BP

GO:0000122

negative regulation of transcription from RNA polymerase II promoter

Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.

IDA

BP

GO:0001568

blood vessel development

The process whose specific outcome is the progression of a blood vessel over time, from its formation to the mature structure. The blood vessel is the vasculature carrying blood.

IEA

BP

GO:0001974

blood vessel remodeling

The reorganization or renovation of existing blood vessels.

IEA

BP

GO:0002027

regulation of heart rate

Any process that modulates the frequency or rate of heart contraction.

IEA

BP

GO:0003181

atrioventricular valve morphogenesis

The process in which the structure of the atrioventricular valve is generated and organized.

IEA

BP

GO:0003203

endocardial cushion morphogenesis

The process in which the anatomical structure of the endocardial cushion is generated and organized. The endocardial cushion is a specialized region of mesenchymal cells that will give rise to the heart septa and valves.

IEA

BP

GO:0003281

ventricular septum development

The progression of the ventricular septum over time from its formation to the mature structure.

IEA

BP

GO:0003283

atrial septum development

The progression of the atrial septum over time, from its initial formation to the mature structure.

IEA

BP

GO:0006461

protein complex assembly

The aggregation, arrangement and bonding together of a set of components to form a protein complex.

IDA

BP

GO:0006977

DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest

A cascade of processes induced by the cell cycle regulator phosphoprotein p53, or an equivalent protein, in response to the detection of DNA damage and resulting in the stopping or reduction in rate of the cell cycle.

IMP|TAS

BP

GO:0007089

traversing start control point of mitotic cell cycle

A cell cycle process by which a cell commits to entering S phase via a positive feedback mechanism between the regulation of transcription and G1 CDK activity.

IEA

BP

GO:0008284

positive regulation of cell proliferation

Any process that activates or increases the rate or extent of cell proliferation.

TAS

BP

GO:0009636

response to toxic substance

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a toxic stimulus.

IEA

BP

GO:0009743

response to carbohydrate

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a carbohydrate stimulus.

IEA

BP

GO:0010039

response to iron ion

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an iron ion stimulus.

IEA

BP

GO:0010628

positive regulation of gene expression

Any process that increases the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA (for protein-coding genes) and the translation of that mRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.

IEA

BP

GO:0010955

negative regulation of protein processing

Any process that decreases the rate, frequency or extent of protein maturation by peptide bond cleavage.

IEA

BP

GO:0010977

negative regulation of neuron projection development

Any process that decreases the rate, frequency or extent of neuron projection development. Neuron projection development is the process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites).

IEA

BP

GO:0016032

viral process

A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.

IEA

BP

GO:0016567

protein ubiquitination

The process in which one or more ubiquitin groups are added to a protein.

IDA

BP

GO:0016925

protein sumoylation

The process in which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxyl terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.

TAS

BP

GO:0018205

peptidyl-lysine modification

The modification of peptidyl-lysine.

IMP

BP

GO:0031648

protein destabilization

Any process that decreases the stability of a protein, making it more vulnerable to degradative processes or aggregation.

IDA

BP

GO:0032026

response to magnesium ion

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a magnesium ion stimulus.

IEA

BP

GO:0032436

positive regulation of proteasomal ubiquitin-dependent protein catabolic process

Any process that activates or increases the frequency, rate or extent of the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, and mediated by the proteasome.

IDA

BP

GO:0034504

protein localization to nucleus

A process in which a protein is transported to, or maintained in, a location within the nucleus.

IDA

BP

GO:0042176

regulation of protein catabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.

IDA

BP

GO:0042220

response to cocaine

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cocaine stimulus. Cocaine is a crystalline alkaloid obtained from the leaves of the coca plant.

IEA

BP

GO:0042493

response to drug

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.

IEA

BP

GO:0042787

protein ubiquitination involved in ubiquitin-dependent protein catabolic process

The process in which a ubiquitin group, or multiple groups, are covalently attached to the target protein, thereby initiating the degradation of that protein.

IDA|IMP

BP

GO:0043154

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process

Any process that stops, prevents, or reduces the frequency, rate or extent of a cysteine-type endopeptidase activity involved in the apoptotic process.

IEA

BP

GO:0043278

response to morphine

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a morphine stimulus. Morphine is an opioid alkaloid, isolated from opium, with a complex ring structure.

IEA

BP

GO:0043518

negative regulation of DNA damage response, signal transduction by p53 class mediator

Any process that stops, prevents, or reduces the frequency, rate or extent of the cascade of processes induced by the cell cycle regulator phosphoprotein p53, or an equivalent protein, in response to the detection of DNA damage.

IDA

BP

GO:0045184

establishment of protein localization

The directed movement of a protein to a specific location.

IDA

BP

GO:0045472

response to ether

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a ether stimulus.

IEA

BP

GO:0045892

negative regulation of transcription, DNA-templated

Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.

IDA

BP

GO:0045931

positive regulation of mitotic cell cycle

Any process that activates or increases the rate or extent of progression through the mitotic cell cycle.

IMP

BP

GO:0046677

response to antibiotic

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.

IEP

BP

GO:0046827

positive regulation of protein export from nucleus

Any process that activates or increases the frequency, rate or extent of directed movement of proteins from the nucleus into the cytoplasm.

IEA

BP

GO:0048545

response to steroid hormone

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a steroid hormone stimulus.

IEA

BP

GO:0060411

cardiac septum morphogenesis

The process in which the anatomical structure of a cardiac septum is generated and organized. A cardiac septum is a partition that separates parts of the heart.

IEA

BP

GO:0070301

cellular response to hydrogen peroxide

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydrogen peroxide (H2O2) stimulus.

IEA

BP

GO:0071157

negative regulation of cell cycle arrest

Any process that decreases the rate, frequency, or extent of cell cycle arrest, the process in which the cell cycle is halted during one of the normal phases.

IDA

BP

GO:0071236

cellular response to antibiotic

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.

IEA

BP

GO:0071301

cellular response to vitamin B1

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a vitamin B1 stimulus.

IEA

BP

GO:0071312

cellular response to alkaloid

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an alkaloid stimulus. Alkaloids are a large group of nitrogenous substances found in naturally in plants, many of which have extracts that are pharmacologically active.

IEA

BP

GO:0071363

cellular response to growth factor stimulus

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a growth factor stimulus.

IEA

BP

GO:0071375

cellular response to peptide hormone stimulus

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptide hormone stimulus. A peptide hormone is any of a class of peptides that are secreted into the blood stream and have endocrine functions in living animals.

IEA

BP

GO:0071391

cellular response to estrogen stimulus

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by an estrogen, C18 steroid hormones that can stimulate the development of female sexual characteristics.

IEA

BP

GO:0071456

cellular response to hypoxia

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.

IEP

BP

GO:0071494

cellular response to UV-C

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a UV-C radiation stimulus. UV-C radiation (UV-C light) spans the wavelengths 100 to 280 nm.

IEA

BP

GO:1901796

regulation of signal transduction by p53 class mediator

Any process that modulates the frequency, rate or extent of signal transduction by p53 class mediator.

TAS

BP

GO:1901797

negative regulation of signal transduction by p53 class mediator

Any process that stops, prevents or reduces the frequency, rate or extent of signal transduction by p53 class mediator.

IDA

BP

GO:1904707

positive regulation of vascular smooth muscle cell proliferation

Any process that activates or increases the frequency, rate or extent of vascular smooth muscle cell proliferation.

IEA

BP

GO:1904754

positive regulation of vascular associated smooth muscle cell migration

Any process that activates or increases the frequency, rate or extent of vascular associated smooth muscle cell migration.

IEA

BP

GO:1990785

response to water-immersion restraint stress

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of water immersion while being held immobile.

IEA

CC

GO:0005634

nucleus

A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

IDA|IMP

CC

GO:0005654

nucleoplasm

That part of the nuclear content other than the chromosomes or the nucleolus.

IDA|TAS

CC

GO:0005730

nucleolus

A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.

IDA

CC

GO:0005737

cytoplasm

All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

IMP

CC

GO:0005829

cytosol

The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

TAS

CC

GO:0005886

plasma membrane

The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

TAS

CC

GO:0016604

nuclear body

Extra-nucleolar nuclear domains usually visualized by confocal microscopy and fluorescent antibodies to specific proteins.

IDA

CC

GO:0030666

endocytic vesicle membrane

The lipid bilayer surrounding an endocytic vesicle.

TAS

CC

GO:0043234

protein complex

A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

IDA

CC

GO:0045202

synapse

The junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell; the site of interneuronal communication. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.

IEA

MF

GO:0002039

p53 binding

Interacting selectively and non-covalently with one of the p53 family of proteins.

IPI

MF

GO:0004842

ubiquitin-protein transferase activity

Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.

IDA|IMP|TAS

MF

GO:0005515

protein binding

Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).

IPI

MF

GO:0008270

zinc ion binding

Interacting selectively and non-covalently with zinc (Zn) ions.

IDA

MF

GO:0016874

ligase activity

Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.

IDA

MF

GO:0019789

SUMO transferase activity

Catalysis of the transfer of SUMO from one protein to another via the reaction X-SUMO + Y --> Y-SUMO + X, where both X-SUMO and Y-SUMO are covalent linkages.

EXP

MF

GO:0019899

enzyme binding

Interacting selectively and non-covalently with any enzyme.

IPI

MF

GO:0031625

ubiquitin protein ligase binding

Interacting selectively and non-covalently with a ubiquitin protein ligase enzyme, any of the E3 proteins.

IPI

MF

GO:0042975

peroxisome proliferator activated receptor binding

Interacting selectively and non-covalently with any of the peroxisome proliferator activated receptors, alpha, beta or gamma.

IEA

MF

GO:0061630

ubiquitin protein ligase activity

Catalysis of the transfer of ubiquitin to a substrate protein via the reaction X-ubiquitin + S --> X + S-ubiquitin, where X is either an E2 or E3 enzyme, the X-ubiquitin linkage is a thioester bond, and the S-ubiquitin linkage is an isopeptide bond between the C-terminal glycine of ubiquitin and the epsilon-amino group of lysine residues in the substrate. Note that this may include the extension of ubiquitin chains.

IMP|TAS

MF

GO:0097110

scaffold protein binding

Interacting selectively and non-covalently with a scaffold protein. Scaffold proteins are crucial regulators of many key signaling pathways. Although not strictly defined in function, they are known to interact and/or bind with multiple members of a signaling pathway, tethering them into complexes.

IEA