Query psy8839
Match_columns 74
No_of_seqs 51 out of 53
Neff 2.8
Searched_HMMs 46136
Date Fri Aug 16 20:27:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8839.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8839hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0797|consensus 99.8 1.3E-20 2.9E-25 155.0 2.6 61 13-73 368-428 (618)
2 PF10767 DUF2593: Protein of u 73.6 0.83 1.8E-05 33.1 -0.6 22 29-50 91-112 (144)
3 KOG2943|consensus 64.9 2.3 5.1E-05 33.7 0.2 51 15-68 16-66 (299)
4 KOG0677|consensus 63.1 3.9 8.5E-05 33.3 1.2 27 21-47 248-274 (389)
5 PTZ00280 Actin-related protein 58.6 4.9 0.00011 30.7 1.0 25 19-43 263-287 (414)
6 PTZ00466 actin-like protein; P 56.0 6.7 0.00015 30.1 1.4 27 20-46 251-277 (380)
7 PF10844 DUF2577: Protein of u 48.9 5.2 0.00011 25.9 -0.2 17 17-33 72-88 (100)
8 PF05020 zf-NPL4: NPL4 family, 45.2 12 0.00026 27.0 1.2 18 56-73 37-54 (147)
9 PTZ00004 actin-2; Provisional 45.0 11 0.00024 28.5 1.0 24 21-44 249-272 (378)
10 PRK13183 psbN photosystem II r 37.0 15 0.00032 22.2 0.5 27 40-66 18-44 (46)
11 PTZ00281 actin; Provisional 37.0 18 0.00038 27.5 1.0 24 21-44 248-271 (376)
12 PTZ00452 actin; Provisional 36.2 19 0.00042 27.5 1.2 26 21-46 247-272 (375)
13 CHL00020 psbN photosystem II p 35.8 16 0.00034 21.7 0.5 27 40-66 15-41 (43)
14 KOG2792|consensus 32.2 6.2 0.00013 31.2 -2.1 40 33-73 198-243 (280)
15 KOG2428|consensus 32.0 34 0.00074 28.6 2.0 23 19-41 220-245 (443)
16 COG2947 Uncharacterized conser 26.5 31 0.00067 25.3 0.8 36 22-63 42-83 (156)
17 PRK06222 ferredoxin-NADP(+) re 25.5 21 0.00046 25.9 -0.2 18 21-38 75-94 (281)
18 cd03698 eRF3_II_like eRF3_II_l 24.8 34 0.00073 20.6 0.6 19 16-34 21-39 (83)
19 PF09482 OrgA_MxiK: Bacterial 24.5 33 0.00071 24.7 0.6 22 26-47 2-23 (182)
20 PF02468 PsbN: Photosystem II 23.4 26 0.00057 20.7 -0.1 9 58-66 33-41 (43)
21 cd04089 eRF3_II eRF3_II: domai 22.9 38 0.00082 20.4 0.6 19 16-34 20-38 (82)
22 PF01606 Arteri_env: Arterivir 22.6 41 0.00089 25.7 0.8 18 35-52 123-140 (214)
23 KOG0676|consensus 21.9 42 0.0009 27.0 0.8 27 22-48 245-271 (372)
No 1
>KOG0797|consensus
Probab=99.80 E-value=1.3e-20 Score=155.04 Aligned_cols=61 Identities=34% Similarity=0.455 Sum_probs=58.5
Q ss_pred ccceeeeeEEEccchhhcccccccccccccccCCceeeeccCCCCCCCCCCChhhhhhccC
Q psy8839 13 FTVYLLGFDILVADECLIAPLGIFHPELLGLTGTKIVVTQSRAVSDPEDPHDGDYLRETSV 73 (74)
Q Consensus 13 f~~~~~kY~~kVgDE~m~APL~LFyP~lf~I~~~~~~~~q~r~~~DpED~~D~~YL~eT~~ 73 (74)
=+.+++||+||+|||+|+||||||||++|+|++.+++..|++.|+|||||||.+||++|+.
T Consensus 368 pn~~~~kytfk~~DE~mlAPlaLF~P~lf~~~~tk~~~~q~~~q~d~~d~fd~e~~~~~~~ 428 (618)
T KOG0797|consen 368 PNPPTLKYTFKLGDEVMLAPLALFYPNLFVIEGTKSHKNQSFPQPDREDLFDYEYLLEDTW 428 (618)
T ss_pred CCCcceeeeeeccchhhccchhhhhhhhhhccccccccccccCCCCcccccchhhhhhhcc
Confidence 3789999999999999999999999999999999999999999999999999999999874
No 2
>PF10767 DUF2593: Protein of unknown function (DUF2593); InterPro: IPR019703 This entry represents proteins that appear to be restricted to Enterobacteriaceae. Some members are annotated as YbjO, however there is currently no known function.
Probab=73.57 E-value=0.83 Score=33.06 Aligned_cols=22 Identities=36% Similarity=0.610 Sum_probs=18.7
Q ss_pred hcccccccccccccccCCceee
Q psy8839 29 LIAPLGIFHPELLGLTGTKIVV 50 (74)
Q Consensus 29 m~APL~LFyP~lf~I~~~~~~~ 50 (74)
+.|-||-||||+|.|.|++...
T Consensus 91 l~ASlg~~~PeiFsi~Ge~~~e 112 (144)
T PF10767_consen 91 LMASLGWFYPEIFSIEGESGRE 112 (144)
T ss_pred HHHHhccCCcceEEEcCCChHH
Confidence 4688999999999999988543
No 3
>KOG2943|consensus
Probab=64.89 E-value=2.3 Score=33.74 Aligned_cols=51 Identities=22% Similarity=0.204 Sum_probs=38.5
Q ss_pred ceeeeeEEEccchhhcccccccccccccccCCceeeeccCCCCCCCCCCChhhh
Q psy8839 15 VYLLGFDILVADECLIAPLGIFHPELLGLTGTKIVVTQSRAVSDPEDPHDGDYL 68 (74)
Q Consensus 15 ~~~~kY~~kVgDE~m~APL~LFyP~lf~I~~~~~~~~q~r~~~DpED~~D~~YL 68 (74)
...++|-|||||- |-.+-||.++||+.=-.+--+.+--.--|.-|+|+.|=
T Consensus 16 ~r~LH~VfkVgdr---~kti~Fyt~vlgMkvLRheef~egc~aacngpyd~kwS 66 (299)
T KOG2943|consen 16 RRALHYVFKVGDR---AKTIDFYTEVLGMKVLRHEEFEEGCEAACNGPYDGKWS 66 (299)
T ss_pred hheeeEeEeecch---HHHHHHHHHhhcceeeehhhhhhhhhhhcCCCcccchh
Confidence 3578999999996 46788999999987655555555555667788887764
No 4
>KOG0677|consensus
Probab=63.12 E-value=3.9 Score=33.31 Aligned_cols=27 Identities=33% Similarity=0.555 Sum_probs=24.0
Q ss_pred EEEccchhhcccccccccccccccCCc
Q psy8839 21 DILVADECLIAPLGIFHPELLGLTGTK 47 (74)
Q Consensus 21 ~~kVgDE~m~APL~LFyP~lf~I~~~~ 47 (74)
.||||-|-..||=+||.|.|..+.|.-
T Consensus 248 vIkvG~ERFeAPE~LFqP~Li~VE~~G 274 (389)
T KOG0677|consen 248 VIKVGGERFEAPEALFQPHLINVEGPG 274 (389)
T ss_pred EEEecceeccCchhhcCcceeccCCCc
Confidence 479999999999999999998877654
No 5
>PTZ00280 Actin-related protein 3; Provisional
Probab=58.56 E-value=4.9 Score=30.73 Aligned_cols=25 Identities=28% Similarity=0.534 Sum_probs=22.1
Q ss_pred eeEEEccchhhcccccccccccccc
Q psy8839 19 GFDILVADECLIAPLGIFHPELLGL 43 (74)
Q Consensus 19 kY~~kVgDE~m~APL~LFyP~lf~I 43 (74)
.+++.+|.|..++|-.||.|.+++.
T Consensus 263 ~~~i~l~~erf~~~E~LF~P~~~~~ 287 (414)
T PTZ00280 263 PYTVDVGYERFLGPEMFFHPEIFSS 287 (414)
T ss_pred ccEEEechHHhcCcccccChhhcCC
Confidence 4689999999999999999998754
No 6
>PTZ00466 actin-like protein; Provisional
Probab=55.98 E-value=6.7 Score=30.11 Aligned_cols=27 Identities=37% Similarity=0.543 Sum_probs=22.8
Q ss_pred eEEEccchhhcccccccccccccccCC
Q psy8839 20 FDILVADECLIAPLGIFHPELLGLTGT 46 (74)
Q Consensus 20 Y~~kVgDE~m~APL~LFyP~lf~I~~~ 46 (74)
.++.+|.|..++|-.||.|.++++...
T Consensus 251 ~~i~l~~er~~~~E~LF~P~~~g~~~~ 277 (380)
T PTZ00466 251 SQILIGSERYRAPEVLFNPSILGLEYL 277 (380)
T ss_pred cEEEEchHHhcCcccccCccccCCCCC
Confidence 357889999999999999999876543
No 7
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=48.87 E-value=5.2 Score=25.85 Aligned_cols=17 Identities=18% Similarity=0.241 Sum_probs=13.5
Q ss_pred eeeeEEEccchhhcccc
Q psy8839 17 LLGFDILVADECLIAPL 33 (74)
Q Consensus 17 ~~kY~~kVgDE~m~APL 33 (74)
+..-.+|+||+||+.|+
T Consensus 72 ~~~~~Lk~GD~V~ll~~ 88 (100)
T PF10844_consen 72 TFTDGLKVGDKVLLLRV 88 (100)
T ss_pred EEecCCcCCCEEEEEEe
Confidence 34557899999999883
No 8
>PF05020 zf-NPL4: NPL4 family, putative zinc binding region; InterPro: IPR007716 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation after ubiquitination of target proteins but before their recognition by the 26S proteasome []. This region of the protein contains possibly two zinc binding motifs. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing.
Probab=45.23 E-value=12 Score=26.97 Aligned_cols=18 Identities=33% Similarity=0.756 Sum_probs=14.8
Q ss_pred CCCCCCCCChhhhhhccC
Q psy8839 56 VSDPEDPHDGDYLRETSV 73 (74)
Q Consensus 56 ~~DpED~~D~~YL~eT~~ 73 (74)
..-|-+|||+.||.|.++
T Consensus 37 ~C~pLeP~D~~Y~~e~~I 54 (147)
T PF05020_consen 37 YCSPLEPWDEKYLKENNI 54 (147)
T ss_pred CCCCCCccCHHHHhhccc
Confidence 366889999999988654
No 9
>PTZ00004 actin-2; Provisional
Probab=44.96 E-value=11 Score=28.52 Aligned_cols=24 Identities=33% Similarity=0.558 Sum_probs=20.8
Q ss_pred EEEccchhhccccccccccccccc
Q psy8839 21 DILVADECLIAPLGIFHPELLGLT 44 (74)
Q Consensus 21 ~~kVgDE~m~APL~LFyP~lf~I~ 44 (74)
.+.+|+|..++|-.||.|++.++.
T Consensus 249 ~i~l~~er~~~~E~LF~P~~~~~~ 272 (378)
T PTZ00004 249 IITVGSERFRCPEALFQPSLIGKE 272 (378)
T ss_pred EEEEcHHHeeCcccccChhhcCcc
Confidence 467899999999999999987754
No 10
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=37.01 E-value=15 Score=22.16 Aligned_cols=27 Identities=33% Similarity=0.478 Sum_probs=14.6
Q ss_pred cccccCCceeeeccCCCCCCCCCCChh
Q psy8839 40 LLGLTGTKIVVTQSRAVSDPEDPHDGD 66 (74)
Q Consensus 40 lf~I~~~~~~~~q~r~~~DpED~~D~~ 66 (74)
|++|+|=....-=-+-...-.||||+|
T Consensus 18 L~~~TgyaiYtaFGppSk~LrDPFeeH 44 (46)
T PRK13183 18 LLALTGFGIYTAFGPPSKELDDPFDDH 44 (46)
T ss_pred HHHHhhheeeeccCCcccccCCchhhc
Confidence 346666554333333344567888876
No 11
>PTZ00281 actin; Provisional
Probab=36.98 E-value=18 Score=27.52 Aligned_cols=24 Identities=29% Similarity=0.646 Sum_probs=20.9
Q ss_pred EEEccchhhccccccccccccccc
Q psy8839 21 DILVADECLIAPLGIFHPELLGLT 44 (74)
Q Consensus 21 ~~kVgDE~m~APL~LFyP~lf~I~ 44 (74)
.+.+|.|...+|-.||.|.+.++.
T Consensus 248 ~i~i~~er~~~~E~LF~P~~~~~~ 271 (376)
T PTZ00281 248 VITIGNERFRCPEALFQPSFLGME 271 (376)
T ss_pred EEEeeHHHeeCcccccChhhcCCC
Confidence 578899999999999999987654
No 12
>PTZ00452 actin; Provisional
Probab=36.22 E-value=19 Score=27.49 Aligned_cols=26 Identities=19% Similarity=0.353 Sum_probs=21.9
Q ss_pred EEEccchhhcccccccccccccccCC
Q psy8839 21 DILVADECLIAPLGIFHPELLGLTGT 46 (74)
Q Consensus 21 ~~kVgDE~m~APL~LFyP~lf~I~~~ 46 (74)
.+.+|.|...+|=.||.|.++++...
T Consensus 247 ~i~l~~er~~~~E~LF~P~~~g~~~~ 272 (375)
T PTZ00452 247 ILTIKSQKFRCSEILFQPKLIGLEVA 272 (375)
T ss_pred EEEeehHHhcCcccccChhhcCCCCC
Confidence 56789999999999999999876543
No 13
>CHL00020 psbN photosystem II protein N
Probab=35.80 E-value=16 Score=21.75 Aligned_cols=27 Identities=19% Similarity=0.366 Sum_probs=14.6
Q ss_pred cccccCCceeeeccCCCCCCCCCCChh
Q psy8839 40 LLGLTGTKIVVTQSRAVSDPEDPHDGD 66 (74)
Q Consensus 40 lf~I~~~~~~~~q~r~~~DpED~~D~~ 66 (74)
|++|+|=.....=-+....-.||||+|
T Consensus 15 l~~~Tgy~iYtaFGppSk~LrDPfeeH 41 (43)
T CHL00020 15 LVSFTGYALYTAFGQPSKQLRDPFEEH 41 (43)
T ss_pred HHHhhheeeeeccCCchhccCCchhhc
Confidence 345666554333333344566888865
No 14
>KOG2792|consensus
Probab=32.16 E-value=6.2 Score=31.19 Aligned_cols=40 Identities=48% Similarity=0.790 Sum_probs=26.7
Q ss_pred ccccccccccccCCceeee----ccCC--CCCCCCCCChhhhhhccC
Q psy8839 33 LGIFHPELLGLTGTKIVVT----QSRA--VSDPEDPHDGDYLRETSV 73 (74)
Q Consensus 33 L~LFyP~lf~I~~~~~~~~----q~r~--~~DpED~~D~~YL~eT~~ 73 (74)
++=|+|.|+|+||+..-.- .-|. .--|+|- |+.||-.+||
T Consensus 198 ~~eF~pkllGLTGT~eqvk~vak~yRVYfs~gp~d~-~~DYlVDHSi 243 (280)
T KOG2792|consen 198 VSEFHPKLLGLTGTTEQVKQVAKKYRVYFSTGPKDE-DQDYLVDHSI 243 (280)
T ss_pred HHhcChhhhcccCCHHHHHHHHHHhEEeeccCCCCC-CCCeeeeeeE
Confidence 5569999999999873211 1222 1226777 9999977765
No 15
>KOG2428|consensus
Probab=31.97 E-value=34 Score=28.62 Aligned_cols=23 Identities=17% Similarity=0.296 Sum_probs=20.3
Q ss_pred eeEEEccchh---hcccccccccccc
Q psy8839 19 GFDILVADEC---LIAPLGIFHPELL 41 (74)
Q Consensus 19 kY~~kVgDE~---m~APL~LFyP~lf 41 (74)
.|+|.||.|| +.+|+.-+++-||
T Consensus 220 S~SL~lGNEvfDv~~~pl~~~~nhl~ 245 (443)
T KOG2428|consen 220 SMSLHLGNEVFDVYKQPLSGNQNHLF 245 (443)
T ss_pred ceeEeechhHHHhhhcccccCcceeE
Confidence 5899999997 4899999999887
No 16
>COG2947 Uncharacterized conserved protein [Function unknown]
Probab=26.54 E-value=31 Score=25.35 Aligned_cols=36 Identities=25% Similarity=0.482 Sum_probs=23.9
Q ss_pred EEccchhhcccccccc------cccccccCCceeeeccCCCCCCCCCC
Q psy8839 22 ILVADECLIAPLGIFH------PELLGLTGTKIVVTQSRAVSDPEDPH 63 (74)
Q Consensus 22 ~kVgDE~m~APL~LFy------P~lf~I~~~~~~~~q~r~~~DpED~~ 63 (74)
+|+||- ++|| |.|-||..--...-+...|.||-+|+
T Consensus 42 M~iGD~------~fFYHSNc~~pgIvGl~~V~~~a~pD~tq~d~~spY 83 (156)
T COG2947 42 MKIGDL------GFFYHSNCKPPGIVGLAEVCALAHPDPTQFDPASPY 83 (156)
T ss_pred cccCce------EEEEecCCCCCCceehhhhhhccCCCccccCCCCcc
Confidence 678885 4887 45666655555566667777777665
No 17
>PRK06222 ferredoxin-NADP(+) reductase subunit alpha; Reviewed
Probab=25.51 E-value=21 Score=25.93 Aligned_cols=18 Identities=22% Similarity=0.423 Sum_probs=15.5
Q ss_pred EEEccchh--hccccccccc
Q psy8839 21 DILVADEC--LIAPLGIFHP 38 (74)
Q Consensus 21 ~~kVgDE~--m~APL~LFyP 38 (74)
++++||++ +..|+|-|++
T Consensus 75 ~l~~Gd~v~~i~GP~G~~~~ 94 (281)
T PRK06222 75 ELKEGDSILDVVGPLGKPSE 94 (281)
T ss_pred cCCCCCEEeeEEcCCCCCcc
Confidence 67899997 8999998765
No 18
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=24.84 E-value=34 Score=20.57 Aligned_cols=19 Identities=21% Similarity=0.137 Sum_probs=15.0
Q ss_pred eeeeeEEEccchhhccccc
Q psy8839 16 YLLGFDILVADECLIAPLG 34 (74)
Q Consensus 16 ~~~kY~~kVgDE~m~APL~ 34 (74)
..+.=++++||++.+.|.+
T Consensus 21 ~v~~G~i~~Gd~v~i~P~~ 39 (83)
T cd03698 21 KVESGSIQKGDTLLVMPSK 39 (83)
T ss_pred EEeeeEEeCCCEEEEeCCC
Confidence 3445569999999999977
No 19
>PF09482 OrgA_MxiK: Bacterial type III secretion apparatus protein (OrgA_MxiK); InterPro: IPR013388 This protein is encoded by genes which are found in type III secretion operons, and has been shown to be essential for the invasion phenotype in Salmonella and a component of the secretion apparatus []. The protein is known as OrgA in Salmonella due to its oxygen-dependent expression pattern in which low-oxygen levels up-regulate the gene []. In Shigella is called MxiK and has been shown to be essential for the proper assembly of the needle complex, which is the core component of type III secretion systems [].; GO: 0009405 pathogenesis
Probab=24.45 E-value=33 Score=24.65 Aligned_cols=22 Identities=32% Similarity=0.401 Sum_probs=18.9
Q ss_pred chhhcccccccccccccccCCc
Q psy8839 26 DECLIAPLGIFHPELLGLTGTK 47 (74)
Q Consensus 26 DE~m~APL~LFyP~lf~I~~~~ 47 (74)
+.+|-+|.+.|+|+=+.|.+..
T Consensus 2 ~~Ily~P~sY~Hp~~~~l~~~~ 23 (182)
T PF09482_consen 2 MRILYDPLSYIHPSHLPLPSYL 23 (182)
T ss_pred cchhcCchhhcCccccCCCchh
Confidence 4689999999999999987755
No 20
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 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 []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=23.39 E-value=26 Score=20.72 Aligned_cols=9 Identities=22% Similarity=0.567 Sum_probs=5.9
Q ss_pred CCCCCCChh
Q psy8839 58 DPEDPHDGD 66 (74)
Q Consensus 58 DpED~~D~~ 66 (74)
.-.||||||
T Consensus 33 ~LrDPfeeH 41 (43)
T PF02468_consen 33 ELRDPFEEH 41 (43)
T ss_pred ccCCccccc
Confidence 456777765
No 21
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=22.92 E-value=38 Score=20.37 Aligned_cols=19 Identities=21% Similarity=0.127 Sum_probs=14.8
Q ss_pred eeeeeEEEccchhhccccc
Q psy8839 16 YLLGFDILVADECLIAPLG 34 (74)
Q Consensus 16 ~~~kY~~kVgDE~m~APL~ 34 (74)
..+.=.+|+||++.+.|-+
T Consensus 20 ~v~~G~i~~G~~v~i~P~~ 38 (82)
T cd04089 20 KVESGTIKKGDKLLVMPNK 38 (82)
T ss_pred EEeeeEEecCCEEEEeCCC
Confidence 3444568999999999976
No 22
>PF01606 Arteri_env: Arterivirus envelope protein; InterPro: IPR002556 This family consists of viral envelope proteins from the Arteriviridae; this includes Porcine reproductive and respiratory syndrome virus (PRRSV) envelope protein GP3 and Lactate dehydrogenase-elevating virus (LDV) structural glycoprotein. Arteriviruses consists of positive ssRNA and do not have a DNA stage.
Probab=22.63 E-value=41 Score=25.74 Aligned_cols=18 Identities=33% Similarity=0.680 Sum_probs=13.3
Q ss_pred ccccccccccCCceeeec
Q psy8839 35 IFHPELLGLTGTKIVVTQ 52 (74)
Q Consensus 35 LFyP~lf~I~~~~~~~~q 52 (74)
-|+||+|||-....+...
T Consensus 123 qfhPEiFgiGNVs~V~vd 140 (214)
T PF01606_consen 123 QFHPEIFGIGNVSRVYVD 140 (214)
T ss_pred hhChhhhccCceeEEEEe
Confidence 499999999776654443
No 23
>KOG0676|consensus
Probab=21.92 E-value=42 Score=27.01 Aligned_cols=27 Identities=33% Similarity=0.630 Sum_probs=23.5
Q ss_pred EEccchhhcccccccccccccccCCce
Q psy8839 22 ILVADECLIAPLGIFHPELLGLTGTKI 48 (74)
Q Consensus 22 ~kVgDE~m~APL~LFyP~lf~I~~~~~ 48 (74)
|.+|+|..+||-++|-|.++|......
T Consensus 245 i~i~~erf~~pE~lFqP~~~g~e~~gi 271 (372)
T KOG0676|consen 245 ITIGNERFRCPEVLFQPSLLGMESPGI 271 (372)
T ss_pred EecCCcccccchhcCChhhcCCCCCch
Confidence 889999999999999999998765553
Done!