Family Search for PF11016 (DUF2854)

Running HMMer for PF11016

PF11016 hits 6 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.

Y575_SYNY3 / Q55403 Thylakoid membrane protein slr0575 from Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa) (see paper)
slr0575 unknown protein from Synechocystis sp. PCC 6803
Aligns to 21:166 / 184 (79.3%), covers 99.3% of PF11016, 219.9 bits

• The biogenesis and maintenance of PSII: Recent advances and current challenges
  Komenda, The Plant cell 2024
  • “...2016 ). Other proteins that co-purify at low levels with D2 mod include 2 proteins, Slr0575 and Slr1470, with homologues in chloroplasts ( Knoppov et al. 2022 ). While the function of Slr1470 remains to be determined, Slr0575 has a stabilizing effect on D2 in Synechocystis...”
• Assembly of D1/D2 complexes of photosystem II: Binding of pigments and a network of auxiliary proteins
  Knoppová, Plant physiology 2022
  • “...the assembly factors rubredoxin A and Ycf48, but we also detected PsbN, Slr1470, and the Slr0575 proteins, which all have plant homologs. The RCII preparations also contained prohibitins/stomatins (Phbs) of unknown function and FtsH protease subunits. RCII complexes were active in light-induced primary charge separation and...”
  • “...(see Supplemental Table S1 ); nonspecifically interacting proteins are designated with an asterisk. PsbN and Slr0575 were identified using specific antibodies. About 0.5g of Chl was loaded onto the gel. Figure 2 Photochemical activity of RCII complexes. The light-induced accumulation of P680 + (A) and Pheo...”
• Proximity Labeling Facilitates Defining the Proteome Neighborhood of Photosystem II Oxygen Evolution Complex in a Model Cyanobacterium
  Xiao, Molecular & cellular proteomics : MCP 2022
  • “...Second, proteins involved in PS II assembly, maturation, and damage-degradation-repair cycle. These include HliD, YidC, Slr0575, FtsH2, FtsH3, and Psb32. HliD is a small one-TM containing membrane protein belonging to the high-lightinduced protein family and was found to be associated with RCII complex and is involved...”
  • “...( 47 ) and is essential for thylakoid biogenesis ( 48 ). The hypothetical protein Slr0575 is also involved in PS II assembly. Slr0575 locates primarily on the thylakoid membrane ( 11 ) and was identified as a subunit of the PS II assembly intermediate RCII...”
• Advances in the Understanding of the Lifecycle of Photosystem II
  Johnson, Microorganisms 2022
  • “...strain of S6803 lacking CP47 that contains PsbN as well as the protein products of slr0575 and slr1470 [ 21 ]. This complex is on the de novo synthesis pathway, as active PSII does not form in this strain. However, a pre-D2 complex was also isolated...”
• Proximity-based proteomics reveals the thylakoid lumen proteome in the cyanobacterium Synechococcus sp. PCC 7002
  Dahlgren, Photosynthesis research 2021
  • “...permease component slr1045 Inner membrane (4) A2400 One 2.65 Thylakoid membrane protein of unknown function slr0575 Thylakoid membrane (2, 4, 5, 6, 10, 15) A1418;A0157;A2164 psbA; psbAII; psbA Both 2.65 PSII core sll1867; slr1311 Thylakoid membrane (1, 2, 3, 5, 6, 8, 10, 21, 24), Inner...”
• Proteome Mapping of a Cyanobacterium Reveals Distinct Compartment Organization and Cell-Dispersed Metabolism
  Baers, Plant physiology 2019
  • “...62 uncharacterized TM localized proteins in Synechocystis , 10 (slr1747, sll0862, sll0875, sll1071, sll1399, sll1925, slr0575, slr1591, slr1821, slr1919) have homologs in Chlamydomonas reinhardtii and Arabidopsis, suggesting a conserved role throughout the photosynthetic lineage (highlighted in red in Supplemental Table S10 ). In contrast, the Arabidopsis...”
• Expression profiling of the bloom-forming cyanobacterium Nodularia CCY9414 under light and oxidative stress conditions
  Kopf, The ISME journal 2015
  • “...125) None Slr1322 (0.0) Slr0483 (e 38) Slr1035 (e 12) Slr0575 (e 78) Sll0749 (e 38) Slr1096 (0.0) Sll0195 (e 117) Slr0164 (e 99) Slr0228HL (e 58) Sll1483HL (e...”
• Proteomic analysis reveals resistance mechanism against biofuel hexane in Synechocystis sp. PCC 6803
  Liu, Biotechnology for biofuels 2012
  • “...Sll1774, Sll1783, Sll1873, Sll1911, Slr0006, Slr0013, Slr0038, Slr0111, Slr0318, Slr0333, Slr0420, Slr0455, Slr0476, Slr0503, Slr0565, Slr0575, Slr0601, Slr0613, Slr0680, Slr0729, Slr0848, Slr0867, Slr0923, Slr0924, Slr0955, Slr1236, Slr1266, Slr1273, Slr1417, Slr1438, Slr1472, Slr1557, Slr1623, Slr1649, Slr1690, Slr1732, Slr1846, Slr1847, Slr2101, Ssl0242, Ssl0352, Ssl0467, Ssl0832, Ssl1690, Ssl1707, Ssl1972,...”

NP_001190435 acclimation of photosynthesis to environment from Arabidopsis thaliana
Aligns to 110:261 / 431 (35.3%), covers 99.3% of PF11016, 158.0 bits

• [Silencing Effect of APE1 on the Radiosensitivity of Non-small Cell Lung Cancer Cells].
  Ou, Sichuan da xue xue bao. Yi xue ban = Journal of Sichuan University. Medical science edition 2019 (PubMed)
  • GeneRIF: expression of APE1 was upregulated in non-small cell lung cancer tissues and cell lines

AT5G38660 APE1 (ACCLIMATION OF PHOTOSYNTHESIS TO ENVIRONMENT) from Arabidopsis thaliana
Q2HIR7 Acclimation of photosynthesis to environment from Arabidopsis thaliana
Aligns to 110:261 / 286 (53.1%), covers 99.3% of PF11016, 157.1 bits

• The chromatin remodeler ERCC6 and the histone chaperone NAP1 are involved in apurinic/apyrimidinic endonuclease-mediated DNA repair
  Fan, The Plant cell 2024
  • “...and functional terms are of significance to the work described in this paper: APE1 Gramene: AT5G38660 APE1 Araport: AT5G38660 OGG1 Gramene: AT1G21710 OGG1 Araport: AT1G21710 ARP Gramene: AT2G41460 ARP Araport: AT2G41460 NAP1;2 Gramene: AT2G19480 NAP1;2 Araport: AT2G19480 NAP1;1 Gramene: AT4G26110 NAP1;1 Araport: AT4G26110 NAP1;3 Gramene: AT5G56950...”
• The biogenesis and maintenance of PSII: Recent advances and current challenges
  Komenda, The Plant cell 2024
  • “...paper: OHP2 Gramene: AT1G34000 OHP2 Araport: AT1G34000 ALB3 Gramene: AT2G28800 ALB3 Araport: AT2G28800 APE1 Gramene: AT5G38660 APE1 Araport: AT5G38660 HCF136 Gramene: AT5G23120 HCF136 Araport: AT5G23120 PLP1 Gramene: AT4G37070 PLP1 Araport: AT4G37070 Psb28 Gramene: Sll1398 Psb28 Araport: Sll1398 References Adir N , Shochat S , Ohad I...”
• Comparative transcriptomics reveals the role of altered energy metabolism in the establishment of single-cell C₄ photosynthesis in Bienertia sinuspersici
  Han, Frontiers in plant science 2023
  • “...transporter ( NITR2;1 ; AT5G62720), and Acclimation of photosynthesis to environment 1 ( APE1 ; AT5G38660), which were upregulated at the mature stage only in SCC 4 species ( Figure3A ). According to previous studies, NITR2;1 plays a role in the nitrogen assimilation pathway ( Maeda...”
• Arabidopsis fibrillin 1-2 subfamily members exert their functions via specific protein-protein interactions
  Torres-Romero, Journal of experimental botany 2022
  • “...b At4g38970 Fructose bisphosphate aldolase 2 Yes b At5g42650 Allene oxide synthase (AOS) Yes b At5g38660 Acclimation of photosynthesis to environment (APE1) No At4g19170 9- cis -epoxycarotenoid dioxygenase 4 (CCD4) Yes a At1g20020 Ferredoxin-NADP[H]-oxidoreductase 2 (FNR2) No At3g18890 NAD(P)-binding Rossmann-fold superfamily protein (Tic62) No At3g26840 Diacylglycerol...”
• Assembly of D1/D2 complexes of photosystem II: Binding of pigments and a network of auxiliary proteins
  Knoppová, Plant physiology 2022
  • “...). The Arabidopsis ( Arabidopsis thaliana ) homolog of Slr0575 is APE1 (corresponding gene is At5g38660 ), which has been detected in the Arabidopsis complex equivalent to RCII*, consisting of One Helix Protein 1 (OHP1) and OHP2 (plant homologs of Hlips), D1, D2, High Chl Fluorescence...”
• COG database update: focus on microbial diversity, model organisms, and widespread pathogens
  Galperin, Nucleic acids research 2021
  • “...Acclimation of photosynthesis to environment protein APE1 (At5g38660 in A. thaliana). This analysis also confirmed the previous report that Gloeobacter...”
• Time-resolved interaction proteomics of the GIGANTEA protein under diurnal cycles in Arabidopsis
  Krahmer, FEBS letters 2019
  • “...DUF1118 2 0.00031 0.0030 7.6 n n.d. AT3G11910 UBP13 7 2.76E04 0.0028 6.9 Y n.d. AT5G38660 APE1 3 5.27E04 0.0044 6.5 n 2/0 AT3G60750 ; AT2G45290 Transketolase 9 0.0060 0.023 6.5 n n.d. AT5G56030 ; AT5G52640 ; AT5G56000 HSP90.2; HSP90.1; HSP90.4 5 2.8E05 6.8E04 6.4 n...”
• Unravelling Protein-Protein Interaction Networks Linked to Aliphatic and Indole Glucosinolate Biosynthetic Pathways in Arabidopsis
  Nintemann, Frontiers in plant science 2017
  • “...6 1 4 11 At5G19550 Aspartate aminotransferase 2 (ASP2) 44.3 Cytoplasm 1 0 5 6 At5G38660 Acclimation of photosynthesis to environment (APE1) 31.4 1 Plastid 8 0 1 9 At5G42650 Allene oxide synthase (AOS) 58.2 Plastid 6 0 15 21 At5G44130 FASCICLIN-like arabinogalactan protein 13 precursor...”
  • “...protein-fragment complementation assay (Jones et al., 2014 ), and Acclimation of Photosynthesis to Environment (APE1, At5G38660), found in our screens as an interactor of CYP83B1 in yeast 2-hybrid and as an interactor of CYP83A1 in Co-IP (Figure S4 ). Due to the complementary nature of the...”
• More
• Proteomic Insight into the Response of Arabidopsis Chloroplasts to Darkness
  Wang, PloS one 2016
  • “...AT1G13280 S 1.470.07 Stress and Defense (2) 52 Acclimation of photosynthesis to environment protein (APE1) Q2HIR7 AT5G38660 T 1.520.10 53 Resistance to phytophthora 1 protein (RPH1) F4IN59 AT2G48070 Chl 1.640.04 Unknown (2) 54 Uncharacterized protein F4IYD5 AT3G01060 Chl 1.480.15 55 Uncharacterized protein Q9SGU7 AT1G64680 Chl 2.250.21...”

Q8H0W8 Uncharacterized protein At5g38660 from Arabidopsis thaliana
Aligns to 110:261 / 286 (53.1%), covers 99.3% of PF11016, 157.1 bits

• Microgravity induces changes in microsome-associated proteins of Arabidopsis seedlings grown on board the international space station
  Mazars, PloS one 2014
  • “...2.3716 Uncharacterized protein At4g01150, chloroplastic O23601 1.8203 Putative uncharacterized protein AT4g17600 (Putative uncharacterized protein dl4835w) Q8H0W8 1.9158 Putative uncharacterized protein At5g38660 Q8VYV1 2.3485 AT5g08050/F13G24_250 (At5g08050/F13G24_250) Q93VA8 AT1G76010 1.7247 Alba DNA/RNA-binding protein (At1g76010/T4O12_22) Q93W02 AT5G24690 1.9446 AT5g24690/MXC17_8 (Putative uncharacterized protein At5g24690) (Putative uncharacterized protein At5g24700) (Uncharacterized protein)...”

B8BA11 Uncharacterized protein from Oryza sativa subsp. indica
Aligns to 104:270 / 286 (58.4%), covers 99.3% of PF11016, 154.0 bits

• Glutathione S-transferase activity facilitates rice tolerance to the barnyard grass root exudate DIMBOA
  Zhang, BMC plant biology 2024
  • “...12 Q10QZ4 Elongation factor 1-alpha 34.07572383 10 19 Q0JKY8 Carbonic anhydrase (Fragment) 41.63701068 10 24 B8BA11 Uncharacterized protein 33.56643357 9 11 A0A0E0IVE3 Uncharacterized protein 10.76023392 9 25 A0A0E0HK09 Uncharacterized protein 20.63227953 9 10 P46265 Tubulin beta-5 chain 25.05592841 9 11 A0A0E0ITA5 Tubulin beta chain 25.16853933 9...”

B7G7J9 Thylakoid membrane protein from Phaeodactylum tricornutum (strain CCAP 1055/1)
Aligns to 106:256 / 300 (50.3%), covers 97.3% of PF11016, 147.5 bits

• Loss of CpFTSY Reduces Photosynthetic Performance and Affects Insertion of PsaC of PSI in Diatoms
  Nymark, Plant & cell physiology 2023
  • “...18.6 B7FWZ2 FeS assembly-like protein FeS cluster biosynthesis 1.36 2.36 Cp N 7 7 26.4 B7G7J9 APE1-homolog Photoacclimation 1.16 1.58 TM N 5 5 52.5 B5Y3Z3 ABC1K6 Stress responses 0.71 1.16 PG N 7 7 19.5 B7FY63 ABC1K7/8-like protein Stress responses 1.27 1.55 PG N 1...”

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