KpATCC43816 Protein target profile

glnD PII-uridylyltransferase family protein

Accession: VK055_4016

Gene: AIK82563.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3H378
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Length 945
Pocket druggability (P2Rank · AlphaFold DB model) 0.67
Functional annotation 0 EC 2 GO
Target summary

Promising target candidate with multiple supporting evidence streams.

Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.

Main supporting evidence

No similar human protein detected The current BLAST sequence screen did not find a significant human match, lowering apparent off-target risk. Core gene across strains Marked as conserved by both pan-genome tools: Roary and CoreCruncher. Moderate predicted binding pocket FPocket selected-pocket score 0.46. This supports review but is not experimental validation. Second pocket predictor agrees P2Rank predicted binding-site probability 0.67. Review the complete evidence below

Risks to review

Microbiome similarity 142 of 4744 screened genomes (3.0%) have a significant similarity hit. This target also has a predicted binding pocket (P2Rank 0.67) — check the ligand evidence before deprioritizing on off-target risk alone.

Evidence gaps

No ligand evidence No experimental PDB ligands, measured ChEMBL bioactivity, or proposed ZINC compound records are available.
Terms and data sources used on this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal Target pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Prioritization evidence

Selectivity, essentiality, structural confidence, conservation, and predicted binding-site evidence.

Off-target risk

Human off-target
No hit
Gut microbiome similarity
3.0% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
29.888 Higher values support similarity to known essential genes.

Structure confidence

ColabFold pLDDT
92.25 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

P2Rank's binding-site probability is the primary druggability signal shown across the app; FPocket's druggability score is shown alongside it for comparison. Both estimate small-molecule pocket quality after applying the curated structure priority — neither is experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

Druggability (P2Rank) 0.67
Structure A0A0H3H378
Pocket Pocket 1
Druggability (FPocket) 0.458
Structure A0A0H3H378
Pocket Pocket 7
ColabFold model
P2Rank 0.624 · Pocket 1
FPocket 0.125 · Pocket 69
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 142 / 4744 genomes with a hit
Prevalence 3.0%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

This protein is not associated with the imported metabolic network for this genome.

Browse the genome's metabolic network

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MMPLSPQLQQHWQTVADRLPTDFPVAELSPQARSVMAFSDFVEQSVIAQPGWLNELADSAPAAEEWRHYEAWLQERLQAVTDEAGLMRELRLFRRQMMVRIAWAQALSLVREEETLQQLSVLAETLIVAACDWLYAACCKEWGTPCNAEGQPQPLLILGMGKLGGGELNFSSDIDLIFAWPEHGATRGGRRELDNAQFFTRLGQRLIKALDQPTQDGFVYRVDMRLRPFGDSGPLVLSFAALEDYYQEQGRDWERYAMVKARIMGDNDGAYASELRAMLRPFVFRRYIDFSVIQSLRNMKGMIAREVRRRGLKDNIKLGAGGIREIEFIVQVFQLIRGGREPALQQRALLPTLAAIDELHLLPEGDATLLRAAYLFLRRLENLLQSINDEQTQTLPQDELNRARLAWGMHTDDWETLSAQLANHMANVRRVFNELIGDDEAQSPDEQLAEYWRELWQDALEEDDASPALAHLNDADRRSVLALIADFRKELDRRTIGPRGRQVLDQLMPHLLSEICSRADAPLPLARITPLLTGIVTRTTYLELLSEFPGALKHLITLCAASPMVASQLARHPLLLDELLDPNTLYQPTATDAYRDELRQYLLRVPEEDEEQQLEALRQFKQAQQLHIAAADIAGTLPVMKVSDHLTWLAEAILDAVVQQAWGQMVARYGLPTHLHDRQGRGFAVVGYGKLGGWELGYSSDLDLVFLHDCPAEVMTDGEREIDGRQFYLRLAQRIMHLFSTRTSSGILYEVDARLRPSGAAGMLVTTADAFADYQQNEAWTWEHQALVRARVVYGDPALQARFDAIRRDILTTPREGATLQTEVREMREKMRAHLGNKHPNRFDIKADAGGITDIEFITQYLVLRYASDKPKLTRWSDNVRILELLAQNDIMDEEEARALTHAYTTLRDALHHLALQELPGHVAPEAFSREREQVSASWQKWLMA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

2
  • GO:0016779 Catalysis of the transfer of a nucleotidyl group from one compound (donor) to another (acceptor).
  • GO:0008882 Catalysis of the reaction: ATP + [L-glutamate:ammonia ligase (ADP-forming)] = diphosphate + adenylyl-[L-glutamate:ammonia ligase (ADP-forming)].

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

34 records
Show feature table
Start End DB Term Name
619 810 CDD cd05401 NT_GlnE_GlnD_like
285 440 Gene3D G3DSA:1.20.120.330 Nucleotidyltransferases domain 2
93 282 CDD cd05401 NT_GlnE_GlnD_like
1 110 FunFam G3DSA:1.10.4050.10:FF:000001 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
812 945 FunFam G3DSA:1.20.120.330:FF:000008 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
27 945 Hamap MF_00802 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme [glnE].
27 945 InterPro IPR023057 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
11 944 PANTHER PTHR30621 GLUTAMINE SYNTHETASE ADENYLYLTRANSFERASE
11 944 InterPro IPR023057 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
28 286 SUPERFAMILY SSF81301 Nucleotidyltransferase
28 286 InterPro IPR043519 Nucleotidyltransferase superfamily
287 436 SUPERFAMILY SSF81593 Nucleotidyltransferase substrate binding subunit/domain
562 811 Gene3D G3DSA:3.30.460.10 Beta Polymerase, domain 2
562 811 InterPro IPR043519 Nucleotidyltransferase superfamily
31 275 Pfam PF03710 Glutamate-ammonia ligase adenylyltransferase
31 275 InterPro IPR005190 Glutamate-ammonia ligase adenylyltransferase, repeated domain
553 805 Pfam PF03710 Glutamate-ammonia ligase adenylyltransferase
553 805 InterPro IPR005190 Glutamate-ammonia ligase adenylyltransferase, repeated domain
1 110 Gene3D G3DSA:1.10.4050.10 Glutamine synthase adenylyltransferase GlnE
111 284 Gene3D G3DSA:3.30.460.10 Beta Polymerase, domain 2
111 284 InterPro IPR043519 Nucleotidyltransferase superfamily
818 943 SUPERFAMILY SSF81593 Nucleotidyltransferase substrate binding subunit/domain
449 561 Gene3D G3DSA:1.20.120.1510 -
525 815 SUPERFAMILY SSF81301 Nucleotidyltransferase
525 815 InterPro IPR043519 Nucleotidyltransferase superfamily
111 284 FunFam G3DSA:3.30.460.10:FF:000014 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
449 561 FunFam G3DSA:1.20.120.1510:FF:000001 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
812 945 Gene3D G3DSA:1.20.120.330 Nucleotidyltransferases domain 2
562 811 FunFam G3DSA:3.30.460.10:FF:000009 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
285 439 FunFam G3DSA:1.20.120.330:FF:000005 Bifunctional glutamine synthetase adenylyltransferase/adenylyl-removing enzyme
297 436 Pfam PF08335 GlnD PII-uridylyltransferase
297 436 InterPro IPR013546 PII-uridylyltransferase/Glutamine-synthetase adenylyltransferase
825 917 Pfam PF08335 GlnD PII-uridylyltransferase
825 917 InterPro IPR013546 PII-uridylyltransferase/Glutamine-synthetase adenylyltransferase

3D structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

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Pocket score High Medium Low
How colors and pocket overlays are used
Uniform protein color marks the displayed model as a single molecular object.
Experimental PDB structures may be colored by chain to distinguish subunits or copies present in the file.
Pocket colors and alpha spheres are evidence overlays for predicted binding cavities; they are not alternative protein chains.
'Alpha spheres' is FPocket's own cavity-shape geometry, imported when available and aligned with the loaded structure.
'Pocket atoms'/'Predicted site atoms' show the pocket's residue atoms instead: P2Rank reports residues rather than alpha spheres, and FPocket falls back to this when alpha-sphere geometry is unavailable or doesn't align.
'No pocket geometry' means neither alpha spheres nor residue-position data could be found for that pocket; the layer just highlights the same residues as 'Nearby residues'.
Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · P2Rank

Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.67
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Surrounding area
Pocket 2 P2Rank #2
0.572
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Surrounding area
Pocket 3 P2Rank #3
0.254
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Surrounding area
Pocket 4 P2Rank #4
0.233
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Surrounding area
Pocket 5 P2Rank #5
0.191
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Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #7
0.458
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Surrounding area
All structural evidence 0 experimental · 2 predicted

Structural evidence

0 + 2

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold DB AF_A0A0H3H378
AlphaFold DB — — full sequence — Viewing
ColabFold VK055_4016
ColabFold — — full sequence — Loaded

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.

Sequence

UniProt A0A0H3H378