Query psy7420
Match_columns 59
No_of_seqs 103 out of 361
Neff 3.6
Searched_HMMs 46136
Date Fri Aug 16 17:49:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7420.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7420hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2783|consensus 99.9 1E-23 2.2E-28 160.3 1.0 51 1-53 308-358 (436)
2 PLN02788 phenylalanine-tRNA sy 99.8 2.5E-20 5.4E-25 139.8 0.1 53 1-55 276-328 (402)
3 TIGR00469 pheS_mito phenylalan 99.7 1.1E-19 2.3E-24 138.7 -0.2 55 1-55 327-381 (460)
4 PF01409 tRNA-synt_2d: tRNA sy 98.9 3.5E-10 7.6E-15 79.6 -0.4 23 1-23 225-247 (247)
5 PRK00488 pheS phenylalanyl-tRN 98.8 6.3E-10 1.4E-14 82.6 -0.4 23 1-23 317-339 (339)
6 TIGR00468 pheS phenylalanyl-tR 98.7 2.7E-09 5.9E-14 76.0 -0.2 24 1-24 270-293 (294)
7 COG0016 PheS Phenylalanyl-tRNA 98.6 6.8E-09 1.5E-13 77.2 -0.9 22 1-22 314-335 (335)
8 PRK04172 pheS phenylalanyl-tRN 97.3 3.9E-05 8.4E-10 58.0 -0.5 23 1-23 466-488 (489)
9 PLN02853 Probable phenylalanyl 96.4 0.00072 1.6E-08 52.9 -0.4 25 1-25 461-487 (492)
10 PF03147 FDX-ACB: Ferredoxin-f 96.1 0.00059 1.3E-08 41.2 -1.8 18 38-55 1-18 (94)
11 CHL00192 syfB phenylalanyl-tRN 94.3 0.013 2.9E-07 46.5 0.3 51 3-55 577-627 (704)
12 PRK00629 pheT phenylalanyl-tRN 94.3 0.015 3.2E-07 46.6 0.4 48 4-55 667-714 (791)
13 COG0072 PheT Phenylalanyl-tRNA 93.6 0.025 5.5E-07 44.7 0.6 24 31-54 551-574 (650)
14 TIGR00472 pheT_bact phenylalan 93.3 0.028 6.1E-07 45.0 0.4 48 4-55 675-722 (798)
15 PRK06253 O-phosphoseryl-tRNA s 87.8 0.23 5E-06 39.6 0.9 49 3-52 311-361 (529)
16 TIGR00470 sepS O-phosphoseryl- 85.8 0.24 5.2E-06 39.7 0.0 27 1-27 329-364 (533)
17 PF12076 Wax2_C: WAX2 C-termin 43.4 14 0.00031 25.8 1.3 20 21-43 69-88 (164)
18 TIGR02367 PylS pyrrolysyl-tRNA 28.7 10 0.00022 30.0 -1.4 12 1-12 428-439 (453)
19 PRK08655 prephenate dehydrogen 27.4 13 0.00027 28.1 -1.1 38 3-55 336-373 (437)
20 PF10679 DUF2491: Protein of u 25.5 23 0.0005 25.2 -0.0 41 12-53 69-115 (212)
21 PF13208 TerB-N: TerB-N 22.2 76 0.0016 21.6 2.0 38 13-50 20-59 (211)
No 1
>KOG2783|consensus
Probab=99.87 E-value=1e-23 Score=160.31 Aligned_cols=51 Identities=31% Similarity=0.455 Sum_probs=48.1
Q ss_pred CccCCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHh
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEE 53 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~ 53 (59)
|++|+|||||+||+.|.|||+||..+.+.. +|||+|||||||+||||||.+
T Consensus 308 Mll~~IpDiRlfWs~DeRFlkqF~~g~I~~--~FKp~SkYP~c~~DiSFWl~~ 358 (436)
T KOG2783|consen 308 MLLFDIPDIRLFWSFDERFLKQFSPGKIEP--KFKPYSKYPPCYKDISFWLPQ 358 (436)
T ss_pred HHHhcCcchheeeccchHHHHhcCcccccc--cccccccCCCcccceeEeecc
Confidence 899999999999999999999999999843 899999999999999999965
No 2
>PLN02788 phenylalanine-tRNA synthetase
Probab=99.78 E-value=2.5e-20 Score=139.79 Aligned_cols=53 Identities=30% Similarity=0.506 Sum_probs=47.2
Q ss_pred CccCCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHhhh
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEERM 55 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~~~ 55 (59)
|++|||||||+||++|+|||+||...... .+|+|+|+||+|+|||||+|++.+
T Consensus 276 ml~~~I~DIRlf~~~D~rfl~Qf~~~~~~--~~fkp~SkfP~v~RDiSf~v~~~v 328 (402)
T PLN02788 276 MVLFDIPDIRLFWSDDERFTSQFKEGQLG--VKFKPYSKYPPCYKDISFWISDEF 328 (402)
T ss_pred HhhcCCchhhhhhcccHHHHHhccccccc--cccCcCCCCCCcceeEEEEECCCC
Confidence 78999999999999999999999976531 279999999999999999997654
No 3
>TIGR00469 pheS_mito phenylalanyl-tRNA synthetase, mitochondrial. Unlike all other known phenylalanyl-tRNA synthetases, the mitochondrial form demonstrated from yeast is monomeric. It is similar to but longer than the alpha subunit (PheS) of the alpha 2 beta 2 form found in Bacteria, Archaea, and eukaryotes, and shares the characteristic motifs of class II aminoacyl-tRNA ligases. This alignment models the experimental example from Saccharomyces cerevisiae (designated MSF1) and its orthologs from other eukaryotic species.
Probab=99.75 E-value=1.1e-19 Score=138.74 Aligned_cols=55 Identities=35% Similarity=0.493 Sum_probs=49.4
Q ss_pred CccCCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHhhh
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEERM 55 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~~~ 55 (59)
|++|||+|||+||++|+|||+||..+...+..+|+|+|+||+|.|||||+|++.+
T Consensus 327 Ml~~gi~DiR~~~~~d~rfl~qf~~~~~~~~~~fkpiSKfP~v~RDISfvV~~~v 381 (460)
T TIGR00469 327 MLLFDIPDIRLFWSNDEGFLRQFSEGDLHLIPKFKPISHHPGCFNDLAFWLPEDI 381 (460)
T ss_pred HHHcCccHHHHHhcccHHHHHhhcccccccccccCcCCCCCCccccEEEEecCCC
Confidence 8999999999999999999999987744444789999999999999999997654
No 4
>PF01409 tRNA-synt_2d: tRNA synthetases class II core domain (F); InterPro: IPR002319 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases [].; GO: 0000049 tRNA binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3TUP_A 3HFV_A 3CMQ_A 3TEG_A 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B ....
Probab=98.86 E-value=3.5e-10 Score=79.59 Aligned_cols=23 Identities=57% Similarity=1.005 Sum_probs=21.5
Q ss_pred CccCCCCcccccccCChhhhhcc
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQF 23 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF 23 (59)
|++|||+|||+||++|+|||+||
T Consensus 225 m~~~gi~diR~~~~~d~~fl~qf 247 (247)
T PF01409_consen 225 MLKYGIPDIRLLYSNDLRFLRQF 247 (247)
T ss_dssp HHHHT-SSGGHHHTTTHHHHGGG
T ss_pred HHHcCCchHHHHhcCcHhHHhcC
Confidence 89999999999999999999998
No 5
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=98.81 E-value=6.3e-10 Score=82.57 Aligned_cols=23 Identities=52% Similarity=0.936 Sum_probs=22.6
Q ss_pred CccCCCCcccccccCChhhhhcc
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQF 23 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF 23 (59)
|++|||+|||+||+||+|||+||
T Consensus 317 Ml~ygi~DiR~~~~~D~rfl~qF 339 (339)
T PRK00488 317 MLKYGIDDIRLFYENDLRFLKQF 339 (339)
T ss_pred HHHhCCcHHHHHHhcCHhHHhcC
Confidence 89999999999999999999998
No 6
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit. Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.
Probab=98.69 E-value=2.7e-09 Score=76.02 Aligned_cols=24 Identities=46% Similarity=0.767 Sum_probs=23.3
Q ss_pred CccCCCCcccccccCChhhhhccC
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQFR 24 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF~ 24 (59)
|++|||+|||.|++||+|||+||+
T Consensus 270 m~~~~i~dir~~~~~d~~~l~~~~ 293 (294)
T TIGR00468 270 MLKYGIDDIRDLYENDLRFLRQFK 293 (294)
T ss_pred HHHhCCcHHHHHHcCChHHHhhcC
Confidence 899999999999999999999995
No 7
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=98.57 E-value=6.8e-09 Score=77.24 Aligned_cols=22 Identities=50% Similarity=0.815 Sum_probs=21.4
Q ss_pred CccCCCCcccccccCChhhhhc
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQ 22 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~Q 22 (59)
||+|||+|||.||++|+|||+|
T Consensus 314 MLkygI~DIR~l~~~D~rfl~q 335 (335)
T COG0016 314 MLKYGIPDIRDLYENDLRFLRQ 335 (335)
T ss_pred HHHhCCcHHHHHHhccchhhcC
Confidence 8999999999999999999987
No 8
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=97.34 E-value=3.9e-05 Score=57.97 Aligned_cols=23 Identities=30% Similarity=0.445 Sum_probs=21.7
Q ss_pred CccCCCCcccccccCChhhhhcc
Q psy7420 1 MQLYSIPDIRIFFSEDSGFLNQF 23 (59)
Q Consensus 1 MlkygIpDIRlfws~D~RFL~QF 23 (59)
|++|||+|||.||++|++||++-
T Consensus 466 m~~~~~~dir~l~~~d~~~~~~~ 488 (489)
T PRK04172 466 MLRLGLDDIRDLYSSDIEWLRER 488 (489)
T ss_pred HHHhCCcHHHHHHhcChHHHhcC
Confidence 89999999999999999999874
No 9
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=96.39 E-value=0.00072 Score=52.88 Aligned_cols=25 Identities=36% Similarity=0.590 Sum_probs=21.9
Q ss_pred CccCCCCccccccc--CChhhhhccCC
Q psy7420 1 MQLYSIPDIRIFFS--EDSGFLNQFRT 25 (59)
Q Consensus 1 MlkygIpDIRlfws--~D~RFL~QF~~ 25 (59)
|++|||+|||.|++ .|+.||+.-..
T Consensus 461 Ml~ygi~DIR~l~~~k~Dl~~lr~~p~ 487 (492)
T PLN02853 461 MILYGIDNIRDLFGHKVDLGLIKRNPI 487 (492)
T ss_pred HHHhCCcHHHHHhCCCCCHHHHhhCcc
Confidence 89999999999999 78999886543
No 10
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=96.10 E-value=0.00059 Score=41.22 Aligned_cols=18 Identities=11% Similarity=-0.003 Sum_probs=13.0
Q ss_pred ccCCCCCccchHhhHhhh
Q psy7420 38 LRELLLPRSYRPEIEERM 55 (59)
Q Consensus 38 SkyPp~~rd~s~~i~~~~ 55 (59)
|+||++.||+||+|.+.+
T Consensus 1 S~fP~~~RDiS~~v~~~~ 18 (94)
T PF03147_consen 1 SKFPSVERDISFVVPEDV 18 (94)
T ss_dssp -SS--EEEEEEEEEETTS
T ss_pred CcCCCccccEEEEECCCC
Confidence 799999999999997644
No 11
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=94.34 E-value=0.013 Score=46.54 Aligned_cols=51 Identities=10% Similarity=0.046 Sum_probs=34.1
Q ss_pred cCCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHhhh
Q psy7420 3 LYSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEERM 55 (59)
Q Consensus 3 kygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~~~ 55 (59)
.|+|+.==.++|=|+.-|.+..... ...+|+|+|+||++.||+||.|++.+
T Consensus 577 ~~~l~~~v~~~Ei~l~~l~~~~~~~--~~~~~~~~skfP~v~RDia~vv~~~i 627 (704)
T CHL00192 577 KLNLNTEIYLFEINLDILQYSIQQN--NLISYQPYSSYPKIIRDLSFIIKKSI 627 (704)
T ss_pred HcCCCCCeEEEEEEHHHhhhhhccc--cccccCCCCCCCCccceEEEEECCCC
Confidence 3555532256677777665544211 01369999999999999999987654
No 12
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=94.26 E-value=0.015 Score=46.58 Aligned_cols=48 Identities=15% Similarity=0.137 Sum_probs=31.9
Q ss_pred CCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHhhh
Q psy7420 4 YSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEERM 55 (59)
Q Consensus 4 ygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~~~ 55 (59)
|+|+.==.+.|=|+.-|.+.... ..+|+|+|+||++.||+|+.+++.+
T Consensus 667 ~~l~~~v~~~Ei~l~~l~~~~~~----~~~~~~~skfP~v~RDls~vv~~~v 714 (791)
T PRK00629 667 LDLPGRTYVFELDLDALLEAARK----LPKYKPISKFPAVRRDLALVVDEDV 714 (791)
T ss_pred cCCCCCEEEEEEEHHHhhhhhcc----cCCCCCCCCCCCccccEEEEECCCC
Confidence 44443124456676666543211 2379999999999999999987654
No 13
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=93.60 E-value=0.025 Score=44.73 Aligned_cols=24 Identities=17% Similarity=0.153 Sum_probs=21.2
Q ss_pred ccceeecccCCCCCccchHhhHhh
Q psy7420 31 KIVFKFLLRELLLPRSYRPEIEER 54 (59)
Q Consensus 31 ~~~Fkp~SkyPp~~rd~s~~i~~~ 54 (59)
...|+|+|+||++.||++|.|++.
T Consensus 551 ~~~~~~~s~~pa~~RDia~~v~~~ 574 (650)
T COG0072 551 KPAYKPISKFPAVRRDIALVVDED 574 (650)
T ss_pred ccccCCCCCCCcccceeEEEecCC
Confidence 378899999999999999999654
No 14
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from Bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the amino end, however.
Probab=93.27 E-value=0.028 Score=44.95 Aligned_cols=48 Identities=8% Similarity=0.020 Sum_probs=31.8
Q ss_pred CCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHhhh
Q psy7420 4 YSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEERM 55 (59)
Q Consensus 4 ygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~~~ 55 (59)
|+|+.==.++|=|+.-|.+..... .+|+|+|+||++.||+|+.+++.+
T Consensus 675 ~~l~~~v~~~Ei~l~~l~~~~~~~----~~~~~~sk~P~~~RDls~~v~~~v 722 (798)
T TIGR00472 675 YDLKEPTFVAELDLDRLLESLKKV----PKYRPISKFPAVTRDISFLVPKDV 722 (798)
T ss_pred cCCCCCeEEEEEEHHHHhhhhccc----CCcCCCCCCCCcceeEEEEECCCC
Confidence 444421145566666554433211 379999999999999999997654
No 15
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=87.79 E-value=0.23 Score=39.63 Aligned_cols=49 Identities=18% Similarity=0.097 Sum_probs=33.5
Q ss_pred cCCCCcccccccCChhhhhccCCC--CCCCccceeecccCCCCCccchHhhH
Q psy7420 3 LYSIPDIRIFFSEDSGFLNQFRTE--DVNQKIVFKFLLRELLLPRSYRPEIE 52 (59)
Q Consensus 3 kygIpDIRlfws~D~RFL~QF~~~--~~~~~~~Fkp~SkyPp~~rd~s~~i~ 52 (59)
.|||+.-=..++=|+.-|.+.... .+- ...|+++|+||++.||+|+-|.
T Consensus 311 ~fDI~~pV~aFELDLErL~~i~~~~~dir-~~~Y~~~SkFPav~RDLA~Vi~ 361 (529)
T PRK06253 311 EYGIDVPVMNLGLGVERLAMILYGAEDVR-EMVYPQFYEWELSDREIARMIK 361 (529)
T ss_pred HcCCCCceEEEEEeHHHHHhhhcCccccc-ccCcCCCCCCCCccceEEEEEe
Confidence 466664335677788777654432 110 1269999999999999999883
No 16
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=85.80 E-value=0.24 Score=39.72 Aligned_cols=27 Identities=26% Similarity=0.550 Sum_probs=21.8
Q ss_pred CccCCCCcccc-----ccc----CChhhhhccCCCC
Q psy7420 1 MQLYSIPDIRI-----FFS----EDSGFLNQFRTED 27 (59)
Q Consensus 1 MlkygIpDIRl-----fws----~D~RFL~QF~~~~ 27 (59)
|++|||+|||. ++. +|..+++..+-..
T Consensus 329 Mi~ygi~DIR~l~~pql~~~~~~sd~~~~~~~~~~~ 364 (533)
T TIGR00470 329 MILYGYEDVRAMVYPQIYGEYRLSDRDIAGMIRVDK 364 (533)
T ss_pred HHHhCCcHHHhhcccccccccccchHHHHhhCcccc
Confidence 89999999999 665 7888888766443
No 17
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=43.41 E-value=14 Score=25.77 Aligned_cols=20 Identities=10% Similarity=-0.242 Sum_probs=15.0
Q ss_pred hccCCCCCCCccceeecccCCCC
Q psy7420 21 NQFRTEDVNQKIVFKFLLRELLL 43 (59)
Q Consensus 21 ~QF~~~~~~~~~~Fkp~SkyPp~ 43 (59)
+|....+- ..|.|||.+||-
T Consensus 69 EQ~~Ap~G---t~FipfsqfP~~ 88 (164)
T PF12076_consen 69 EQKWAPKG---THFIPFSQFPPK 88 (164)
T ss_pred HHhcCCCC---CEEeeccCCCcH
Confidence 45555544 899999999984
No 18
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=28.67 E-value=10 Score=29.95 Aligned_cols=12 Identities=8% Similarity=-0.056 Sum_probs=10.9
Q ss_pred CccCCCCccccc
Q psy7420 1 MQLYSIPDIRIF 12 (59)
Q Consensus 1 MlkygIpDIRlf 12 (59)
|++|||.|||.+
T Consensus 428 m~~~g~~dir~~ 439 (453)
T TIGR02367 428 KVKHDFKNIKRA 439 (453)
T ss_pred HHHhCcHHHHHH
Confidence 889999999975
No 19
>PRK08655 prephenate dehydrogenase; Provisional
Probab=27.44 E-value=13 Score=28.10 Aligned_cols=38 Identities=11% Similarity=0.114 Sum_probs=24.3
Q ss_pred cCCCCcccccccCChhhhhccCCCCCCCccceeecccCCCCCccchHhhHhhh
Q psy7420 3 LYSIPDIRIFFSEDSGFLNQFRTEDVNQKIVFKFLLRELLLPRSYRPEIEERM 55 (59)
Q Consensus 3 kygIpDIRlfws~D~RFL~QF~~~~~~~~~~Fkp~SkyPp~~rd~s~~i~~~~ 55 (59)
+..|.+||++-++.++ +++. -+||++.||+|+.+++.+
T Consensus 336 ~~~~~~~~~~~~~~~~---~~~~------------~~fp~~~RDis~~v~~~~ 373 (437)
T PRK08655 336 KLKISNIRLLSEKELR---EWKK------------KNLEKYVRDISVLFPKGA 373 (437)
T ss_pred EEEeeeeecCCHHHHH---HHHH------------hcCCccceeEEEEECCCC
Confidence 3456666666554432 3332 258999999999987654
No 20
>PF10679 DUF2491: Protein of unknown function (DUF2491); InterPro: IPR019621 This entry represents a family of bacterial uncharacterised proteins.
Probab=25.53 E-value=23 Score=25.21 Aligned_cols=41 Identities=29% Similarity=0.470 Sum_probs=30.2
Q ss_pred cccCChhhhhccCCC-----CCCCccceeec-ccCCCCCccchHhhHh
Q psy7420 12 FFSEDSGFLNQFRTE-----DVNQKIVFKFL-LRELLLPRSYRPEIEE 53 (59)
Q Consensus 12 fws~D~RFL~QF~~~-----~~~~~~~Fkp~-SkyPp~~rd~s~~i~~ 53 (59)
|+.+|.+|| |.... .++.-.-|.++ |++|+.-.+-..+|..
T Consensus 69 fYtddd~~l-Qv~~~gg~~~~v~dv~lf~~~ds~~p~s~aew~~~~~~ 115 (212)
T PF10679_consen 69 FYTDDDGFL-QVVTDGGSGDDVDDVKLFYFYDSVYPASEAEWDRWIDP 115 (212)
T ss_pred EEeCCCcEE-EEEccCCCcCCceEEEEEEEEEEEcCCCHHHHHHHhcc
Confidence 788899999 77543 23345678888 7778888888888854
No 21
>PF13208 TerB-N: TerB-N
Probab=22.17 E-value=76 Score=21.57 Aligned_cols=38 Identities=18% Similarity=0.118 Sum_probs=29.5
Q ss_pred ccCChhhhhccCCCCC--CCccceeecccCCCCCccchHh
Q psy7420 13 FSEDSGFLNQFRTEDV--NQKIVFKFLLRELLLPRSYRPE 50 (59)
Q Consensus 13 ws~D~RFL~QF~~~~~--~~~~~Fkp~SkyPp~~rd~s~~ 50 (59)
-+.+..|.+|-..-.- +....+.++..|=|+|.|+|..
T Consensus 20 ~~~e~~fi~~~l~~a~~ed~~~~~~~~~~Y~PtY~~ls~~ 59 (211)
T PF13208_consen 20 RSREPSFIDQSLPMADYEDDYDYFGPFMSYWPTYSSLSPE 59 (211)
T ss_pred CCccHHHHhhhhhccccccCCcccCCcCCCCCCcccCCHH
Confidence 3778888888765443 4457788999999999999974
Done!