5J61A

D-aminoacyl-trna deacylase (dtd) from plasmodium falciparum in complex with glycyl-3'-aminoadenosine at 2.10 angstrom resolution
Total Genus 34
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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
34
sequence length
160
structure length
151
Chain Sequence
MRVVIQRVKGAILSVRKLEIISEIKNGLICFLGIHKNDTWEDALYIIRKCLNLRLWNNDNKTWDKNVKDLNYELLIVSQFTLFGNTKKGNKPDFHLAKEPNEALIFYNKIIDEFKKQYNDDKIKIGKFGNYMNIDVTNDGPVTIYIDTHDI
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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

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

Chord Diagram
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publication title Elongation Factor Tu Prevents Misediting of Gly-tRNA(Gly) Caused by the Design Behind the Chiral Proofreading Site of D-Aminoacyl-tRNA Deacylase
pubmed doi rcsb
molecule tags Hydrolase
source organism Plasmodium falciparum (isolate 3d7)
molecule keywords D-tyrosyl-tRNA(Tyr) deacylase
total genus 34
structure length 151
sequence length 160
chains with identical sequence B, C, D, E, F, G, H
ec nomenclature ec 3.1.1.96: D-aminoacyl-tRNA deacylase.
pdb deposition date 2016-04-04

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
ClassArchitectureTopologyHomologyDomain
3.50.80.10 Alpha Beta 3-Layer(bba) Sandwich D-tyrosyl-trna(Tyr) Deacylase; Chain: A; D-tyrosyl-trna(Tyr) Deacylase; Chain: A; 5j61A00
3LMUA 3KOBA 3PD5A 2HL0A 4RR6A 1TC5A 3KO9A 4RRCA 5J61A 4NBIA 4RRIA 4RRRA 4RRDA 4RR8A 2HL2A 4RRBA 3KO7A 1Y2QA 2OKVA 4RRKA 4RRQA 3LMVA 4RRLA 4S0JA 4S0IA 2HL1A 3KO5A 2DBOA 4S02A 4RRGA 4NBJA 2HKZA 1JKEA 4S0KA 3PD3A 4RRMA 4RRAA 3KOCA 4RRJA 3PD4A 3PD2A 3KO4A 3KNPA 1J7GA 3KNFA 3KO3A 4S03A 3LMTA 4RRFA 4RR9A 3KODA 4RR7A 4RRHA 4S0LA
chains in the Genus database with same CATH superfamily
3LMUA 4RRCA 5CERA 4RRIA 4RRDA 1W8QA 3KO7A 2OKVA 2XK1A 2HL1A 2DBOA 3KO5A 5CEBA 4RRGA 2WKEA 1W79A 2XLNA 3KO4A 2EX9A 3ZVWA 3KO3A 2EX8A 3LMTA 4RRHA 3A3IA 3PD5A 4RRRA 2HL2A 2Y4AA 2Y59A 4B4ZA 4S0JA 3ZCZA 4S02A 4NBJA 4S0KA 2VGJA 3PD3A 3A3DA 4RRMA 4RRAA 4RRJA 3ZVTA 1W8YA 4RRFA 4RR9A 3A3FA 4S03A 3A3EA 1TC5A 3KO9A 3V39A 4NBIA 4RR8A 4BENA 1Y2QA 4RRKA 4RRQA 2Y55A 2J9PA 3KOCA 5CECA 3PD4A 2EXAA 1W5DA 2VGKA 2EX2A 2XDMA 2EXBA 3KOBA 4RR6A 2HL0A 5J61A 4RRBA 2EX6A 3LMVA 4RRLA 4S0IA 2HKZA 1JKEA 5CEDA 4B4XA 3PD2A 3KNPA 1J7GA 3KNFA 3KODA 4RR7A 4S0LA
chains in the Genus database with same CATH topology
3LMUA 4RRCA 5CERA 4RRIA 4RRDA 1W8QA 3KO7A 2OKVA 2XK1A 2HL1A 2DBOA 3KO5A 5CEBA 4RRGA 2WKEA 1W79A 2XLNA 3KO4A 2EX9A 3ZVWA 3KO3A 2EX8A 3LMTA 4RRHA 3A3IA 3PD5A 4RRRA 2HL2A 2Y4AA 2Y59A 4B4ZA 4S0JA 3ZCZA 4S02A 4NBJA 4S0KA 2VGJA 3PD3A 3A3DA 4RRMA 4RRAA 4RRJA 3ZVTA 1W8YA 4RRFA 4RR9A 3A3FA 4S03A 3A3EA 1TC5A 3KO9A 3V39A 4NBIA 4RR8A 4BENA 1Y2QA 4RRKA 4RRQA 2Y55A 2J9PA 3KOCA 5CECA 3PD4A 2EXAA 1W5DA 2VGKA 2EX2A 2XDMA 2EXBA 3KOBA 4RR6A 2HL0A 5J61A 4RRBA 2EX6A 3LMVA 4RRLA 4S0IA 2HKZA 1JKEA 5CEDA 4B4XA 3PD2A 3KNPA 1J7GA 3KNFA 3KODA 4RR7A 4S0LA
chains in the Genus database with same CATH homology


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

 
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