Query 032796
Match_columns 133
No_of_seqs 103 out of 340
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 06:04:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032796.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032796hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00159 60S ribosomal protein 100.0 1.7E-70 3.7E-75 414.6 10.5 133 1-133 1-133 (133)
2 KOG0878 60S ribosomal protein 100.0 6.5E-66 1.4E-70 382.7 2.2 122 2-123 3-124 (124)
3 PF01655 Ribosomal_L32e: Ribos 100.0 2.7E-62 5.8E-67 360.1 7.0 110 14-123 1-110 (110)
4 cd00513 Ribosomal_L32_L32e Rib 100.0 2.4E-61 5.2E-66 353.6 9.0 107 16-122 1-107 (107)
5 PRK08562 rpl32e 50S ribosomal 100.0 5.9E-61 1.3E-65 359.5 8.7 115 8-124 10-124 (125)
6 PRK12766 50S ribosomal protein 100.0 1.9E-55 4.1E-60 357.4 9.0 112 12-125 113-224 (232)
7 COG1717 RPL32 Ribosomal protei 100.0 2.9E-55 6.2E-60 330.3 1.0 122 4-127 10-132 (133)
8 COG1458 Predicted DNA-binding 69.3 2.9 6.4E-05 34.5 1.6 42 77-124 159-200 (221)
9 PF09894 DUF2121: Uncharacteri 53.6 11 0.00023 30.8 2.2 32 79-121 30-61 (194)
10 PF08745 UPF0278: UPF0278 fami 39.4 13 0.00028 30.6 0.6 45 74-124 149-193 (205)
11 PF01408 GFO_IDH_MocA: Oxidore 32.1 76 0.0016 21.5 3.6 38 82-121 53-90 (120)
12 PRK12360 4-hydroxy-3-methylbut 31.4 75 0.0016 26.9 4.0 46 76-125 40-99 (281)
13 PF01248 Ribosomal_L7Ae: Ribos 30.7 1.4E+02 0.003 20.1 4.6 49 76-124 16-65 (95)
14 PRK01045 ispH 4-hydroxy-3-meth 29.8 92 0.002 26.6 4.3 46 76-125 39-96 (298)
15 PTZ00106 60S ribosomal protein 29.4 1.2E+02 0.0025 22.1 4.2 40 82-122 33-72 (108)
16 TIGR01071 rplO_bact ribosomal 29.3 92 0.002 23.5 3.9 48 32-87 30-86 (145)
17 PF12431 CitT: Transcriptional 28.6 25 0.00054 20.2 0.5 9 33-41 21-29 (30)
18 COG4075 Uncharacterized conser 26.8 51 0.0011 24.6 2.0 50 64-115 36-88 (110)
19 PF13727 CoA_binding_3: CoA-bi 26.0 93 0.002 22.1 3.3 45 76-120 126-171 (175)
20 PF08189 Meleagrin: Meleagrin/ 25.8 28 0.00062 21.5 0.4 12 53-64 6-17 (39)
21 COG1671 Uncharacterized protei 25.1 47 0.001 26.0 1.6 45 81-132 56-100 (150)
22 PF10126 Nit_Regul_Hom: Unchar 24.4 67 0.0014 24.1 2.2 51 63-115 35-88 (110)
23 PRK01018 50S ribosomal protein 24.3 1.8E+02 0.004 20.4 4.5 39 83-122 25-63 (99)
24 PF07988 LMSTEN: LMSTEN motif; 22.8 44 0.00096 21.5 0.9 12 79-90 29-40 (48)
25 PRK13602 putative ribosomal pr 22.7 2.3E+02 0.0049 19.3 4.5 41 83-124 20-60 (82)
26 TIGR01019 sucCoAalpha succinyl 22.6 1.5E+02 0.0033 24.9 4.4 34 92-125 89-122 (286)
27 PF00356 LacI: Bacterial regul 22.5 64 0.0014 20.0 1.6 21 99-119 24-44 (46)
28 PF05171 HemS: Haemin-degradin 22.4 1.4E+02 0.0031 21.6 3.7 42 79-125 1-46 (129)
29 KOG0622 Ornithine decarboxylas 22.4 1.8E+02 0.004 26.6 5.0 68 55-122 125-211 (448)
30 COG4412 Uncharacterized protei 22.2 51 0.0011 31.4 1.5 29 43-73 364-399 (760)
31 COG1609 PurR Transcriptional r 20.5 44 0.00095 27.9 0.7 26 100-126 26-51 (333)
32 TIGR00431 TruB tRNA pseudourid 20.5 1.8E+02 0.0038 23.7 4.2 57 34-97 8-70 (209)
33 PF06824 DUF1237: Protein of u 20.1 15 0.00032 33.1 -2.3 64 49-117 193-265 (424)
No 1
>PTZ00159 60S ribosomal protein L32; Provisional
Probab=100.00 E-value=1.7e-70 Score=414.62 Aligned_cols=133 Identities=65% Similarity=0.983 Sum_probs=131.8
Q ss_pred CCCCCCcccccccCCCCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecc
Q 032796 1 MAVPLLSKKIVKKRLKKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNT 80 (133)
Q Consensus 1 m~~p~~~~kivKkr~~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nv 80 (133)
|+.|+++++|+||+|++|+|||||+|+||++|||||+||||+||++|+|+++||+||||||++|||||||||++|+|||+
T Consensus 1 m~~p~~~~~ivkkr~~kF~R~~s~ry~rl~~sWRKPrGiDnkvRrr~kG~~~mp~iGYgS~k~tR~l~PsG~~~vlV~N~ 80 (133)
T PTZ00159 1 MVKPKVKKKIVKKRTKKFTRFQSERFPRVKPSWRKPRGIDNRVRRRFKGTRLMPKIGYGSDKKTRYLLPSGFYKFPVRNV 80 (133)
T ss_pred CCCCccccccccccCCcccccchhhccccccccCCCCCcccchhccccCccCCCcCccCCChhhcccCCCCCeeEEecCH
Confidence 78899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCCCCceeccccC
Q 032796 81 KELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARLRSQEDE 133 (133)
Q Consensus 81 keLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~arl~~~e~~ 133 (133)
+|||.|+|||++|||||||+||++||++|+++|+||||+|+|++|||++||+|
T Consensus 81 keLe~L~m~~~~~aa~Ia~~Vg~rKR~~I~~rA~eL~ikV~N~~arl~~ee~e 133 (133)
T PTZ00159 81 KDLEMLLMHNRKYAAEIAHNVSARKRKAIVERAKELNVRVLNGNARLRKEEKE 133 (133)
T ss_pred HHHHHHhcCCcceEEEEecccccchHHHHHHHHHHhCCcccCCCcccchhhcC
Confidence 99999999999999999999999999999999999999999999999999987
No 2
>KOG0878 consensus 60S ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.5e-66 Score=382.73 Aligned_cols=122 Identities=74% Similarity=1.156 Sum_probs=120.2
Q ss_pred CCCCCcccccccCCCCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecch
Q 032796 2 AVPLLSKKIVKKRLKKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTK 81 (133)
Q Consensus 2 ~~p~~~~kivKkr~~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nvk 81 (133)
..||++++|+||++++|+|||||+|.+++++||||+||||+|||||+|+++||+||||||++||||+||||++|+||||+
T Consensus 3 ~~pl~~~kivkkr~kkFirh~sdry~~v~~~WrkPrGiDnrVrRRFkgqilMPnIgYgsnKkTrh~lP~G~~kflv~nvk 82 (124)
T KOG0878|consen 3 MRPLVKPKIVKKRTKKFIRHQSDRYVRVKESWRKPRGIDNRVRRRFKGQILMPNIGYGSNKKTRHMLPNGFKKFLVHNVK 82 (124)
T ss_pred CccccccHHHHHhcccccccccchhhhhhhhccCCCcchhHHHHHhccceeccccccCCCccceecCChhhhHHhhhhhh
Confidence 35999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCC
Q 032796 82 ELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNK 123 (133)
Q Consensus 82 eLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~ 123 (133)
|||.|+|||++|||||||+||+++|++|+|+|+||||+|+|+
T Consensus 83 ele~Llm~nk~YcaEIAhnVsak~r~~Ivera~qL~i~vtn~ 124 (124)
T KOG0878|consen 83 ELEVLLMHNKTYCAEIAHNVSAKKRKAIVERAAQLGIRVTNR 124 (124)
T ss_pred HHHHHHHhhHHHHHHHhhccccccHHHHHHHHHhhceeccCC
Confidence 999999999999999999999999999999999999999996
No 3
>PF01655 Ribosomal_L32e: Ribosomal protein L32; InterPro: IPR001515 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 [, ]. The L32e family consists of proteins that have 135 to 240 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3O58_b 3IZS_h 1S1I 3O5H_b 2ZKR_y 1Q7Y_Z 1VQ7_Y 3CCQ_Y 3CCV_Y 3CC7_Y ....
Probab=100.00 E-value=2.7e-62 Score=360.06 Aligned_cols=110 Identities=63% Similarity=1.017 Sum_probs=86.5
Q ss_pred CCCCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecchhhHHHhhcCccc
Q 032796 14 RLKKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNRTY 93 (133)
Q Consensus 14 r~~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nvkeLe~L~~~~~~~ 93 (133)
+|++|+|||||+|+||++|||||+||||++|++|+|+++||+||||||++|||||||||++|+|||++|||.|+|||++|
T Consensus 1 k~~~F~R~~s~r~~rl~~sWRKPrGiDnk~Rrr~kG~~~mp~iGYgs~k~tR~l~PsG~~~~lV~n~~eLe~L~m~~~~~ 80 (110)
T PF01655_consen 1 KTKKFIRHQSDRYKRLKDSWRKPRGIDNKVRRRFKGKPLMPNIGYGSPKKTRGLHPSGFRKVLVHNVKELEVLLMDNKSY 80 (110)
T ss_dssp --S--B-TTTTTSTTS-SS-----SSS-TCCHT-TTS---S-GCGS--TTTTTB-TTSSEEEEESSHHHHHHCHHHTTTE
T ss_pred CCCcccccccccccccccccCCCCcccCcceeeecCccCccccccCCCccccccCCCCCeEEEEeccchHHHHhcCCcce
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEeeccCccccHHHHHHHHHhcCccccCC
Q 032796 94 CAEIAHDVSTRKRKEIVERAAQLDIVVTNK 123 (133)
Q Consensus 94 ~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~ 123 (133)
||||||+||++||++|+|+|+||||+|+||
T Consensus 81 ~~~Ia~~Vg~kkr~~I~erA~el~ikV~N~ 110 (110)
T PF01655_consen 81 AAEIAHNVGSKKRKEIVERAAELGIKVLNP 110 (110)
T ss_dssp EEEE-TTS-HHHHHHHHHHHHHHT-EBSSH
T ss_pred EEEEecCcccccHHHHHHHHHHhCCcccCC
Confidence 999999999999999999999999999996
No 4
>cd00513 Ribosomal_L32_L32e Ribosomal_L32_L32e: L32 is a protein from the large subunit that contains a surface-exposed globular domain and a finger-like projection that extends into the RNA core to stabilize the tertiary structure. L32 does not appear to play a role in forming the A (aminacyl), P (peptidyl) or E (exit) sites of the ribosome, but does interact with 23S rRNA, which has a "kink-turn" secondary structure motif. L32 is overexpressed in human prostate cancer and has been identified as a stably expressed housekeeping gene in macrophages of human chronic obstructive pulmonary disease (COPD) patients. In Schizosaccharomyces pombe, L32 has also been suggested to play a role as a transcriptional regulator in the nucleus. Found in archaea and eukaryotes, this protein is known as L32 in eukaryotes and L32e in archaea.
Probab=100.00 E-value=2.4e-61 Score=353.62 Aligned_cols=107 Identities=65% Similarity=1.009 Sum_probs=106.1
Q ss_pred CCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecchhhHHHhhcCccceE
Q 032796 16 KKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNRTYCA 95 (133)
Q Consensus 16 ~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nvkeLe~L~~~~~~~~a 95 (133)
++|.|||||+|+||++|||||+||||+||++|+|+++||+||||||++|||||||||++|+|||++|||.|+|||++|||
T Consensus 1 ~kF~R~~s~r~~rl~~sWRkPrGiDnkvRrr~kg~~~mp~iGYgS~k~tR~l~PsG~~~~lV~N~~eLe~l~~~n~~~~a 80 (107)
T cd00513 1 KKFKRHQSDRYKRLGDSWRKPRGIDNKVRRRFKGKPAMPKIGYGSPKKTRGLHPSGFKKVLVHNVKELEVLDMHNRTYAA 80 (107)
T ss_pred CCccccchhcccccccccCCCCCcccchhccccCCCCCCcccCCCChhhcccCCCCCeEEEecCHHHHHHHhccCCeeEE
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeccCccccHHHHHHHHHhcCccccC
Q 032796 96 EIAHDVSTRKRKEIVERAAQLDIVVTN 122 (133)
Q Consensus 96 ~Ia~~Vg~kkr~~I~erA~el~ikV~N 122 (133)
||||+||++||++|+|+|+||||+|+|
T Consensus 81 ~Ia~~Vg~rKR~~I~~rA~el~ikV~N 107 (107)
T cd00513 81 RIAHTVGARKRKEIVERAKELGIKVLN 107 (107)
T ss_pred EEecccccchHHHHHHHHHHhCCcccC
Confidence 999999999999999999999999998
No 5
>PRK08562 rpl32e 50S ribosomal protein L32e; Validated
Probab=100.00 E-value=5.9e-61 Score=359.54 Aligned_cols=115 Identities=40% Similarity=0.636 Sum_probs=112.2
Q ss_pred ccccccCCCCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecchhhHHHh
Q 032796 8 KKIVKKRLKKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLM 87 (133)
Q Consensus 8 ~kivKkr~~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nvkeLe~L~ 87 (133)
+..+|+++++|+|||||+|+||++|||||+||||+||++|+|+++||+||||||++|||||||||++|+|||++|||.|
T Consensus 10 r~~~kkk~~kF~R~~s~r~~rl~~sWRKPrGiDnkvRrr~kg~~~mp~iGYgS~k~tR~l~PsG~~~vlV~N~keLe~l- 88 (125)
T PRK08562 10 RLKLKRKKPEFKRQDWHRYKRLGDKWRRPRGLDSKMRLKLKGKPAIVEVGYRSPKAVRGLHPSGYEEVLVHNVKELEKL- 88 (125)
T ss_pred HHHhhccCCCcccccccccccccccCCCCCCcccchhccccCCCCCCcCCcCCChhhcccCCCCCeeEEecCHHHhhhc-
Confidence 3467999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCccceEEeeccCccccHHHHHHHHHhcCccccCCC
Q 032796 88 MHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKL 124 (133)
Q Consensus 88 ~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~ 124 (133)
||++|||||||+||++||++|+|+|+||||+|+||.
T Consensus 89 -~~~~~aa~Ia~~Vg~rKR~~I~~rA~el~ikV~N~~ 124 (125)
T PRK08562 89 -DPETQAARIASTVGKRKRLEILKKARELGIKVLNPG 124 (125)
T ss_pred -cCCceEEEEeccccchhHHHHHHHHHHhCCcccCCC
Confidence 799999999999999999999999999999999996
No 6
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=100.00 E-value=1.9e-55 Score=357.42 Aligned_cols=112 Identities=33% Similarity=0.463 Sum_probs=109.4
Q ss_pred ccCCCCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecchhhHHHhhcCc
Q 032796 12 KKRLKKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLMMHNR 91 (133)
Q Consensus 12 Kkr~~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nvkeLe~L~~~~~ 91 (133)
++++|+|+|||||+|+||++|||||+||||+|||+|+|+++||+||||||++|||||||||++|+|||++|||.| ||+
T Consensus 113 ~~~~p~F~R~~~~r~~r~~~sWRkPrGidnk~Rr~~kg~~~mp~iGYgS~k~~R~l~PsG~~~vlV~N~~eLe~l--~~~ 190 (232)
T PRK12766 113 REGKPQFNRQDYHKKKRTPTSWRRPRGGLSKQRRGIKGKGDTVEAGFRTPTAVRGKHPSGFEEVRVHNTDDLEGV--DGD 190 (232)
T ss_pred hccCCCeecccccccccccccCCCCCCCccchhcccCCCCCCCcCCCCCChhhcccCCCCCeeEEecCHHHHhhc--cCc
Confidence 567899999999999999999999999999999999999999999999999999999999999999999999999 799
Q ss_pred cceEEeeccCccccHHHHHHHHHhcCccccCCCC
Q 032796 92 TYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLA 125 (133)
Q Consensus 92 ~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~a 125 (133)
+|||+|||+||+|||++|+++|+||||+|+||+-
T Consensus 191 ~~aa~Ia~~Vg~rKR~~I~erA~el~ikV~N~~~ 224 (232)
T PRK12766 191 TEAVRIASKVGARKRERIEEVAEEQGIRVLNPTY 224 (232)
T ss_pred ceEEEeeccccchhHHHHHHHHHHhCCcccCCCc
Confidence 9999999999999999999999999999999974
No 7
>COG1717 RPL32 Ribosomal protein L32E [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-55 Score=330.26 Aligned_cols=122 Identities=47% Similarity=0.711 Sum_probs=113.9
Q ss_pred CCCccc-ccccCCCCccCCCCCCcccccCcccCCCCCCcchhccccCCCCCCCCCCCCCccccccCCCCceEEEEecchh
Q 032796 4 PLLSKK-IVKKRLKKFKRPQSDRKISVKENWRRPKGIDSRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHNTKE 82 (133)
Q Consensus 4 p~~~~k-ivKkr~~kF~R~~sdr~~ri~~sWRKPrGidnkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~nvke 82 (133)
+|++.+ .+|+++|+|.||+||||+|++++||+|+||||++|++++|.+.||+||||||+++||||||||++|||||++|
T Consensus 10 rLl~ir~~~k~kKp~F~R~~~~Rykrl~~~WRrPrG~dsK~Rr~~kg~p~~v~iGyrsPk~vRglhPSG~~~VlV~Nv~d 89 (133)
T COG1717 10 RLLKIRRVLKRKKPEFKRQESDRYKRLGEKWRRPRGIDSKMRRKLKGKPPMVKIGYRSPKAVRGLHPSGYEEVLVHNVKD 89 (133)
T ss_pred HHHHHHHHHHhccchhhhHHHHHHhhhhhhccCCCCchHHHHHHhcCCCCCcccCCCCcHhhcccCCCccceeeeecHHH
Confidence 345555 4456678899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCCCCce
Q 032796 83 LELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARL 127 (133)
Q Consensus 83 Le~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~arl 127 (133)
||.|+ |.++||+|||+||++||.+|+++|.||||+|+||++|+
T Consensus 90 Le~ld--p~~~aarIAs~VG~rKR~eI~~rA~elGikVlN~~~r~ 132 (133)
T COG1717 90 LEKLD--PETQAARIASTVGARKRIEILERARELGIKVLNPGGRV 132 (133)
T ss_pred HhhcC--chhHHHHHHHhhhHHHHHHHHHHHHHhCcEEeCCcccc
Confidence 99997 56889999999999999999999999999999999986
No 8
>COG1458 Predicted DNA-binding protein containing PIN domain [General function prediction only]
Probab=69.35 E-value=2.9 Score=34.49 Aligned_cols=42 Identities=17% Similarity=0.330 Sum_probs=36.2
Q ss_pred EecchhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCCC
Q 032796 77 VHNTKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKL 124 (133)
Q Consensus 77 V~nvkeLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~ 124 (133)
..+..|||+|+..-+-.|+..|+..| |..-|.+||+++.+|.
T Consensus 159 LDSapDlDvLLLAkELdaavVssD~G------ir~WAe~LGlrfv~a~ 200 (221)
T COG1458 159 LDSAPDLDVLLLAKELDAAVVSSDEG------IRTWAEKLGLRFVDAF 200 (221)
T ss_pred ccccchhHHHHHHHHhCceEEecchh------HHHHHHHhCCeeeCHh
Confidence 46889999998877888999999988 6677999999999875
No 9
>PF09894 DUF2121: Uncharacterized protein conserved in archaea (DUF2121); InterPro: IPR016754 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. They do show distant similarity to NTPases and to nucleic acid binding enzymes.
Probab=53.64 E-value=11 Score=30.79 Aligned_cols=32 Identities=22% Similarity=0.522 Sum_probs=25.6
Q ss_pred cchhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCcccc
Q 032796 79 NTKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVT 121 (133)
Q Consensus 79 nvkeLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~ 121 (133)
+-+.||.++ |+.+| +...++.++|.||||+|.
T Consensus 30 ~re~LEeeL-----YsG~I------ktdeEL~kkA~Elgv~i~ 61 (194)
T PF09894_consen 30 KREKLEEEL-----YSGKI------KTDEELLKKAEELGVKIK 61 (194)
T ss_pred HHHHHHHHH-----hCCcc------CCHHHHHHHHHHcCCEEE
Confidence 356777765 77887 578999999999999764
No 10
>PF08745 UPF0278: UPF0278 family; InterPro: IPR022785 This entry contains proteins of the UPF0278 family and proteins containing PIN domains. Members of the UPF0278 family are uncharacterised and about 200 amino acids in length.; PDB: 2LCQ_A.
Probab=39.44 E-value=13 Score=30.57 Aligned_cols=45 Identities=16% Similarity=0.254 Sum_probs=24.6
Q ss_pred EEEEecchhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCCC
Q 032796 74 KFVVHNTKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKL 124 (133)
Q Consensus 74 ~~lV~nvkeLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~ 124 (133)
.-.+-+..|+|+|+..-+-.|+-++..-| |..-|.+|||+++||.
T Consensus 149 ~G~ldS~~D~dvl~LA~El~a~lvt~D~g------i~~~A~~lGi~~i~~~ 193 (205)
T PF08745_consen 149 KGILDSREDIDVLLLALELDAVLVTDDYG------IQNWAEKLGIRFIDAR 193 (205)
T ss_dssp ------HHHHHHHHHHHHHT--EE---HH------HHHHHHHTT--EE---
T ss_pred cccCCChHhHHHHHHHHHcCCEEEeCCHh------HHHHHHHCCCEEEecc
Confidence 33456899999998766677777777655 8889999999999986
No 11
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=32.11 E-value=76 Score=21.51 Aligned_cols=38 Identities=26% Similarity=0.240 Sum_probs=29.9
Q ss_pred hhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCcccc
Q 032796 82 ELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVT 121 (133)
Q Consensus 82 eLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~ 121 (133)
+++.|+.++.-+++-|+..-+ .+.+++..|.+.|+.|+
T Consensus 53 ~~~~ll~~~~~D~V~I~tp~~--~h~~~~~~~l~~g~~v~ 90 (120)
T PF01408_consen 53 DLEELLADEDVDAVIIATPPS--SHAEIAKKALEAGKHVL 90 (120)
T ss_dssp SHHHHHHHTTESEEEEESSGG--GHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHhhcCCEEEEecCCc--chHHHHHHHHHcCCEEE
Confidence 355566556788999988765 59999999999998765
No 12
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=31.43 E-value=75 Score=26.90 Aligned_cols=46 Identities=17% Similarity=0.245 Sum_probs=30.2
Q ss_pred EEecchhhHHHhhcC-------------ccceEEe-eccCccccHHHHHHHHHhcCccccCCCC
Q 032796 76 VVHNTKELELLMMHN-------------RTYCAEI-AHDVSTRKRKEIVERAAQLDIVVTNKLA 125 (133)
Q Consensus 76 lV~nvkeLe~L~~~~-------------~~~~a~I-a~~Vg~kkr~~I~erA~el~ikV~N~~a 125 (133)
+|||+..++.|.-.. ....+-| ||-|+ .++.++|++.|+.|....+
T Consensus 40 iVHN~~Vv~~L~~~Gv~~v~~~~~~~v~~~~~ViirAHGv~----~~~~~~~~~~g~~viDaTC 99 (281)
T PRK12360 40 LIHNNQVVSDLEEKGVKTIEESEIDSLKEGDVVIIRSHGVS----KKVYKDLKDKGLEIIDATC 99 (281)
T ss_pred CcCCHHHHHHHHHCcCEEECcCchhhCCCCCEEEEeCCCCC----HHHHHHHHHCCCeEEeCCC
Confidence 678888777773110 0111222 77766 5678889999999998776
No 13
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 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 [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=30.66 E-value=1.4e+02 Score=20.07 Aligned_cols=49 Identities=16% Similarity=0.118 Sum_probs=37.8
Q ss_pred EEecchhhHHHhhcCccceEEeeccCccccHHH-HHHHHHhcCccccCCC
Q 032796 76 VVHNTKELELLMMHNRTYCAEIAHDVSTRKRKE-IVERAAQLDIVVTNKL 124 (133)
Q Consensus 76 lV~nvkeLe~L~~~~~~~~a~Ia~~Vg~kkr~~-I~erA~el~ikV~N~~ 124 (133)
+|.=.++....+...+...+-||.+++...... |..-|.+.+|.+..-.
T Consensus 16 lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~ 65 (95)
T PF01248_consen 16 LVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVP 65 (95)
T ss_dssp EEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEES
T ss_pred EEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEEEEC
Confidence 334445555555567889999999999999999 8899999999876543
No 14
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=29.82 E-value=92 Score=26.61 Aligned_cols=46 Identities=26% Similarity=0.263 Sum_probs=30.8
Q ss_pred EEecchhhHHHhhc-----------CccceEEe-eccCccccHHHHHHHHHhcCccccCCCC
Q 032796 76 VVHNTKELELLMMH-----------NRTYCAEI-AHDVSTRKRKEIVERAAQLDIVVTNKLA 125 (133)
Q Consensus 76 lV~nvkeLe~L~~~-----------~~~~~a~I-a~~Vg~kkr~~I~erA~el~ikV~N~~a 125 (133)
+|||+..++.|.-. +....+-| ||-++ .++.++|++.|+.|....+
T Consensus 39 iIHN~~vv~~L~~~GV~~v~~~~~v~~~~~ViirAHGv~----~~~~~~~~~~g~~viDaTC 96 (298)
T PRK01045 39 IVHNRYVVERLEKKGAIFVEELDEVPDGAIVIFSAHGVS----PAVREEAKERGLTVIDATC 96 (298)
T ss_pred CccCHHHHHHHHHCCCEEecCcccCCCCCEEEEeCCCCC----HHHHHHHHHCCCeEEeCCC
Confidence 68998888887411 11112222 77776 4677889999999998775
No 15
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=29.37 E-value=1.2e+02 Score=22.06 Aligned_cols=40 Identities=20% Similarity=0.161 Sum_probs=34.2
Q ss_pred hhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccC
Q 032796 82 ELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122 (133)
Q Consensus 82 eLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N 122 (133)
-+..|. ..+-..+-||.+.+..-++.|...|.+.+|.|.+
T Consensus 33 vlkalk-~gkaklViiA~D~~~~~kkki~~~~~~~~Vpv~~ 72 (108)
T PTZ00106 33 TLKALR-NGKAKLVIISNNCPPIRRSEIEYYAMLSKTGVHH 72 (108)
T ss_pred HHHHHH-cCCeeEEEEeCCCCHHHHHHHHHHHhhcCCCEEE
Confidence 345554 3688999999999999999999999999999875
No 16
>TIGR01071 rplO_bact ribosomal protein L15, bacterial/organelle.
Probab=29.30 E-value=92 Score=23.53 Aligned_cols=48 Identities=31% Similarity=0.488 Sum_probs=29.8
Q ss_pred cccCCCCCCcc----hhcccc-CCCC----CCCCCCCCCccccccCCCCceEEEEecchhhHHHh
Q 032796 32 NWRRPKGIDSR----VRRKFK-GCTL----MPNIGYGSDKKTRHYLPNGFKKFVVHNTKELELLM 87 (133)
Q Consensus 32 sWRKPrGidnk----vRrr~k-G~~~----mp~iGYgS~k~tr~l~PsG~~~~lV~nvkeLe~L~ 87 (133)
+=|=-+|--+| +|..|. ||++ +|+.||.++. . -.++.+=|+.+|+.+.
T Consensus 30 ~GrG~kGqk~R~g~~~~~gfEGGQ~Pl~rrlPK~GF~~~~-~-------~~~~~~VNL~~L~~~~ 86 (145)
T TIGR01071 30 SGRGHKGQKARSGGKVRRGFEGGQMPLYRRLPKRGFSNKR-F-------KKEYAEVNLGKLAKLF 86 (145)
T ss_pred CCCCCCcCcCCCCCCCCCeecCCCCceEEECCCCCCCCcc-c-------CcceeEEEHHHHhhhh
Confidence 34444555555 677787 5766 8898887652 1 1244566888888763
No 17
>PF12431 CitT: Transcriptional regulator
Probab=28.57 E-value=25 Score=20.18 Aligned_cols=9 Identities=67% Similarity=0.907 Sum_probs=7.0
Q ss_pred ccCCCCCCc
Q 032796 33 WRRPKGIDS 41 (133)
Q Consensus 33 WRKPrGidn 41 (133)
=+=|+|||.
T Consensus 21 ~~LPKGID~ 29 (30)
T PF12431_consen 21 ERLPKGIDE 29 (30)
T ss_pred cCCCCCccc
Confidence 457999995
No 18
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=26.82 E-value=51 Score=24.60 Aligned_cols=50 Identities=20% Similarity=0.170 Sum_probs=38.9
Q ss_pred ccccCCCCceEEEEecchhhHHH---hhcCccceEEeeccCccccHHHHHHHHHh
Q 032796 64 TRHYLPNGFKKFVVHNTKELELL---MMHNRTYCAEIAHDVSTRKRKEIVERAAQ 115 (133)
Q Consensus 64 tr~l~PsG~~~~lV~nvkeLe~L---~~~~~~~~a~Ia~~Vg~kkr~~I~erA~e 115 (133)
-||+-|.-|+-|.+. +|.|.- ..+-...|+-|..-|.-.+-..|.+.++|
T Consensus 36 YrGvsPd~wkgf~~~--EDpE~aik~i~D~s~~AVlI~tVV~Ee~vekie~~~~E 88 (110)
T COG4075 36 YRGVSPDKWKGFSKE--EDPESAIKAIRDLSDKAVLIGTVVKEEKVEKIEELLKE 88 (110)
T ss_pred ecCcChhHhcCcccc--cCHHHHHHHHHHhhhceEEEEEecCHHHHHHHHHHHHH
Confidence 478889999888887 666652 22334568899999999999999998887
No 19
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=25.95 E-value=93 Score=22.09 Aligned_cols=45 Identities=20% Similarity=0.169 Sum_probs=28.2
Q ss_pred EEecchhhHHHhhcCccceEEeeccC-ccccHHHHHHHHHhcCccc
Q 032796 76 VVHNTKELELLMMHNRTYCAEIAHDV-STRKRKEIVERAAQLDIVV 120 (133)
Q Consensus 76 lV~nvkeLe~L~~~~~~~~a~Ia~~V-g~kkr~~I~erA~el~ikV 120 (133)
.+.+.+||..+...+.-+-+-||=.- ....-.+|++.+.+.|+.|
T Consensus 126 ~lg~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v 171 (175)
T PF13727_consen 126 VLGDLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRV 171 (175)
T ss_dssp EE--GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EE
T ss_pred eEcCHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEE
Confidence 55799999999876666666676333 3455668999999999875
No 20
>PF08189 Meleagrin: Meleagrin/Cygnin family; InterPro: IPR012573 This family consists of meleagrin and cygnin basic peptides that are isolated from turkey and black swan respectively. Both peptides are low in molecular weight and contain three disulphide bonds with high concentrations of aromatic residues. These peptides show similarity to transferrins and probably play some vital role in avian eggs but the exact function is still unknown [].
Probab=25.83 E-value=28 Score=21.54 Aligned_cols=12 Identities=50% Similarity=0.791 Sum_probs=9.6
Q ss_pred CCCCCCCCCccc
Q 032796 53 MPNIGYGSDKKT 64 (133)
Q Consensus 53 mp~iGYgS~k~t 64 (133)
-|+|||-|++=.
T Consensus 6 cpkiGYCS~~Cs 17 (39)
T PF08189_consen 6 CPKIGYCSSKCS 17 (39)
T ss_pred Ccccceeccccc
Confidence 589999998753
No 21
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.07 E-value=47 Score=26.03 Aligned_cols=45 Identities=13% Similarity=0.089 Sum_probs=33.7
Q ss_pred hhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCCCCceecccc
Q 032796 81 KELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLARLRSQED 132 (133)
Q Consensus 81 keLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~arl~~~e~ 132 (133)
.|...+. ..+...+.|-+-+| +..++-++|..|+||++|+-.++|
T Consensus 56 aD~~Iv~-~a~~gDlVVT~Di~------LA~~ll~kg~~v~~prGr~y~~~n 100 (150)
T COG1671 56 ADDWIVN-LAEKGDLVVTADIP------LASLLLDKGAAVLNPRGRLYTEEN 100 (150)
T ss_pred HHHHHHH-hCCCCCEEEECchH------HHHHHHhcCCEEECCCCcccCHhH
Confidence 3444444 34666777777766 567788999999999999998876
No 22
>PF10126 Nit_Regul_Hom: Uncharacterized protein, homolog of nitrogen regulatory protein PII; InterPro: IPR019296 This family consists of various hypothetical archaeal proteins. It includes a putative nitrogen regulatory protein PII homolog.
Probab=24.38 E-value=67 Score=24.10 Aligned_cols=51 Identities=16% Similarity=0.229 Sum_probs=36.9
Q ss_pred cccccCCCCceEEEEecchhhHHH---hhcCccceEEeeccCccccHHHHHHHHHh
Q 032796 63 KTRHYLPNGFKKFVVHNTKELELL---MMHNRTYCAEIAHDVSTRKRKEIVERAAQ 115 (133)
Q Consensus 63 ~tr~l~PsG~~~~lV~nvkeLe~L---~~~~~~~~a~Ia~~Vg~kkr~~I~erA~e 115 (133)
+-|||-|.-|+.|++. +|.|.- .-+-...|+-|..-|+.++-..|.+...|
T Consensus 35 eYkGmSP~~wkgf~l~--EDpe~ai~~I~d~s~~aV~I~TVV~~~~~~~i~~~i~e 88 (110)
T PF10126_consen 35 EYKGMSPQDWKGFLLD--EDPEMAIKAINDLSENAVLIGTVVDEEKVEKIEKLIKE 88 (110)
T ss_pred eecCCChHHhcCcccc--cCHHHHHHHHHHhccCcEEEEEEECHHHHHHHHHHHHH
Confidence 3588999999999877 666653 22223467888888888888888877665
No 23
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=24.26 E-value=1.8e+02 Score=20.41 Aligned_cols=39 Identities=13% Similarity=0.110 Sum_probs=33.2
Q ss_pred hHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccC
Q 032796 83 LELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTN 122 (133)
Q Consensus 83 Le~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N 122 (133)
+..|. ..+-..+-||...+..-++.|...|.+.+|.+.+
T Consensus 25 ~kai~-~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~ 63 (99)
T PRK01018 25 IKAIK-LGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYE 63 (99)
T ss_pred HHHHH-cCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 44554 4678899999999999999999999999998765
No 24
>PF07988 LMSTEN: LMSTEN motif; InterPro: IPR012642 Proteins containing the Wos2 domain are involved in the regulation of the cell cycle [] and are Myb-related transcriptional activators. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2AGH_A 1SB0_B.
Probab=22.85 E-value=44 Score=21.54 Aligned_cols=12 Identities=58% Similarity=0.797 Sum_probs=9.8
Q ss_pred cchhhHHHhhcC
Q 032796 79 NTKELELLMMHN 90 (133)
Q Consensus 79 nvkeLe~L~~~~ 90 (133)
.++|||.|+|..
T Consensus 29 rikelelllms~ 40 (48)
T PF07988_consen 29 RIKELELLLMSA 40 (48)
T ss_dssp HHHHHHHHHHCH
T ss_pred HHHHHHHHHHhh
Confidence 478999999963
No 25
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=22.70 E-value=2.3e+02 Score=19.33 Aligned_cols=41 Identities=15% Similarity=0.136 Sum_probs=33.7
Q ss_pred hHHHhhcCccceEEeeccCccccHHHHHHHHHhcCccccCCC
Q 032796 83 LELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKL 124 (133)
Q Consensus 83 Le~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~ 124 (133)
+..|. ..+-..+-||.+++..-++.|...|.+.+|.+..-.
T Consensus 20 ~kai~-~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 20 VKALK-RGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHH-cCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 34443 468889999999999999999999999999876543
No 26
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=22.65 E-value=1.5e+02 Score=24.90 Aligned_cols=34 Identities=3% Similarity=-0.018 Sum_probs=26.5
Q ss_pred cceEEeeccCccccHHHHHHHHHhcCccccCCCC
Q 032796 92 TYCAEIAHDVSTRKRKEIVERAAQLDIVVTNKLA 125 (133)
Q Consensus 92 ~~~a~Ia~~Vg~kkr~~I~erA~el~ikV~N~~a 125 (133)
..++-|++-++..-..+|++.|.+.|++|+=||+
T Consensus 89 k~avIis~Gf~e~~~~~l~~~a~~~girilGPNc 122 (286)
T TIGR01019 89 ELIVCITEGIPVHDMLKVKRYMEESGTRLIGPNC 122 (286)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHcCCEEECCCC
Confidence 4556677777766567899999999999987775
No 27
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=22.48 E-value=64 Score=19.99 Aligned_cols=21 Identities=33% Similarity=0.401 Sum_probs=18.6
Q ss_pred ccCccccHHHHHHHHHhcCcc
Q 032796 99 HDVSTRKRKEIVERAAQLDIV 119 (133)
Q Consensus 99 ~~Vg~kkr~~I~erA~el~ik 119 (133)
..|+...|..|.+-|.+||..
T Consensus 24 ~~vs~~tr~rI~~~a~~lgY~ 44 (46)
T PF00356_consen 24 PRVSEETRERILEAAEELGYR 44 (46)
T ss_dssp SSSTHHHHHHHHHHHHHHTB-
T ss_pred CCCCHHHHHHHHHHHHHHCCC
Confidence 578999999999999999975
No 28
>PF05171 HemS: Haemin-degrading HemS.ChuX domain; InterPro: IPR007845 The Yersinia enterocolitica O:8 periplasmic binding protein-dependent transport system consisted of four proteins: the periplasmic haemin-binding protein HemT, the haemin permease protein HemU, the ATP-binding hydrophilic protein HemV and the haemin-degrading protein HemS. The structure for HemS has been solved and consists of a tandem repeat of the domain represented in this entry[].; GO: 0006826 iron ion transport; PDB: 2HQ2_A 2J0R_A 2J0P_A 1U9T_A.
Probab=22.43 E-value=1.4e+02 Score=21.65 Aligned_cols=42 Identities=26% Similarity=0.332 Sum_probs=29.5
Q ss_pred cchhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcCc----cccCCCC
Q 032796 79 NTKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLDI----VVTNKLA 125 (133)
Q Consensus 79 nvkeLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~i----kV~N~~a 125 (133)
++.|++.|......+|.++... =.+|++.+.++|+ -|-|+.+
T Consensus 1 ~vse~~~l~~~~~~~a~rl~~~-----~~~lL~~l~~~g~~vm~~vrN~g~ 46 (129)
T PF05171_consen 1 GVSEAELLAAAGGDFARRLDAD-----FPALLEALAELGLPVMAFVRNPGA 46 (129)
T ss_dssp TS-HHHHHHHSCTTTEEEE-TH-----HHHHHHHHHHHT-SEEEEEEESSE
T ss_pred CcCHHHHHHhcCCCCEEEhhHh-----HHHHHHHHHHcCCcEEEEECCCce
Confidence 4678888877777899999833 5799999999994 3445544
No 29
>KOG0622 consensus Ornithine decarboxylase [Amino acid transport and metabolism]
Probab=22.35 E-value=1.8e+02 Score=26.58 Aligned_cols=68 Identities=24% Similarity=0.274 Sum_probs=49.2
Q ss_pred CCCCCCCcccc----ccCCCCceEEEEecchhhHHHh-hcCccc-eEEeeccCc-------------cccHHHHHHHHHh
Q 032796 55 NIGYGSDKKTR----HYLPNGFKKFVVHNTKELELLM-MHNRTY-CAEIAHDVS-------------TRKRKEIVERAAQ 115 (133)
Q Consensus 55 ~iGYgS~k~tr----~l~PsG~~~~lV~nvkeLe~L~-~~~~~~-~a~Ia~~Vg-------------~kkr~~I~erA~e 115 (133)
.|=|-+|-+++ +---.|-....+.|.+||+.+. .+|... ..+||...+ .++...+++.|++
T Consensus 125 riIyanpcK~~s~IkyAa~~gV~~~tfDne~el~kv~~~hP~a~llLrIatdds~a~~~l~~KFG~~~~~~~~lLd~ak~ 204 (448)
T KOG0622|consen 125 RIIYANPCKQVSQIKYAAKHGVSVMTFDNEEELEKVAKSHPNANLLLRIATDDSTATCRLNLKFGCSLDNCRHLLDMAKE 204 (448)
T ss_pred HeEecCCCccHHHHHHHHHcCCeEEeecCHHHHHHHHHhCCCceEEEEEccCCCcccccccCccCCCHHHHHHHHHHHHH
Confidence 45566776654 3336788889999999999985 333333 447765544 4678999999999
Q ss_pred cCccccC
Q 032796 116 LDIVVTN 122 (133)
Q Consensus 116 l~ikV~N 122 (133)
|++.|+=
T Consensus 205 l~lnvvG 211 (448)
T KOG0622|consen 205 LELNVVG 211 (448)
T ss_pred cCceEEE
Confidence 9998873
No 30
>COG4412 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.23 E-value=51 Score=31.41 Aligned_cols=29 Identities=38% Similarity=0.650 Sum_probs=21.6
Q ss_pred hhccccCCCCCCCCCCCCC-------ccccccCCCCce
Q 032796 43 VRRKFKGCTLMPNIGYGSD-------KKTRHYLPNGFK 73 (133)
Q Consensus 43 vRrr~kG~~~mp~iGYgS~-------k~tr~l~PsG~~ 73 (133)
.--+++|+.- | +||+|= -+..|++|+||.
T Consensus 364 ydtqy~GtgE-P-VgYwsImssGsWaGki~Gt~p~gFs 399 (760)
T COG4412 364 YDTQYKGTGE-P-VGYWSIMSSGSWAGKIKGTLPGGFS 399 (760)
T ss_pred cccccccCCC-c-ccceeeecccccccccCCcCCcccc
Confidence 3456888654 5 899873 468999999985
No 31
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=20.55 E-value=44 Score=27.89 Aligned_cols=26 Identities=27% Similarity=0.372 Sum_probs=23.2
Q ss_pred cCccccHHHHHHHHHhcCccccCCCCc
Q 032796 100 DVSTRKRKEIVERAAQLDIVVTNKLAR 126 (133)
Q Consensus 100 ~Vg~kkr~~I~erA~el~ikV~N~~ar 126 (133)
.|+...|..|.+-|+|||.. -|..||
T Consensus 26 ~Vs~eTr~kV~~a~~elgY~-pN~~Ar 51 (333)
T COG1609 26 YVSEETREKVLAAIKELGYR-PNAVAR 51 (333)
T ss_pred CCCHHHHHHHHHHHHHHCCC-CCHHHH
Confidence 79999999999999999997 777665
No 32
>TIGR00431 TruB tRNA pseudouridine 55 synthase. TruB, the tRNA pseudouridine 55 synthase, converts uracil to pseudouridine in the T loop (not the anticodon loop - beware mis-annotation in Swiss-Prot) of most tRNAs of all three domains of life. This model is built on a seed alignment of bacterial proteins only. Saccharomyces cerevisiae protein YNL292w (Pus4) has been shown to be the pseudouridine 55 synthase of both cytosolic and mitochondrial compartments, active at no other position on tRNA and the only enzyme active at that position in the species. A distinct yeast protein YLR175w, (centromere/microtubule-binding protein CBF5) is an rRNA pseudouridine synthase, and the archaeal set is much more similar to CBF5 than to Pus4. It is unclear whether the archaeal proteins found by this model are tRNA pseudouridine 55 synthases like TruB, rRNA pseudouridine synthases like CBF5, or (as suggested by the absence of paralogs in the Archaea) both. CBF5 likely has additional, eukaryotic-specific
Probab=20.52 E-value=1.8e+02 Score=23.66 Aligned_cols=57 Identities=26% Similarity=0.401 Sum_probs=41.8
Q ss_pred cCCCCCC-----cchhccccCCCCCCCCCCCCCccccccCCCCceEEEEec-chhhHHHhhcCccceEEe
Q 032796 34 RRPKGID-----SRVRRKFKGCTLMPNIGYGSDKKTRHYLPNGFKKFVVHN-TKELELLMMHNRTYCAEI 97 (133)
Q Consensus 34 RKPrGid-----nkvRrr~kG~~~mp~iGYgS~k~tr~l~PsG~~~~lV~n-vkeLe~L~~~~~~~~a~I 97 (133)
-||.|+. +++|+-++- .+||.+.. =.-+.+|.=.+.|.. .+-++.++.++++|.+.+
T Consensus 8 ~KP~g~tS~~vv~~vkk~~~~----kKvGH~GT---LDP~AsGvLiv~vG~~Tkl~~~~~~~~K~Y~~~~ 70 (209)
T TIGR00431 8 DKPQGMTSFDALAKVRRLLNV----KKVGHTGT---LDPFATGVLPILVGKATKLSPYLTDLDKEYRAEI 70 (209)
T ss_pred ECCCCCCHHHHHHHHHHHhCC----CcCCCCCC---CCCcCceEEEEEEChHhhhhHHHcCCCCeEEEEE
Confidence 3899998 678887753 47888763 335667777788875 567777776789998876
No 33
>PF06824 DUF1237: Protein of unknown function (DUF1237); InterPro: IPR008313 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2P0V_B 3QSP_B 3QPF_A 3QRY_A 3ON6_A 3QT9_A 3QT3_A 2NVP_A 3P2C_B.
Probab=20.07 E-value=15 Score=33.10 Aligned_cols=64 Identities=25% Similarity=0.364 Sum_probs=34.5
Q ss_pred CCCCCCCCCCCCCccccccCCCCceE--------EEEec-chhhHHHhhcCccceEEeeccCccccHHHHHHHHHhcC
Q 032796 49 GCTLMPNIGYGSDKKTRHYLPNGFKK--------FVVHN-TKELELLMMHNRTYCAEIAHDVSTRKRKEIVERAAQLD 117 (133)
Q Consensus 49 G~~~mp~iGYgS~k~tr~l~PsG~~~--------~lV~n-vkeLe~L~~~~~~~~a~Ia~~Vg~kkr~~I~erA~el~ 117 (133)
+.--.|+-|+|+|-+.-||.-|||++ ++|.. .=-.-.| .++++|+..++...-.++.++|.+|.
T Consensus 193 ~tdtl~~~G~G~pv~~tGli~S~FRPSDDa~~y~yliPsNm~a~v~L-----~~laei~~~~~~~~~~~la~~~~~la 265 (424)
T PF06824_consen 193 PTDTLPNDGRGNPVAYTGLIWSGFRPSDDACIYPYLIPSNMFAVVAL-----EYLAEILRALGWDDSAELAERARALA 265 (424)
T ss_dssp GGGS-HHHHT-S----SSS-B-SB-TTSSB-SSSEEHHHHHHHHHHH-----HHHHHHHHHTT-THHHHHHHHHHHHH
T ss_pred CCccccCCCcCCcCCCCCceecCcCCCCcchhcCcCChHHHHHHHHH-----HHHHHHHHHhccchHHHHHHHHHHHH
Confidence 34446777999999999999999985 44432 2111122 56788888887766556777777664
Done!