SlyD-assisted nickel insertion for E. coli NiFe hydrogenases

A nickel-metallocenter maturation submodule in which the cytosolic metallochaperone SlyD binds nickel through its histidine/cysteine-rich tail, stimulates nickel release from HypB, and supports nickel insertion into NiFe hydrogenase large subunits. SlyD's FKBP peptidyl-prolyl isomerase activity and general IF-domain holdase activity are real but separable from this hydrogenase nickel-insertion role.

MODULE:nife_hydrogenase_nickel_insertionDRAFTCONCRETEBiological Processmodules/nife_hydrogenase_nickel_insertion.yaml
nickel chaperone activityGO:0170061 protein maturationGO:0051604
GO:0170061
nickel chaperone activity
Defines the SlyD nickel-chaperone function.
GO:0051604
protein maturation
Defines the hydrogenase large-subunit maturation process served by SlyD.
file:genes/ECOLI/SlyD/SlyD-ai-review.yaml
ECOLI SlyD gene review
The completed E. coli SlyD review separates SlyD's nickel-chaperone, PPIase, and general holdase activities.
PMID:15569666
A role for SlyD in the Escherichia coli hydrogenase biosynthetic pathway.
Establishes SlyD involvement in hydrogenase maturation.
PMID:17426034
The role of complex formation between the Escherichia coli hydrogenase accessory factors HypB and SlyD.
Shows that SlyD stimulates nickel release from HypB and that the SlyD metal-binding tail is required for hydrogenase function in vivo.
PMID:17720786
The peptidyl-prolyl isomerase activity of SlyD is not required for maturation of Escherichia coli hydrogenase.
Separates SlyD's PPIase activity from its hydrogenase-maturation function.

HypB and the hydrogenase large subunits are represented as biochemical partners but not as curated active units until their ECOLI reviews are available.

1Nodes
0Parts
0Variant Sets
0Variants
1Annotons
0Connections

Derived QC

Recommended-field compliance

100.0% recommended fields populated

All recommended fields populated.

Module deep research

✗ none found

No MODULE:nife_hydrogenase_nickel_insertion deep-research report alongside the module YAML.

Leaf nodes lacking representative members

✓ every leaf node grounds to a representative protein.

Template conformance

✓ every declared conforms_to bundle matches its template motif.

Function consistency and core coverage

1 gene-function check(s) reflected in core functions · 0 conflict(s) · 0 evidence or coverage gap(s) (1 comparison(s))

Retained noncore functions are reported separately; they do not require promotion to core functions. Support from representative genes does not establish conservation across the whole family. Missing reviews or identifiers leave a claim unverified.

AnnotonParticipantFunctionAssessment
slyd_hydrogenase_nickel_chaperone E. coli SlyD
UniProtKB:P0A9K9
Gene 		nickel chaperone activity
GO:0170061 		Core Supported
The GO molecular function is reflected in core_functions (exact term or a reviewed subclass).

Gene-review completeness (1/2 grounded genes reviewed)

0 complete review(s) · 1 with deep research · 1 missing review · 0 reviewed but lacking deep research

Gene Review Complete Deep research
E. coli HycE hydrogenase 3 large subunit P16431 ✗ — —
SlyD P0A9K9 ✓ 33/36 ✓

Details

Context
Escherichia coliNCBITaxon:83333
SlyD-assisted nickel insertion for E. coli NiFe hydrogenasesBiological Processnife_hydrogenase_nickel_insertion
nickel chaperone activityGO:0170061 protein maturationGO:0051604
Context
Escherichia coliNCBITaxon:83333

Annotons

SlyD hydrogenase nickel chaperone
slyd_hydrogenase_nickel_chaperone
Participant: Gene Product: E. coli SlyD
Gene Product:
E. coli SlyDUniProtKB:P0A9K9

Function

nickel chaperone activityGO:0170061
Products: nickel-competent HycE maturation intermediate
Targets: E. coli HycE hydrogenase 3 large subunitUniProtKB:P16431
Cargo: nickel ion

Processes

protein maturationGO:0051604

Locations

cytosolGO:0005829

Cytosolic metallochaperone that stimulates HypB nickel release and supports nickel delivery during NiFe hydrogenase large-subunit maturation.