Expansin Engineering Database

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Publication Year: 2020

11 to 20 of 28 Results

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.
GraphML files for protein sequence networks of expansin homologues Jan 30, 2020 Lohoff, Caroline, 2020, "GraphML files for protein sequence networks of expansin homologues", https://doi.org/10.18419/darus-624, DaRUS, V1 GraphML files for undirected weighted graphs with nodes that represent protein sequences of expansin homologues. Protein sequences were clustered by a threshold of sequence identity to derive representative sequences.Pairwise sequence identity between two sequences was derived fr...
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...
Sfam_123_Cdomain_90_60.graphml Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues GraphML Network Data - 20.8 MB - MD5: 1bcf30f501153632979c2e032fe5a497 Protein sequence network for C-terminal expansin domains from the bacterial, fungal, and plant superfamily from the Expansin Engineering Database. The GraphML file contains representative nodes (clustered by 0.9 in USEARCH/ UCLUST) connected by at least 60% pairwise sequence iden...
Sfams_123_210-300_90_50.graphml Jan 30, 2020 - GraphML files for protein sequence networks of expansin homologues GraphML Network Data - 85.9 MB - MD5: 6b7c3ee5702bf65837900503ef335e54 Protein sequence network for N-terminal expansin domains from the bacterial, fungal, and plant superfamily from the Expansin Engineering Database, for sequences with length between 210 and 300 residues.The GraphML file contains representative nodes (clustered by 0.9 in USEARCH/ U...
Profile hidden Markov models of the ExED Jan 30, 2020 Lohoff, Caroline, 2020, "Profile hidden Markov models of the ExED", https://doi.org/10.18419/darus-623, DaRUS, V1 Profile hidden Markov models and their underlying multiple sequence alignments for the N- and C-terminal protein domains of expansins.
Expansins_CterminalDomain_2.aln Jan 30, 2020 - Profile hidden Markov models of the ExED Unknown - 2.8 KB - MD5: 4fac8317bd493c0e87d9a2014528f6e8 Clustal alignment for the C-terminal expansin domain
Expansins_CterminalDomain_2.hmm Jan 30, 2020 - Profile hidden Markov models of the ExED Unknown - 37.8 KB - MD5: bff77f04191cafcd2319527717ff504a Profile hidden Markov model in HMMER format for the C-terminal expansin domain

CBM63sequences.tab

Jan 30, 2020 - Expansin domains in CBM63 sequences

Tabular Data - 8.1 KB - 1 Variables, 510 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 35.

GraphML files for protein sequence networks of expansin homologues

Jan 30, 2020

Lohoff, Caroline, 2020, "GraphML files for protein sequence networks of expansin homologues", https://doi.org/10.18419/darus-624, DaRUS, V1

GraphML files for undirected weighted graphs with nodes that represent protein sequences of expansin homologues. Protein sequences were clustered by a threshold of sequence identity to derive representative sequences.Pairwise sequence identity between two sequences was derived fr...

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...

Sfam_123_Cdomain_90_60.graphml

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

GraphML Network Data - 20.8 MB -

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

Sfams_123_210-300_90_50.graphml

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

GraphML Network Data - 85.9 MB -

Protein sequence network for N-terminal expansin domains from the bacterial, fungal, and plant superfamily from the Expansin Engineering Database, for sequences with length between 210 and 300 residues.The GraphML file contains representative nodes (clustered by 0.9 in USEARCH/ U...

Profile hidden Markov models of the ExED

Jan 30, 2020

Lohoff, Caroline, 2020, "Profile hidden Markov models of the ExED", https://doi.org/10.18419/darus-623, DaRUS, V1

Profile hidden Markov models and their underlying multiple sequence alignments for the N- and C-terminal protein domains of expansins.

Expansins_CterminalDomain_2.aln

Jan 30, 2020 - Profile hidden Markov models of the ExED

Unknown - 2.8 KB -

Clustal alignment for the C-terminal expansin domain

Expansins_CterminalDomain_2.hmm

Jan 30, 2020 - Profile hidden Markov models of the ExED

Unknown - 37.8 KB -

Profile hidden Markov model in HMMER format for the C-terminal expansin domain

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