Query psy6164
Match_columns 64
No_of_seqs 108 out of 575
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 19:18:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6164.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6164hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0901|consensus 99.8 8.5E-21 1.8E-25 130.7 4.1 56 1-56 1-56 (145)
2 PTZ00054 60S ribosomal protein 99.6 2.9E-15 6.4E-20 102.2 4.6 50 5-54 4-53 (139)
3 PRK08571 rpl14p 50S ribosomal 99.5 7.9E-15 1.7E-19 99.2 4.0 44 11-54 3-46 (132)
4 TIGR03673 rpl14p_arch 50S ribo 99.5 1.8E-14 3.9E-19 97.3 4.0 44 11-54 2-45 (131)
5 COG0093 RplN Ribosomal protein 99.3 4.3E-12 9.4E-17 85.9 3.7 30 19-48 1-30 (122)
6 CHL00057 rpl14 ribosomal prote 99.1 5E-11 1.1E-15 79.5 4.0 29 19-47 1-29 (122)
7 PRK05483 rplN 50S ribosomal pr 99.1 6.3E-11 1.4E-15 78.9 4.0 27 19-45 1-27 (122)
8 TIGR01067 rplN_bact ribosomal 99.1 6.5E-11 1.4E-15 78.7 4.0 27 19-45 1-27 (122)
9 PF00238 Ribosomal_L14: Riboso 99.0 1.6E-10 3.4E-15 76.3 3.0 28 19-46 1-28 (122)
10 PTZ00320 ribosomal protein L14 98.6 8.1E-08 1.8E-12 69.0 4.2 24 20-43 60-83 (188)
11 KOG3441|consensus 68.7 3.2 6.9E-05 29.2 1.5 31 17-47 29-67 (149)
12 smart00561 MBT Present in Dros 49.8 28 0.00061 21.8 3.3 44 17-60 25-68 (96)
13 cd01025 TOPRIM_recR TOPRIM_rec 38.0 20 0.00044 23.5 1.3 19 13-31 88-106 (112)
14 PRK13844 recombination protein 26.8 36 0.00078 24.6 1.2 19 13-31 169-187 (200)
15 TIGR00615 recR recombination p 25.6 40 0.00086 24.2 1.2 19 13-31 166-184 (195)
16 PRK00076 recR recombination pr 25.1 41 0.00089 24.1 1.2 19 13-31 165-183 (196)
17 TIGR02703 carboxysome_A carbox 23.7 1.1E+02 0.0024 19.2 2.8 40 4-43 14-53 (81)
18 PF04023 FeoA: FeoA domain; I 23.0 1.1E+02 0.0025 17.0 2.6 37 17-53 30-66 (74)
19 PF13780 DUF4176: Domain of un 21.8 1.4E+02 0.003 18.2 2.9 25 20-46 2-26 (76)
20 PF05656 DUF805: Protein of un 21.6 38 0.00083 20.7 0.4 13 43-55 3-15 (120)
21 PF04941 LEF-8: Late expressio 20.9 64 0.0014 27.9 1.7 17 37-53 722-738 (748)
22 PF01588 tRNA_bind: Putative t 20.5 1E+02 0.0022 18.6 2.2 24 20-43 1-24 (95)
23 KOG4170|consensus 20.1 1.5E+02 0.0032 19.9 3.0 25 25-49 28-52 (113)
24 PF11608 Limkain-b1: Limkain b 20.1 46 0.00099 21.8 0.6 20 28-50 26-45 (90)
No 1
>KOG0901|consensus
Probab=99.82 E-value=8.5e-21 Score=130.69 Aligned_cols=56 Identities=64% Similarity=0.986 Sum_probs=54.1
Q ss_pred CCCCCCCCCCcccceeecccccccEEEEecCcCCceEEEEEEeCccccccchhhhc
Q psy6164 1 MSKRGRGGSAGAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKDLTTFEEFER 56 (64)
Q Consensus 1 m~k~~~~~~~~~k~rit~giq~~s~lnvADNSGAK~l~iI~V~g~kgrlnr~~~~~ 56 (64)
||+.+++++.+.++|+++|||+|+.+|||||||||+|+||+|+|++|||||||...
T Consensus 1 ~~~~~~~gs~~~k~r~s~~~~~g~~incaDNSgAknL~~isv~g~~Grlnrl~~A~ 56 (145)
T KOG0901|consen 1 MSSRGRGGSSGVKFRISLGLPVGAVINCADNSGAKNLYCISVKGIKGRLNRLPAAG 56 (145)
T ss_pred CcccccCcccchhhhhhhccccceEEEecCCCCcceEEEEEEeccccccccccCCC
Confidence 89999999999999999999999999999999999999999999999999999754
No 2
>PTZ00054 60S ribosomal protein L23; Provisional
Probab=99.57 E-value=2.9e-15 Score=102.17 Aligned_cols=50 Identities=58% Similarity=1.000 Sum_probs=44.1
Q ss_pred CCCCCCcccceeecccccccEEEEecCcCCceEEEEEEeCccccccchhh
Q psy6164 5 GRGGSAGAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKDLTTFEEF 54 (64)
Q Consensus 5 ~~~~~~~~k~rit~giq~~s~lnvADNSGAK~l~iI~V~g~kgrlnr~~~ 54 (64)
+.+...+.++++|+|||++|+|+||||||||.++||+|+|++|..+|.++
T Consensus 4 ~~~~~~~~~~~~~~mIq~~t~L~vaDNSGAk~v~cI~vlg~~g~~~r~~~ 53 (139)
T PTZ00054 4 GRGGVGGNKFRVTLGLPVGAVVNCADNSGAKNLYIIAVKGIHGRLNRLPS 53 (139)
T ss_pred cccCccccccccceeecCCCEEEEeeCCCccEEEEEEEeccCcCCccCcc
Confidence 44566788999999999999999999999999999999998888887544
No 3
>PRK08571 rpl14p 50S ribosomal protein L14P; Reviewed
Probab=99.53 E-value=7.9e-15 Score=99.19 Aligned_cols=44 Identities=41% Similarity=0.634 Sum_probs=40.3
Q ss_pred cccceeecccccccEEEEecCcCCceEEEEEEeCccccccchhh
Q psy6164 11 GAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKDLTTFEEF 54 (64)
Q Consensus 11 ~~k~rit~giq~~s~lnvADNSGAK~l~iI~V~g~kgrlnr~~~ 54 (64)
+.++++|+|||.+|+|+||||||||.++||+|+|++|..+|.++
T Consensus 3 ~~~~~~~~mIq~~T~L~VaDNSGAk~v~cI~vlg~~g~~~r~~~ 46 (132)
T PRK08571 3 GIRSKVTRGLPVGARLVCADNTGAKEVEIISVKGYKGVKRRLPK 46 (132)
T ss_pred cccccccceecCCCEEEEeeCCCCCeEEEEEEeccCCCCccCCc
Confidence 56899999999999999999999999999999999888888654
No 4
>TIGR03673 rpl14p_arch 50S ribosomal protein L14P. Part of the 50S ribosomal subunit. Forms a cluster with proteins L3 and L24e, part of which may contact the 16S rRNA in 2 intersubunit bridges.
Probab=99.50 E-value=1.8e-14 Score=97.32 Aligned_cols=44 Identities=45% Similarity=0.671 Sum_probs=39.9
Q ss_pred cccceeecccccccEEEEecCcCCceEEEEEEeCccccccchhh
Q psy6164 11 GAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKDLTTFEEF 54 (64)
Q Consensus 11 ~~k~rit~giq~~s~lnvADNSGAK~l~iI~V~g~kgrlnr~~~ 54 (64)
+.++++|.|||.+|+|+||||||||.++||+|++++|..+|.++
T Consensus 2 ~~~~~~~~mIq~~t~L~VaDNSGak~v~cI~vl~~~g~~~r~~~ 45 (131)
T TIGR03673 2 GIRAGITRALPVGSLLVCADNTGAKEVEVISVKGYKGVKRRLPC 45 (131)
T ss_pred CcccccceeeccCCEEEEeeCCCCceEEEEEEeeeCCCcccCCc
Confidence 35788999999999999999999999999999999988888654
No 5
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=99.26 E-value=4.3e-12 Score=85.92 Aligned_cols=30 Identities=37% Similarity=0.498 Sum_probs=26.8
Q ss_pred ccccccEEEEecCcCCceEEEEEEeCcccc
Q psy6164 19 ALPVGAVINCADNTGAKNLFVIAVQGVKDL 48 (64)
Q Consensus 19 giq~~s~lnvADNSGAK~l~iI~V~g~kgr 48 (64)
|||++|+|+||||||||+++||+|+|.+.|
T Consensus 1 miq~~t~l~vADNSGAk~v~~I~V~gg~~r 30 (122)
T COG0093 1 MIQVQTRLNVADNSGAKEVMCIKVLGGSRR 30 (122)
T ss_pred CcccccEEEEccCCCCcEEEEEEEeccccc
Confidence 799999999999999999999999954433
No 6
>CHL00057 rpl14 ribosomal protein L14
Probab=99.13 E-value=5e-11 Score=79.47 Aligned_cols=29 Identities=34% Similarity=0.574 Sum_probs=26.7
Q ss_pred ccccccEEEEecCcCCceEEEEEEeCccc
Q psy6164 19 ALPVGAVINCADNTGAKNLFVIAVQGVKD 47 (64)
Q Consensus 19 giq~~s~lnvADNSGAK~l~iI~V~g~kg 47 (64)
|||.+|+|+||||||||.++||+|+|.+.
T Consensus 1 MIq~~t~l~v~DNSGak~v~cI~v~~~~~ 29 (122)
T CHL00057 1 MIQPQTYLNVADNSGARKLMCIRVLGASN 29 (122)
T ss_pred CCCcCCEEEEeECCCCcEEEEEEEeCCCC
Confidence 79999999999999999999999997543
No 7
>PRK05483 rplN 50S ribosomal protein L14; Validated
Probab=99.12 E-value=6.3e-11 Score=78.88 Aligned_cols=27 Identities=37% Similarity=0.524 Sum_probs=25.8
Q ss_pred ccccccEEEEecCcCCceEEEEEEeCc
Q psy6164 19 ALPVGAVINCADNTGAKNLFVIAVQGV 45 (64)
Q Consensus 19 giq~~s~lnvADNSGAK~l~iI~V~g~ 45 (64)
|||.+|+|+||||||||.++||+|+|.
T Consensus 1 MIq~~t~l~v~DNSGak~v~cI~v~g~ 27 (122)
T PRK05483 1 MIQQETRLNVADNSGAKEVMCIKVLGG 27 (122)
T ss_pred CCCCCCEEEEeECCCCCEEEEEEEeCC
Confidence 799999999999999999999999974
No 8
>TIGR01067 rplN_bact ribosomal protein L14, bacterial/organelle. This model distinguishes bacterial and most organellar examples of ribosomal protein L14 from all archaeal and eukaryotic forms.
Probab=99.12 E-value=6.5e-11 Score=78.74 Aligned_cols=27 Identities=37% Similarity=0.475 Sum_probs=25.7
Q ss_pred ccccccEEEEecCcCCceEEEEEEeCc
Q psy6164 19 ALPVGAVINCADNTGAKNLFVIAVQGV 45 (64)
Q Consensus 19 giq~~s~lnvADNSGAK~l~iI~V~g~ 45 (64)
|||.+|+|+||||||||.++||+|+|.
T Consensus 1 MIq~~t~l~v~DNSGak~v~cI~v~~~ 27 (122)
T TIGR01067 1 MIQQQSRLNVADNSGAKKVQCIKVLGG 27 (122)
T ss_pred CCCcCCEEEEeECCCCcEEEEEEEeCC
Confidence 799999999999999999999999973
No 9
>PF00238 Ribosomal_L14: Ribosomal protein L14p/L23e; InterPro: IPR000218 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L14 is one of the proteins from the large ribosomal subunit. In eubacteria, L14 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins, which have been grouped on the basis of sequence similarities []. Based on amino-acid sequence homology, it is predicted that ribosomal protein L14 is a member of a recently identified family of structurally related RNA-binding proteins []. L14 is a protein of 119 to 137 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZR_M 4A1C_J 4A1E_J 4A1A_J 4A17_J 1VSP_I 3D5D_O 1VSA_I 3MRZ_K 3F1F_O ....
Probab=99.03 E-value=1.6e-10 Score=76.33 Aligned_cols=28 Identities=39% Similarity=0.595 Sum_probs=25.9
Q ss_pred ccccccEEEEecCcCCceEEEEEEeCcc
Q psy6164 19 ALPVGAVINCADNTGAKNLFVIAVQGVK 46 (64)
Q Consensus 19 giq~~s~lnvADNSGAK~l~iI~V~g~k 46 (64)
|||.+|.|+||||||||.++||+|++++
T Consensus 1 MIq~~t~L~v~DNSGak~v~cI~v~~~~ 28 (122)
T PF00238_consen 1 MIQKGTILKVADNSGAKKVKCIKVLGGK 28 (122)
T ss_dssp -BETTEEEEESBSSSEEEEEEEEETSST
T ss_pred CCCCCCEEEEeeCCCCcEEEEEEEeCCc
Confidence 8999999999999999999999999865
No 10
>PTZ00320 ribosomal protein L14; Provisional
Probab=98.56 E-value=8.1e-08 Score=68.97 Aligned_cols=24 Identities=25% Similarity=0.451 Sum_probs=22.6
Q ss_pred cccccEEEEecCcCCceEEEEEEe
Q psy6164 20 LPVGAVINCADNTGAKNLFVIAVQ 43 (64)
Q Consensus 20 iq~~s~lnvADNSGAK~l~iI~V~ 43 (64)
..-+|+|+||||||||.++||+|+
T Consensus 60 ~~~qT~L~VaDNSGAK~V~CIkVl 83 (188)
T PTZ00320 60 FSDQVKLHCVDNTNCKHVRLISKA 83 (188)
T ss_pred cCCCcEEEEEeCCCCcEEEEEEEe
Confidence 457899999999999999999999
No 11
>KOG3441|consensus
Probab=68.71 E-value=3.2 Score=29.19 Aligned_cols=31 Identities=13% Similarity=0.132 Sum_probs=24.5
Q ss_pred ecccccccEEEEecCcC--------CceEEEEEEeCccc
Q psy6164 17 SLALPVGAVINCADNTG--------AKNLFVIAVQGVKD 47 (64)
Q Consensus 17 t~giq~~s~lnvADNSG--------AK~l~iI~V~g~kg 47 (64)
-.+|+.-|+|+|+|||- .+.-+||.|+...|
T Consensus 29 ~~~I~k~tRlrVVDNSaLGk~a~~~gr~PrCIHVYkkrg 67 (149)
T KOG3441|consen 29 LMGIHKRTRLRVVDNSALGKEADTTGRLPRCIHVYKKRG 67 (149)
T ss_pred HHhhhhhheEEEecchhhcccccccCCCCceEEEEeccc
Confidence 35789999999999984 26678999987544
No 12
>smart00561 MBT Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. Present in Drosophila Scm, l(3)mbt, and vertebrate SCML2. These proteins are involved in transcriptional regulation.
Probab=49.84 E-value=28 Score=21.85 Aligned_cols=44 Identities=20% Similarity=0.299 Sum_probs=34.2
Q ss_pred ecccccccEEEEecCcCCceEEEEEEeCccccccchhhhccccC
Q psy6164 17 SLALPVGAVINCADNTGAKNLFVIAVQGVKDLTTFEEFERFDRG 60 (64)
Q Consensus 17 t~giq~~s~lnvADNSGAK~l~iI~V~g~kgrlnr~~~~~~~~~ 60 (64)
..+.++|..|.++|--.--.+.+..|....|+.=++.|+-+|..
T Consensus 25 ~~~F~vGmkLEavD~~~~~~i~vAtV~~v~g~~l~v~~dg~~~~ 68 (96)
T smart00561 25 PNGFKVGMKLEAVDPRNPSLICVATVVEVKGYRLLLHFDGWDDK 68 (96)
T ss_pred cCcccCCCEEEEECCCCCceEEEEEEEEEECCEEEEEEccCCCc
Confidence 55689999999999987777777777777777777777777643
No 13
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=37.99 E-value=20 Score=23.54 Aligned_cols=19 Identities=32% Similarity=0.594 Sum_probs=16.8
Q ss_pred cceeecccccccEEEEecC
Q psy6164 13 KFRISLALPVGAVINCADN 31 (64)
Q Consensus 13 k~rit~giq~~s~lnvADN 31 (64)
-.|+..|||+|+-|..+|.
T Consensus 88 vsRlA~GiP~G~~ley~D~ 106 (112)
T cd01025 88 VTRLAQGIPVGGELEYADE 106 (112)
T ss_pred eEEEEEcCCCCcceeecCH
Confidence 4588999999999999994
No 14
>PRK13844 recombination protein RecR; Provisional
Probab=26.83 E-value=36 Score=24.60 Aligned_cols=19 Identities=26% Similarity=0.506 Sum_probs=16.6
Q ss_pred cceeecccccccEEEEecC
Q psy6164 13 KFRISLALPVGAVINCADN 31 (64)
Q Consensus 13 k~rit~giq~~s~lnvADN 31 (64)
-.|+..|||+|+-|..+|-
T Consensus 169 vtRlA~GiP~G~~ley~D~ 187 (200)
T PRK13844 169 ISRIGFGVPFGGELEYLDQ 187 (200)
T ss_pred EEeeeecCcCCcceeecCH
Confidence 4578899999999999993
No 15
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.63 E-value=40 Score=24.24 Aligned_cols=19 Identities=42% Similarity=0.609 Sum_probs=16.5
Q ss_pred cceeecccccccEEEEecC
Q psy6164 13 KFRISLALPVGAVINCADN 31 (64)
Q Consensus 13 k~rit~giq~~s~lnvADN 31 (64)
-.|+..|||+|+-|..+|-
T Consensus 166 vtRlA~GiP~G~~ley~D~ 184 (195)
T TIGR00615 166 VTRIASGLPVGGDLEYADE 184 (195)
T ss_pred EEeeeecCCCCcceeecCH
Confidence 4578899999999999994
No 16
>PRK00076 recR recombination protein RecR; Reviewed
Probab=25.12 E-value=41 Score=24.11 Aligned_cols=19 Identities=26% Similarity=0.531 Sum_probs=16.6
Q ss_pred cceeecccccccEEEEecC
Q psy6164 13 KFRISLALPVGAVINCADN 31 (64)
Q Consensus 13 k~rit~giq~~s~lnvADN 31 (64)
-.|+..|||+|+-|..+|-
T Consensus 165 vtRiA~GiP~G~~ley~D~ 183 (196)
T PRK00076 165 VTRLAHGVPVGGELEYVDE 183 (196)
T ss_pred eeeeeeCCCCCcceeeCCH
Confidence 4578899999999999994
No 17
>TIGR02703 carboxysome_A carboxysome peptide A. This model distinguishes one of two closely related paralogs encoded by nearby genes in the carboxysome operons of a number of cyanobacteria and chemoautotrophic bacteria. More distantly related proteins, also belonging to Pfam family pfam03319, participate in other types of shell such as the ethanolamine degradation organelle.
Probab=23.74 E-value=1.1e+02 Score=19.23 Aligned_cols=40 Identities=15% Similarity=0.029 Sum_probs=31.0
Q ss_pred CCCCCCCcccceeecccccccEEEEecCcCCceEEEEEEe
Q psy6164 4 RGRGGSAGAKFRISLALPVGAVINCADNTGAKNLFVIAVQ 43 (64)
Q Consensus 4 ~~~~~~~~~k~rit~giq~~s~lnvADNSGAK~l~iI~V~ 43 (64)
++..+-.+.|+.+-..++.+..+.++|.-||..=+.+-+.
T Consensus 14 ~K~~~L~g~kLliVq~~~~g~~~VAvD~vGAG~Ge~Vlv~ 53 (81)
T TIGR02703 14 NRIADMGHKPLLVVWEKPGGARQVAVDAIGCKPGDWVLCV 53 (81)
T ss_pred eecCCCCCcEEEEEEEcCCCCEEEEEECCCCCCCCEEEEe
Confidence 3345556678888777789999999999999987666665
No 18
>PF04023 FeoA: FeoA domain; InterPro: IPR007167 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria. This domain also occurs at the C terminus in related proteins. The transporter Feo is composed of three proteins: FeoA a small, soluble SH3-domain protein probably located in the cytosol; FeoB, a large protein with a cytosolic N-terminal G-protein domain and a C-terminal integral inner-membrane domain containing two 'Gate' motifs which likely functions as the Fe2+ permease; and FeoC, a small protein apparently functioning as an [Fe-S]-dependent transcriptional repressor [, ]. Feo allows the bacterial cell to acquire iron from its environment. ; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 1G3T_A 1C0W_B 1BI3_A 1QVP_A 1BI1_A 1BYM_A 2QQB_A ....
Probab=23.05 E-value=1.1e+02 Score=16.96 Aligned_cols=37 Identities=24% Similarity=0.214 Sum_probs=27.2
Q ss_pred ecccccccEEEEecCcCCceEEEEEEeCccccccchh
Q psy6164 17 SLALPVGAVINCADNTGAKNLFVIAVQGVKDLTTFEE 53 (64)
Q Consensus 17 t~giq~~s~lnvADNSGAK~l~iI~V~g~kgrlnr~~ 53 (64)
.+||.+|+.+.|.+-.....-.+|.+.+..=.|++..
T Consensus 30 ~lGl~~G~~i~v~~~~~~~~~~~i~~~~~~i~L~~~~ 66 (74)
T PF04023_consen 30 DLGLTPGSEITVIRKNPFGGPVVIKVDGSRIALSREI 66 (74)
T ss_dssp HCT-STTEEEEEEEEETTSSEEEEEETTEEEEESHHH
T ss_pred HCCCCCCCEEEEEEeCCCCCCEEEEECCEEEEcCHHH
Confidence 7899999999999877667777888876655555543
No 19
>PF13780 DUF4176: Domain of unknown function (DUF4176)
Probab=21.84 E-value=1.4e+02 Score=18.21 Aligned_cols=25 Identities=28% Similarity=0.663 Sum_probs=18.8
Q ss_pred cccccEEEEecCcCCceEEEEEEeCcc
Q psy6164 20 LPVGAVINCADNTGAKNLFVIAVQGVK 46 (64)
Q Consensus 20 iq~~s~lnvADNSGAK~l~iI~V~g~k 46 (64)
||.||++.+-+ |-+.++||+..-..
T Consensus 2 LPiGSVV~L~~--~~~~~mI~gR~~~~ 26 (76)
T PF13780_consen 2 LPIGSVVELKG--GTKKVMIIGRKQII 26 (76)
T ss_pred CCceeEEEECC--CCccEEEEEEEEee
Confidence 78899998887 44778888765443
No 20
>PF05656 DUF805: Protein of unknown function (DUF805); InterPro: IPR008523 This entry is represented by Lactobacillus phage LBR48, DUF805. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0016021 integral to membrane
Probab=21.64 E-value=38 Score=20.66 Aligned_cols=13 Identities=23% Similarity=0.110 Sum_probs=10.5
Q ss_pred eCccccccchhhh
Q psy6164 43 QGVKDLTTFEEFE 55 (64)
Q Consensus 43 ~g~kgrlnr~~~~ 55 (64)
...+||.+|.+|=
T Consensus 3 f~f~GR~~R~~fw 15 (120)
T PF05656_consen 3 FNFKGRISRKEFW 15 (120)
T ss_pred ccCcCCcCHHHHH
Confidence 3578999999984
No 21
>PF04941 LEF-8: Late expression factor 8 (LEF-8); InterPro: IPR007025 Late expression factor 8 (LEF-8) is one of the primary components of RNA polymerase produced by polyhedrosis viruses. LEF-8 shows homology to the second largest subunit of prokaryotic DNA-directed RNA polymerase[].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=20.90 E-value=64 Score=27.88 Aligned_cols=17 Identities=24% Similarity=0.305 Sum_probs=15.0
Q ss_pred EEEEEEeCccccccchh
Q psy6164 37 LFVIAVQGVKDLTTFEE 53 (64)
Q Consensus 37 l~iI~V~g~kgrlnr~~ 53 (64)
+.|.+|.|.||++|+.|
T Consensus 722 lKICgIHGQKGVln~se 738 (748)
T PF04941_consen 722 LKICGIHGQKGVLNGSE 738 (748)
T ss_pred eEEeeeecccccccChh
Confidence 66889999999999976
No 22
>PF01588 tRNA_bind: Putative tRNA binding domain; InterPro: IPR002547 This domain is found in prokaryotic methionyl-tRNA synthetases, prokaryotic phenylalanyl tRNA synthetases the yeast GU4 nucleic-binding protein (G4p1 or p42, ARC1) [], human tyrosyl-tRNA synthetase [], and endothelial-monocyte activating polypeptide II. G4p1 binds specifically to tRNA form a complex with methionyl-tRNA synthetases []. In human tyrosyl-tRNA synthetase this domain may direct tRNA to the active site of the enzyme []. This domain may perform a common function in tRNA aminoacylation [].; GO: 0000049 tRNA binding; PDB: 3BU2_C 1PYB_A 2Q2I_A 2Q2H_A 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 2CWP_A ....
Probab=20.46 E-value=1e+02 Score=18.65 Aligned_cols=24 Identities=21% Similarity=0.569 Sum_probs=20.6
Q ss_pred cccccEEEEecCcCCceEEEEEEe
Q psy6164 20 LPVGAVINCADNTGAKNLFVIAVQ 43 (64)
Q Consensus 20 iq~~s~lnvADNSGAK~l~iI~V~ 43 (64)
|.+|..+.|.+.-+++.+++..|.
T Consensus 1 i~vg~I~~~~~hp~sdkL~~~~Vd 24 (95)
T PF01588_consen 1 IRVGKILEVEPHPNSDKLYVLKVD 24 (95)
T ss_dssp EEEEEEEEEEEETTSSSEEEEEEE
T ss_pred CEEEEEEEEEECCCCCEEEEEEEE
Confidence 457888999999999889999986
No 23
>KOG4170|consensus
Probab=20.12 E-value=1.5e+02 Score=19.90 Aligned_cols=25 Identities=12% Similarity=0.268 Sum_probs=21.4
Q ss_pred EEEEecCcCCceEEEEEEeCccccc
Q psy6164 25 VINCADNTGAKNLFVIAVQGVKDLT 49 (64)
Q Consensus 25 ~lnvADNSGAK~l~iI~V~g~kgrl 49 (64)
.+||+|..|-.+..+|-.+..+|..
T Consensus 28 qfni~~~~~~~~~w~lDlK~g~g~~ 52 (113)
T KOG4170|consen 28 QFNITDADGGQETWTLDLKNGSGSV 52 (113)
T ss_pred EEEEecCCCCeEEEEEEccCCcccc
Confidence 4799999999999999999777653
No 24
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=20.08 E-value=46 Score=21.79 Aligned_cols=20 Identities=35% Similarity=0.416 Sum_probs=10.2
Q ss_pred EecCcCCceEEEEEEeCcccccc
Q psy6164 28 CADNTGAKNLFVIAVQGVKDLTT 50 (64)
Q Consensus 28 vADNSGAK~l~iI~V~g~kgrln 50 (64)
.+||.|.|.+.| .|....++
T Consensus 26 LsdNCGGkVl~v---~~~tAilr 45 (90)
T PF11608_consen 26 LSDNCGGKVLSV---SGGTAILR 45 (90)
T ss_dssp HHHTTT--EEE-----TT-EEEE
T ss_pred HhhccCCEEEEE---eCCEEEEE
Confidence 579999998776 34444443
Done!