4NBJA

D-aminoacyl-trna deacylase (dtd) from plasmodium falciparum in complex with d-tyrosyl-3'-aminoadenosine at 2.20 angstrom resolution
Total Genus 38
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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
38
sequence length
161
structure length
154
Chain Sequence
MRVVIQRVKGAILSVRKENLEIISEIKNGLICFLGIHKNDTWEDALYIIRKCLNLRLWNNDNKTWDKNVKDLNYELLIVSQFTLFGNTKKGNKPDFHLAKEPNEALIFYNKIIDEFKKQYNDDKIKIGKFGNYMNIDVTNDGPVTIYIDTHDIN
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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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molecule tags Hydrolase
molecule keywords D-tyrosyl-tRNA(Tyr) deacylase
publication title Mechanism of chiral proofreading during translation of the genetic code.
pubmed doi rcsb
source organism Plasmodium falciparum
total genus 38
structure length 154
sequence length 161
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 2013-10-23

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; 4nbjA00
3KO3A 4S0IA 2DBOA 2HKZA 1Y2QA 4RRGA 1J7GA 3KO5A 4RRJA 3KNFA 3LMVA 4RRRA 3KO4A 2HL2A 1JKEA 3KOBA 4RRIA 4S0LA 4RR6A 4NBJA 3LMTA 4RRQA 4S0KA 4S03A 4RR8A 3PD3A 2OKVA 3KOCA 4RRBA 3KNPA 4RRFA 3KODA 2HL1A 4RRAA 4RRHA 4RRDA 3PD2A 4RRCA 4RRKA 3KO7A 4NBIA 4RR7A 4S0JA 5J61A 3KO9A 3LMUA 3PD4A 4RRMA 4S02A 3PD5A 4RRLA 1TC5A 4RR9A 2HL0A
chains in the Genus database with same CATH superfamily
4RRGA 3KO5A 5CEDA 1W5DA 3KNFA 4RRIA 2HL2A 4S0KA 2WKEA 3PD3A 2OKVA 3KNPA 4RRFA 2Y55A 4RRDA 3ZVWA 5CERA 2Y59A 2XDMA 2Y4AA 4RRMA 4B4ZA 4RRLA 1W8YA 2HKZA 2XLNA 4RRRA 2VGJA 4S0LA 3LMTA 4RRQA 4S03A 5CEBA 2XK1A 3KO7A 4NBIA 2J9PA 3PD4A 2EXAA 3PD5A 3A3DA 3KO3A 4S0IA 1W79A 1Y2QA 2EXBA 1J7GA 2EX6A 2VGKA 3A3IA 2EX2A 1JKEA 3KOBA 4RR6A 4NBJA 3A3EA 4RR8A 2HL1A 4RRHA 4RRKA 4BENA 4RR7A 3LMUA 4B4XA 3ZCZA 1TC5A 2HL0A 2DBOA 4RRJA 2EX9A 3LMVA 3KO4A 2EX8A 3KOCA 5CECA 4RRBA 3ZVTA 3KODA 4RRAA 3PD2A 4RRCA 3A3FA 4S0JA 5J61A 3KO9A 4S02A 1W8QA 3V39A 4RR9A
chains in the Genus database with same CATH topology
4RRGA 3KO5A 5CEDA 1W5DA 3KNFA 4RRIA 2HL2A 4S0KA 2WKEA 3PD3A 2OKVA 3KNPA 4RRFA 2Y55A 4RRDA 3ZVWA 5CERA 2Y59A 2XDMA 2Y4AA 4RRMA 4B4ZA 4RRLA 1W8YA 2HKZA 2XLNA 4RRRA 2VGJA 4S0LA 3LMTA 4RRQA 4S03A 5CEBA 2XK1A 3KO7A 4NBIA 2J9PA 3PD4A 2EXAA 3PD5A 3A3DA 3KO3A 4S0IA 1W79A 1Y2QA 2EXBA 1J7GA 2EX6A 2VGKA 3A3IA 2EX2A 1JKEA 3KOBA 4RR6A 4NBJA 3A3EA 4RR8A 2HL1A 4RRHA 4RRKA 4BENA 4RR7A 3LMUA 4B4XA 3ZCZA 1TC5A 2HL0A 2DBOA 4RRJA 2EX9A 3LMVA 3KO4A 2EX8A 3KOCA 5CECA 4RRBA 3ZVTA 3KODA 4RRAA 3PD2A 4RRCA 3A3FA 4S0JA 5J61A 3KO9A 4S02A 1W8QA 3V39A 4RR9A
chains in the Genus database with same CATH homology


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

 
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