1TC5A

Structural analysis of a probable eukaryotic d-amino acid trna deacylase
Total Genus 48
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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
48
sequence length
187
structure length
187
Chain Sequence
HMTIRVMLQAMDQGHLLVNNVDKYVRAGRGVMVYIAFLSDRDSAPITDEALRHAVGVLLHTKIFTHFSPEKMINQPQSLEECPEMDILIVPQASLGGKVKGRSVQFHQLVAKDVGAALYDRFCHFVRVARGVDESRVDANGAPRSEGDAPKAEGWIKYNSRVISGTFGNRQGLRFESEGPFTHMFDI
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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 Structural analysis of LMAJ005534AAA, a probable eukaryotic D-amino acid tRNA deacylase from Leishmania major
rcsb
molecule tags Structural genomics, unknown function
source organism Leishmania major
molecule keywords Probable eukaryotic D-amino acid tRNA deacylase, LMAJ005534A
total genus 48
structure length 187
sequence length 187
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2004-05-20

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; 1tc5A00
1JKEA 3KO9A 5J61A 2HL0A 3KO4A 4S02A 4RRMA 4RRLA 3KO7A 4RR9A 4RRCA 4RR8A 3KNPA 3KNFA 4S0LA 4RRRA 1J7GA 4RRHA 4RR6A 3LMTA 3PD3A 4RRJA 4NBJA 4RRAA 4S0IA 3KODA 1TC5A 3PD2A 4RRFA 1Y2QA 2HL2A 4RRIA 3PD5A 4RRGA 4RRBA 3LMUA 2DBOA 4S03A 4S0KA 3KOBA 3PD4A 2HKZA 4RRDA 3LMVA 4RR7A 4RRKA 3KO3A 4S0JA 2HL1A 2OKVA 3KO5A 4RRQA 4NBIA 3KOCA
chains in the Genus database with same CATH superfamily
1JKEA 3KO4A 2Y4AA 2WKEA 5CERA 4RR9A 3ZVWA 4BENA 3KNFA 2VGKA 3PD3A 2XDMA 4RRAA 1TC5A 2HL2A 1W8QA 4S0KA 4RRDA 1W5DA 4RR7A 5CECA 4NBIA 2XLNA 4RRLA 3A3IA 2EX8A 5CEBA 4S0LA 4RRRA 2XK1A 2J9PA 4RRHA 4RR6A 3LMTA 3A3EA 4NBJA 4S0IA 4B4ZA 3PD2A 3A3FA 1Y2QA 2DBOA 2HKZA 4RRKA 2VGJA 4RRQA 3KO9A 4S02A 2EXBA 4RRCA 3ZVTA 2EX9A 1J7GA 4RRJA 3ZCZA 4RRFA 4RRGA 4RRBA 3KOBA 3PD4A 2EX2A 5CEDA 3LMVA 3KO3A 4S0JA 2HL1A 2OKVA 3KO5A 3KOCA 5J61A 2HL0A 4RRMA 3KO7A 4RR8A 4B4XA 2Y55A 3KNPA 1W79A 3A3DA 3KODA 4RRIA 3PD5A 3LMUA 4S03A 1W8YA 2EX6A 3V39A 2Y59A 2EXAA
chains in the Genus database with same CATH topology
1JKEA 3KO4A 2Y4AA 2WKEA 5CERA 4RR9A 3ZVWA 4BENA 3KNFA 2VGKA 3PD3A 2XDMA 4RRAA 1TC5A 2HL2A 1W8QA 4S0KA 4RRDA 1W5DA 4RR7A 5CECA 4NBIA 2XLNA 4RRLA 3A3IA 2EX8A 5CEBA 4S0LA 4RRRA 2XK1A 2J9PA 4RRHA 4RR6A 3LMTA 3A3EA 4NBJA 4S0IA 4B4ZA 3PD2A 3A3FA 1Y2QA 2DBOA 2HKZA 4RRKA 2VGJA 4RRQA 3KO9A 4S02A 2EXBA 4RRCA 3ZVTA 2EX9A 1J7GA 4RRJA 3ZCZA 4RRFA 4RRGA 4RRBA 3KOBA 3PD4A 2EX2A 5CEDA 3LMVA 3KO3A 4S0JA 2HL1A 2OKVA 3KO5A 3KOCA 5J61A 2HL0A 4RRMA 3KO7A 4RR8A 4B4XA 2Y55A 3KNPA 1W79A 3A3DA 3KODA 4RRIA 3PD5A 3LMUA 4S03A 1W8YA 2EX6A 3V39A 2Y59A 2EXAA
chains in the Genus database with same CATH homology


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

 
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#similar chains, but unknotted
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