ID NIFA_RHIME Reviewed; 541 AA.
AC P03028;
DT 21-JUL-1986, integrated into UniProtKB/Swiss-Prot.
DT 21-JUL-1986, sequence version 1.
DT 01-MAY-2013, entry version 111.
DE RecName: Full=Nif-specific regulatory protein;
GN Name=nifA; Synonyms=fixD; OrderedLocusNames=RA0443; ORFNames=SMa0815;
OS Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium
OS meliloti).
OG Plasmid pSymA (megaplasmid 1).
OC Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales;
OC Rhizobiaceae; Sinorhizobium/Ensifer group; Sinorhizobium.
OX NCBI_TaxID=266834;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=2989799; DOI=10.1093/nar/13.12.4539;
RA Buikema W.J., Szeto W.W., Lemley P.V., Orme-Johnson W.H.,
RA Ausubel F.M.;
RT "Nitrogen fixation specific regulatory genes of Klebsiella pneumoniae
RT and Rhizobium meliloti share homology with the general nitrogen
RT regulatory gene ntrC of K. pneumoniae.";
RL Nucleic Acids Res. 13:4539-4555(1985).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RA Weber G., Reilaender H., Puehler A.;
RT "Mapping and expression of a regulatory nitrogen fixation gene (fixD)
RT of Rhizobium meliloti.";
RL Submitted (FEB-1986) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=1021;
RX PubMed=11481432; DOI=10.1073/pnas.161294798;
RA Barnett M.J., Fisher R.F., Jones T., Komp C., Abola A.P.,
RA Barloy-Hubler F., Bowser L., Capela D., Galibert F., Gouzy J.,
RA Gurjal M., Hong A., Huizar L., Hyman R.W., Kahn D., Kahn M.L.,
RA Kalman S., Keating D.H., Palm C., Peck M.C., Surzycki R., Wells D.H.,
RA Yeh K.-C., Davis R.W., Federspiel N.A., Long S.R.;
RT "Nucleotide sequence and predicted functions of the entire
RT Sinorhizobium meliloti pSymA megaplasmid.";
RL Proc. Natl. Acad. Sci. U.S.A. 98:9883-9888(2001).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=1021;
RX PubMed=11474104; DOI=10.1126/science.1060966;
RA Galibert F., Finan T.M., Long S.R., Puehler A., Abola P., Ampe F.,
RA Barloy-Hubler F., Barnett M.J., Becker A., Boistard P., Bothe G.,
RA Boutry M., Bowser L., Buhrmester J., Cadieu E., Capela D., Chain P.,
RA Cowie A., Davis R.W., Dreano S., Federspiel N.A., Fisher R.F.,
RA Gloux S., Godrie T., Goffeau A., Golding B., Gouzy J., Gurjal M.,
RA Hernandez-Lucas I., Hong A., Huizar L., Hyman R.W., Jones T., Kahn D.,
RA Kahn M.L., Kalman S., Keating D.H., Kiss E., Komp C., Lelaure V.,
RA Masuy D., Palm C., Peck M.C., Pohl T.M., Portetelle D., Purnelle B.,
RA Ramsperger U., Surzycki R., Thebault P., Vandenbol M.,
RA Vorhoelter F.J., Weidner S., Wells D.H., Wong K., Yeh K.-C., Batut J.;
RT "The composite genome of the legume symbiont Sinorhizobium meliloti.";
RL Science 293:668-672(2001).
CC -!- FUNCTION: Required for activation of most nif operons, which are
CC directly involved in nitrogen fixation.
CC -!- SUBUNIT: Interacts with sigma-54.
CC -!- SIMILARITY: Contains 1 GAF domain.
CC -!- SIMILARITY: Contains 1 sigma-54 factor interaction domain.
CC -!- SEQUENCE CAUTION:
CC Sequence=CAA26471.1; Type=Erroneous initiation;
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DR EMBL; X02615; CAA26470.1; -; Genomic_DNA.
DR EMBL; X02615; CAA26471.1; ALT_INIT; Genomic_DNA.
DR EMBL; X03065; CAA26869.1; -; Genomic_DNA.
DR EMBL; AE006469; AAK65101.2; -; Genomic_DNA.
DR PIR; A03563; RGZRAM.
DR PIR; C95317; C95317.
DR RefSeq; NP_435689.2; NC_003037.1.
DR ProteinModelPortal; P03028; -.
DR STRING; 266834.SMa0815; -.
DR ProMEX; P03028; -.
DR EnsemblBacteria; AAK65101; AAK65101; SMa0815.
DR GeneID; 1235479; -.
DR KEGG; sme:SMa0815; -.
DR PATRIC; 23627354; VBISinMel96828_0456.
DR eggNOG; COG3604; -.
DR HOGENOM; HOG000058487; -.
DR KO; K02584; -.
DR ProtClustDB; CLSK807607; -.
DR BioCyc; SMEL266834:GJF6-5448-MONOMER; -.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0017111; F:nucleoside-triphosphatase activity; IEA:InterPro.
DR GO; GO:0003700; F:sequence-specific DNA binding transcription factor activity; IEA:InterPro.
DR GO; GO:0009399; P:nitrogen fixation; IEA:UniProtKB-KW.
DR GO; GO:0000160; P:phosphorelay signal transduction system; IEA:UniProtKB-KW.
DR GO; GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW.
DR Gene3D; 1.10.10.60; -; 2.
DR InterPro; IPR003593; AAA+_ATPase.
DR InterPro; IPR003018; GAF.
DR InterPro; IPR009057; Homeodomain-like.
DR InterPro; IPR002197; HTH_Fis.
DR InterPro; IPR010113; Nif-specific_regulatory_prot.
DR InterPro; IPR002078; Sigma_54_int.
DR InterPro; IPR025662; Sigma_54_int_dom_ATP-bd_1.
DR InterPro; IPR025943; Sigma_54_int_dom_ATP-bd_2.
DR InterPro; IPR025944; Sigma_54_int_dom_CS.
DR Pfam; PF01590; GAF; 1.
DR Pfam; PF02954; HTH_8; 1.
DR Pfam; PF00158; Sigma54_activat; 1.
DR PRINTS; PR01590; HTHFIS.
DR SMART; SM00382; AAA; 1.
DR SMART; SM00065; GAF; 1.
DR SUPFAM; SSF46689; Homeodomain_like; 1.
DR TIGRFAMs; TIGR01817; nifA; 1.
DR PROSITE; PS00675; SIGMA54_INTERACT_1; 1.
DR PROSITE; PS00676; SIGMA54_INTERACT_2; 1.
DR PROSITE; PS00688; SIGMA54_INTERACT_3; 1.
DR PROSITE; PS50045; SIGMA54_INTERACT_4; 1.
PE 1: Evidence at protein level;
KW Activator; ATP-binding; Complete proteome; DNA-binding; Metal-binding;
KW Nitrogen fixation; Nucleotide-binding; Plasmid; Transcription;
KW Transcription regulation; Two-component regulatory system.
FT CHAIN 1 541 Nif-specific regulatory protein.
FT /FTId=PRO_0000081313.
FT DOMAIN 23 158 GAF.
FT DOMAIN 200 428 Sigma-54 factor interaction.
FT NP_BIND 228 235 ATP (Potential).
FT NP_BIND 291 300 ATP (Potential).
FT DNA_BIND 513 532 H-T-H motif (By similarity).
FT REGION 429 498 Inter-domain linker.
FT REGION 499 541 C-terminal DNA-binding domain.
FT METAL 442 442 By similarity.
FT METAL 447 447 By similarity.
SQ SEQUENCE 541 AA; 59865 MW; BC82DD9710A98A02 CRC64;
MRKQDKRSAE IYSISKALMA PTRLETTLNN FVNTLSLILR MRRGGLEIPA SEGETKITAA
TRNSGSPSAA DYTVPKAAID QVMTAGRLVV PDVCNSELFK DQIKWRGIGP TAFIAAAVEV
DHETGGMLWF ECAEESDYDY EEEVHFLSMA ANLAGRAIRL HRTISRRERT FAEEQQEQQN
SRDEQSQSSA RQRLLKNDGI IGESTALMTA VDTAKVMAET NSIVLLRGET GTGKECFAKL
IHQHSTRQKK PFIKFNCPAL SESLLESELF GHEKGAFTGA IAQRVGRFES ANGGTLLLDE
IGEIPPAFQA KLLRVIQEGE FERVGGTKTL KVDVRLIFAT NKDLEMAVQN GEFREDLYYR
ISGVPLILPP LRHRDGDIPL LARAFLQRFN EENGRDLHFA PSALDHLSKC KFPGNVRELE
NCVRRTATLA RSKTITSSDF ACQTDQCFSS RLWKGVHCSH GHIEIDAPAG TTPLLGAPAN
DVPPKEPGSA GVASNLIERD RLISALEEAG WNQAKAARIL EKTPRQVGYA LRRHGVDVRK
L
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