PAZy

Supporting information and data for the PAZy database on plastics-active enzymes.

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1 to 9 of 9 Results

GraphML files for sequence networks of PETases and PURases Dec 1, 2021 Buchholz, Patrick C. F., 2021, "GraphML files for sequence networks of PETases and PURases", https://doi.org/10.18419/darus-2054, DaRUS, V1 The GraphML files contain the sequence networks and annotated metadata for protein sequences.
PET_local_08_55sim.graphml Dec 1, 2021 - GraphML files for sequence networks of PETases and PURases GraphML Network Data - 5.8 MB - MD5: abddf6c05feb40d68c3c5cbed3f21d2b Protein sequence network for PETase homologues. Edges were selected at a threshold of 55% pairwise sequence identity.
Sfam11_09_60sim.graphml Dec 1, 2021 - GraphML files for sequence networks of PETases and PURases GraphML Network Data - 557.2 KB - MD5: 7cd626f025e5d7a0a253281649894b7f Protein sequence network for PURase homologues from LED superfamily 11. Edges were selected at a threshold of 60% pairwise sequence identity.
Sfam13_09_60sim.graphml Dec 1, 2021 - GraphML files for sequence networks of PETases and PURases GraphML Network Data - 16.2 KB - MD5: e93342540254b2c25b2826343947b22b Protein sequence network for PURase homologues from LED superfamily 13. Edges were selected at a threshold of 60% pairwise sequence identity.
Profile hidden Markov model for PETase homologues Dec 1, 2021 Buchholz, Patrick C. F., 2021, "Profile hidden Markov model for PETase homologues", https://doi.org/10.18419/darus-2055, DaRUS, V1, UNF:6:AEjnqfOrnimO5Q2xFDkQDw== [fileUNF] Sixteen protein sequences for enzymes with known activity against polyethylene terephthalate (PET) were clustered using CD-HIT to derive a reduced set of twelve centroid sequences. These twelve protein sequences were aligned in a structure-guided multiple sequence alignment by T-...
PET_09_tcoffee.aln Dec 1, 2021 - Profile hidden Markov model for PETase homologues Unknown - 7.2 KB - MD5: e81a1a25f3e79e189a048e1a04756cbc Multiple sequence alignment in Clustal format.
PET_09_tcoffee.hmm Dec 1, 2021 - Profile hidden Markov model for PETase homologues Unknown - 122.2 KB - MD5: 7fa623dde96d25f2919f75b497b2f657 Profile hidden Markov model in HMMER3 format
PET_09_tcoffee.sto Dec 1, 2021 - Profile hidden Markov model for PETase homologues Unknown - 6.1 KB - MD5: 7e6f4be4289d0fb3371ac4e777be14e9 Multiple sequence alignment in Stockholm format with reference columns: The trimmed alignment region is marked by an 'x' in lines starting with #=GC RF
Templates.tab Dec 1, 2021 - Profile hidden Markov model for PETase homologues Tabular Data - 255 B - 3 Variables, 12 Observations - UNF:6:AEjnqfOrnimO5Q2xFDkQDw== Uniprot identifiers, PDB identifiers, and PDB chains used for the structure-guided multiple sequence alignment by T-COFFEE

GraphML files for sequence networks of PETases and PURases

Dec 1, 2021

Buchholz, Patrick C. F., 2021, "GraphML files for sequence networks of PETases and PURases", https://doi.org/10.18419/darus-2054, DaRUS, V1

The GraphML files contain the sequence networks and annotated metadata for protein sequences.

PET_local_08_55sim.graphml

Dec 1, 2021 - GraphML files for sequence networks of PETases and PURases

GraphML Network Data - 5.8 MB -

Protein sequence network for PETase homologues. Edges were selected at a threshold of 55% pairwise sequence identity.

Sfam11_09_60sim.graphml

Dec 1, 2021 - GraphML files for sequence networks of PETases and PURases

GraphML Network Data - 557.2 KB -

Protein sequence network for PURase homologues from LED superfamily 11. Edges were selected at a threshold of 60% pairwise sequence identity.

Sfam13_09_60sim.graphml

Dec 1, 2021 - GraphML files for sequence networks of PETases and PURases

GraphML Network Data - 16.2 KB -

Protein sequence network for PURase homologues from LED superfamily 13. Edges were selected at a threshold of 60% pairwise sequence identity.

Profile hidden Markov model for PETase homologues

Dec 1, 2021

Buchholz, Patrick C. F., 2021, "Profile hidden Markov model for PETase homologues", https://doi.org/10.18419/darus-2055, DaRUS, V1, UNF:6:AEjnqfOrnimO5Q2xFDkQDw== [fileUNF]

Sixteen protein sequences for enzymes with known activity against polyethylene terephthalate (PET) were clustered using CD-HIT to derive a reduced set of twelve centroid sequences. These twelve protein sequences were aligned in a structure-guided multiple sequence alignment by T-...

PET_09_tcoffee.aln

Dec 1, 2021 - Profile hidden Markov model for PETase homologues

Unknown - 7.2 KB -

Multiple sequence alignment in Clustal format.

PET_09_tcoffee.hmm

Dec 1, 2021 - Profile hidden Markov model for PETase homologues

Unknown - 122.2 KB -

Profile hidden Markov model in HMMER3 format

PET_09_tcoffee.sto

Dec 1, 2021 - Profile hidden Markov model for PETase homologues

Unknown - 6.1 KB -

Multiple sequence alignment in Stockholm format with reference columns: The trimmed alignment region is marked by an 'x' in lines starting with #=GC RF

Templates.tab

Dec 1, 2021 - Profile hidden Markov model for PETase homologues

Tabular Data - 255 B - 3 Variables, 12 Observations -

Uniprot identifiers, PDB identifiers, and PDB chains used for the structure-guided multiple sequence alignment by T-COFFEE

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