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 |
41
|
sequence length |
140
|
structure length |
139
|
Chain Sequence |
MRVLLIHADYEYEVKDKALKNPEPISEDMKRGRMEEVLVAFISVEKVDEKNPEEVSLKAIEEISKVAEQVKAENVFVVPWAHLSSELAKPSVAMDILNRVYQGLKERGFNVGKAPFGYYIAAKISCKGHPLAELSRTIV
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Transition states. Trapping a transition state in a computationally designed protein bottle.
pubmed doi rcsb |
| molecule tags |
Ligase
|
| source organism |
Pyrococcus abyssi ge5
|
| molecule keywords |
Threonine--tRNA ligase
|
| total genus |
41
|
| structure length |
139
|
| sequence length |
140
|
| ec nomenclature |
ec
6.1.1.3: Threonine--tRNA ligase. |
| pdb deposition date | 2014-12-31 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF08915 | tRNA-Thr_ED | Archaea-specific editing domain of threonyl-tRNA synthetase |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 3-Layer(bba) Sandwich | D-tyrosyl-trna(Tyr) Deacylase; Chain: A; | D-tyrosyl-trna(Tyr) Deacylase; Chain: A; |
#chains in the Genus database with same CATH superfamily 3PD2 A; 4NBI A; 4RR8 A; 1JKE A; 4RRH A; 3PD5 A; 3KO9 A; 4RRC A; 3LMU A; 4RRB A; 1Y2Q A; 4RRA A; 4S0I A; 3KOC A; 4RRI A; 2OKV A; 2HL0 A; 3KNP A; 3KOD A; 4S0J A; 4RRD A; 4RRQ A; 4NBJ A; 4S0L A; 3KO5 A; 3KO4 A; 3PD3 A; 4S02 A; 1TC5 A; 3LMV A; 3KNF A; 4RR6 A; 2DBO A; 3KOB A; 4RRG A; 4S0K A; 5J61 A; 4RR7 A; 4S03 A; 4RRJ A; 4RR9 A; 3KO7 A; 4RRR A; 2HL1 A; 3LMT A; 3PD4 A; 4RRF A; 3KO3 A; 2HKZ A; 4RRL A; 4RRM A; 1J7G A; 4RRK A; 2HL2 A; #chains in the Genus database with same CATH topology 3PD2 A; 1JKE A; 1W79 A; 1W8Y A; 3PD5 A; 4RRC A; 1Y2Q A; 4RRA A; 3KNP A; 4S0J A; 2EXA A; 4S0L A; 1W5D A; 3KO5 A; 2EX6 A; 3LMV A; 5CER A; 4RRL A; 5CED A; 4RRM A; 4NBI A; 2Y4A A; 3KO9 A; 4S0I A; 3KOC A; 3ZVT A; 2OKV A; 3KOD A; 3A3I A; 2XLN A; 4NBJ A; 2EX2 A; 3A3E A; 4S02 A; 1W8Q A; 3KNF A; 5J61 A; 3KOB A; 4S03 A; 4RRJ A; 2J9P A; 3KO3 A; 4B4Z A; 3A3D A; 3ZCZ A; 3ZVW A; 4B4X A; 2VGJ A; 3LMU A; 4RRB A; 2HL0 A; 4RRD A; 2XK1 A; 4RRQ A; 2EX8 A; 3PD3 A; 3V39 A; 1TC5 A; 4RRG A; 2DBO A; 4S0K A; 4RR7 A; 5CEC A; 4RR9 A; 3KO7 A; 4RRF A; 4RRK A; 4RR8 A; 4RRH A; 2XDM A; 5CEB A; 2VGK A; 2Y55 A; 2EXB A; 2EX9 A; 3KO4 A; 4BEN A; 4RR6 A; 2WKE A; 3A3F A; 4RRR A; 2HL1 A; 3LMT A; 3PD4 A; 2HKZ A; 2Y59 A; 4RRI A; 1J7G A; 2HL2 A; #chains in the Genus database with same CATH homology 3PD2 A; 1JKE A; 1W79 A; 1W8Y A; 3PD5 A; 4RRC A; 1Y2Q A; 4RRA A; 3KNP A; 4S0J A; 2EXA A; 4S0L A; 1W5D A; 3KO5 A; 2EX6 A; 3LMV A; 5CER A; 4RRL A; 5CED A; 4RRM A; 4NBI A; 2Y4A A; 3KO9 A; 4S0I A; 3KOC A; 3ZVT A; 2OKV A; 3KOD A; 3A3I A; 2XLN A; 4NBJ A; 2EX2 A; 3A3E A; 4S02 A; 1W8Q A; 3KNF A; 5J61 A; 3KOB A; 4S03 A; 4RRJ A; 2J9P A; 3KO3 A; 4B4Z A; 3A3D A; 3ZCZ A; 3ZVW A; 4B4X A; 2VGJ A; 3LMU A; 4RRB A; 2HL0 A; 4RRD A; 2XK1 A; 4RRQ A; 2EX8 A; 3PD3 A; 3V39 A; 1TC5 A; 4RRG A; 2DBO A; 4S0K A; 4RR7 A; 5CEC A; 4RR9 A; 3KO7 A; 4RRF A; 4RRK A; 4RR8 A; 4RRH A; 2XDM A; 5CEB A; 2VGK A; 2Y55 A; 2EXB A; 2EX9 A; 3KO4 A; 4BEN A; 4RR6 A; 2WKE A; 3A3F A; 4RRR A; 2HL1 A; 3LMT A; 3PD4 A; 2HKZ A; 2Y59 A; 4RRI A; 1J7G A; 2HL2 A;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
