism	Plasmodium falciparum
publication title	Ligand-bound Structures Provide Atomic Snapshots for the Catalytic Mechanism of D-Amino Acid Deacylase pubmed doi rcsb
molecule keywords	D-tyrosyl-tRNA(Tyr) deacylase
total genus	35
structure length	159
sequence length	159
chains with identical sequence	B, C, D, E, F
ec nomenclature	ec 3.1.1.96: D-aminoacyl-tRNA deacylase.
pdb deposition date	2009-11-12

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF02580	Tyr_Deacylase	D-Tyr-tRNA(Tyr) deacylase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.50.80.10	Alpha Beta	3-Layer(bba) Sandwich	D-tyrosyl-trna(Tyr) Deacylase; Chain: A;	D-tyrosyl-trna(Tyr) Deacylase; Chain: A;	3knpA00

2HL0A 3KO7A 3KODA 3PD4A 1Y2QA 4RRQA 4S0LA 2HKZA 4S0JA 4RRKA 3KOBA 4RR7A 4S02A 1JKEA 2DBOA 3LMVA 3LMUA 1TC5A 3PD5A 2OKVA 4RRMA 3KNFA 4RRRA 3PD2A 4RRHA 1J7GA 4RR6A 3KO5A 3KO9A 4RR8A 4RRCA 3KNPA 3LMTA 4RRGA 4NBJA 4RRIA 2HL1A 4RR9A 3PD3A 4RRBA 3KOCA 4RRAA 4RRFA 3KO4A 4RRJA 4RRLA 4S0KA 4S0IA 4S03A 5J61A 4RRDA 4NBIA 3KO3A 2HL2A
chains in the Genus database with same CATH superfamily

3ZVWA 3ZCZA 4S0JA 2Y59A 5CEDA 4RRRA 3KO5A 4RR8A 4RRCA 3A3FA 3A3EA 3A3DA 4RRAA 4S0KA 3KO3A 2HL0A 1W5DA 3KODA 3V39A 2EX9A 2HKZA 2VGJA 3KOBA 4S02A 2DBOA 3LMUA 1TC5A 3PD5A 2OKVA 3KNFA 4RRHA 2Y4AA 2J9PA 1J7GA 3ZVTA 3KO9A 1W8YA 4RRIA 2HL1A 5CECA 2Y55A 3KOCA 2EXBA 4RRFA 1W79A 5J61A 3KO7A 2WKEA 4RRKA 3A3IA 3PD2A 2EX8A 3LMTA 4NBJA 4RRBA 5CERA 2EX2A 2XK1A 3KO4A 4RRJA 4RRDA 4NBIA 1Y2QA 4BENA 2HL2A 4B4ZA 3PD4A 4B4XA 4RRQA 4S0LA 4RR7A 1JKEA 3LMVA 5CEBA 4RRMA 2EX6A 1W8QA 3KNPA 4RRGA 2EXAA 2XLNA 4RR9A 3PD3A 4RRLA 4S0IA 4S03A 2VGKA 2XDMA 4RR6A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2HL0 A;  3KO7 A;  3KOD A;  3PD4 A;  1Y2Q A;  4RRQ A;  4S0L A;  2HKZ A;  4S0J A;  4RRK A;  3KOB A;  4RR7 A;  4S02 A;  1JKE A;  2DBO A;  3LMV A;  3LMU A;  1TC5 A;  3PD5 A;  2OKV A;  4RRM A;  3KNF A;  4RRR A;  3PD2 A;  4RRH A;  1J7G A;  4RR6 A;  3KO5 A;  3KO9 A;  4RR8 A;  4RRC A;  3KNP A;  3LMT A;  4RRG A;  4NBJ A;  4RRI A;  2HL1 A;  4RR9 A;  3PD3 A;  4RRB A;  3KOC A;  4RRA A;  4RRF A;  3KO4 A;  4RRJ A;  4RRL A;  4S0K A;  4S0I A;  4S03 A;  5J61 A;  4RRD A;  4NBI A;  3KO3 A;  2HL2 A; 
#chains in the Genus database with same CATH topology
 3ZVW A;  3ZCZ A;  4S0J A;  2Y59 A;  5CED A;  4RRR A;  3KO5 A;  4RR8 A;  4RRC A;  3A3F A;  3A3E A;  3A3D A;  4RRA A;  4S0K A;  3KO3 A;  2HL0 A;  1W5D A;  3KOD A;  3V39 A;  2EX9 A;  2HKZ A;  2VGJ A;  3KOB A;  4S02 A;  2DBO A;  3LMU A;  1TC5 A;  3PD5 A;  2OKV A;  3KNF A;  4RRH A;  2Y4A A;  2J9P A;  1J7G A;  3ZVT A;  3KO9 A;  1W8Y A;  4RRI A;  2HL1 A;  5CEC A;  2Y55 A;  3KOC A;  2EXB A;  4RRF A;  1W79 A;  5J61 A;  3KO7 A;  2WKE A;  4RRK A;  3A3I A;  3PD2 A;  2EX8 A;  3LMT A;  4NBJ A;  4RRB A;  5CER A;  2EX2 A;  2XK1 A;  3KO4 A;  4RRJ A;  4RRD A;  4NBI A;  1Y2Q A;  4BEN A;  2HL2 A;  4B4Z A;  3PD4 A;  4B4X A;  4RRQ A;  4S0L A;  4RR7 A;  1JKE A;  3LMV A;  5CEB A;  4RRM A;  2EX6 A;  1W8Q A;  3KNP A;  4RRG A;  2EXA A;  2XLN A;  4RR9 A;  3PD3 A;  4RRL A;  4S0I A;  4S03 A;  2VGK A;  2XDM A;  4RR6 A; 
#chains in the Genus database with same CATH homology
 3ZVW A;  3ZCZ A;  4S0J A;  2Y59 A;  5CED A;  4RRR A;  3KO5 A;  4RR8 A;  4RRC A;  3A3F A;  3A3E A;  3A3D A;  4RRA A;  4S0K A;  3KO3 A;  2HL0 A;  1W5D A;  3KOD A;  3V39 A;  2EX9 A;  2HKZ A;  2VGJ A;  3KOB A;  4S02 A;  2DBO A;  3LMU A;  1TC5 A;  3PD5 A;  2OKV A;  3KNF A;  4RRH A;  2Y4A A;  2J9P A;  1J7G A;  3ZVT A;  3KO9 A;  1W8Y A;  4RRI A;  2HL1 A;  5CEC A;  2Y55 A;  3KOC A;  2EXB A;  4RRF A;  1W79 A;  5J61 A;  3KO7 A;  2WKE A;  4RRK A;  3A3I A;  3PD2 A;  2EX8 A;  3LMT A;  4NBJ A;  4RRB A;  5CER A;  2EX2 A;  2XK1 A;  3KO4 A;  4RRJ A;  4RRD A;  4NBI A;  1Y2Q A;  4BEN A;  2HL2 A;  4B4Z A;  3PD4 A;  4B4X A;  4RRQ A;  4S0L A;  4RR7 A;  1JKE A;  3LMV A;  5CEB A;  4RRM A;  2EX6 A;  1W8Q A;  3KNP A;  4RRG A;  2EXA A;  2XLN A;  4RR9 A;  3PD3 A;  4RRL A;  4S0I A;  4S03 A;  2VGK A;  2XDM A;  4RR6 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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3KNPA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations