Secondary Structure Prediction
Secondary Structure Prediction - Related Videos
13:42
RNA Secondary Structure Prediction Using High-throughput SHAPE
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Cited by 16 •
2013
High-throughput selective 2' hydroxyl acylation analyzed by primer extension (SHAPE) utilizes a novel chemical probing technology, reverse transcription, capillary electrophoresis and secondary structure prediction software to determine the structures of RNAs from several hundred to several thousand nucleotides at single nucleotide resolution.
16:41
A Protocol for Computer-Based Protein Structure and Function Prediction
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Cited by 79 •
2011
Guidelines for computer based structural and functional characterization of protein using the I-TASSER pipeline is described. Starting from query protein sequence, 3D models are generated using multiple threading alignments and iterative structural assembly simulations. Functional inferences are thereafter drawn based on matches to proteins with known structure and functions.
02:27
Predicting Molecular Geometry
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2020
VSEPR Theory for Determination of Electron Pair Geometries The following procedure uses VSEPR theory to determine the electron pair geometries and the molecular structures: Write the Lewis structure of the molecule or polyatomic ion. Count the number of electron groups (lone pairs and bonds) around the central atom. A single, double, or triple bond counts as one region of electron density. Identify the electron-pair geometry based on the number of electron groups: linear, trigonal planar,...
11:00
Experimental Investigation of Secondary Flow Structures Downstream of a Model Type IV Stent Failure in a 180° Curved Artery Test Section
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Cited by 4 •
2016
Stent implants in stenosed arterial curvatures are prone to "Type IV" failures involving the complete transverse fracture of stents and linear displacement of the fractured parts. We present a protocol for detection of secondary flow (vortical) structures in a curved artery model, downstream of clinically relevant "Type IV" stent failures.
01:11
Secondary Healthcare System
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2023
Secondary healthcare is offered by a specialist, generally in hospitals or clinics for patients referred by primary healthcare providers. It occurs when a person has an illness or injury that requires specific medical care. Secondary care is often referred to as acute care. Secondary care can range from uncomplicated care to repair a minor laceration or treat a strep throat infection to more complicated emergent care, such as treating a head injury sustained in an automobile accident. Whatever...
FAQs
They examine patterns within the amino acid sequence together with the properties of individual residues. These signals help estimate where the polypeptide backbone is likely to form hydrogen-bonded arrangements and where it may remain flexible. The resulting analysis assigns regions to probable alpha helices, beta sheets, or coils, creating a segment-by-segment structural view.
Hydrogen bonding provides a structural basis for distinguishing the major local arrangements predicted from a sequence. Algorithms use sequence-derived information to estimate where the backbone can adopt hydrogen-bonded structures rather than flexible coil regions. This matters because the predicted locations of these arrangements organize the sequence into structural segments that can guide later biological interpretation.
Amino acid order supplies patterns across the sequence, while residue properties provide additional information about how local regions may behave. Combining both types of evidence gives the prediction more context than examining sequence position alone. In practice, this supports more informed estimates of which portions of a polypeptide are likely to form helices, sheets, or coils.
The workflow begins with an amino acid sequence, which is analyzed computationally for relevant patterns and residue properties. The algorithm then estimates structural segments and classifies them as likely alpha helices, beta sheets, or flexible coils. Researchers can use this initial structural profile to plan further modeling, annotation, interaction analysis, or experimental work.
It is particularly valuable when an experimental protein structure is unavailable or difficult to obtain. A sequence-based prediction supplies an early structural view that can inform protein function annotation and structural modeling. It also helps researchers decide which regions may warrant closer examination during molecular biology experiments, even before a full structural characterization is available.
Predicted helices, sheets, and coils can provide clues for interpreting a protein sequence in relation to its possible function. The results support function annotation, help guide structural models, and can identify regions potentially involved in molecular interactions. They also assist experimental planning by highlighting sequence segments that may deserve targeted investigation in molecular biology studies.