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Entry version 124 (13 Feb 2019)
Sequence version 2 (21 Mar 2006)
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Protein

Pyruvate-flavodoxin oxidoreductase

Gene

nifJ

Organism
Rhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)
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>
-Protein inferred from homologyi <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

Oxidoreductase required for the transfer of electrons from pyruvate to flavodoxin, which reduces nitrogenase.

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the ‘Function’ section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

[4Fe-4S] clusterBy similarityNote: Binds 3 [4Fe-4S] clusters per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the ‘Description’ field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi696Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi699Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi702Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi706Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi753Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi756Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi759Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi763Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi825Iron-sulfur 3 (4Fe-4S)By similarity1
Metal bindingi828Iron-sulfur 3 (4Fe-4S)By similarity1
Metal bindingi853Iron-sulfur 3 (4Fe-4S)By similarity1
Metal bindingi1085Iron-sulfur 3 (4Fe-4S)By similarity1

<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

Molecular functionOxidoreductase
Biological processElectron transport, Nitrogen fixation, Transport
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding

<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_and_taxonomy_section">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:
Pyruvate-flavodoxin oxidoreductase (EC:1.2.7.-)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:nifJ
Ordered Locus Names:Rru_A2398
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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>OrganismiRhodospirillum rubrum (strain ATCC 11170 / ATH 1.1.1 / DSM 467 / LMG 4362 / NCIB 8255 / S1)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 identifieri269796 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesRhodospirillaceaeRhodospirillum
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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
  • UP000001929 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">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

<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 describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002155561 – 1191Pyruvate-flavodoxin oxidoreductaseAdd BLAST1191

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
Q53046

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
269796.Rru_A2398

<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

3D structure databases

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
Q53046

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

More...
SMRi
Q53046

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini687 – 7164Fe-4S ferredoxin-type 1PROSITE-ProRule annotationAdd BLAST30
Domaini744 – 7734Fe-4S ferredoxin-type 2PROSITE-ProRule annotationAdd BLAST30

<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

Keywords - Domaini

Repeat

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG4105D95 Bacteria
COG0674 LUCA
COG1013 LUCA
COG1014 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000266425

KEGG Orthology (KO)

More...
KOi
K03737

Database of Orthologous Groups

More...
OrthoDBi
10483at2

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.50.920, 1 hit
3.40.920.10, 1 hit
4.10.780.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR017896 4Fe4S_Fe-S-bd
IPR017900 4Fe4S_Fe_S_CS
IPR033412 PFOR_II
IPR037112 Pyrv-flavodox_OxR_EKR_sf
IPR019456 Pyrv-flavodox_OxRtase_EKR
IPR019752 Pyrv/ketoisovalerate_OxRed_cat
IPR002880 Pyrv_Fd/Flavodoxin_OxRdtase_N
IPR011895 Pyrv_flavodox_OxRed
IPR002869 Pyrv_flavodox_OxRed_cen
IPR029061 THDP-binding
IPR011766 TPP_enzyme-bd_C
IPR009014 Transketo_C/PFOR_II

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF10371 EKR, 1 hit
PF17147 PFOR_II, 1 hit
PF01558 POR, 1 hit
PF01855 POR_N, 1 hit
PF02775 TPP_enzyme_C, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF000159 NifJ, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00890 EKR, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF52518 SSF52518, 2 hits
SSF52922 SSF52922, 1 hit
SSF53323 SSF53323, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02176 pyruv_ox_red, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00198 4FE4S_FER_1, 2 hits
PS51379 4FE4S_FER_2, 2 hits

<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_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

Q53046-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSVRKMVAID GNEACASVAY RVSEVAVIYP ITPSSTMGEL SDEWSAKGLT
60 70 80 90 100
NIWGAVPQVV EMQSEGGAAG ACHGAIQTGS LGTTFTASQG LLLMIPNMYK
110 120 130 140 150
IAGELTPFCM HVTARTLATH ALSIFGDQSD VMACRQTGFA ILASASVQEA
160 170 180 190 200
HDLASVAHGA SLESRIPFLH FFDGFRTSHE VNKIELMTDD DLHAMIDDDL
210 220 230 240 250
VAAHRARALT PDTPVTRGTA QNPDTFFQAQ EARNPFYDAC PAIVQSYMDR
260 270 280 290 300
LAALTGRRYG LFDYVGHPQA ERVVVIMGSG AETVAETVDW LVARGEKIGV
310 320 330 340 350
VKVRLFRPFS VDAFVAALPV SVRAIAVLDR CKESGAIGEP LYLDVVGALA
360 370 380 390 400
RAKALGLRAG IVDPAVIGGR YGLSSKEFTP AMVKAIFDEL AKANPKQAFT
410 420 430 440 450
VGIEDDVTHL SLSVDRSFRI ESADIKRSVF FGLGADGTVG ANKNSIKIIS
460 470 480 490 500
DSPTIHGQGY FVYDSKKSGA ITISHLRFGP RPIRAPYLID EADFIACHHF
510 520 530 540 550
SFLDKVDVLE TAAVGATLLL NSPHDKDTVW DALPRPVQQT IIDRDLKLFV
560 570 580 590 600
IDANKVAQET GMGQRINTIM QTCFFALSGV MPRDEAIEEI KKAISKTYAR
610 620 630 640 650
KSQKVIDANF AAVDQTLSRL QSVTIPGVLT GHALPPLVSA GAPDFVRNVT
660 670 680 690 700
AVMLAGKGDS LPVSAMPVDG TWPTETARWE KRDIAQQVCS WDADLCIQCN
710 720 730 740 750
KCVMVCPHAA LRVKAVPAEA AAALPASMNS TPYKGKDDLK GSAYVLALSP
760 770 780 790 800
EDCTGCGICV EACPGKDKAT GARSLTMHAR EDVVSACKEN WEIFLDLPDV
810 820 830 840 850
ARTSLRPTVK NSQFMTPLFE FSGACQGCGE TPYLKLLTQM WGDRLMIANA
860 870 880 890 900
TGCSSIYGGN LPTSPYAKDA NGRGPAWSNS LFEDNAEFGL GFRLALDQHR
910 920 930 940 950
SEAKRLLGAL APQLSGVLVD GLVANAANND EAAIAAQRER VVSLRAELGG
960 970 980 990 1000
LTGWQARALE GLADYLVEKV VWIVGGDGWA YDIGYGGLDH VISSGRNVNI
1010 1020 1030 1040 1050
LVMDTEVYSN TGGQQSKSTP IGASAKFSVA GKALPKKDLG QIAMANGHVY
1060 1070 1080 1090 1100
VASIAFGASD NQTLRALSEA VSYEGPSLII AYSHCIAHGY DLTCGLSQQK
1110 1120 1130 1140 1150
LAIETGYWPL YRFDPRKMGV GPALSLDGVQ PSRPIGDYMA NEGRFRIIRD
1160 1170 1180 1190
ADPERYAMLL EAAEENVRSR WALLRQLAGV ADEQEGARAA Q
Length:1,191
Mass (Da):127,817
Last modified:March 21, 2006 - 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:i911A76574A0CA19D
GO

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence ABC23198 differs from that shown. Reason: Erroneous initiation.Curated

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 conflicti986G → A in CAA54651 (PubMed:8736535).Curated1

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
X77515 Genomic DNA Translation: CAA54651.1
CP000230 Genomic DNA Translation: ABC23198.1 Different initiation.

Protein sequence database of the Protein Information Resource

More...
PIRi
S70963

NCBI Reference Sequences

More...
RefSeqi
YP_427485.1, NC_007643.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
ABC23198; ABC23198; Rru_A2398

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
3835832

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rru:Rru_A2398

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|269796.9.peg.2500

<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
X77515 Genomic DNA Translation: CAA54651.1
CP000230 Genomic DNA Translation: ABC23198.1 Different initiation.
PIRiS70963
RefSeqiYP_427485.1, NC_007643.1

3D structure databases

ProteinModelPortaliQ53046
SMRiQ53046
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi269796.Rru_A2398

Proteomic databases

PRIDEiQ53046

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABC23198; ABC23198; Rru_A2398
GeneIDi3835832
KEGGirru:Rru_A2398
PATRICifig|269796.9.peg.2500

Phylogenomic databases

eggNOGiENOG4105D95 Bacteria
COG0674 LUCA
COG1013 LUCA
COG1014 LUCA
HOGENOMiHOG000266425
KOiK03737
OrthoDBi10483at2

Family and domain databases

Gene3Di3.40.50.920, 1 hit
3.40.920.10, 1 hit
4.10.780.10, 1 hit
InterProiView protein in InterPro
IPR017896 4Fe4S_Fe-S-bd
IPR017900 4Fe4S_Fe_S_CS
IPR033412 PFOR_II
IPR037112 Pyrv-flavodox_OxR_EKR_sf
IPR019456 Pyrv-flavodox_OxRtase_EKR
IPR019752 Pyrv/ketoisovalerate_OxRed_cat
IPR002880 Pyrv_Fd/Flavodoxin_OxRdtase_N
IPR011895 Pyrv_flavodox_OxRed
IPR002869 Pyrv_flavodox_OxRed_cen
IPR029061 THDP-binding
IPR011766 TPP_enzyme-bd_C
IPR009014 Transketo_C/PFOR_II
PfamiView protein in Pfam
PF10371 EKR, 1 hit
PF17147 PFOR_II, 1 hit
PF01558 POR, 1 hit
PF01855 POR_N, 1 hit
PF02775 TPP_enzyme_C, 1 hit
PIRSFiPIRSF000159 NifJ, 1 hit
SMARTiView protein in SMART
SM00890 EKR, 1 hit
SUPFAMiSSF52518 SSF52518, 2 hits
SSF52922 SSF52922, 1 hit
SSF53323 SSF53323, 1 hit
TIGRFAMsiTIGR02176 pyruv_ox_red, 1 hit
PROSITEiView protein in PROSITE
PS00198 4FE4S_FER_1, 2 hits
PS51379 4FE4S_FER_2, 2 hits

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiNIFJ_RHORT
<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: Q53046
Secondary accession number(s): Q2RRP7
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: March 21, 2006
Last modified: February 13, 2019
This is version 124 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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