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Part 1: Document Description
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Citation |
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Title: |
Conserved positions in expansin homologues |
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Identification Number: |
doi:10.18419/darus-735 |
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Distributor: |
DaRUS |
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Date of Distribution: |
2020-04-09 |
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Version: |
1 |
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Bibliographic Citation: |
Lohoff, Caroline, 2020, "Conserved positions in expansin homologues", https://doi.org/10.18419/DARUS-735, DaRUS, V1, UNF:6:HemykMznkJ0tyrf89mswkg== [fileUNF] |
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Citation |
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Title: |
Conserved positions in expansin homologues |
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Identification Number: |
doi:10.18419/darus-735 |
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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: |
2020-03-10 |
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Holdings Information: |
https://doi.org/10.18419/DARUS-735 |
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Study Scope |
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Keywords: |
Medicine, Health and Life Sciences, conservation analysis |
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Abstract: |
Conserved positions in the N- and C-terminal expansin domains of different groups from the Expansin Engineering Database (occurring in at least 70% of the annotated sequence entries). The expansin domains were annotated using hmmscan (from the HMMER software suite) against all sequence entries in the Expansin Engineering Database. |
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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> PDB (<a href="https://doi.org/10.2210/pdb4FER/pdb">doi: 10.2210/pdb4FER/pdb</a>) |
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<br> Georgelis N, Tabuchi A, Nikolaidis N, Cosgrove DJ. Structure-function analysis of the bacterial expansin EXLX1. J Biol Chem. 2011;286:16814-16823. <a href="https://doi.org/10.1074/jbc.M111.225037">doi:10.1074/jbc.M111.225037</a> |
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<br> Yennawar NH, Li AC, Dudzinski DM, Tabuchi A, Cosgrove DJ. Crystal structure and activities of EXPB1 (Zea m 1), a β-expansin and group-1 pollen allergen from maize. Proc Natl Acad Sci U S A. 2006;103:14664-14671. <a href="https://doi.org/10.1073/pnas.0605979103">doi:10.1073/pnas.0605979103</a> |
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Data Access |
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Other Study Description Materials |
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Related Studies |
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Lohoff, Caroline, 2020, "Profile hidden Markov models of the ExED", <a href="https://doi.org/10.18419/darus-623">doi:10.18419/darus-623</a>, DaRUS |
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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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File Description--f2785 |
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File: Conserved_amino_acids_in_C-terminal_domain.tab |
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Notes: |
UNF:6:CE90w0ai1+p+rVxLddj0OA== |
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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 (Expansin A, column 4), EXPB (Expansin B, column 5), EXLA (Expansin-like A, column 6), EXLB (Expansin-like B, column 7). The last column indicates the assumed biochemical function of the respective amino acids. |
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File Description--f2786 |
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File: Conserved_amino_acids_in_N-terminal_domain.tab |
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Notes: |
UNF:6:ztPrC1aaxgvhz6A2pKE7oA== |
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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 (Expansin A, column 4), EXPB (Expansin B, column 5), EXLA (Expansin-like A, column 6), EXLB (Expansin-like B, column 7). The last column indicates the assumed biochemical function of the respective amino acids or a known sequence motif. |
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List of Variables: | |
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Variables |
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f2785 Location: |
Summary Statistics: Max. 186.0; Min. 114.0; StDev 21.733304355465208; Mean 151.5423529411765; Valid 85.0 Variable Format: numeric Notes: UNF:6:FiLhp1HoXjQcPJhMHeU33g== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:H53KNu0oXii9+B23LypWTQ== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:nQ9hI0zfA6j2J+X8F+rtHQ== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:c3gyMMJa/sr3rXKH4yS/XA== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:w1j4qfH3f1s2QEjmV9zX1g== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:VSiM3cY8pSER8yjbAj1njQ== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:qSup5mynUsx0U+vOksAtdg== |
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f2785 Location: |
Variable Format: character Notes: UNF:6:1lceCvJEnlQ/8WCZJ65KTQ== |
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f2786 Location: |
Summary Statistics: Mean 58.96178861788616; StDev 27.51324128406087; Max. 105.0; Valid 123.0; Min. 11.0; Variable Format: numeric Notes: UNF:6:2d+fOWxIK+1op4PNWxTExw== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:ohsZmXjl8LdREENAlUhAgA== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:15utZQYFN2zx2TIlVbmF7w== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:OteMKkYuXrxPynmgs5UomA== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:8sDN2/dYTyh/XIFYVX8FJw== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:XWNQgJmggT9fKteFkdRTKw== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:luP+tC2dJyfEerMUC+3qxQ== |
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f2786 Location: |
Variable Format: character Notes: UNF:6:Jh6IIsU713G1CIS9knvGig== |