Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

tRNA-modifying protein YgfZ

Gene

ygfZ

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Folate-binding protein involved in regulating the level of ATP-DnaA and in the modification of some tRNAs. It is probably a key factor in regulatory networks that act via tRNA modification, such as initiation of chromosomal replication.1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei27 – 271FolateSequence analysis
Binding sitei189 – 1891FolateSequence analysis

GO - Molecular functioni

  • folic acid binding Source: EcoCyc

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

Folate-binding

Enzyme and pathway databases

BioCyciEcoCyc:G7511-MONOMER.
ECOL316407:JW2866-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA-modifying protein YgfZ
Gene namesi
Name:ygfZ
Synonyms:yzzW
Ordered Locus Names:b2898, JW2866
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12685. ygfZ.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved1 Publication
Chaini2 – 326325tRNA-modifying protein YgfZPRO_0000169834Add
BLAST

Proteomic databases

EPDiP0ADE8.
PaxDbiP0ADE8.
PRIDEiP0ADE8.

2D gel databases

SWISS-2DPAGEP0ADE8.

Interactioni

Protein-protein interaction databases

BioGridi4261457. 783 interactions.
DIPiDIP-48117N.
IntActiP0ADE8. 6 interactions.
MINTiMINT-1257340.
STRINGi511145.b2898.

Structurei

Secondary structure

1
326
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi14 – 163Combined sources
Beta strandi19 – 235Combined sources
Beta strandi27 – 348Combined sources
Helixi37 – 426Combined sources
Beta strandi45 – 473Combined sources
Helixi49 – 513Combined sources
Beta strandi57 – 637Combined sources
Beta strandi69 – 7810Combined sources
Beta strandi81 – 877Combined sources
Helixi88 – 9912Combined sources
Beta strandi103 – 1064Combined sources
Beta strandi108 – 1125Combined sources
Beta strandi114 – 1229Combined sources
Helixi125 – 1306Combined sources
Beta strandi139 – 1413Combined sources
Beta strandi143 – 1464Combined sources
Beta strandi149 – 1546Combined sources
Beta strandi156 – 1583Combined sources
Beta strandi160 – 1656Combined sources
Helixi167 – 17711Combined sources
Turni178 – 1803Combined sources
Beta strandi181 – 1844Combined sources
Helixi186 – 19611Combined sources
Helixi203 – 2053Combined sources
Helixi211 – 2144Combined sources
Helixi216 – 2183Combined sources
Beta strandi224 – 2263Combined sources
Helixi232 – 2376Combined sources
Beta strandi246 – 2538Combined sources
Beta strandi265 – 2695Combined sources
Beta strandi272 – 2765Combined sources
Beta strandi278 – 2847Combined sources
Beta strandi290 – 2978Combined sources
Beta strandi306 – 3083Combined sources
Beta strandi315 – 3184Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1NRKX-ray2.80A1-325[»]
1VLYX-ray1.30A1-326[»]
ProteinModelPortaliP0ADE8.
SMRiP0ADE8. Positions 1-325.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0ADE8.

Family & Domainsi

Sequence similaritiesi

Belongs to the tRNA-modifying YgfZ family.Curated

Phylogenomic databases

eggNOGiENOG4106XY2. Bacteria.
COG0354. LUCA.
HOGENOMiHOG000261300.
InParanoidiP0ADE8.
KOiK06980.
OMAiGRMQSSF.
PhylomeDBiP0ADE8.

Family and domain databases

HAMAPiMF_01175. tRNA_modifying_YgfZ. 1 hit.
InterProiIPR006222. GCV_T_N.
IPR029043. GcvT/YgfZ_C.
IPR023758. tRNA-modifying_YgfZ.
IPR017703. YgfZ/GcvT_CS.
[Graphical view]
PfamiPF01571. GCV_T. 1 hit.
[Graphical view]
SUPFAMiSSF101790. SSF101790. 1 hit.
TIGRFAMsiTIGR03317. ygfZ_signature. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0ADE8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAFTPFPPRQ PTASARLPLT LMTLDDWALA TITGADSEKY MQGQVTADVS
60 70 80 90 100
QMAEDQHLLA AHCDAKGKMW SNLRLFRDGD GFAWIERRSV REPQLTELKK
110 120 130 140 150
YAVFSKVTIA PDDERVLLGV AGFQARAALA NLFSELPSKE KQVVKEGATT
160 170 180 190 200
LLWFEHPAER FLIVTDEATA NMLTDKLRGE AELNNSQQWL ALNIEAGFPV
210 220 230 240 250
IDAANSGQFI PQATNLQALG GISFKKGCYT GQEMVARAKF RGANKRALWL
260 270 280 290 300
LAGSASRLPE AGEDLELKMG ENWRRTGTVL AAVKLEDGQV VVQVVMNNDM
310 320
EPDSIFRVRD DANTLHIEPL PYSLEE
Length:326
Mass (Da):36,094
Last modified:January 23, 2007 - v2
Checksum:i08E050CE26B56B77
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti8 – 81P → D AA sequence (PubMed:9298646).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28375 Genomic DNA. Translation: AAA83079.1.
U00096 Genomic DNA. Translation: AAC75936.1.
AP009048 Genomic DNA. Translation: BAE76963.1.
PIRiB65074.
RefSeqiNP_417374.1. NC_000913.3.
WP_000886062.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75936; AAC75936; b2898.
BAE76963; BAE76963; BAE76963.
GeneIDi947384.
KEGGiecj:JW2866.
eco:b2898.
PATRICi32121210. VBIEscCol129921_2993.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28375 Genomic DNA. Translation: AAA83079.1.
U00096 Genomic DNA. Translation: AAC75936.1.
AP009048 Genomic DNA. Translation: BAE76963.1.
PIRiB65074.
RefSeqiNP_417374.1. NC_000913.3.
WP_000886062.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1NRKX-ray2.80A1-325[»]
1VLYX-ray1.30A1-326[»]
ProteinModelPortaliP0ADE8.
SMRiP0ADE8. Positions 1-325.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261457. 783 interactions.
DIPiDIP-48117N.
IntActiP0ADE8. 6 interactions.
MINTiMINT-1257340.
STRINGi511145.b2898.

2D gel databases

SWISS-2DPAGEP0ADE8.

Proteomic databases

EPDiP0ADE8.
PaxDbiP0ADE8.
PRIDEiP0ADE8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75936; AAC75936; b2898.
BAE76963; BAE76963; BAE76963.
GeneIDi947384.
KEGGiecj:JW2866.
eco:b2898.
PATRICi32121210. VBIEscCol129921_2993.

Organism-specific databases

EchoBASEiEB2549.
EcoGeneiEG12685. ygfZ.

Phylogenomic databases

eggNOGiENOG4106XY2. Bacteria.
COG0354. LUCA.
HOGENOMiHOG000261300.
InParanoidiP0ADE8.
KOiK06980.
OMAiGRMQSSF.
PhylomeDBiP0ADE8.

Enzyme and pathway databases

BioCyciEcoCyc:G7511-MONOMER.
ECOL316407:JW2866-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0ADE8.
PROiP0ADE8.

Family and domain databases

HAMAPiMF_01175. tRNA_modifying_YgfZ. 1 hit.
InterProiIPR006222. GCV_T_N.
IPR029043. GcvT/YgfZ_C.
IPR023758. tRNA-modifying_YgfZ.
IPR017703. YgfZ/GcvT_CS.
[Graphical view]
PfamiPF01571. GCV_T. 1 hit.
[Graphical view]
SUPFAMiSSF101790. SSF101790. 1 hit.
TIGRFAMsiTIGR03317. ygfZ_signature. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiYGFZ_ECOLI
AccessioniPrimary (citable) accession number: P0ADE8
Secondary accession number(s): P39179, Q2M9U3, Q46826
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 91 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.