Source 1primary paper2017Protein Science
Toolkit/PAS domain superfamily
PAS domain superfamily
Also known as: PAS domains
Taxonomy: Mechanism Branch / Component. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
The PAS domain superfamily comprises widespread sensory/regulatory protein domains present in archaea, bacteria, and eukaryota. Available evidence characterizes PAS domains through combined sequence, structure, and dynamics analysis, showing that functional groups can be differentiated by conserved-residue fluctuation patterns and statistically distinct vibrational behaviors.
Usefulness & Problems
Why this is useful
This framework is useful for organizing PAS domains into function-associated groups when simple sequence comparison may be insufficient. The cited study indicates that integrating sequence, structural, and dynamics information can reveal functional evolutionary relationships within the superfamily.
Source:
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
Source:
The result showed that the proteins with same function could be grouped by sequence similarity
Problem solved
It addresses the problem of functionally differentiating diverse PAS domains across a broad superfamily. Specifically, the evidence supports linking conserved-residue dynamics and group-specific vibrational patterns to biological function.
Taxonomy & Function
Primary hierarchy
Mechanism Branch
Component: A low-level protein part used inside a larger architecture that realizes a mechanism.
Mechanisms
function-associated residue dynamicssequence-similarity-based functional groupingstructure- and dynamics-informed functional differentiationTarget processes
No target processes tagged yet.
Implementation Constraints
The available evidence supports analytical use of PAS domain sequence, structural, and dynamics data for functional grouping. No specific cofactors, expression systems, delivery methods, or construct-design requirements are described in the supplied evidence.
The evidence provided comes from a single 2017 Protein Science study focused on functional evolution analysis rather than prospective tool building. No direct evidence here describes experimental manipulation, engineered constructs, performance in living systems, or independent replication.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
Approval Evidence
1 source5 linked approval claimsfirst-pass slug pas-domain-superfamily
PAS domains are widespread in archaea, bacteria, and eukaryota... functional evolutionary relationship among proteins in the PAS domain superfamily
Source:
conserved residue dynamicssupports
Across the three PAS functional groups, residues conserved by sequence and structure analyses generally had lower fluctuation than other residues.
in all three functional groups, conserved amino acid residues identified by sequence and structure conservation analysis generally have a lower fluctuation than other residues
Source:
dynamics difference across functional groupssupports
Different PAS functional groups displayed statistically significant differences in vibrational patterns.
proteins in different functional groups displayed statistically significant difference in their vibrational patterns
Source:
functional groupingsupports
Within the PAS domain superfamily, proteins with the same function could be grouped by sequence similarity.
The result showed that the proteins with same function could be grouped by sequence similarity
Source:
function dynamics correlationsupports
In each PAS biological function group, fluctuation of conserved residues was strongly correlated with the corresponding biological function.
the fluctuation of conserved residues in each biological function group was strongly correlated with the corresponding biological function
Source:
sequence structure dynamics function connectionsupports
The study suggests a direct connection in which protein sequences are related to functions through structural dynamics.
This research suggested a direct connection in which the protein sequences were related to various functions through structural dynamics
Source:
Comparisons
Source-backed strengths
The reported analysis combines sequence, structure, and dynamics rather than relying on a single feature class. In the cited work, residues conserved by sequence and structure generally showed lower fluctuation, different PAS functional groups exhibited statistically significant differences in vibrational patterns, and conserved-residue fluctuation was strongly correlated with biological function within each group.
Ranked Citations
- 1.