Query psy9638
Match_columns 85
No_of_seqs 100 out of 138
Neff 4.0
Searched_HMMs 46136
Date Sat Aug 17 00:49:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9638.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9638hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07189 SF3b10: Splicing fact 100.0 1.1E-56 2.4E-61 294.1 9.0 79 3-81 1-79 (79)
2 KOG3485|consensus 100.0 9.1E-52 2E-56 273.7 7.2 84 1-84 1-85 (86)
3 PF10022 DUF2264: Uncharacteri 82.5 3.9 8.4E-05 32.9 5.6 74 3-81 173-255 (361)
4 PF02909 TetR_C: Tetracyclin r 53.6 36 0.00078 21.8 4.4 44 27-72 7-50 (139)
5 COG4519 Uncharacterized protei 53.6 11 0.00024 25.7 1.9 16 28-43 76-91 (95)
6 PF03181 BURP: BURP domain; I 43.2 31 0.00066 26.1 3.1 35 46-84 46-80 (216)
7 PF13215 DUF4023: Protein of u 41.8 30 0.00065 20.1 2.3 24 3-26 9-32 (38)
8 PF04614 Pex19: Pex19 protein 37.9 12 0.00025 28.5 0.2 16 65-81 201-216 (248)
9 PF07627 PSCyt3: Protein of un 37.2 46 0.00099 22.4 3.0 41 42-82 4-45 (101)
10 PF12616 DUF3775: Protein of u 36.8 93 0.002 20.0 4.3 52 3-56 11-69 (75)
11 cd07594 BAR_Endophilin_B The B 31.7 1.1E+02 0.0025 23.2 4.7 32 28-72 29-60 (229)
12 PF05750 Rubella_Capsid: Rubel 30.5 23 0.0005 27.8 0.8 12 71-82 192-203 (300)
13 PF15178 TOM_sub5: Mitochondri 30.1 1.4E+02 0.0029 18.4 4.1 36 18-57 4-39 (51)
14 PF01152 Bac_globin: Bacterial 27.5 1.1E+02 0.0023 19.7 3.4 48 30-80 10-57 (120)
15 KOG2468|consensus 27.0 26 0.00057 30.1 0.6 10 38-47 423-432 (510)
16 PF07466 DUF1517: Protein of u 25.4 67 0.0014 25.2 2.5 46 6-57 119-164 (289)
17 PF13978 DUF4223: Protein of u 25.1 51 0.0011 20.6 1.5 13 69-81 43-55 (56)
18 PF08960 DUF1874: Domain of un 25.1 22 0.00048 24.4 -0.2 42 25-66 24-67 (105)
19 PF14198 TnpV: Transposon-enco 25.0 1.9E+02 0.0042 19.5 4.5 51 28-79 30-80 (111)
20 KOG3541|consensus 25.0 57 0.0012 27.9 2.2 36 39-74 262-299 (477)
21 PF07757 AdoMet_MTase: Predict 24.8 52 0.0011 23.0 1.6 17 2-18 2-18 (112)
22 cd00252 SPARC_EC SPARC_EC; ext 23.4 1.1E+02 0.0025 20.6 3.1 19 29-47 15-35 (116)
23 PF13774 Longin: Regulated-SNA 23.1 19 0.0004 22.1 -0.8 27 47-73 31-57 (83)
24 PRK11188 rrmJ 23S rRNA methylt 23.0 65 0.0014 23.2 1.9 25 22-46 3-28 (209)
25 KOG3821|consensus 21.7 64 0.0014 28.1 1.9 45 36-83 306-350 (563)
26 TIGR02791 VirB5 P-type DNA tra 21.4 1.4E+02 0.003 22.0 3.4 19 34-52 58-76 (220)
27 PF00284 Cytochrom_B559a: Lume 20.0 66 0.0014 18.9 1.2 13 2-14 26-38 (40)
No 1
>PF07189 SF3b10: Splicing factor 3B subunit 10 (SF3b10); InterPro: IPR009846 This family consists of several eukaryotic splicing factor 3B subunit 5 (SF3b5) proteins. SF3b5 is a 10 kDa subunit of the splicing factor SF3b. SF3b associates with the splicing factor SF3a and a 12S RNA unit to form the U2 small nuclear ribonucleoproteins complex. SF3b5 and SF3b14b are also thought to facilitate the interaction of U2 with the branch site []. Also included in this entry is RDS3 complex subunit 10, another protein involved in mRNA splicing [].
Probab=100.00 E-value=1.1e-56 Score=294.07 Aligned_cols=79 Identities=72% Similarity=1.230 Sum_probs=78.4
Q ss_pred hhhhhHHHHHHHHhhccCCCCCCCchHHHHHHhhhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHhhCCCCCCCC
Q psy9638 3 DRYNIYSQLEHLQSKYVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERMLQPCGPPPE 81 (85)
Q Consensus 3 dr~~~~~Qle~Lq~KY~GtG~~dtTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM~~pcgppp~ 81 (85)
||+++++||||||+||+||||+||||+||++||||||||||+||++||+|||||+|+|++|+|++||+||+|||||||+
T Consensus 1 Dk~~~~~qle~Lq~KY~GtG~~dTTk~EW~tnihRDT~aS~~gH~~lL~Y~aia~ne~~~r~r~~ll~kM~~p~g~pp~ 79 (79)
T PF07189_consen 1 DKYRIQQQLEHLQSKYVGTGHADTTKEEWLTNIHRDTYASIIGHPDLLEYFAIAENESKARVRFNLLEKMVQPCGPPPP 79 (79)
T ss_pred ChhhHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHhcCHHHHHHHHHhcCCCHHHHHHHHHHHHhccCCCCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999999996
No 2
>KOG3485|consensus
Probab=100.00 E-value=9.1e-52 Score=273.74 Aligned_cols=84 Identities=81% Similarity=1.336 Sum_probs=80.7
Q ss_pred CchhhhhHHHHHHHHhhccCCCCCCCchHHHHHHhhhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHhhCCCCC-C
Q psy9638 1 MGDRYNIYSQLEHLQSKYVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERMLQPCGP-P 79 (85)
Q Consensus 1 M~dr~~~~~Qle~Lq~KY~GtG~~dtTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM~~pcgp-p 79 (85)
|+|||++++||||||+||+||||+||||+||++||||||++|+|||+++|.||+||||||++|+|+|+|+||++|||| |
T Consensus 1 ~~dRf~i~aqLEhLQskYvGtg~a~~tk~ew~vnq~RdS~~S~vgh~~~l~Y~a~ae~Ep~~rvr~N~lekml~pcg~wp 80 (86)
T KOG3485|consen 1 MGDRFNIHAQLEHLQSKYVGTGHADTTKFEWLVNQHRDSLASYVGHYPLLNYFAIAENEPKARVRFNLLEKMLQPCGPWP 80 (86)
T ss_pred CcchhhHHHHHHHHHHHhhcccccccchHHHHHhcchhhhhhhcCCchHHHHHHHhccCchhhhhhcHHHHhhcccCCCC
Confidence 899999999999999999999999999999999999999999999999999999999999999999999999999999 5
Q ss_pred CCCCC
Q psy9638 80 PEKPE 84 (85)
Q Consensus 80 p~~~~ 84 (85)
|.+++
T Consensus 81 p~~e~ 85 (86)
T KOG3485|consen 81 PEKEE 85 (86)
T ss_pred Ccccc
Confidence 55544
No 3
>PF10022 DUF2264: Uncharacterized protein conserved in bacteria (DUF2264); InterPro: IPR016624 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=82.55 E-value=3.9 Score=32.92 Aligned_cols=74 Identities=28% Similarity=0.385 Sum_probs=56.8
Q ss_pred hhhhhHHHHHHHHhhccCCCCCCCchHHHHHHhhhHHHHhhhCChhHHHHHHHhcCchHH---HHHH------HHHHHhh
Q psy9638 3 DRYNIYSQLEHLQSKYVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKA---RVRF------NFMERML 73 (85)
Q Consensus 3 dr~~~~~Qle~Lq~KY~GtG~~dtTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~---r~r~------~llekM~ 73 (85)
|..++..-++.+.+=|+|=|=-.-.. +-|.|=|+|.+-|+-+|-|..++....+. +.|. +-.++|+
T Consensus 173 d~~~i~~~l~~~e~~Y~GdGWY~DG~-----~~~~DYYns~aih~y~l~~~~~~~~~~~~~~~~~~~Ra~~fa~~~~~~f 247 (361)
T PF10022_consen 173 DEERIDYDLERIEEWYLGDGWYSDGP-----EFQFDYYNSWAIHPYLLLYARLMGDEDPERAARYRQRAQRFAEDYERMF 247 (361)
T ss_pred cHHHHHHHHHHHHHHhccCCccccCC-----ccCCcchHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHHc
Confidence 55677888999999999998653332 66999999999999999999999877532 3332 2357899
Q ss_pred CCCCCCCC
Q psy9638 74 QPCGPPPE 81 (85)
Q Consensus 74 ~pcgppp~ 81 (85)
.|.|-+|+
T Consensus 248 ~~dG~~~~ 255 (361)
T PF10022_consen 248 SPDGAAPP 255 (361)
T ss_pred CCCCCcCC
Confidence 99996654
No 4
>PF02909 TetR_C: Tetracyclin repressor, C-terminal all-alpha domain; InterPro: IPR004111 The antibiotic tetracycline has a broad spectrum of activity, acting to inhibit bacterial protein synthesis by binding to the 30S ribosomal subunit, which prevents the association of the aminoacyl-tRNA to the ribosomal acceptor A site. Tetracycline binding is reversible, therefore diluting out the antibiotic can reverse its effects. Tetracycline resistance genes are often located on mobile elements, such as plasmids, transposons and/or conjugative transposons, which can sometimes be transferred between bacterial species. In certain cases, tetracycline can enhance the transfer of these elements, thereby promoting resistance amongst a bacterial colony. There are three types of tetracycline resistance: tetracycline efflux, ribosomal protection, and tetracycline modification [, ]: Tetracycline efflux proteins belong to the major facilitator superfamily. Efflux proteins are membrane-associated proteins that recognise and export tetracycline from the cell. They are found in both Gram-positive and Gram-negative bacteria []. There are at least 22 different tetracycline efflux proteins, grouped according to sequence similarity: Group 1 are Tet(A), Tet(B), Tet(C), Tet(D), Tet(E), Tet(G), Tet(H), Tet(J), Tet(Z) and Tet(30); Group 2 are Tet(K) and Tet(L); Group 3 are Otr(B) and Tcr(3); Group 4 is TetA(P); Group 5 is Tet(V). In addition, there are the efflux proteins Tet(31), Tet(33), Tet(V), Tet(Y), Tet(34), and Tet(35). Ribosomal protection proteins are cytoplasmic proteins that display homology with the elongation factors EF-Tu and EF-G. Protection proteins bind the ribosome, causing an alteration in ribosomal conformation that prevents tetracycline from binding. There are at least ten ribosomal protection proteins: Tet(M), Tet(O), Tet(S), Tet(W), Tet(32), Tet(36), Tet(Q), Tet(T), Otr(A), and TetB(P). Both Tet(M) and Tet(O) have ribosome-dependent GTPase activity, the hydrolysis of GTP providing the energy for the ribosomal conformational changes. Tetracycline modification proteins include the enzymes Tet(37) and Tet(X), both of which inactivate tetracycline. In addition, there are the tetracycline resistance proteins Tet(U) and Otr(C). The expression of several of these tet genes is controlled by a family of tetracycline transcriptional regulators known as TetR. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity []. The TetR proteins identified in over 115 genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the C-terminal domain found in the tetracycline transcriptional repressor TetR, which binds to the Tet(A) gene to repress its expression in the absence of tetracycline []. Tet(A) is a membrane-associated efflux protein that exports tetracycline from the cell before it can attach to ribosomes and inhibit polypeptide chain growth. TetR occurs as a homodimer and uses two helix-turn-helix (HTH) motifs to bind tandem DNA operators, thereby blocking the expression of the associated genes, TetA and TetR. The structure of the class D TetR repressor protein [] involves 10 alpha-helices, with connecting turns and loops. The three N-terminal helices constitute the DNA-binding HTH domain, which has an inverse orientation compared with HTH motifs in other DNA-binding proteins. The core of the protein, formed by helices 5-10, is responsible for dimerisation and contains, for each monomer, a binding pocket that accommodates tetracycline in the presence of a divalent cation.; GO: 0045892 negative regulation of transcription, DNA-dependent; PDB: 2Y30_B 3ZQL_C 2Y31_B 2Y2Z_A 2VPR_A 3B6A_A 3B6C_A 2OPT_A 2NS7_B 2NS8_C ....
Probab=53.62 E-value=36 Score=21.84 Aligned_cols=44 Identities=23% Similarity=0.209 Sum_probs=32.4
Q ss_pred chHHHHHHhhhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHh
Q psy9638 27 TKFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERM 72 (85)
Q Consensus 27 Tk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM 72 (85)
.=.||+...-+...+.+.-||.+..+++-....+...++ ++|.+
T Consensus 7 ~W~~~l~~~a~~~r~~~~~hP~~~~~~~~~~~~~p~~l~--~~e~~ 50 (139)
T PF02909_consen 7 DWRERLRALARAYRAALLRHPWLAELLLARPPPGPNALR--LMEAM 50 (139)
T ss_dssp EHHHHHHHHHHHHHHHHHTSTTHHHHHHTSSCTSHHHHH--HHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHCcCHHHHHHhcCCCChhHHH--HHHHH
Confidence 457899999999999999999999998655444444333 44443
No 5
>COG4519 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.58 E-value=11 Score=25.67 Aligned_cols=16 Identities=38% Similarity=0.655 Sum_probs=14.6
Q ss_pred hHHHHHHhhhHHHHhh
Q psy9638 28 KFEWLVNIHRDSYASY 43 (85)
Q Consensus 28 k~EW~tn~hRDT~aS~ 43 (85)
+.||++.+|||..|++
T Consensus 76 ~~~Wv~E~h~~IaAal 91 (95)
T COG4519 76 RREWVVEQHRRIAAAL 91 (95)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 6799999999999986
No 6
>PF03181 BURP: BURP domain; InterPro: IPR004873 The BURP domain is a ~230-residue module, which has been named for the four members of the group initially identified, BNM2, USP, RD22, and PG1beta. It is found in the C-terminal part of a number of plant cell wall proteins, which are defined not only by the BURP domain, but also by the overall similarity in their modular construction. The BURP domain proteins consists of either three or four modules: (i) an N-terminal hydrophobic domain - a presumptive transit peptide, joined to (ii) a short conserved segment or other short segment, (iii) an optional segment consisting of repeated units which is unique to each member, and (iv) the C-terminal BURP domain. Although the BURP domain proteins share primary structural features, their expression patterns and the conditions under which they are expressed differ. The presence of the conserved BURP domain in diverse plant proteins suggests an important and fundamental functional role for this domain []. It is possible that the BURP domain represents a general motif for localization of proteins within the cell wall matrix. The other structural domains associated with the BURP domain may specify other target sites for intermolecular interactions []. Some proteins known to contain a BURP domain are listed below [, , ]: Brassica protein BNM2, which is expressed during the induction of microspore embryogenesis. Field bean USPs, abundant non-storage seed proteins with unknown function. Soybean USP-like proteins ADR6 (or SALI5-4A), an auxin-repressible, aluminium-inducible protein and SALI3-2, a protein that is up-regulated by aluminium. Soybean seed coat BURP-domain protein 1 (SCB1). It might play a role in the differentiation of the seed coat parenchyma cells. Arabidopsis RD22 drought induced protein. Maize ZRP2, a protein of unknown function in cortex parenchyma. Tomato PG1beta, the beta-subunit of polygalacturonase isozyme 1 (PG1), which is expressed in ripening fruits. Cereal RAFTIN. It is essential specifically for the maturation phase of pollen development.
Probab=43.15 E-value=31 Score=26.12 Aligned_cols=35 Identities=34% Similarity=0.512 Sum_probs=26.2
Q ss_pred ChhHHHHHHHhcCchHHHHHHHHHHHhhCCCCCCCCCCC
Q psy9638 46 HYNMLNLFSINENEAKARVRFNFMERMLQPCGPPPEKPE 84 (85)
Q Consensus 46 H~~lL~Y~aia~nes~~r~r~~llekM~~pcgppp~~~~ 84 (85)
-+.+|.+|+|..|-..+..-.+-|+ -|..||.+-|
T Consensus 46 l~~iL~~Fsi~~~S~~A~~m~~Tl~----~Ce~~~~~GE 80 (216)
T PF03181_consen 46 LPEILQMFSIPPGSPMAKAMKNTLE----ECESPPIKGE 80 (216)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHH----HhhcCCCCCc
Confidence 4789999999999877755544444 4998887655
No 7
>PF13215 DUF4023: Protein of unknown function (DUF4023)
Probab=41.83 E-value=30 Score=20.11 Aligned_cols=24 Identities=17% Similarity=0.281 Sum_probs=18.6
Q ss_pred hhhhhHHHHHHHHhhccCCCCCCC
Q psy9638 3 DRYNIYSQLEHLQSKYVGTGHADT 26 (85)
Q Consensus 3 dr~~~~~Qle~Lq~KY~GtG~~dt 26 (85)
||++..+.-...-.+..|.||++-
T Consensus 9 ~Kl~e~Q~K~e~Nk~~qG~G~P~~ 32 (38)
T PF13215_consen 9 EKLNETQEKQEKNKKHQGKGNPSK 32 (38)
T ss_pred HHHHHHHHHHHHHHhccCCCCchh
Confidence 677777777677777899999863
No 8
>PF04614 Pex19: Pex19 protein family; InterPro: IPR006708 Peroxisome(s) form an intracellular compartment, bounded by a typical lipid bilayer membrane. Peroxisome functions are often specialised by organism and cell type; two widely distributed and well-conserved functions are H2O2-based respiration and fatty acid beta-oxidation. Other functions include ether lipid (plasmalogen) synthesis and cholesterol synthesis in animals, the glyoxylate cycle in germinating seeds ("glyoxysomes"), photorespiration in leaves, glycolysis in trypanosomes ("glycosomes"), and methanol and/or amine oxidation and assimilation in some yeasts. PEX genes encode the machinery ("peroxins") required to assemble the peroxisome. Membrane assembly and maintenance requires three of these (peroxins 3, 16, and 19) and may occur without the import of the matrix (lumen) enzymes. Matrix protein import follows a branched pathway of soluble recycling receptors, with one branch for each class of peroxisome targeting sequence (two are well characterised), and a common trunk for all. At least one of these receptors, Pex5p, enters and exits peroxisomes as it functions. Proliferation of the organelle is regulated by Pex11p. Peroxisome biogenesis is remarkably conserved among eukaryotes. A group of fatal, inherited neuropathologies are recognised as peroxisome biogenesis diseases. ; GO: 0005777 peroxisome; PDB: 2WL8_B 2W85_B.
Probab=37.94 E-value=12 Score=28.54 Aligned_cols=16 Identities=44% Similarity=0.806 Sum_probs=8.1
Q ss_pred HHHHHHHhhCCCCCCCC
Q psy9638 65 RFNFMERMLQPCGPPPE 81 (85)
Q Consensus 65 r~~llekM~~pcgppp~ 81 (85)
=..|+.+| |-||.||.
T Consensus 201 i~~lmqem-Q~~G~PP~ 216 (248)
T PF04614_consen 201 IMELMQEM-QELGQPPE 216 (248)
T ss_dssp HHHHHHHH-HHT----G
T ss_pred HHHHHHHH-HHcCCCcH
Confidence 34577777 66999996
No 9
>PF07627 PSCyt3: Protein of unknown function (DUF1588); InterPro: IPR013039 A region of similarity shared by several Rhodopirellula baltica cytochrome-like proteins that are predicted to be secreted. These proteins also contain IPR011478 from INTERPRO, IPR013036 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.
Probab=37.21 E-value=46 Score=22.42 Aligned_cols=41 Identities=20% Similarity=0.199 Sum_probs=29.3
Q ss_pred hhhCChhHHHHHHHhcC-chHHHHHHHHHHHhhCCCCCCCCC
Q psy9638 42 SYMGHYNMLNLFSINEN-EAKARVRFNFMERMLQPCGPPPEK 82 (85)
Q Consensus 42 S~~gH~~lL~Y~aia~n-es~~r~r~~llekM~~pcgppp~~ 82 (85)
-+.+|.++|+-.|-... .++.|=++-+=.=|.+|.+|||+.
T Consensus 4 GlLt~~~~Lt~~s~~~~tsPv~RG~~v~~~lLc~~~ppPP~~ 45 (101)
T PF07627_consen 4 GLLTQGAFLTRTSDGDRTSPVHRGVWVRERLLCQPPPPPPPN 45 (101)
T ss_pred hhhhhHHHHhccCCCCCCCchHHHHHHHHHHcCCCCCCCCCC
Confidence 46788888888887664 466666666666677888888863
No 10
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=36.85 E-value=93 Score=19.98 Aligned_cols=52 Identities=17% Similarity=0.217 Sum_probs=38.2
Q ss_pred hhhhhHHHHHHHHhhccCCCCCCCchHHHHH--Hhh-----hHHHHhhhCChhHHHHHHHh
Q psy9638 3 DRYNIYSQLEHLQSKYVGTGHADTTKFEWLV--NIH-----RDSYASYMGHYNMLNLFSIN 56 (85)
Q Consensus 3 dr~~~~~Qle~Lq~KY~GtG~~dtTk~EW~t--n~h-----RDT~aS~~gH~~lL~Y~aia 56 (85)
+.++..+|.+.+---|+|=| |-+-.||-. ... ..|..=++|+|.+-.|+.=+
T Consensus 11 ~~l~~deqaeLvALmwiGRG--d~~~eew~~a~~~A~~~~~~~ta~YLl~~p~ladyLe~G 69 (75)
T PF12616_consen 11 EDLNEDEQAELVALMWIGRG--DFEAEEWEEAVAEARERASARTADYLLGTPMLADYLEEG 69 (75)
T ss_pred HhCCHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHHHhccchHHHHHHcCCcHHHHHHHH
Confidence 56788889999999999999 666666643 222 23455589999999997543
No 11
>cd07594 BAR_Endophilin_B The Bin/Amphiphysin/Rvs (BAR) domain of Endophilin-B. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Endophilins play roles in synaptic vesicle formation, virus budding, mitochondrial morphology maintenance, receptor-mediated endocytosis inhibition, and endosomal sorting. Endophilins contain an N-terminal N-BAR domain (BAR domain with an additional N-terminal amphipathic helix), followed by a variable region containing proline clusters, and a C-terminal SH3 domain. They are classified into two types, A and B. Vertebrates contain two endophilin-B isoforms. Endophilin-B proteins are cytoplasmic proteins expressed mainly in the heart, placenta, and skeletal muscle.
Probab=31.74 E-value=1.1e+02 Score=23.17 Aligned_cols=32 Identities=22% Similarity=0.255 Sum_probs=26.8
Q ss_pred hHHHHHHhhhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHh
Q psy9638 28 KFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERM 72 (85)
Q Consensus 28 k~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM 72 (85)
..+|..+|++.|-+-+.+.|+. |++-.+.+||
T Consensus 29 ~~~~~e~i~~~~~~~lqpNp~~-------------r~~~~~~~k~ 60 (229)
T cd07594 29 TKVWTEKILKQTEAVLQPNPNV-------------RVEDFIYEKL 60 (229)
T ss_pred HHHHHHHHHHHHHHHhCCChhh-------------hHHHHHHHHh
Confidence 3589999999999999988864 7777777887
No 12
>PF05750 Rubella_Capsid: Rubella capsid protein; InterPro: IPR008819 Rubella virus is an enveloped positive-strand RNA virus of the family Togaviridae. Virions are composed of three structural proteins: a capsid and two membrane-spanning glycoproteins, E2 and E1. During virus assembly, the capsid interacts with genomic RNA to form nucleocapsids. It has been discovered that capsid phosphorylation serves to negatively regulate binding of viral genomic RNA. This may delay the initiation of nucleocapsid assembly until sufficient amounts of virus glycoproteins accumulate at the budding site and/or prevent non-specific binding to cellular RNA when levels of genomic RNA are low. It follows that at a late stage in replication, the capsid may undergo dephosphorylation before nucleocapsid assembly occurs []. This family is found together with IPR008820 from INTERPRO and IPR008821 from INTERPRO.; GO: 0016021 integral to membrane, 0019013 viral nucleocapsid
Probab=30.50 E-value=23 Score=27.76 Aligned_cols=12 Identities=50% Similarity=1.173 Sum_probs=9.8
Q ss_pred HhhCCCCCCCCC
Q psy9638 71 RMLQPCGPPPEK 82 (85)
Q Consensus 71 kM~~pcgppp~~ 82 (85)
-|..||||-|+.
T Consensus 192 lmynpcgpeppa 203 (300)
T PF05750_consen 192 LMYNPCGPEPPA 203 (300)
T ss_pred hhcCCCCCCChh
Confidence 478999998874
No 13
>PF15178 TOM_sub5: Mitochondrial import receptor subunit TOM5 homolog
Probab=30.11 E-value=1.4e+02 Score=18.35 Aligned_cols=36 Identities=19% Similarity=0.180 Sum_probs=27.0
Q ss_pred ccCCCCCCCchHHHHHHhhhHHHHhhhCChhHHHHHHHhc
Q psy9638 18 YVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINE 57 (85)
Q Consensus 18 Y~GtG~~dtTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~ 57 (85)
-.|+| +-..-+|--....+|+++|+ .+.|-|+|+-.
T Consensus 4 ~egl~-pk~DPeE~k~kmR~dvissv---rnFliyVALlR 39 (51)
T PF15178_consen 4 IEGLG-PKMDPEEMKRKMREDVISSV---RNFLIYVALLR 39 (51)
T ss_pred cccCC-CCCCHHHHHHHHHHHHHHHH---HHHHHHHHHHH
Confidence 34666 34456788888999999998 57888888753
No 14
>PF01152 Bac_globin: Bacterial-like globin; InterPro: IPR001486 Globins are haem-containing proteins involved in binding and/or transporting oxygen. They belong to a very large and well studied family that is widely distributed in many organisms []. Globins have evolved from a common ancestor and can be divided into three groups: single-domain globins, and two types of chimeric globins, flavohaemoglobins and globin-coupled sensors. Bacteria have all three types of globins, while archaea lack flavohaemoglobins, and eukaryotes lack globin-coupled sensors []. Several functionally different haemoglobins can coexist in the same species. The major types of globins include: Haemoglobin (Hb): trimer of two alpha and two beta chains, although embryonic and foetal forms can substitute the alpha or beta chain for ones with higher oxygen affinity, such as gamma, delta, epsilon or zeta chains. Hb transports oxygen from lungs to other tissues in vertebrates []. Hb proteins are also present in unicellular organisms where they act as enzymes or sensors []. Myoglobin (Mb): monomeric protein responsible for oxygen storage in vertebrate muscle []. Neuroglobin: a myoglobin-like haemprotein expressed in vertebrate brain and retina, where it is involved in neuroprotection from damage due to hypoxia or ischemia []. Neuroglobin belongs to a branch of the globin family that diverged early in evolution. Cytoglobin: an oxygen sensor expressed in multiple tissues. Related to neuroglobin []. Erythrocruorin: highly cooperative extracellular respiratory proteins found in annelids and arthropods that are assembled from as many as 180 subunit into hexagonal bilayers []. Leghaemoglobin (legHb or symbiotic Hb): occurs in the root nodules of leguminous plants, where it facilitates the diffusion of oxygen to symbiotic bacteriods in order to promote nitrogen fixation. Non-symbiotic haemoglobin (NsHb): occurs in non-leguminous plants, and can be over-expressed in stressed plants []. Flavohaemoglobins (FHb): chimeric, with an N-terminal globin domain and a C-terminal ferredoxin reductase-like NAD/FAD-binding domain. FHb provides protection against nitric oxide via its C-terminal domain, which transfers electrons to haem in the globin []. Globin-coupled sensors: chimeric, with an N-terminal myoglobin-like domain and a C-terminal domain that resembles the cytoplasmic signalling domain of bacterial chemoreceptors. They bind oxygen, and act to initiate an aerotactic response or regulate gene expression [, ]. Protoglobin: a single domain globin found in archaea that is related to the N-terminal domain of globin-coupled sensors []. Truncated 2/2 globin: lack the first helix, giving them a 2-over-2 instead of the canonical 3-over-3 alpha-helical sandwich fold. Can be divided into three main groups (I, II and II) based on structural features []. This entry represents a group of haemoglobin-like proteins found in eubacteria, cyanobacteria, protozoa, algae and plants, but not in animals or yeast. These proteins have a truncated 2-over-2 rather than the canonical 3-over-3 alpha-helical sandwich fold []. This entry includes: HbN (or GlbN): a truncated haemoglobin-like protein that binds oxygen cooperatively with a very high affinity and a slow dissociation rate, which may exclude it from oxygen transport. It appears to be involved in bacterial nitric oxide detoxification and in nitrosative stress []. Cyanoglobin (or GlbN): a truncated haemoprotein found in cyanobacteria that has high oxygen affinity, and which appears to serve as part of a terminal oxidase, rather than as a respiratory pigment []. HbO (or GlbO): a truncated haemoglobin-like protein with a lower oxygen affinity than HbN. HbO associates with the bacterial cell membrane, where it significantly increases oxygen uptake over membranes lacking this protein. HbO appears to interact with a terminal oxidase, and could participate in an oxygen/electron-transfer process that facilitates oxygen transfer during aerobic metabolism []. Glb3: a nuclear-encoded truncated haemoglobin from plants that appears more closely related to HbO than HbN. Glb3 from Arabidopsis thaliana (Mouse-ear cress) exhibits an unusual concentration-independent binding of oxygen and carbon dioxide []. ; GO: 0019825 oxygen binding, 0015671 oxygen transport; PDB: 2BKM_B 1UVY_A 1DLW_A 2XYK_B 2IG3_A 2GKM_B 1S61_A 1S56_B 1RTE_B 2GLN_A ....
Probab=27.55 E-value=1.1e+02 Score=19.72 Aligned_cols=48 Identities=17% Similarity=0.183 Sum_probs=34.6
Q ss_pred HHHHHhhhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHhhCCCCCCC
Q psy9638 30 EWLVNIHRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERMLQPCGPPP 80 (85)
Q Consensus 30 EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM~~pcgppp 80 (85)
|=+..+...-|.-+.-++.+..||. +......|..+.+=+++=+|.|+
T Consensus 10 ~~I~~lv~~fY~rv~~d~~l~~~F~---~~d~~~~~~~~~~fl~~~~GGp~ 57 (120)
T PF01152_consen 10 EGIRALVDAFYDRVLADPRLKPFFE---GIDLEKHKEKQAEFLSQLLGGPP 57 (120)
T ss_dssp HHHHHHHHHHHHHHHT-TTTGGGGT---TSCHHHHHHHHHHHHHHHTTSSS
T ss_pred HHHHHHHHHHHHHHHcCHHHHhhcC---CCCHHHHHHHHHHHHHHHhCCCC
Confidence 3356667778888888888888887 55666777777777777788775
No 15
>KOG2468|consensus
Probab=27.01 E-value=26 Score=30.11 Aligned_cols=10 Identities=40% Similarity=0.594 Sum_probs=9.1
Q ss_pred HHHHhhhCCh
Q psy9638 38 DSYASYMGHY 47 (85)
Q Consensus 38 DT~aS~~gH~ 47 (85)
||.||++||.
T Consensus 423 DTmASiiG~r 432 (510)
T KOG2468|consen 423 DTMASIIGKR 432 (510)
T ss_pred hHHHHHHhhh
Confidence 8999999985
No 16
>PF07466 DUF1517: Protein of unknown function (DUF1517); InterPro: IPR010903 This family consists of several hypothetical glycine rich plant and bacterial proteins of around 300 residues in length. The function of this family is unknown.
Probab=25.41 E-value=67 Score=25.18 Aligned_cols=46 Identities=17% Similarity=0.192 Sum_probs=39.9
Q ss_pred hhHHHHHHHHhhccCCCCCCCchHHHHHHhhhHHHHhhhCChhHHHHHHHhc
Q psy9638 6 NIYSQLEHLQSKYVGTGHADTTKFEWLVNIHRDSYASYMGHYNMLNLFSINE 57 (85)
Q Consensus 6 ~~~~Qle~Lq~KY~GtG~~dtTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~ 57 (85)
..|..|+.|-.+ +||+.-||+..+-.+|.-.+.=|+...-|-...-
T Consensus 119 ~lQ~~L~~iA~~------adt~s~~Gl~~~L~E~~l~LLR~~~~wv~~~~~~ 164 (289)
T PF07466_consen 119 SLQRDLNRIAET------ADTSSPEGLARVLQETTLALLRHPEYWVYGSSES 164 (289)
T ss_pred HHHHHHHHHHHh------cCCCChhHHHHHHHHHHHHHHhCcCceEEEeecc
Confidence 467788888766 8999999999999999999999999988876554
No 17
>PF13978 DUF4223: Protein of unknown function (DUF4223)
Probab=25.11 E-value=51 Score=20.60 Aligned_cols=13 Identities=23% Similarity=0.925 Sum_probs=10.5
Q ss_pred HHHhhCCCCCCCC
Q psy9638 69 MERMLQPCGPPPE 81 (85)
Q Consensus 69 lekM~~pcgppp~ 81 (85)
|.||+-.|||+.+
T Consensus 43 ISKiIGGCGp~~~ 55 (56)
T PF13978_consen 43 ISKIIGGCGPAAQ 55 (56)
T ss_pred HHHHhcCCCCccc
Confidence 5699999999754
No 18
>PF08960 DUF1874: Domain of unknown function (DUF1874); InterPro: IPR015055 This entry is represented by Acidianus two-tailed virus, Orf117. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 2J85_A 2X4I_C.
Probab=25.10 E-value=22 Score=24.44 Aligned_cols=42 Identities=19% Similarity=0.173 Sum_probs=22.6
Q ss_pred CCchHHHHHHhhhHHHHhhhCChhHHHHHHHhcCc--hHHHHHH
Q psy9638 25 DTTKFEWLVNIHRDSYASYMGHYNMLNLFSINENE--AKARVRF 66 (85)
Q Consensus 25 dtTk~EW~tn~hRDT~aS~~gH~~lL~Y~aia~ne--s~~r~r~ 66 (85)
+.|..|.-..++-+.+-|.|||.+-.+.++---|. +..|+.+
T Consensus 24 ~it~~Ea~~~l~~~~~vSaIGH~sTa~lls~llg~~ip~NR~~i 67 (105)
T PF08960_consen 24 KITVEEAKELLQNEGFVSAIGHDSTAQLLSELLGVNIPMNRIQI 67 (105)
T ss_dssp EE-HHHHHHHHCTTTEEE----HHHHHHHHHHHT----------
T ss_pred eCCHHHHHHHHhcCceEEeeCcHHHHHHHHHHhCCccccccEEE
Confidence 45777777777889999999999988877755554 5555443
No 19
>PF14198 TnpV: Transposon-encoded protein TnpV
Probab=25.04 E-value=1.9e+02 Score=19.52 Aligned_cols=51 Identities=14% Similarity=0.157 Sum_probs=41.5
Q ss_pred hHHHHHHhhhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHhhCCCCCC
Q psy9638 28 KFEWLVNIHRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERMLQPCGPP 79 (85)
Q Consensus 28 k~EW~tn~hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM~~pcgpp 79 (85)
+.+||...++-.|..++--..|.+|++=.+.+...++ -+++++|....|.|
T Consensus 30 ~~~yLke~~p~~Y~~ll~~g~L~~~l~eid~~A~e~~-e~l~~q~~~~~gvt 80 (111)
T PF14198_consen 30 RKRYLKEHKPILYNNLLLSGKLNEHLAEIDEQAQERF-ERLVEQMAEKEGVT 80 (111)
T ss_pred HHHHHHHhHHHHHHHHHHcchHHHHHHHHHHHHHHHH-HHHHHHHHHhcCCc
Confidence 3589999999999999999999999987776655443 46788888888876
No 20
>KOG3541|consensus
Probab=25.03 E-value=57 Score=27.86 Aligned_cols=36 Identities=28% Similarity=0.465 Sum_probs=29.8
Q ss_pred HHHhhhCChhHHHHHHHhc--CchHHHHHHHHHHHhhC
Q psy9638 39 SYASYMGHYNMLNLFSINE--NEAKARVRFNFMERMLQ 74 (85)
Q Consensus 39 T~aS~~gH~~lL~Y~aia~--nes~~r~r~~llekM~~ 74 (85)
|+.+|+.|.+.|+|++--| -..+.+.|..|||.|++
T Consensus 262 sie~y~~wfn~Lsa~~Atevlk~~kk~~rsamlef~iD 299 (477)
T KOG3541|consen 262 SIERYMSWFNHLSALCATEVLKAAKKQTRSAMLEFLID 299 (477)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999999998777 34788899999999875
No 21
>PF07757 AdoMet_MTase: Predicted AdoMet-dependent methyltransferase; InterPro: IPR011671 tRNA (uracil-O(2)-)-methyltransferase catalyses the formation of O(2)-methyl-uracil at position 44 (m2U44) in tRNA(Ser) [].; GO: 0008168 methyltransferase activity
Probab=24.83 E-value=52 Score=23.04 Aligned_cols=17 Identities=18% Similarity=0.264 Sum_probs=15.3
Q ss_pred chhhhhHHHHHHHHhhc
Q psy9638 2 GDRYNIYSQLEHLQSKY 18 (85)
Q Consensus 2 ~dr~~~~~Qle~Lq~KY 18 (85)
-+|-+.|..|..||+||
T Consensus 2 V~~~~yq~~Y~~LK~kY 18 (112)
T PF07757_consen 2 VPKERYQDTYQRLKEKY 18 (112)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 36788999999999999
No 22
>cd00252 SPARC_EC SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate cell-matrix interactions; binds to such proteins as collagen and vitronectin and binds to endothelial cells thus inhibiting cellular proliferation. The EC domain interacts with a follistatin-like (FS) domain which appears to stabilize Ca2+ binding. The two EF-hands interact canonically but their conserved disulfide bonds confer a tight association between the EF-hand pair and an acid/amphiphilic N-terminal helix. Proposed active form involves a Ca2+ dependent symmetric homodimerization of EC-FS modules.
Probab=23.35 E-value=1.1e+02 Score=20.65 Aligned_cols=19 Identities=26% Similarity=0.450 Sum_probs=14.1
Q ss_pred HHHHHHhhhHHHHhh--hCCh
Q psy9638 29 FEWLVNIHRDSYASY--MGHY 47 (85)
Q Consensus 29 ~EW~tn~hRDT~aS~--~gH~ 47 (85)
-||+.|+++|++--. -||.
T Consensus 15 ~dW~~~~~~~~~~~~~~~~~~ 35 (116)
T cd00252 15 RDWFKNVHEDLKERDELEKHK 35 (116)
T ss_pred HHHHHHHHHHHhhcccchhhh
Confidence 489999999998633 4454
No 23
>PF13774 Longin: Regulated-SNARE-like domain; PDB: 1IOU_A 3BW6_A 1H8M_A 3EGX_C 2NUP_C 3EGD_C 2NUT_C 3KYQ_A 1IFQ_B 2VX8_D ....
Probab=23.10 E-value=19 Score=22.13 Aligned_cols=27 Identities=22% Similarity=0.421 Sum_probs=22.7
Q ss_pred hhHHHHHHHhcCchHHHHHHHHHHHhh
Q psy9638 47 YNMLNLFSINENEAKARVRFNFMERML 73 (85)
Q Consensus 47 ~~lL~Y~aia~nes~~r~r~~llekM~ 73 (85)
.+=+.|++|+..+-+.|+-|.||+.+.
T Consensus 31 ~~~i~~~citd~~~~~r~aF~fL~~i~ 57 (83)
T PF13774_consen 31 EDGIAYLCITDKSYPKRVAFAFLEEIK 57 (83)
T ss_dssp ETTEEEEEEEETTS-HHHHHHHHHHHH
T ss_pred cCCeEEEEEEcCCCCcchHHHHHHHHH
Confidence 566889999999999999999999875
No 24
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=22.99 E-value=65 Score=23.24 Aligned_cols=25 Identities=20% Similarity=0.432 Sum_probs=18.3
Q ss_pred CCC-CCchHHHHHHhhhHHHHhhhCC
Q psy9638 22 GHA-DTTKFEWLVNIHRDSYASYMGH 46 (85)
Q Consensus 22 G~~-dtTk~EW~tn~hRDT~aS~~gH 46 (85)
|+. ..+...|+.++.||-|.+..-.
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~~~~~~~ 28 (209)
T PRK11188 3 GKKRSASSSRWLQEHFSDKYVQQAQK 28 (209)
T ss_pred ccccccchHHHHHHhhcCHHHHHHhh
Confidence 443 4467889999999988776433
No 25
>KOG3821|consensus
Probab=21.70 E-value=64 Score=28.14 Aligned_cols=45 Identities=20% Similarity=0.229 Sum_probs=26.0
Q ss_pred hhHHHHhhhCChhHHHHHHHhcCchHHHHHHHHHHHhhCCCCCCCCCC
Q psy9638 36 HRDSYASYMGHYNMLNLFSINENEAKARVRFNFMERMLQPCGPPPEKP 83 (85)
Q Consensus 36 hRDT~aS~~gH~~lL~Y~aia~nes~~r~r~~llekM~~pcgppp~~~ 83 (85)
+++++-|.+.|-+.+--=||- ....=+-++.+||.|-||+|.+.+
T Consensus 306 g~~~iesvl~~i~v~iseAIm---~~q~N~~~lt~kV~q~Cg~p~~~p 350 (563)
T KOG3821|consen 306 GPFNIESVLLPIHVKISEAIM---AAQENSDKLTAKVFQGCGPPKPTP 350 (563)
T ss_pred CcchHHHHHhhhhhHHHHHHH---HHHHhhHHHHHHHHhhcCCCCCCc
Confidence 456666666655443211111 111234568899999999997653
No 26
>TIGR02791 VirB5 P-type DNA transfer protein VirB5. The VirB5 protein is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC as well as the P-type protein TrbJ and the F-type protein TraE.
Probab=21.43 E-value=1.4e+02 Score=22.01 Aligned_cols=19 Identities=26% Similarity=0.405 Sum_probs=13.0
Q ss_pred HhhhHHHHhhhCChhHHHH
Q psy9638 34 NIHRDSYASYMGHYNMLNL 52 (85)
Q Consensus 34 n~hRDT~aS~~gH~~lL~Y 52 (85)
++.++.|+|+-|++++-..
T Consensus 58 ~q~k~~y~sltG~r~~g~l 76 (220)
T TIGR02791 58 EQYKQQYGSLTGNRGMGDL 76 (220)
T ss_pred HHHHHHHHHHhCCCcHHHH
Confidence 6677777777777765443
No 27
>PF00284 Cytochrom_B559a: Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit family.; InterPro: IPR013082 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The alpha subunit (PsbE) of cytochrome b559, forms a haem-binding heterodimer with the beta subunit (PsbF) (IPR006241 from INTERPRO) within the reaction centre core of PSII. Both PsbE and PsbF are essential components for PSII assembly, and are probably involved in secondary electron transport mechanisms that help to protect PSII from photo-damage []. This domain occurs in the lumenal region of the alpha subunit. It is usually found in conjuction with an N-terminal domain (IPR013081 from INTERPRO).; GO: 0046872 metal ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane; PDB: 1W5C_K 1S5L_e 3BZ2_E 3PRQ_E 2AXT_E 4FBY_R 3PRR_E 3BZ1_E 3KZI_E 3A0H_E ....
Probab=20.01 E-value=66 Score=18.85 Aligned_cols=13 Identities=38% Similarity=0.675 Sum_probs=10.0
Q ss_pred chhhhhHHHHHHH
Q psy9638 2 GDRYNIYSQLEHL 14 (85)
Q Consensus 2 ~dr~~~~~Qle~L 14 (85)
.|||+..+|++.+
T Consensus 26 ~dRf~a~~qld~~ 38 (40)
T PF00284_consen 26 TDRFNAKQQLDEF 38 (40)
T ss_dssp --STTHHHHHHHH
T ss_pred ccccCHHHHHHHh
Confidence 6899999999876
Done!