Expansin Engineering Database

Supporting information and original files for bioinformatic investigations using the Expansin Engineering Database (https://exed.biocatnet.de/)

Featured Dataverses

In order to use this feature you must have at least one published dataverse.

Publish Dataverse

Are you sure you want to publish your dataverse? Once you do so it must remain published.

Publish Dataverse

This dataverse cannot be published because the dataverse it is in has not been published.

Delete Dataverse

Are you sure you want to delete your dataverse? You cannot undelete this dataverse.

1 to 10 of 21 Results

CBM63_expansin_domains_score20.tab Jun 16, 2020 - Expansin domains in CBM63 sequences Tabular Data - 8.4 KB - 1 Variables, 567 Observations - UNF:6:i7aLIL6weIF8nhTjUBKf+g== Tabular file with headers: CBM63 with both domains (1st column), CBM63 with N-terminal domain (2nd column), CBM63 with C-terminal domain (3rd column). The expansin domains were annotated using a minimal domain-based score of 20.
Conserved_amino_acids_in_C-terminal_domain.tab Apr 9, 2020 - Conserved positions in expansin homologues Tabular Data - 7.3 KB - 8 Variables, 85 Observations - UNF:6:CE90w0ai1+p+rVxLddj0OA== Conserved positions in the C-terminal expansin domain with standard numbering according to PDB entry 4FER (Bacillus subtilis EXLX1, first column). The amino acids and their occurrence in % are given for different groups of sequences: (Bacteria (column 2), Fungi (column 3), EXPA (...
Conserved_amino_acids_in_N-terminal_domain.tab Apr 9, 2020 - Conserved positions in expansin homologues Tabular Data - 9.8 KB - 8 Variables, 123 Observations - UNF:6:ztPrC1aaxgvhz6A2pKE7oA== Conserved positions in the N-terminal expansin domain with standard numbering according to PDB entry 4FER (Bacillus subtilis EXLX1, first column). The amino acids and their occurrence in % are given for different groups of sequences: (Bacteria (column 2), Fungi (column 3), EXPA (...
hits_aa.fasta Apr 9, 2020 - Expansin homologues in actinobacterial genomes from South Africa Unknown - 1.3 KB - MD5: 00f8e0957e042214a2c935343fae28f9 FASTA file of protein sequences (amino acid symbols). The numbers in the headers correspond to the hits mentioned in the Supporting Information file from Lohoff et al. 2020.
hits_nt.fasta Apr 9, 2020 - Expansin homologues in actinobacterial genomes from South Africa Unknown - 4.0 KB - MD5: 7dbd7e182fdf07bf4bd300fbd68ed0a4 FASTA file of nucleic acid sequences. The numbers in the headers correspond to the hits mentioned in the Supporting Information file from Lohoff et al. 2020.
Taxonomic_analysis.tab Apr 9, 2020 - Occurrence of expansins in the tree of life Tabular Data - 4.0 KB - 6 Variables, 90 Observations - UNF:6:eK0oQia4QiaiEO0m1BJFeA== Tabular comparison between the occurrences of expansins in different taxa as reported in the Expansin Engineering Database (ExED) and Chase et al. (2020): Name of the taxonomic superkingdom; Name of the (major) taxonomic group reported in Chase et al. 2020; Lineage contains ex...
CBM63sequences.tab Jan 30, 2020 - Expansin domains in CBM63 sequences Tabular Data - 8.1 KB - 1 Variables, 510 Observations - UNF:6:9nlqS8HIWJ5ngSIjGG58OQ== Tabular file with headers: CBM63 with both domains (1st column), CBM63 with N-terminal domain (2nd column), CBM63 with C-terminal domain (3rd column). The expansin domains were annotated using a minimal domain-based score of 35.
CBM63_Sfams123_210-300_90_50.graphml Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues GraphML Network Data - 70.6 MB - MD5: 51c315706ee9f262b816ee2654172d0e Protein sequence network for the bacterial, fungal, and plant superfamily from the Expansin Engineering Database (for sequences with length between 210 and 300 residues) including members of the CBM63 family (downloaded from the CAZy database on June 3, 2019). The GraphML file co...
GH45_Sfam_1234_Ndomain_90_30.graphml Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues GraphML Network Data - 178.7 MB - MD5: afaa6dd751225c3dfb4a7702ad979993 Protein sequence network for the bacterial, fungal, plant and N-terminal domains superfamily from the Expansin Engineering Database including members of the GH45 family (from Pfam, version 32.0, accession PF02015). The GraphML file contains representative nodes (clustered by 0.9...
Ndomains_1234_CBM_09_60identity.graphml Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues GraphML Network Data - 25.2 MB - MD5: dd85b921f70e99ae9cbffc2156be55c0 Protein sequence network for N-terminal expansin domains from the bacterial, fungal, plant and N-terminal domains superfamily from the Expansin Engineering Database. The GraphML file contains representative nodes (clustered by 0.9 in USEARCH/ UCLUST) connected by at least 60% pa...

CBM63_expansin_domains_score20.tab

Jun 16, 2020 - Expansin domains in CBM63 sequences

Tabular Data - 8.4 KB - 1 Variables, 567 Observations -

Tabular file with headers: CBM63 with both domains (1st column), CBM63 with N-terminal domain (2nd column), CBM63 with C-terminal domain (3rd column). The expansin domains were annotated using a minimal domain-based score of 20.

Conserved_amino_acids_in_C-terminal_domain.tab

Apr 9, 2020 - Conserved positions in expansin homologues

Tabular Data - 7.3 KB - 8 Variables, 85 Observations -

Conserved positions in the C-terminal expansin domain with standard numbering according to PDB entry 4FER (Bacillus subtilis EXLX1, first column). The amino acids and their occurrence in % are given for different groups of sequences: (Bacteria (column 2), Fungi (column 3), EXPA (...

Conserved_amino_acids_in_N-terminal_domain.tab

Apr 9, 2020 - Conserved positions in expansin homologues

Tabular Data - 9.8 KB - 8 Variables, 123 Observations -

Conserved positions in the N-terminal expansin domain with standard numbering according to PDB entry 4FER (Bacillus subtilis EXLX1, first column). The amino acids and their occurrence in % are given for different groups of sequences: (Bacteria (column 2), Fungi (column 3), EXPA (...

hits_aa.fasta

Apr 9, 2020 - Expansin homologues in actinobacterial genomes from South Africa

Unknown - 1.3 KB -

FASTA file of protein sequences (amino acid symbols). The numbers in the headers correspond to the hits mentioned in the Supporting Information file from Lohoff et al. 2020.

hits_nt.fasta

Apr 9, 2020 - Expansin homologues in actinobacterial genomes from South Africa

Unknown - 4.0 KB -

FASTA file of nucleic acid sequences. The numbers in the headers correspond to the hits mentioned in the Supporting Information file from Lohoff et al. 2020.

Taxonomic_analysis.tab

Apr 9, 2020 - Occurrence of expansins in the tree of life

Tabular Data - 4.0 KB - 6 Variables, 90 Observations -

Tabular comparison between the occurrences of expansins in different taxa as reported in the Expansin Engineering Database (ExED) and Chase et al. (2020): Name of the taxonomic superkingdom; Name of the (major) taxonomic group reported in Chase et al. 2020; Lineage contains ex...

CBM63sequences.tab

Jan 30, 2020 - Expansin domains in CBM63 sequences

Tabular Data - 8.1 KB - 1 Variables, 510 Observations -

CBM63_Sfams123_210-300_90_50.graphml

Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues

GraphML Network Data - 70.6 MB -

Protein sequence network for the bacterial, fungal, and plant superfamily from the Expansin Engineering Database (for sequences with length between 210 and 300 residues) including members of the CBM63 family (downloaded from the CAZy database on June 3, 2019). The GraphML file co...

GH45_Sfam_1234_Ndomain_90_30.graphml

Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues

GraphML Network Data - 178.7 MB -

Protein sequence network for the bacterial, fungal, plant and N-terminal domains superfamily from the Expansin Engineering Database including members of the GH45 family (from Pfam, version 32.0, accession PF02015). The GraphML file contains representative nodes (clustered by 0.9...

Ndomains_1234_CBM_09_60identity.graphml

Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues

GraphML Network Data - 25.2 MB -

Protein sequence network for N-terminal expansin domains from the bacterial, fungal, plant and N-terminal domains superfamily from the Expansin Engineering Database. The GraphML file contains representative nodes (clustered by 0.9 in USEARCH/ UCLUST) connected by at least 60% pa...

Add Data

Share Dataverse

Link Dataverse

Reset Modifications