SDF2_ARATH
ID SDF2_ARATH Reviewed; 218 AA.
AC Q93ZE8; O81720; Q9SEZ5;
DT 19-OCT-2002, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 25-MAY-2022, entry version 129.
DE RecName: Full=Stromal cell-derived factor 2-like protein;
DE Short=AtSDF2;
DE Short=SDF2-like protein;
DE Flags: Precursor;
GN Name=SDF2; OrderedLocusNames=At2g25110; ORFNames=F13D4.70;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
RN [5]
RP FUNCTION, INTERACTION WITH ERDJ3B, SUBCELLULAR LOCATION, DISRUPTION
RP PHENOTYPE, AND MUTAGENESIS OF GLY-64.
RX PubMed=19763086; DOI=10.1038/emboj.2009.262;
RA Nekrasov V., Li J., Batoux M., Roux M., Chu Z.H., Lacombe S., Rougon A.,
RA Bittel P., Kiss-Papp M., Chinchilla D., van Esse H.P., Jorda L.,
RA Schwessinger B., Nicaise V., Thomma B.P., Molina A., Jones J.D., Zipfel C.;
RT "Control of the pattern-recognition receptor EFR by an ER protein complex
RT in plant immunity.";
RL EMBO J. 28:3428-3438(2009).
RN [6]
RP X-RAY CRYSTALLOGRAPHY (1.95 ANGSTROMS) OF 24-218, FUNCTION, AND INDUCTION.
RX PubMed=20378538; DOI=10.1074/jbc.m110.117176;
RA Schott A., Ravaud S., Keller S., Radzimanowski J., Viotti C., Hillmer S.,
RA Sinning I., Strahl S.;
RT "Arabidopsis stromal-derived Factor2 (SDF2) is a crucial target of the
RT unfolded protein response in the endoplasmic reticulum.";
RL J. Biol. Chem. 285:18113-18121(2010).
CC -!- FUNCTION: Involved in the endoplasmic reticulum (ER) protein quality
CC control and unfolded protein response. May be involved in the quality
CC control of glycoproteins. Forms a complex in the ER with ERDJ3B and
CC MED37A/BIP1 which is required for the proper accumulation and function
CC of the surface-exposed leucine-rich repeat receptor kinases EFR
CC involved in pathogen-associated molecular pattern (PAMP) triggered
CC immunity. {ECO:0000269|PubMed:19763086, ECO:0000269|PubMed:20378538}.
CC -!- SUBUNIT: Interacts with ERDJ3B. {ECO:0000269|PubMed:19763086}.
CC -!- SUBCELLULAR LOCATION: Endoplasmic reticulum
CC {ECO:0000269|PubMed:19763086}.
CC -!- INDUCTION: By tunicamycin. {ECO:0000269|PubMed:20378538}.
CC -!- DISRUPTION PHENOTYPE: No visible phenotype under normal growth
CC conditions, but mutant plants are insensitive to seedling growth
CC inhibition in response to the pathogen-associated molecular pattern
CC (PAMP) elf18 and show increased susceptibility to phytopathogenic
CC bacteria. {ECO:0000269|PubMed:19763086}.
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DR EMBL; CP002685; AEC07659.1; -; Genomic_DNA.
DR EMBL; AY057588; AAL14383.1; -; mRNA.
DR EMBL; AY143822; AAN28761.1; -; mRNA.
DR EMBL; AY088079; AAM65625.1; -; mRNA.
DR PIR; D84644; D84644.
DR RefSeq; NP_565585.1; NM_128068.3.
DR PDB; 3MAL; X-ray; 1.95 A; A/B=24-218.
DR PDBsum; 3MAL; -.
DR AlphaFoldDB; Q93ZE8; -.
DR SMR; Q93ZE8; -.
DR BioGRID; 2401; 1.
DR IntAct; Q93ZE8; 1.
DR MINT; Q93ZE8; -.
DR STRING; 3702.AT2G25110.1; -.
DR PaxDb; Q93ZE8; -.
DR PRIDE; Q93ZE8; -.
DR ProteomicsDB; 232857; -.
DR DNASU; 817049; -.
DR EnsemblPlants; AT2G25110.1; AT2G25110.1; AT2G25110.
DR GeneID; 817049; -.
DR Gramene; AT2G25110.1; AT2G25110.1; AT2G25110.
DR KEGG; ath:AT2G25110; -.
DR Araport; AT2G25110; -.
DR TAIR; locus:2040199; AT2G25110.
DR eggNOG; KOG3358; Eukaryota.
DR HOGENOM; CLU_078126_0_0_1; -.
DR InParanoid; Q93ZE8; -.
DR OMA; KPQHGTR; -.
DR OrthoDB; 1534407at2759; -.
DR PhylomeDB; Q93ZE8; -.
DR PRO; PR:Q93ZE8; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; Q93ZE8; baseline and differential.
DR Genevisible; Q93ZE8; AT.
DR GO; GO:0005783; C:endoplasmic reticulum; IDA:TAIR.
DR GO; GO:0005773; C:vacuole; HDA:TAIR.
DR GO; GO:0042742; P:defense response to bacterium; IMP:TAIR.
DR GO; GO:0050832; P:defense response to fungus; IMP:TAIR.
DR GO; GO:0002221; P:pattern recognition receptor signaling pathway; IMP:TAIR.
DR InterPro; IPR036300; MIR_dom_sf.
DR InterPro; IPR016093; MIR_motif.
DR Pfam; PF02815; MIR; 1.
DR SMART; SM00472; MIR; 3.
DR SUPFAM; SSF82109; SSF82109; 1.
DR PROSITE; PS50919; MIR; 3.
PE 1: Evidence at protein level;
KW 3D-structure; Endoplasmic reticulum; Glycoprotein; Plant defense;
KW Reference proteome; Repeat; Signal.
FT SIGNAL 1..21
FT /evidence="ECO:0000255"
FT CHAIN 22..218
FT /note="Stromal cell-derived factor 2-like protein"
FT /id="PRO_0000031959"
FT DOMAIN 34..88
FT /note="MIR 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00131"
FT DOMAIN 96..151
FT /note="MIR 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00131"
FT DOMAIN 154..208
FT /note="MIR 3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00131"
FT CARBOHYD 214
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT MUTAGEN 64
FT /note="G->D: In sdf2-3; decreased response to the PAMP
FT elf18."
FT /evidence="ECO:0000269|PubMed:19763086"
FT CONFLICT 203
FT /note="W -> C (in Ref. 4; AAM65625)"
FT /evidence="ECO:0000305"
FT STRAND 42..47
FT /evidence="ECO:0007829|PDB:3MAL"
FT TURN 48..50
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 53..60
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 68..73
FT /evidence="ECO:0007829|PDB:3MAL"
FT HELIX 79..81
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 83..86
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 104..109
FT /evidence="ECO:0007829|PDB:3MAL"
FT TURN 110..112
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 115..122
FT /evidence="ECO:0007829|PDB:3MAL"
FT TURN 124..126
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 128..134
FT /evidence="ECO:0007829|PDB:3MAL"
FT HELIX 142..144
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 146..153
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 162..167
FT /evidence="ECO:0007829|PDB:3MAL"
FT TURN 168..170
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 173..180
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 183..185
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 189..196
FT /evidence="ECO:0007829|PDB:3MAL"
FT HELIX 199..201
FT /evidence="ECO:0007829|PDB:3MAL"
FT STRAND 203..209
FT /evidence="ECO:0007829|PDB:3MAL"
SQ SEQUENCE 218 AA; 23935 MW; 575F683AC0C3BC87 CRC64;
MALGFFCLAI FLYLSLDPDS GYTSASAAAS GKEGVEITYG SAIKLMHEKT KFRLHSHDVP
YGSGSGQQSV TGFPGVVDSN SYWIVKPVPG TTEKQGDAVK SGATIRLQHM KTRKWLHSHL
HASPISGNLE VSCFGDDTNS DTGDHWKLII EGSGKTWKQD QRVRLQHIDT SGYLHSHDKK
YQRIAGGQQE VCGIREKKAD NIWLAAEGVY LPLNESSK
