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 | | The structural changes triggered in the interactions of a structure determined system arise moment after moment determined by its structure also, but they follow a course that is generated moment after moment by the succession of encounters with the medium in which the system participates. | | | The notion of structural determinism is an abstraction that the observer makes from the coherences of his or her experiences. | | | The notion of structural determinism does not arise as an ontological assumption about a domain of transcendental realities, it arises as an abstraction that grasps the operational coherences of our living as human beings as we use the coherences of our experiences to explain our experiences. |
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http://www.isss.org/maturana.htm
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| | [No title] |
| | Domain boundaries may be marked by a shift in general character, the beginning and end of periodic region or internal duplication, or cluster basic residues. | | | Secondary structure assignments were calculated using the method of Kabsch and Sander. | | | A search for domains within a polypeptide constructs all rigid residue pairs and form this set finds rigid triples, quadruples, and so forth, until all combinatorial possibilities have been considered. |
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http://www.cs.rutgers.edu/pub/seredin/DomainRewievEng.doc
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| | Berkeley Structural Genomics Center: Job Opportunities |
| | The function of the cytoplasmic domain is to integrate the extracellular and adaptive signals, and to use this integrated information to regulate an associated histidine kinase. | | | Structural studies of the Nudix hydrolase DR1025 from Deinococcus radiodurans and its ligand complexes. | | | Here, we present a systematic analysis of the open-faced beta-sheet topologies in a set of non-redundant protein domain structures; in particular, we focus on the topological diversity of four-stranded beta-sheet motifs. |
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http://www.strgen.org/pubs/abstracts.html
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| | Review hypertext |
| | Karplus, P.A. and Schulz, G.E. Refined structure of glutathione reductase at 1.54 Å resolution. | | | In contrast, FAD domains may be categorised into three major families: members of the flavoprotein pyridine nucleotide cytochrome reductases family (a term proposed by Hyde et al. | | | To date, three-dimensional structures of three members of the family have been solved (see P450 systems in three dimensions). |
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http://www.icgeb.trieste.it/~p450srv/PE_8_8_1995_text.html
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| | What are the central issues in the definition of structural domains |
| | In the absence of such comprehensive and robust domain definitions, the community of structural biologists should at least be aware of the discord and understand the conceptual underpinnings of structural domains as determined by each assignment method. | | | Agreeing on a “unified” definition of a structural domain is critical for the improvement of automatic methods of domain assignment. | | | In this spirit we begin on the consistent definition of a structural domain by providing a list of issues encountered in this work and the questions that need to be addressed. |
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http://pdomains.sdsc.edu/unresloved_issues.htm
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| | Protein Science 5(2):296-309. Structural coupling of Ets-1 auto-inhibitory regions |
| | Recent NMR studies have shown that the ETS domain is a winged helix-turn-helix DNA-binding motif (Donaldson et al., 1994, 1996 ; Liang et al., 1994a, 1994b). | | | DNA binding by Ets-1DeltaN280 is accompanied by a conformational change involving the unfolding of HI1 (denoted by the changes in the shape of the oval and the shading of cylinders) (Petersen et al., 1995). | | | N resonance assignments of the N-terminal SH3 domains of drk in folded and unfolded states using enhanced-sensitivity pulsed field gradient NMR techniques. |
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http://otter.biochem.ubc.ca/publications/Ets16_Prot_Sci_5_296
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| | Articles - Structural domain |
| | A domain may be composed of one, more than one or not any structural motifs. | | | Domains often are named and singled out because they figure prominently in the biological function of the protein they belong to; for example, the "calcium-binding domain of calmodulin. | | | This type of protein domain is important in transducing WNT signals during embryonic development. |
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http://www.greensky.biz/articles/Structural_domain
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| | Structural Protein Domain Classifications |
| | The approach involves the analysis of 3D-interaction patterns in DNA-protein interfaces, assignment of structural domains interacting with DNA, clustering of domains based on structural similarity and DNA-interacting patterns. | | | All data provided for non-redundant set of representatives based on PDB of April 2, 2003. | | | This site provides fully automated classification of DNA-binding protein domains based on existing 3D-structures from the PDB. |
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http://spdc.sdsc.edu/DNA_prot_page.html
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| | Protein domain database: DOMO |
| | Tertiary structural data which could guide a visual determination of such domain boundaries are missing for a vast majority of protein families. | | | The domain families can also be translated in the standard MSF or FASTA formats to be processed by other sequence analysis tools. | | | If the domain structure is unknown, the entry points to a composite secondary structural prediction obtained by different techniques such as PREDATOR (13), SIMPA96 (14), DSC (15), MAP123D (16), COILS (17), or TMAP (18). |
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http://www.infobiogen.fr/services/domo
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| | 3Dee - Database of Protein Domain Definitions |
| | These domains have been clustered by both sequence and structural similarity. | | | In order to be able to view the structural superpositions you must install some software on your Unix workstation. | | | The resulting families are stored in a hierarchy. |
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http://www.compbio.dundee.ac.uk/3Dee
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| | DOMPLOT |
| | The diagrams provide a concise summary of detailed structural analyses, and the program has found a number of uses. | | | The diagrams are in the form of a series of linked boxes, each box corresponding to all or part of a domain. | | | The diagrams illustrate the pattern of interactions between the domain and any metal ions, ligands and/or nucleic acids which it binds, allowing a fast analysis of the location of specific intermolecular interactions with respect to the domain sequence. |
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http://www.biochem.ucl.ac.uk/bsm/domplot
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| | X ray crystallization of recombinant membrane proximal structural domain of human GABAA receptor α1 subunit ... |
| | The prevalent LGICS receptor structural model relied on the soluble X ray crystallographic structure of acetylcholine binding protein (AChBP); however the modeled GABAA receptor structure is largely putative in nature. | | | Previously, we identified two adjacent -rich independent structural domains in human GABAA receptor 1 subunit, Q28-E165 and C166-L296, by means of bioinformatics tools and successfully overexpressed in Escherichia coli.. | | | X ray crystallization of recombinant membrane proximal structural domain of human GABAA receptor α1 subunit overexpressed in Escherichia coli Hong Xue1,2,ManKit Tse1, DaoWei Zhu3, Hui Zheng1 and ShengXiang Lin3 1Department of Biochemistry, and 2Cooperative Research Center for Soluble Receptor Biology, Hong Kong University of Science and Technology, Clear Water Bay,Hong Kong, China. |
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http://www.iscb.org/ismb2004/posters/hxueATust.hk_960.html
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