Summary: Photosynthesis system II assembly factor YCF48
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YCF48 is one of several assembly factors of the photosynthesis system II. The photosynthesis system II occurs in Cyanobacteria that are Gram-negative bacteria performing oxygenic photosynthesis. One of the three membranes surrounding these bacteria is the inner thylakoid membrane (TM) system that is localised within the cell and houses the large pigment-protein complexes of the photosynthetic electron transfer chain, i.e. Photosystem (PS) II, PSI, the cytochrome b6f complex, and the ATP synthase. YCF48 is necessary for efficient assembly and repair of the PSII . YCF48 is found predominantly in the thykaloid membrane . It is a BNR repeat protein.
Komenda J, Nickelsen J, Tichy M, Prasil O, Eichacker LA, Nixon PJ;, J Biol Chem. 2008;283:22390-22399.: The cyanobacterial homologue of HCF136/YCF48 is a component of an early photosystem II assembly complex and is important for both the efficient assembly and repair of photosystem II in Synechocystis sp. PCC 6803. PUBMED:18550538 EPMC:18550538
Rengstl B, Oster U, Stengel A, Nickelsen J;, J Biol Chem. 2011;286:21944-21951.: An intermediate membrane subfraction in cyanobacteria is involved in an assembly network for Photosystem II biogenesis. PUBMED:21531723 EPMC:21531723
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR028203
This entry represents a domain found in the photosynthesis system II assembly factor YCF48/HCF136 and associated proteins.
The photosynthesis system II (PSII) is a multi-subunit pigment-protein complex responsible for water oxidation during oxygenic photosynthesis [PUBMED:18550538]. PSII can be found in the thylakoid membrane of chloroplasts and cyanobacteria. Its assembly is regulated by PSII assembly factors including Ycf48/Hcf136, Psb27 and Psb28. Ycf48/Hcf136 contains the BNR repeats and can be found predominantly in the thykaloid membrane. Ycf48/Hcf136 is required for assembly and repair of an early intermediate in PSII assembly that includes D2 (psbD) and cytochrome b559 [PUBMED:18550538, PUBMED:21531723]. This domain can also be found in some YCF48-like proteins that may not affect PSII activity.
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This superfamily includes sialidases enzymes. Several viruses use sialic acid as a cell surface receptor for host invasion. These viruses then have cell surface neuraminidase enzymes to cleave sialic acid from cell surface proteins allowing them to leave the host cell after replication. This superfamily are composed of six beta-sheets that form a six-fold beta-propeller structure. Many members of this superfamily contain BNR sequence motifs Pfam:PF02012.
The clan contains the following 11 members:BNR BNR_2 BNR_3 BNR_4 BNR_6 End_beta_barrel End_beta_propel HN Neur PSII_BNR Sortilin-Vps10
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Curation and family details
|Seed source:||Pfam-B_547 (release 26.0)|
|Number in seed:||18|
|Number in full:||2098|
|Average length of the domain:||139.20 aa|
|Average identity of full alignment:||26 %|
|Average coverage of the sequence by the domain:||52.57 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 80369284 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||2|
|Download:||download the raw HMM for this family|
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the PSII_BNR domain has been found. There are 1 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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