Creative elements: network-based predictions of active centres in proteins and cellular and social networks

Csermely, Péter

doi:10.1016/j.tibs.2008.09.006

Cited by 116 publications

(135 citation statements)

References 54 publications

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“…This position and the extremity in network dynamics is typical to the creative elements defined by Csermely in 2008 [Csermely, 2008]. Creative elements are the least predictable, highly mobile elements occupying various locally and globally central positions in the network [Csermely, 2008].…”

Section: C Independent Dynamic Segments Hosting Discrete Breather mentioning

confidence: 84%

Disordered Proteins and Network Disorder in Network Descriptions of Protein Structure, Dynamics and Function: Hypotheses and a Comprehensive Review

Csermely¹,

Sandhu²,

Hazai³

et al. 2012

CPPS

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During the last decade, network approaches became a powerful tool to describe protein structure and dynamics. Here we review the links between disordered proteins and the associated networks, and describe the consequences of local, mesoscopic and global network disorder on changes in protein structure and dynamics. We introduce a new classification of protein networks into 'cumulus-type', i.e., those similar to puffy (white) clouds, and 'stratus-type', i.e., those similar to flat, dense (dark) low-lying clouds, and relate these network types to protein disorder dynamics and to differences in energy transmission processes. In the first class, there is limited overlap between the modules, which implies higher rigidity of the individual units; there the conformational changes can be described by an 'energy transfer' mechanism. In the second class, the topology presents a compact structure with significant overlap between the modules; there the conformational changes can be described by 'multi-trajectories'; that is, multiple highly populated pathways. We further propose that disordered protein regions evolved to help other protein segments reach 'rarely visited' but functionally-related states. We also show the role of disorder in 'spatial games' of amino acids; highlight the effects of intrinsically disordered proteins (IDPs) on cellular networks and list some possible studies linking protein disorder and protein structure networks.

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Section: C Independent Dynamic Segments Hosting Discrete Breather mentioning

confidence: 84%

Disordered Proteins and Network Disorder in Network Descriptions of Protein Structure, Dynamics and Function: Hypotheses and a Comprehensive Review

Csermely¹,

Sandhu²,

Hazai³

et al. 2012

CPPS

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“…Seventeen distinctive 'hubs' were detected within the network, each accounting for >1% of the total network traffic (Csermely 2008).…”

Section: Figure 1 About Herementioning

confidence: 99%

The Mental Capacity Act Call to Action: Online Development of Critical Rights-Based Social Work

James¹,

Harvey

Mitchell

2017

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“…In 2008 one of the authors (P.C.) called the special position connecting multiple, very distant modules, as the position of 'creative nodes', since it resembles to the position of highly creative people in social networks [80]. Creativity has many forms.…”

Section: Position and Dynamics Of Molecular Chaperones In Protein-promentioning

confidence: 99%

“…Creativity is not always useful. A creative person may be highly unpredictable and unreliable, since one may never know whether the creative person will accomplish the task he/she was given, or will leave it unfinished, and will jump to another project, which currently excites him/her much more [80,81]. Chaperones (taken them one-by-one and not as a population) are highly unpredictable and unreliable, too.…”

Section: Position and Dynamics Of Molecular Chaperones In Protein-promentioning

confidence: 99%

“…However, the situation will completely change in times of crisis. Here creative nodes behave as the 'life insurance' of the crisis-stuck organization, since they are the only nodes, who have an access to the integrated knowledge of all the organization, and they are the only nodes, who are able to re-combine bits and pieces of these capabilities making up a completely novel solution to survive the crisis and develop afterwards [80,81]. Chaperones are accomplishing a similar role during and after stress, therefore they participate in network-level adaptation, evolution, and learning and memory formation processes which we will describe in detail in the following Sections.…”

Section: Position and Dynamics Of Molecular Chaperones In Protein-promentioning

confidence: 99%

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System Level Mechanisms of Adaptation, Learning, Memory Formation and Evolvability: The Role of Chaperone and Other Networks

Gyurko

Sőti

Steták

et al. 2014

CPPS

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During the last decade, network approaches became a powerful tool to describe protein structure and dynamics. Here, we describe first the protein structure networks of molecular chaperones, then characterize chaperone containing sub-networks of interactomes called as chaperone-networks or chaperomes. We review the role of molecular chaperones in short-term adaptation of cellular networks in response to stress, and in long-term adaptation discussing their putative functions in the regulation of evolvability. We provide a general overview of possible network mechanisms of adaptation, learning and memory formation. We propose that changes of network rigidity play a key role in learning and memory formation processes. Flexible network topology provides 'learningcompetent' state. Here, networks may have much less modular boundaries than locally rigid, highly modular networks, where the learnt information has already been consolidated in a memory formation process. Since modular boundaries are efficient filters of information, in the 'learning-competent' state information filtering may be much smaller, than after memory formation. This mechanism restricts high information transfer to the 'learning competent' state. After memory formation, modular boundary-induced segregation and information filtering protect the stored information. The flexible networks of young organisms are generally in a 'learning competent' state. On the contrary, locally rigid networks of old organisms have lost their 'learning competent' state, but store and protect their learnt information efficiently. We anticipate that the above mechanism may operate at the level of both protein-protein interaction and neuronal networks.

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Creative elements: network-based predictions of active centres in proteins and cellular and social networks

Cited by 116 publications

References 54 publications

Disordered Proteins and Network Disorder in Network Descriptions of Protein Structure, Dynamics and Function: Hypotheses and a Comprehensive Review

Disordered Proteins and Network Disorder in Network Descriptions of Protein Structure, Dynamics and Function: Hypotheses and a Comprehensive Review

The Mental Capacity Act Call to Action: Online Development of Critical Rights-Based Social Work

System Level Mechanisms of Adaptation, Learning, Memory Formation and Evolvability: The Role of Chaperone and Other Networks

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