Annotation inferences using phylogenetic trees
Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword mapping
Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
Electronic Gene Ontology annotations created by ARBA machine learning models
Combined Automated Annotation using Multiple IEA Methods
An Escherichia coli protein consisting of a domain homologous to FK506-binding proteins (FKBP) and a new metal binding motif.
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SlyD binds Ni2+ and Zn2+ tightly with 1:1 stoichiometry
"The protein binds Ni2+ and Zn2+ tightly with 1:1 stoichiometry, Cu2+ and Co2+ with lower affinity, and Mn2+, Fe2+, Fe3+, Mg2+, and Ca2+ hardly at all."
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SlyD consists of an N-terminal FKBP domain and a C-terminal metal-binding domain
"It consists of two domains, of which the first (146 amino acids) shows some homology to the FK506-binding proteins. The second domain (50 amino acids) is extremely rich in potentially metal-binding amino acids, such as histidine, cysteine, and acidic amino acids."
The Escherichia coli SlyD is a metal ion-regulated peptidyl-prolyl cis/trans-isomerase.
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SlyD is an FKBP-type PPIase with kcat/Km of 29,600 M-1 s-1
"For Suc-Ala-Phe-Pro-Arg-4-nitroanilide as substrate, kcat/Km of 29,600 M-1 s-1 for SlyD and 18,600 M-1 s-1 for the N-terminal fragment were obtained."
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SlyD PPIase activity is reversibly inhibited by nickel binding
"the PPIase activity of SlyD is reversibly regulated by binding of three Ni2+ ions to the histidine-rich, C-terminal region"
The Escherichia coli FKBP-type PPIase SlyD is required for the stabilization of the E lysis protein of bacteriophage phi X174.
A role for SlyD in the Escherichia coli hydrogenase biosynthetic pathway.
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SlyD interacts with HypB in the hydrogenase biosynthetic pathway
"The analysis of the proteins in a complex with HypB revealed the peptidyl-prolyl cis/trans-isomerase SlyD, a metal-binding protein that has not been previously linked to the hydrogenase biosynthetic pathway."
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Deletion of slyD results in reduced hydrogenase activity rescuable by nickel
"Deletion of the slyD gene resulted in a marked reduction of the hydrogenase activity in cell extracts prepared from anaerobic cultures"
Interaction network containing conserved and essential protein complexes in Escherichia coli.
Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth.
SlyD proteins from different species exhibit high prolyl isomerase and chaperone activities.
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SlyD catalyzes proline-limited refolding with very high efficiency
"All SlyD variants catalyze the proline-limited refolding of ribonuclease T1 with very high efficiencies, and the specificity constants (kcat/KM) are equal to approximately 10(6) M(-1) s(-1)."
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SlyD exhibits pronounced chaperone properties for unfolded proteins
"SlyD also exhibits pronounced chaperone properties. Permanently unfolded proteins bind with high affinity to SlyD and thus inhibit its prolyl isomerase activity."
Interactions of the Escherichia coli hydrogenase biosynthetic proteins: HybG complex formation.
The role of complex formation between the Escherichia coli hydrogenase accessory factors HypB and SlyD.
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SlyD stimulates nickel release from HypB for hydrogenase maturation
"SlyD stimulates release of nickel from the high affinity Ni(II)-binding site of HypB, an activity that is also disrupted by mutations that affect complex formation."
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SlyD C-terminal metal-binding tail is required for in vivo hydrogenase function
"a SlyD truncation lacking the C-terminal metal-binding tail still interacts with HypB but is deficient in stimulating metal release and is not functional in vivo"
The peptidyl-prolyl isomerase activity of SlyD is not required for maturation of Escherichia coli hydrogenase.
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PPIase activity of SlyD is not required for hydrogenase maturation
"Mutations that result in deficient PPIase activity do not produce corresponding decreases in the other activities of SlyD in vitro or in hydrogenase production levels in vivo."
Solubilization of aggregation-prone heterologous proteins by covalent fusion of stress-responsive Escherichia coli protein, SlyD.
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SlyD is upregulated 3.37-fold under heat shock stress
"a 3.37-fold increase induced by heat shock treatment was observed in the synthesis level of SlyD compared with a non-stress condition"
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SlyD facilitates folding and increases solubility of aggregation-prone proteins
"SlyD was very effective in sequestering interactive surfaces of heterologous proteins associated with non-specific protein-protein interactions and the formation of inclusion bodies"
Protein abundance profiling of the Escherichia coli cytosol.
NMR solution structure of SlyD from Escherichia coli: spatial separation of prolyl isomerase and chaperone function.
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SlyD IF domain recognizes and binds unfolded proteins
"NMR titration experiments revealed that the IF domain recognizes and binds unfolded or partially folded proteins and peptides."
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SlyD prevents insulin aggregation via chaperone holdase function
"Insulin aggregation is markedly slowed by SlyD* as evidenced by two-dimensional NMR spectroscopy in real time, probably due to SlyD* binding to denatured insulin."
Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins.
The interaction of the Escherichia coli protein SlyD with nickel ions illuminates the mechanism of regulation of its peptidyl-prolyl isomerase activity.
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Nickel binding causes conformational changes in PPIase domain regulating activity
"the interaction of SlyD with nickel ions entails participation of the novel structural features of the PPIase domain, eliciting structural alterations of the catalytic pocket"
The Ni(II)-binding properties of the metallochaperone SlyD.
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SlyD binds up to 7 nickel ions noncooperatively with submicromolar affinity
"SlyD binds up to seven nickel ions in a noncooperative manner with submicromolar affinity (<2 microM, upper limit)"
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Cysteine residues in C-terminal domain confer tighter Ni affinity
"the characterization of SlyD mutants demonstrates that the cysteine residues in the C-terminal domain confer tighter affinity as well as increased binding capacity to SlyD"
The Escherichia coli metal-binding chaperone SlyD interacts with the large subunit of [NiFe]-hydrogenase 3.
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SlyD directly interacts with HycE via its chaperone domain
"A SlyD-HycE interaction preceding both iron and nickel insertion to the enzyme was detected, mediated by the chaperone domain of SlyD, and independent of HypB."
Protein interactions and localization of the Escherichia coli accessory protein HypA during nickel insertion to [NiFe] hydrogenase.
Metal selectivity of the Escherichia coli nickel metallochaperone, SlyD.
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SlyD binds Ni, Zn, Cu, Co but has Ni-specific in vivo function
"Although the purified protein is unable to overcome the large thermodynamic preference for Cu(I) and exclude Zn(II) chelation in the presence of Ni(II), in vivo studies reveal a Ni(II)-specific function for the protein."
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Metal affinity order is Mn,Fe < Co < Ni ~ Zn << Cu
"The order of affinities of SlyD for the metals examined is as follows: Mn(II) and Fe(II) < Co(II) < Ni(II) ~ Zn(II) ≪ Cu(I)"
Complex formation between the Escherichia coli [NiFe]-hydrogenase nickel maturation factors.
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SlyD-HypB complex has KD of 24 nM
"The affinity of HypB-SlyD was measured by using surface plasmon resonance, which revealed a KD of 24 ± 10 nM in the absence of nucleotide and an interaction several fold tighter in the presence of GDP"
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SlyD blocks HypA-HypB interaction
"A ternary complex between all three proteins was not detected, and instead SlyD blocked the interaction of HypA with HypB in competitive binding experiments."
YdiV regulates Escherichia coli ferric uptake by manipulating the DNA-binding ability of Fur in a SlyD-dependent manner.
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SlyD participates in iron homeostasis regulation via YdiV-SlyD-Fur pathway
"High levels of YdiV then transforms Fur into a novel form which does not bind DNA in a peptidyl-prolyl cis-trans isomerase SlyD dependent manner."
Deep research synthesis for Escherichia coli SlyD
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Background synthesis corroborates SlyD's modular FKBP PPIase, IF-domain chaperone, and metal-binding architecture; primary publications remain the basis for curation decisions.
"The literature summarized here consistently describes **SlyD in *Escherichia coli*** as (i) an **FKBP-type peptidyl‑prolyl cis/trans isomerase (PPIase; EC 5.2.1.8)**"
Current PAINT annotations for PANTHER family PTHR47861
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PTN005358675 carries IBD assertions for PPIase activity, cytosol, and protein refolding, with SlyD's direct evidence among the descendant seeds.
Unfolded Protein Binding Annotation Review