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Entry version 155 (02 Dec 2020)
Sequence version 2 (01 Feb 1995)
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Protein

Outer membrane usher protein FimD

Gene

fimD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Involved in the export and assembly of FimA fimbrial subunits across the outer membrane.

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processFimbrium biogenesis, Transport

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
EcoCyc:EG10311-MONOMER

Protein family/group databases

Transport Classification Database

More...
TCDBi
1.B.11.3.9, the outer membrane fimbrial usher porin (fup) family

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Outer membrane usher protein FimD
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:fimD
Ordered Locus Names:b4317, JW5780
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiEscherichia coli (strain K12)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri83333 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000318 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cell outer membrane, Membrane

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section denotes the presence of an N-terminal signal peptide.<p><a href='/help/signal' target='_top'>More...</a></p>Signal peptidei1 – 451 PublicationAdd BLAST45
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000000931246 – 878Outer membrane usher protein FimDAdd BLAST833

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the PTM / Processing":/help/ptm_processing_section section describes the positions of cysteine residues participating in disulfide bonds.<p><a href='/help/disulfid' target='_top'>More...</a></p>Disulfide bondi855 ↔ 877Sequence analysis

Keywords - PTMi

Disulfide bond

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P30130

PRoteomics IDEntifications database

More...
PRIDEi
P30130

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
4262748, 186 interactors

Database of interacting proteins

More...
DIPi
DIP-9612N

Protein interaction database and analysis system

More...
IntActi
P30130, 7 interactors

Molecular INTeraction database

More...
MINTi
P30130

STRING: functional protein association networks

More...
STRINGi
511145.b4317

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1878
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Biological Magnetic Resonance Data Bank

More...
BMRBi
P30130

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P30130

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
P30130

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the fimbrial export usher family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane beta strand

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG3188, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_009120_3_1_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P30130

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P30130

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.60.40.2070, 1 hit
2.60.40.2610, 1 hit
3.10.20.410, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR000015, Fimb_usher
IPR018030, Fimbrial_membr_usher_CS
IPR042186, FimD_plug_dom
IPR025949, PapC-like_C
IPR043142, PapC-like_C_sf
IPR025885, PapC_N
IPR037224, PapC_N_sf

The PANTHER Classification System

More...
PANTHERi
PTHR30451, PTHR30451, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF13953, PapC_C, 1 hit
PF13954, PapC_N, 1 hit
PF00577, Usher, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF141729, SSF141729, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS01151, FIMBRIAL_USHER, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

P30130-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSYLNLRLYQ RNTQCLHIRK HRLAGFFVRL VVACAFAAQA PLSSADLYFN
60 70 80 90 100
PRFLADDPQA VADLSRFENG QELPPGTYRV DIYLNNGYMA TRDVTFNTGD
110 120 130 140 150
SEQGIVPCLT RAQLASMGLN TASVAGMNLL ADDACVPLTT MVQDATAHLD
160 170 180 190 200
VGQQRLNLTI PQAFMSNRAR GYIPPELWDP GINAGLLNYN FSGNSVQNRI
210 220 230 240 250
GGNSHYAYLN LQSGLNIGAW RLRDNTTWSY NSSDRSSGSK NKWQHINTWL
260 270 280 290 300
ERDIIPLRSR LTLGDGYTQG DIFDGINFRG AQLASDDNML PDSQRGFAPV
310 320 330 340 350
IHGIARGTAQ VTIKQNGYDI YNSTVPPGPF TINDIYAAGN SGDLQVTIKE
360 370 380 390 400
ADGSTQIFTV PYSSVPLLQR EGHTRYSITA GEYRSGNAQQ EKTRFFQSTL
410 420 430 440 450
LHGLPAGWTI YGGTQLADRY RAFNFGIGKN MGALGALSVD MTQANSTLPD
460 470 480 490 500
DSQHDGQSVR FLYNKSLNES GTNIQLVGYR YSTSGYFNFA DTTYSRMNGY
510 520 530 540 550
NIETQDGVIQ VKPKFTDYYN LAYNKRGKLQ LTVTQQLGRT STLYLSGSHQ
560 570 580 590 600
TYWGTSNVDE QFQAGLNTAF EDINWTLSYS LTKNAWQKGR DQMLALNVNI
610 620 630 640 650
PFSHWLRSDS KSQWRHASAS YSMSHDLNGR MTNLAGVYGT LLEDNNLSYS
660 670 680 690 700
VQTGYAGGGD GNSGSTGYAT LNYRGGYGNA NIGYSHSDDI KQLYYGVSGG
710 720 730 740 750
VLAHANGVTL GQPLNDTVVL VKAPGAKDAK VENQTGVRTD WRGYAVLPYA
760 770 780 790 800
TEYRENRVAL DTNTLADNVD LDNAVANVVP TRGAIVRAEF KARVGIKLLM
810 820 830 840 850
TLTHNNKPLP FGAMVTSESS QSSGIVADNG QVYLSGMPLA GKVQVKWGEE
860 870
ENAHCVANYQ LPPESQQQLL TQLSAECR
Length:878
Mass (Da):96,482
Last modified:February 1, 1995 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iB2B86CC44FAB7B0F
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti143 – 148QDATAH → RTLLRT in CAA35968 (PubMed:1970114).Curated6
Sequence conflicti352 – 402DGSTQ…STLLH → VLAARRFLPYPIRTFPLLNV KAYSLFHYGRRIPYESRSRK KPAFSRVHYSN (PubMed:1970114).CuratedAdd BLAST51
Sequence conflicti658 – 670GGDGN…TGYAT → EAMEIAEVQATP (PubMed:1970114).CuratedAdd BLAST13
Sequence conflicti723 – 742APGAK…RTDWR → RLAQKMQKSKTRRGAYRLA in CAA35968 (PubMed:1970114).CuratedAdd BLAST20

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
X51655 Genomic DNA Translation: CAA35968.1
U14003 Genomic DNA Translation: AAA97213.1
U00096 Genomic DNA Translation: AAC77273.1
AP009048 Genomic DNA Translation: BAE78310.1

Protein sequence database of the Protein Information Resource

More...
PIRi
S56542

NCBI Reference Sequences

More...
RefSeqi
NP_418737.1, NC_000913.3
WP_000121005.1, NZ_LN832404.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAC77273; AAC77273; b4317
BAE78310; BAE78310; BAE78310

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
948844

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ecj:JW5780
eco:b4317

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|1411691.4.peg.2375

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X51655 Genomic DNA Translation: CAA35968.1
U14003 Genomic DNA Translation: AAA97213.1
U00096 Genomic DNA Translation: AAC77273.1
AP009048 Genomic DNA Translation: BAE78310.1
PIRiS56542
RefSeqiNP_418737.1, NC_000913.3
WP_000121005.1, NZ_LN832404.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZDVNMR-A70-184[»]
1ZDXNMR-A70-170[»]
1ZE3X-ray1.84D46-170[»]
3BWUX-ray1.76D46-170[»]
3OHNX-ray3.01A/B169-708[»]
3RFZX-ray2.80B/E46-878[»]
4J3OX-ray3.80D46-878[»]
6E14electron microscopy4.00D1-878[»]
6E15electron microscopy6.20D1-878[»]
BMRBiP30130
SMRiP30130
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi4262748, 186 interactors
DIPiDIP-9612N
IntActiP30130, 7 interactors
MINTiP30130
STRINGi511145.b4317

Protein family/group databases

TCDBi1.B.11.3.9, the outer membrane fimbrial usher porin (fup) family

Proteomic databases

PaxDbiP30130
PRIDEiP30130

Genome annotation databases

EnsemblBacteriaiAAC77273; AAC77273; b4317
BAE78310; BAE78310; BAE78310
GeneIDi948844
KEGGiecj:JW5780
eco:b4317
PATRICifig|1411691.4.peg.2375

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...
EchoBASEi
EB0307

Phylogenomic databases

eggNOGiCOG3188, Bacteria
HOGENOMiCLU_009120_3_1_6
InParanoidiP30130
PhylomeDBiP30130

Enzyme and pathway databases

BioCyciEcoCyc:EG10311-MONOMER

Miscellaneous databases

EvolutionaryTraceiP30130

Protein Ontology

More...
PROi
PR:P30130

Family and domain databases

Gene3Di2.60.40.2070, 1 hit
2.60.40.2610, 1 hit
3.10.20.410, 1 hit
InterProiView protein in InterPro
IPR000015, Fimb_usher
IPR018030, Fimbrial_membr_usher_CS
IPR042186, FimD_plug_dom
IPR025949, PapC-like_C
IPR043142, PapC-like_C_sf
IPR025885, PapC_N
IPR037224, PapC_N_sf
PANTHERiPTHR30451, PTHR30451, 1 hit
PfamiView protein in Pfam
PF13953, PapC_C, 1 hit
PF13954, PapC_N, 1 hit
PF00577, Usher, 1 hit
SUPFAMiSSF141729, SSF141729, 1 hit
PROSITEiView protein in PROSITE
PS01151, FIMBRIAL_USHER, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiFIMD_ECOLI
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P30130
Secondary accession number(s): Q2M5Z6
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: February 1, 1995
Last modified: December 2, 2020
This is version 155 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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