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Part 1: Document Description
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Citation |
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Title: |
Expansin domains in CBM63 sequences |
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Identification Number: |
doi:10.18419/darus-625 |
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Distributor: |
DaRUS |
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Date of Distribution: |
2020-01-30 |
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Version: |
2 |
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Bibliographic Citation: |
Lohoff, Caroline, 2020, "Expansin domains in CBM63 sequences", https://doi.org/10.18419/darus-625, DaRUS, V2, UNF:6:p+wfgXpfeyT0/kJm49wLTA== [fileUNF] |
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Citation |
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Title: |
Expansin domains in CBM63 sequences |
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Identification Number: |
doi:10.18419/darus-625 |
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Authoring Entity: |
Lohoff, Caroline (Universität Stuttgart) |
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Distributor: |
DaRUS |
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Access Authority: |
Pleiss, Jürgen |
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Depositor: |
Buchholz, Patrick C. F. |
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Date of Deposit: |
2020-01-28 |
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Holdings Information: |
https://doi.org/10.18419/darus-625 |
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Study Scope |
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Keywords: |
Medicine, Health and Life Sciences, protein domain |
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Abstract: |
The occurrence of N- and C-terminal expansin domains in CBM63 sequences from the CAZy database. Protein sequences are represented by NCBI accessions. Expansin domains were annotated with the hmmscan command from the HMMER software package. The hits were filtered by a minimal domain-based score of 35 or 20 (chosen after comparison with HMMER’s domain-based “independent” e-values), a minimal hit length of 60 amino acids, and a maximal ratio of bias over domain-based score of 10%. |
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Notes: |
Sequences were downloaded from the Carbohydrate-Active enZYmes Database (CAZy) on June 3, 2019. |
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Methodology and Processing |
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Sources Statement |
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Data Sources: |
Expansin Engineering Database (<a href="https://exed.biocatnet.de/">https://exed.biocatnet.de/</a>) |
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<br>Carbohydrate-Active enZYmes Database (<a href="http://www.cazy.org/">http://www.cazy.org/</a>) |
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Data Access |
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Other Study Description Materials |
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Related Publications |
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Citation |
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Title: |
Lohoff C., Buchholz P. C. F., Le Roes-Hill M. & Pleiss J. (2020). The Expansin Engineering Database: a navigation and classification tool for expansins and homologues. Proteins: Structure, Function, and Bioinformatics 89:2. |
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Identification Number: |
10.1002/prot.26001 |
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Bibliographic Citation: |
Lohoff C., Buchholz P. C. F., Le Roes-Hill M. & Pleiss J. (2020). The Expansin Engineering Database: a navigation and classification tool for expansins and homologues. Proteins: Structure, Function, and Bioinformatics 89:2. |
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Other Reference Note(s) |
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Lombard V, Golaconda Ramulu H, Drula E, Coutinho PM, Henrissat B (2014) The Carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Research, Volume 42, Issue D1, 1 January 2014, Pages D490-D495. <a href="https://doi.org/10.1093/nar/gkt1178">https://doi.org/10.1093/nar/gkt1178</a> |
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File Description--f1635 |
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File: CBM63sequences.tab |
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Notes: |
UNF:6:9nlqS8HIWJ5ngSIjGG58OQ== |
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File Description--f4290 |
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File: CBM63_expansin_domains_score20.tab |
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Notes: |
UNF:6:i7aLIL6weIF8nhTjUBKf+g== |
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List of Variables: |
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Variables |
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f1635 Location: |
Variable Format: character Notes: UNF:6:9nlqS8HIWJ5ngSIjGG58OQ== |
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f4290 Location: |
Variable Format: character Notes: UNF:6:i7aLIL6weIF8nhTjUBKf+g== |