Query psy3570
Match_columns 184
No_of_seqs 102 out of 454
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 20:02:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3570.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3570hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00136 eukaryotic translatio 100.0 1.5E-59 3.2E-64 402.2 22.6 184 1-184 62-247 (247)
2 COG1976 TIF6 Translation initi 100.0 3E-53 6.4E-58 355.3 16.8 161 1-163 61-221 (222)
3 KOG3185|consensus 100.0 2.5E-48 5.3E-53 322.9 16.4 183 1-183 62-244 (245)
4 PF01912 eIF-6: eIF-6 family; 100.0 2.9E-49 6.4E-54 329.7 10.5 142 1-143 58-199 (199)
5 PRK04046 translation initiatio 100.0 2.6E-46 5.6E-51 316.4 20.4 163 1-165 60-222 (222)
6 cd00527 IF6 Ribosome anti-asso 100.0 7.3E-45 1.6E-49 307.4 20.1 160 1-162 59-220 (220)
7 TIGR00323 eIF-6 translation in 100.0 1.8E-43 3.9E-48 298.1 18.7 159 1-163 57-215 (215)
8 smart00654 eIF6 translation in 100.0 2.1E-42 4.6E-47 288.8 19.7 161 1-165 14-177 (200)
9 smart00654 eIF6 translation in 100.0 3E-42 6.5E-47 287.9 16.4 143 1-143 58-200 (200)
10 PRK04046 translation initiatio 100.0 6.8E-41 1.5E-45 283.4 20.2 161 1-165 16-177 (222)
11 cd00527 IF6 Ribosome anti-asso 100.0 2.3E-33 4.9E-38 237.4 19.0 160 2-165 16-178 (220)
12 PF01912 eIF-6: eIF-6 family; 100.0 1.1E-34 2.3E-39 242.3 8.4 126 38-165 6-132 (199)
13 TIGR00323 eIF-6 translation in 100.0 1.2E-32 2.6E-37 232.3 19.3 158 2-165 14-172 (215)
14 COG1976 TIF6 Translation initi 100.0 7.7E-33 1.7E-37 232.3 14.9 127 38-165 9-178 (222)
15 PTZ00136 eukaryotic translatio 100.0 5.2E-32 1.1E-36 232.3 16.5 127 38-165 8-181 (247)
16 KOG3185|consensus 99.9 5.2E-22 1.1E-26 165.7 10.3 128 38-165 8-137 (245)
17 TIGR03380 agmatine_aguA agmati 65.0 59 0.0013 29.8 9.3 100 17-119 61-193 (357)
18 PRK14548 50S ribosomal protein 61.7 19 0.0004 26.5 4.5 46 54-121 4-50 (84)
19 PRK04323 hypothetical protein; 56.8 61 0.0013 24.3 6.6 67 43-113 10-78 (91)
20 COG0309 HypE Hydrogenase matur 52.0 15 0.00033 33.6 3.2 71 45-122 50-127 (339)
21 PRK13551 agmatine deiminase; P 52.0 1.4E+02 0.003 27.4 9.5 61 57-119 124-196 (362)
22 TIGR03636 L23_arch archaeal ri 46.1 28 0.00061 25.1 3.2 28 94-121 15-43 (77)
23 PTZ00191 60S ribosomal protein 42.8 43 0.00093 27.2 4.1 46 54-121 65-111 (145)
24 PLN02591 tryptophan synthase 41.9 77 0.0017 27.5 5.9 110 7-149 108-221 (250)
25 COG0159 TrpA Tryptophan syntha 41.0 1.6E+02 0.0035 26.1 7.8 119 7-162 124-245 (265)
26 PF13167 GTP-bdg_N: GTP-bindin 38.4 1.2E+02 0.0025 22.7 5.7 60 106-165 10-83 (95)
27 PF09419 PGP_phosphatase: Mito 38.0 42 0.00091 27.6 3.5 22 59-80 92-113 (168)
28 PRK05738 rplW 50S ribosomal pr 37.6 42 0.00092 24.8 3.2 28 94-121 21-49 (92)
29 COG2052 Uncharacterized protei 36.9 36 0.00079 25.1 2.6 62 43-107 10-72 (89)
30 PRK13111 trpA tryptophan synth 35.5 2.7E+02 0.0058 24.2 8.3 111 6-150 118-232 (258)
31 CHL00030 rpl23 ribosomal prote 34.7 53 0.0011 24.5 3.3 28 94-121 20-48 (93)
32 PF02274 Amidinotransf: Amidin 33.7 2.9E+02 0.0063 23.3 8.4 157 5-164 72-256 (281)
33 COG0089 RplW Ribosomal protein 30.6 67 0.0015 24.2 3.3 28 94-121 22-50 (94)
34 PF04371 PAD_porph: Porphyromo 29.4 1.1E+02 0.0023 27.5 5.0 60 57-119 111-182 (329)
35 PRK04165 acetyl-CoA decarbonyl 29.4 2.2E+02 0.0048 27.0 7.2 112 59-179 44-172 (450)
36 TIGR01659 sex-lethal sex-letha 29.0 3.6E+02 0.0078 24.4 8.3 135 11-163 115-258 (346)
37 cd01972 Nitrogenase_VnfE_like 28.7 1.1E+02 0.0024 28.0 5.1 98 63-179 182-280 (426)
38 cd01974 Nitrogenase_MoFe_beta 27.9 2.5E+02 0.0054 25.8 7.2 63 98-181 230-292 (435)
39 PF04025 DUF370: Domain of unk 27.6 2.2E+02 0.0048 20.5 5.4 60 43-107 6-68 (73)
40 CHL00073 chlN photochlorophyll 26.8 1.3E+02 0.0027 28.7 5.1 94 62-182 207-304 (457)
41 CHL00123 rps6 ribosomal protei 26.0 1.3E+02 0.0028 22.2 4.1 68 98-166 12-88 (97)
42 PRK08005 epimerase; Validated 25.7 2.1E+02 0.0046 24.2 5.8 117 8-161 37-158 (210)
43 PLN02690 Agmatine deiminase 25.2 1.7E+02 0.0036 27.0 5.5 59 58-119 135-205 (374)
44 PF00276 Ribosomal_L23: Riboso 24.1 95 0.0021 22.7 3.0 34 94-127 21-56 (91)
45 cd01977 Nitrogenase_VFe_alpha 23.9 1.3E+02 0.0028 27.4 4.6 82 65-165 180-262 (415)
46 COG2203 FhlA FOG: GAF domain [ 23.8 1.3E+02 0.0029 21.1 3.8 41 68-115 114-154 (175)
47 PRK09722 allulose-6-phosphate 23.5 3.5E+02 0.0075 23.2 6.8 100 8-129 38-143 (229)
48 PRK01388 arginine deiminase; P 23.3 6.1E+02 0.013 23.6 10.7 156 7-165 168-379 (406)
49 cd01968 Nitrogenase_NifE_I Nit 22.9 1.3E+02 0.0027 27.4 4.2 98 64-180 175-275 (410)
50 PF13185 GAF_2: GAF domain; PD 22.2 1.3E+02 0.0029 21.5 3.6 30 81-115 110-139 (148)
51 TIGR01286 nifK nitrogenase mol 21.8 2.8E+02 0.006 26.6 6.4 64 98-182 290-353 (515)
52 PF09830 ATP_transf: ATP adeny 21.0 2.2E+02 0.0048 19.4 4.2 48 45-115 3-50 (62)
53 PRK12280 rplW 50S ribosomal pr 20.8 1.2E+02 0.0026 24.9 3.3 33 94-126 23-57 (158)
54 PF01590 GAF: GAF domain; Int 20.7 1E+02 0.0023 22.2 2.7 32 81-115 115-146 (154)
55 PRK15427 colanic acid biosynth 20.5 6E+02 0.013 22.8 8.1 53 60-117 317-369 (406)
56 TIGR02329 propionate_PrpR prop 20.2 88 0.0019 30.0 2.7 73 49-125 52-128 (526)
No 1
>PTZ00136 eukaryotic translation initiation factor 6-like protein; Provisional
Probab=100.00 E-value=1.5e-59 Score=402.20 Aligned_cols=184 Identities=73% Similarity=1.149 Sum_probs=180.5
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
|++||+||+|||++++|+|+++||++||++++|.++++|++++|||++|||+||++||+++++..+.|+|+||||+++++
T Consensus 62 l~~gN~nGllvp~~~~d~El~~l~~~l~d~v~V~~l~~~~saiGn~i~~ND~~alV~p~l~~~~~e~I~d~L~VeVi~~t 141 (247)
T PTZ00136 62 LTVGNRKGLLVPSICTDQELQHLRNSLPDSVKVQRVEERLSALGNCIACNDYVALIHPDLDRETEEIIQDVLGVEVFRTT 141 (247)
T ss_pred EEeecCCeEEcCCcCCHHHHHHHHHhCcCCccEEEeCCccccceeEEEEcCCEEEECCCCCHHHHHHHHHhhCCcEEEEE
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHH
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESV 160 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Iedv 160 (184)
|+|+++||+++++||+|+||||.++++|++.|+++|||++.+||+|+|.++||++++|||+|++|||+||++|+++||++
T Consensus 142 Iag~~lVGs~~v~Nn~G~LVhP~~s~ee~~~i~d~L~V~v~~gTVn~G~~~VGsg~VaNn~G~lvg~~TT~~El~~Ie~~ 221 (247)
T PTZ00136 142 IAGNVLVGTYCVFTNQGGLVHPKTSVQEMDELSSLLQVPLVAGTVNRGSDVIGAGLVVNDWAAFCGMDTTATEISVIERI 221 (247)
T ss_pred ecCCceEEEEEEEeCcEEEECCCCCHHHHHHHHHHhCCcEEEeeecCCCCceeEEEEEECCEEEECCCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCC--CCCchhHHHHHHHhhhhhC
Q psy3570 161 FKLNE--AQPSAITTSMRASLIDSIA 184 (184)
Q Consensus 161 Lgv~~--~~~~~~~~~~~~~~~~~~~ 184 (184)
||++. +++..+...||++|||+.+
T Consensus 222 l~v~~~~~~~~~~~~~~~~~~~~~~~ 247 (247)
T PTZ00136 222 FKLRRAGGKEGNDLQKLRSSLIDTLA 247 (247)
T ss_pred hCCCcccCCchhhHHHHHHHHHHhhC
Confidence 99999 8888888999999999864
No 2
>COG1976 TIF6 Translation initiation factor 6 (eIF-6) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-53 Score=355.34 Aligned_cols=161 Identities=45% Similarity=0.685 Sum_probs=158.2
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
|++|||||+|||+.++|+|+++||+ +.+++|.++++|+||+||.|+|||+.|++||+++++..|.|+|+||||+++++
T Consensus 61 l~~gNsnG~lvP~~~~d~El~~l~~--~~~v~V~~l~~k~nAlGN~Il~ND~~Alvhp~l~~~a~k~I~d~LgVev~rgt 138 (222)
T COG1976 61 LTAGNSNGLLVPYGVRDEELRRLKN--ALGVEVLILPTKLNALGNLILANDKGALVHPDLSDEAEKEIEDVLGVEVVRGT 138 (222)
T ss_pred EEeecCCceEcCCcccHHHHHhhcc--cCCceEEEeCccccccccEEEecCceeEecCccCHHHHHHHHhhcceEEEEEE
Confidence 6899999999999999999999998 56899999999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHH
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESV 160 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Iedv 160 (184)
|||.++|||+++.||+|+||||.++++|+|+|+++|+|++..||+|+|.++||+|+||||||++||.+||+||+.|||++
T Consensus 139 Iag~~tVGsa~v~tnkG~LvhP~~s~~Ele~Lse~f~V~v~~GTvN~Gs~~VG~glVaNs~g~lvG~dTTgpEl~rIe~a 218 (222)
T COG1976 139 IAGIPTVGSAGVLTNKGGLVHPETSDEELEELSELFGVPVDVGTVNFGSPYVGAGLVANSKGALVGEDTTGPELARIEDA 218 (222)
T ss_pred ecCccceeeEEEEecCcceeCCCCCHHHHHHHHHHhCeeEEEeeecCCCcceeeEEEEcCCceEEcCCCCCchHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCC
Q psy3570 161 FKL 163 (184)
Q Consensus 161 Lgv 163 (184)
||.
T Consensus 219 Lg~ 221 (222)
T COG1976 219 LGF 221 (222)
T ss_pred hcc
Confidence 984
No 3
>KOG3185|consensus
Probab=100.00 E-value=2.5e-48 Score=322.91 Aligned_cols=183 Identities=80% Similarity=1.233 Sum_probs=181.2
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
||+||.||+|||+.+||+|+++||++||+.+.+.++++|.+|+||.|+|||+.|++||++++++.+.|+|+|+|||+|.+
T Consensus 62 l~~GNr~GLLvp~~tTDqElqHlRnSLPd~V~i~RveErlsALGNviaCNDyvAlvH~dldketEeii~dVL~VeVfRqt 141 (245)
T KOG3185|consen 62 LCVGNRHGLLVPHTTTDQELQHLRNSLPDEVVIQRVEERLSALGNVIACNDYVALVHPDLDKETEEIIADVLKVEVFRQT 141 (245)
T ss_pred hhccCcCceecCCcCcHHHHHHHHhcCCcceeeehhhhHHhhhcCEEEecceeEEecCccchhHHHHHHHHhheeeeeec
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHH
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESV 160 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Iedv 160 (184)
|++-++||++|+.+|+|++|||.++-++.++|+.+|.||+..||+|+|...+|+|+++||+-+++|-+||..|+..||.+
T Consensus 142 ia~n~LvGsyc~lsnqG~lVhp~Ts~e~q~Els~LlqVplVAGTvNrGS~vi~aGmvvNDw~af~G~dTTa~ElsViesi 221 (245)
T KOG3185|consen 142 IAQNSLVGSYCALSNQGGLVHPRTSVEDQDELSSLLQVPLVAGTVNRGSEVIGAGMVVNDWTAFCGLDTTATELSVIESI 221 (245)
T ss_pred ccCCceeeeeEEEcCCCceecCCCCHHHHHHHHHHhccceeeeeecCCceeeecceEeeceeeeeccCCcchhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCCCCCchhHHHHHHHhhhhh
Q psy3570 161 FKLNEAQPSAITTSMRASLIDSI 183 (184)
Q Consensus 161 Lgv~~~~~~~~~~~~~~~~~~~~ 183 (184)
|++.+|||+++..+||++|||+.
T Consensus 222 FkL~~aqp~~i~~~~R~~lid~~ 244 (245)
T KOG3185|consen 222 FKLNEAQPSSISSELRDTLIDSY 244 (245)
T ss_pred HhhcccCchhHHHHHHHHHHHhc
Confidence 99999999999999999999986
No 4
>PF01912 eIF-6: eIF-6 family; InterPro: IPR002769 This family includes eukaryotic translation initiation factor 6 (eIF6) as well as presumed archaeal homologues. The assembly of 80S ribosomes requires joining of the 40S and 60S subunits, which is triggered by the formation of an initiation complex on the 40S subunit. This event is rate-limiting for translation, and depends on external stimuli and the status of the cell. Eukaryotic translation initiation factor 6 (eIF6) binds specifically to the free 60S ribosomal subunit and prevents its association with the 40S ribosomal subunit ribosomes []. Furthermore, eIF6 interacts in the cytoplasm with RACK1, a receptor for activated protein kinase C (PKC). RACK1 is a major component of translating ribosomes, which harbour significant amounts of PKC. Loading 60S subunits with eIF6 caused a dose-dependent translational block and impairment of 80S formation, which are reversed by expression of RACK1 and stimulation of PKC in vivo and in vitro. PKC stimulation leads to eIF6 phosphorylation and its release, promoting 80S subunit formation. RACK1 provides a physical and functional link between PKC signalling and ribosome activation.; GO: 0043022 ribosome binding, 0042256 mature ribosome assembly; PDB: 4A19_J 4A1D_J 4A1B_J 4A18_J 1G61_A 2X7N_B 1G62_A.
Probab=100.00 E-value=2.9e-49 Score=329.71 Aligned_cols=142 Identities=51% Similarity=0.820 Sum_probs=121.9
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
|++||+||+|||++++|+|+++||+++| +++|+++++|+||+||+|+|||++|++||+++++..+.|+|+|||||++++
T Consensus 58 l~~GNsnGllvp~~~~d~El~~Lk~~~~-~v~V~~l~~k~tAlGN~Il~ND~~Alv~p~l~~e~~~~I~d~LgVeV~~~t 136 (199)
T PF01912_consen 58 LCVGNSNGLLVPSIITDEELEHLKESLP-DVNVEVLPSKLTALGNLILANDKGALVHPELSKETIEIISDVLGVEVFRGT 136 (199)
T ss_dssp H-EEESSEEEEETT--HHHHHHHHHHS--TSEEEEE--SSS-HHHHEEE-SSEEEE-CCGGHHHHHHHHHHHTSEEEE--
T ss_pred EEEEcCCEEEECCcCCHHHHHHHHhhCC-CceEEEeCceeccccCEEEEcCcceEEcCCCCHHHHHHHHHhcCceEEEEE
Confidence 6899999999999999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceE
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAA 143 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~Ga 143 (184)
|+|.++|||++++||+|+||||+++++|+++|+++|+|++..||+|+|.++||+|++|||+|+
T Consensus 137 ia~~~~VGs~~v~tn~G~LvhP~~s~eEl~~l~~~l~v~~~~GTVN~Gs~~VgsGlvaN~~g~ 199 (199)
T PF01912_consen 137 IAGIKTVGSAAVATNKGGLVHPDASEEELEELEELLGVPVDIGTVNRGSPFVGSGLVANDKGA 199 (199)
T ss_dssp BTTBS-CCCSEEE-SSEEEE-TT--HHHHHHHHHHHTSSEEE--BTTTBS-HHHHEEEESSEE
T ss_pred ecCcccceeeEEEeCcEEEECCCCCHHHHHHHHHHhCCceeeeeecCCCCceeEEEEeccccC
Confidence 999999999999999999999999999999999999999999999999999999999999997
No 5
>PRK04046 translation initiation factor IF-6; Provisional
Probab=100.00 E-value=2.6e-46 Score=316.43 Aligned_cols=163 Identities=39% Similarity=0.639 Sum_probs=159.5
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
|+++|+||+|+|+.++++|++.|++.| +++|.+++.+++++||++++||++|++||+++++.++.|+|+||||+.+.+
T Consensus 60 ~i~~N~~g~lvp~~~~~~e~~~l~e~L--~v~V~~~~~~~~~vGn~i~~N~~G~lv~p~~~~ee~~~i~~~L~V~v~~~t 137 (222)
T PRK04046 60 LAAGNSNGILVPSIVLDEELELLKEAL--DLNVEVLPSKLTALGNLILANDKGALVHPELSDEARKVIEDTLGVEVERGT 137 (222)
T ss_pred EEEEcCceEEeCCCCCHHHHHHHHHhc--CceEEEEeccccceEeEEEEcCcEEEECCCCCHHHHHHHHHhhCceEEEEe
Confidence 579999999999999999999999997 799999999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHH
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESV 160 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Iedv 160 (184)
|++.++||+++++||+|+||||+++++|++.|+++|+|++.+||+|+|.++||++++|||+|++|||+||++|+++|+++
T Consensus 138 i~~~~~VGs~ivaNd~G~lv~p~~t~~ei~~i~~~l~v~~~~gTvn~G~~~VGs~~van~~G~lvg~~tt~~El~~ie~~ 217 (222)
T PRK04046 138 IAGLKTVGSAGVVTNKGGLVHPDATDEELKFLEDLFKVEVDIGTVNFGSPLVGSGLVANSKGAVVGSDTTGPELGRIEDA 217 (222)
T ss_pred cCCccceeeEEEEeCCEEEECCCCCHHHHHHHHHHhCCceEEeEEcCCCCceeEEEEEeCCEEEECCCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCC
Q psy3570 161 FKLNE 165 (184)
Q Consensus 161 Lgv~~ 165 (184)
||+.+
T Consensus 218 l~~~~ 222 (222)
T PRK04046 218 LGFIE 222 (222)
T ss_pred hccCC
Confidence 99753
No 6
>cd00527 IF6 Ribosome anti-association factor IF6 binds the large ribosomal subunit and prevents the two subunits from associating during translation initiation. IF6 comprises a family of translation factors that includes both eukaryotic (eIF6) and archeal (aIF6) members. All members of this family have a conserved pentameric fold referred to as a beta/alpha propeller. The eukaryotic IF6 members have a moderately conserved C-terminal extension which is not required for ribosomal binding, and may have an alternative function.
Probab=100.00 E-value=7.3e-45 Score=307.44 Aligned_cols=160 Identities=56% Similarity=0.844 Sum_probs=152.4
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccc--cceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEE
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLS--ALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFR 78 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~--~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~ 78 (184)
|+++|++|+|||+.++++|++.|+++|+. +|.+++.+.+ ++||++++||++|++||.++++.++.|++.|+|+|++
T Consensus 59 ~~~~n~~~~lvp~~~~~~e~~~l~~~L~~--~V~v~~~~~~~s~iGnli~~Nd~g~lv~~~~~~~e~~~i~~~L~v~V~~ 136 (220)
T cd00527 59 LTVGNSNGLLLPHTTTDQELQHIRNSLPD--EVGVLRVKENLSALGNVILCNDHGALVHPDLSKEAEEIIEDVLGVEVFR 136 (220)
T ss_pred EEEEeCCEEEECCCCCHHHHHHHHHhcCC--CeEEEEccccceeeeeEEEEcCceEEeCCCCCHHHHHHHHHhcCCcEEE
Confidence 57899999999999999999999998754 4555555555 9999999999999999999999999999999999999
Q ss_pred EeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHH
Q psy3570 79 QTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIE 158 (184)
Q Consensus 79 ~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Ie 158 (184)
.+|++.+.+|+++++||+|+|+||+++++|++.|+++|||++.+||+|+|.++|||+++|||+|++|||+||++|+++|+
T Consensus 137 ~~i~~~~avGn~iv~Nd~g~LvhP~~s~ee~~~i~d~L~V~v~~gTvN~G~~~VGs~~VannkG~lvg~~tt~~El~~ie 216 (220)
T cd00527 137 GTIAGIKTVGSAGVLTNKGGLVHPKTSDEELEELSELFKVPVVAGTVNFGSQYVGAGLVANSKGAVVGSDTTGPELSRIE 216 (220)
T ss_pred EEccCcccceeEEEEeccEEEECCCCCHHHHHHHHHHhCCcEEEEEEcCCCCceeEEEEEECCEEEECCCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhC
Q psy3570 159 SVFK 162 (184)
Q Consensus 159 dvLg 162 (184)
|+||
T Consensus 217 ~~l~ 220 (220)
T cd00527 217 DALG 220 (220)
T ss_pred HHhC
Confidence 9996
No 7
>TIGR00323 eIF-6 translation initiation factor eIF-6, putative. This model finds translation initiation factor eIF-6 of eukaryotes, which is a ribosome dissociation factor. It also finds a set of apparent archaeal orthologs, slightly shorter proteins not yet shown to act as initiation factors; these probably should be designated as translation initiation factor aIF-6, putative.
Probab=100.00 E-value=1.8e-43 Score=298.11 Aligned_cols=159 Identities=58% Similarity=0.920 Sum_probs=155.1
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
|+++|++|++||+.+.+++++.|++. ++|.+++++.+++||++++||++|++||.++++.++.|++.||++|.+.+
T Consensus 57 ~~~~n~~~~lvp~~~~~~~~~~l~e~----l~V~~i~t~i~~iGnli~~Nd~G~lv~~~~~~~e~~~i~~~L~v~V~~~~ 132 (215)
T TIGR00323 57 MTAGNSRGLLVPDQVLDHELDSLPDS----LKVQRIEERLTALGNNILCNDYGALASPELDRDTEELISDVLGVEVFRGT 132 (215)
T ss_pred EEEEcCCEEEECCCcCHHHHHhhHhh----cCeEEEeeEEEeeeeEEEEcCceEEeCCCCCHHHHHHHHHhcCCcEEEEe
Confidence 57899999999999999999999974 78899999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHH
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESV 160 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Iedv 160 (184)
|++..++|+++++||+|+||||+++++|++.|+|+|||++.+||+|+|.++|||+++|||+|++|||+||++|+++|+|+
T Consensus 133 i~~~~~vG~~~v~nN~G~lvhP~~s~ee~~~i~d~LgV~v~~gTin~G~~~VGs~~Vann~G~lv~~~tt~~El~~ie~~ 212 (215)
T TIGR00323 133 IAGLITVGSYAVVTNRGGLVHPQTSVQEQEELSSLLGVELVAGTVNRGTTVVGAGMVANSKGAVVGLDTTGPELSIIEEA 212 (215)
T ss_pred cccccccceEEEEeCcEEEECCCCCHHHHHHHHHHhCCcEEEEEecCCCCceeEEEEEECCEEEECCCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCC
Q psy3570 161 FKL 163 (184)
Q Consensus 161 Lgv 163 (184)
||+
T Consensus 213 l~~ 215 (215)
T TIGR00323 213 LGL 215 (215)
T ss_pred hCc
Confidence 985
No 8
>smart00654 eIF6 translation initiation factor 6.
Probab=100.00 E-value=2.1e-42 Score=288.76 Aligned_cols=161 Identities=19% Similarity=0.244 Sum_probs=155.4
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEec-cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcC--ceEE
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVE-ERLSALGNVIACNDYVALVHPDLDRETEEILADTLN--VEVF 77 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~-~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~Lg--Vevi 77 (184)
|+++|++|+|||+.++++|++.|++.| +++|.++. .+++++||++++||+++++||.++++.++.|++.|+ ++|.
T Consensus 14 ~~~~n~~~~lvp~~~~~~~~~~i~e~L--~v~V~~~~i~~~~~iGnli~~N~~g~lv~~~~~~~el~~i~~~L~d~v~V~ 91 (200)
T smart00654 14 YIKLTNSYCLVPVGGDENFYSVIEEVL--GVPVVHTSIGGSRLIGRLTVGNSNGLLVPNTTTDQELQHLRNSLPDSVEVQ 91 (200)
T ss_pred EEEEeCCEEEECCCCCHHHHHHHHHhc--CCcEEEEecCCceeEEEEEEEcCCEEEeCCCCCHHHHHHHHHhcCCCeeEE
Confidence 578999999999999999999999987 48888876 999999999999999999999999999999999997 9999
Q ss_pred EEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHH
Q psy3570 78 RQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVI 157 (184)
Q Consensus 78 ~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~I 157 (184)
+.+.. .+.+|+++++||+|+|+||+++++|++.|+++|||++.+||+ +|.++|||+++|||+|++|||+||++|+++|
T Consensus 92 ~~~~~-~~avGn~iv~Nd~g~lvhp~~s~ee~~~i~d~L~V~v~~gTi-~G~~~VGs~~VannkG~lv~~~tt~~El~~i 169 (200)
T smart00654 92 RVEER-LTALGNLILCNDHGALASPDLSKETEEIISDVLGVEVFRGTI-AGNITVGSYCVVTNKGGLVHPDTSEEELKEL 169 (200)
T ss_pred EEccc-cccceeEEEEcCceEEECCCCCHHHHHHHHHHhCCeEEEEEe-cCcccceEEEEEECCEEEECCCCCHHHHHHH
Confidence 98887 999999999999999999999999999999999999999999 9999999999999999999999999999999
Q ss_pred HHHhCCCC
Q psy3570 158 ESVFKLNE 165 (184)
Q Consensus 158 edvLgv~~ 165 (184)
+++||++.
T Consensus 170 e~~l~v~~ 177 (200)
T smart00654 170 SELLGVPL 177 (200)
T ss_pred HHHhCCCc
Confidence 99999986
No 9
>smart00654 eIF6 translation initiation factor 6.
Probab=100.00 E-value=3e-42 Score=287.85 Aligned_cols=143 Identities=67% Similarity=1.045 Sum_probs=140.6
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
|+++|+||+|||+.++++|++.|+++|+++++|.+++.+++++||+++|||++|++||+++++.++.|+|+||||+.++|
T Consensus 58 li~~N~~g~lv~~~~~~~el~~i~~~L~d~v~V~~~~~~~~avGn~iv~Nd~g~lvhp~~s~ee~~~i~d~L~V~v~~gT 137 (200)
T smart00654 58 LTVGNSNGLLVPNTTTDQELQHLRNSLPDSVEVQRVEERLTALGNLILCNDHGALASPDLSKETEEIISDVLGVEVFRGT 137 (200)
T ss_pred EEEEcCCEEEeCCCCCHHHHHHHHHhcCCCeeEEEEccccccceeEEEEcCceEEECCCCCHHHHHHHHHHhCCeEEEEE
Confidence 57899999999999999999999999987899999999999999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceE
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAA 143 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~Ga 143 (184)
|+|.++|||.+++||+|+||||+++++|+++|+++|++++..||+|+|.++||+|++|||+|+
T Consensus 138 i~G~~~VGs~~VannkG~lv~~~tt~~El~~ie~~l~v~~~~gTvN~G~~~vg~glvaN~~g~ 200 (200)
T smart00654 138 IAGNITVGSYCVVTNKGGLVHPDTSEEELKELSELLGVPLVAGTVNFGSEVVGAGLVANDNGA 200 (200)
T ss_pred ecCcccceEEEEEECCEEEECCCCCHHHHHHHHHHhCCCcccceecCCCCceeeEEEEccccC
Confidence 999999999999999999999999999999999999999999999999999999999999996
No 10
>PRK04046 translation initiation factor IF-6; Provisional
Probab=100.00 E-value=6.8e-41 Score=283.41 Aligned_cols=161 Identities=22% Similarity=0.336 Sum_probs=155.0
Q ss_pred CccccCCeEEeCCCCCHHHHHHHHhhCCCCceE-EEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEE
Q psy3570 1 MSVGNRHGLIVPNATTDTELQHIRNSLPDSVKL-QRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQ 79 (184)
Q Consensus 1 l~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v-~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~ 79 (184)
|+++|++++|+|+.++++|++.|++.| ++++ +.--.+.+++|+|+++||+++++||.++++..+.|++.|||++.++
T Consensus 16 ~~~~n~~~~lvp~~~~~~~~~~i~~~L--~v~i~~~~i~gs~~iG~~i~~N~~g~lvp~~~~~~e~~~l~e~L~v~V~~~ 93 (222)
T PRK04046 16 YARATDDYALVPPDLDEKTVEKIEETL--GVEVVETTIAGSSLVGSLAAGNSNGILVPSIVLDEELELLKEALDLNVEVL 93 (222)
T ss_pred EEEEcCCEEEECCCCCHHHHHHHHHhc--CceEEEEEecCCcceEEEEEEcCceEEeCCCCCHHHHHHHHHhcCceEEEE
Confidence 478999999999999999999999997 5666 4457799999999999999999999999999999999999999999
Q ss_pred eecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHH
Q psy3570 80 TVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIES 159 (184)
Q Consensus 80 tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Ied 159 (184)
++ +++++|+++++||+|+|+||.++++|++.|++.|||++.++++ +|.+++||+++|||+||+|||++|++|+++|+|
T Consensus 94 ~~-~~~~vGn~i~~N~~G~lv~p~~~~ee~~~i~~~L~V~v~~~ti-~~~~~VGs~ivaNd~G~lv~p~~t~~ei~~i~~ 171 (222)
T PRK04046 94 PS-KLTALGNLILANDKGALVHPELSDEARKVIEDTLGVEVERGTI-AGLKTVGSAGVVTNKGGLVHPDATDEELKFLED 171 (222)
T ss_pred ec-cccceEeEEEEcCcEEEECCCCCHHHHHHHHHhhCceEEEEec-CCccceeeEEEEeCCEEEECCCCCHHHHHHHHH
Confidence 99 9999999999999999999999999999999999999999999 999999999999999999999999999999999
Q ss_pred HhCCCC
Q psy3570 160 VFKLNE 165 (184)
Q Consensus 160 vLgv~~ 165 (184)
+|||+.
T Consensus 172 ~l~v~~ 177 (222)
T PRK04046 172 LFKVEV 177 (222)
T ss_pred HhCCce
Confidence 999995
No 11
>cd00527 IF6 Ribosome anti-association factor IF6 binds the large ribosomal subunit and prevents the two subunits from associating during translation initiation. IF6 comprises a family of translation factors that includes both eukaryotic (eIF6) and archeal (aIF6) members. All members of this family have a conserved pentameric fold referred to as a beta/alpha propeller. The eukaryotic IF6 members have a moderately conserved C-terminal extension which is not required for ribosomal binding, and may have an alternative function.
Probab=100.00 E-value=2.3e-33 Score=237.44 Aligned_cols=160 Identities=18% Similarity=0.307 Sum_probs=149.7
Q ss_pred ccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEec-cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcC--ceEEE
Q psy3570 2 SVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVE-ERLSALGNVIACNDYVALVHPDLDRETEEILADTLN--VEVFR 78 (184)
Q Consensus 2 ~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~-~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~Lg--Vevi~ 78 (184)
+..|++=.++|+.+.++..+.|++.| ++.+.++. ...+.+|.|+++||+|+++|+..+++..+.|++.|+ |++++
T Consensus 16 ~~~~~~~~lvp~~~~~~~~~~i~e~L--~v~i~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~e~~~l~~~L~~~V~v~~ 93 (220)
T cd00527 16 AKATNSYCLVPPGGDENFVSKFEEEL--GVPVVRTTIGGSRLVGSLTVGNSNGLLLPHTTTDQELQHIRNSLPDEVGVLR 93 (220)
T ss_pred EEEeccEEEEcCCCCHHHHHHHHHHh--CCcEEEEEEcCccceeEEEEEeCCEEEECCCCCHHHHHHHHHhcCCCeEEEE
Confidence 45678889999999999999999986 35554443 588999999999999999999999999999999999 99999
Q ss_pred EeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHH
Q psy3570 79 QTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIE 158 (184)
Q Consensus 79 ~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Ie 158 (184)
+++.+| ++|.++++||+|+||||.++++|++.|++.|++++.++++ ++.+++||.++|||+||||||+++++|++.|+
T Consensus 94 ~~~~~s-~iGnli~~Nd~g~lv~~~~~~~e~~~i~~~L~v~V~~~~i-~~~~avGn~iv~Nd~g~LvhP~~s~ee~~~i~ 171 (220)
T cd00527 94 VKENLS-ALGNVILCNDHGALVHPDLSKEAEEIIEDVLGVEVFRGTI-AGIKTVGSAGVLTNKGGLVHPKTSDEELEELS 171 (220)
T ss_pred ccccce-eeeeEEEEcCceEEeCCCCCHHHHHHHHHhcCCcEEEEEc-cCcccceeEEEEeccEEEECCCCCHHHHHHHH
Confidence 999999 9999999999999999999999999999999999999998 77999999999999999999999999999999
Q ss_pred HHhCCCC
Q psy3570 159 SVFKLNE 165 (184)
Q Consensus 159 dvLgv~~ 165 (184)
|+|||+.
T Consensus 172 d~L~V~v 178 (220)
T cd00527 172 ELFKVPV 178 (220)
T ss_pred HHhCCcE
Confidence 9999996
No 12
>PF01912 eIF-6: eIF-6 family; InterPro: IPR002769 This family includes eukaryotic translation initiation factor 6 (eIF6) as well as presumed archaeal homologues. The assembly of 80S ribosomes requires joining of the 40S and 60S subunits, which is triggered by the formation of an initiation complex on the 40S subunit. This event is rate-limiting for translation, and depends on external stimuli and the status of the cell. Eukaryotic translation initiation factor 6 (eIF6) binds specifically to the free 60S ribosomal subunit and prevents its association with the 40S ribosomal subunit ribosomes []. Furthermore, eIF6 interacts in the cytoplasm with RACK1, a receptor for activated protein kinase C (PKC). RACK1 is a major component of translating ribosomes, which harbour significant amounts of PKC. Loading 60S subunits with eIF6 caused a dose-dependent translational block and impairment of 80S formation, which are reversed by expression of RACK1 and stimulation of PKC in vivo and in vitro. PKC stimulation leads to eIF6 phosphorylation and its release, promoting 80S subunit formation. RACK1 provides a physical and functional link between PKC signalling and ribosome activation.; GO: 0043022 ribosome binding, 0042256 mature ribosome assembly; PDB: 4A19_J 4A1D_J 4A1B_J 4A18_J 1G61_A 2X7N_B 1G62_A.
Probab=100.00 E-value=1.1e-34 Score=242.31 Aligned_cols=126 Identities=22% Similarity=0.335 Sum_probs=109.8
Q ss_pred cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhc-
Q psy3570 38 ERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLL- 116 (184)
Q Consensus 38 ~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l- 116 (184)
...+.+|+|+++||+||++||+++++..+.|++.|+||+++|+|+||+++|+|++||+||+|||+.++|+|++.|++.+
T Consensus 6 ~gs~~IGvy~~~t~~~~lvp~~~~~~~~~~i~e~L~v~vv~t~I~gs~lvG~l~~GNsnGllvp~~~~d~El~~Lk~~~~ 85 (199)
T PF01912_consen 6 YGSPNIGVYARATNDYALVPPGVSEKFVSIIEEELDVEVVETTIAGSRLVGSLCVGNSNGLLVPSIITDEELEHLKESLP 85 (199)
T ss_dssp TTBS-HHHHEEEESSEEEEETTS-HHHHHHHHHHHTSEEEEE-BTTBS-HHHH-EEESSEEEEETT--HHHHHHHHHHS-
T ss_pred eCCCCEEEEEEEcCCEEEEcCCCCHHHHHHHHHhcCCcEEEEEecCcceEEEEEEEcCCEEEECCcCCHHHHHHHHhhCC
Confidence 4789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHHhCCCC
Q psy3570 117 QIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESVFKLNE 165 (184)
Q Consensus 117 ~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~IedvLgv~~ 165 (184)
++++. +++.+.+++||.|+|||+||+|||++++++.+.|+|+|||++
T Consensus 86 ~v~V~--~l~~k~tAlGN~Il~ND~~Alv~p~l~~e~~~~I~d~LgVeV 132 (199)
T PF01912_consen 86 DVNVE--VLPSKLTALGNLILANDKGALVHPELSKETIEIISDVLGVEV 132 (199)
T ss_dssp TSEEE--EE--SSS-HHHHEEE-SSEEEE-CCGGHHHHHHHHHHHTSEE
T ss_pred CceEE--EeCceeccccCEEEEcCcceEEcCCCCHHHHHHHHHhcCceE
Confidence 66655 999999999999999999999999999999999999999986
No 13
>TIGR00323 eIF-6 translation initiation factor eIF-6, putative. This model finds translation initiation factor eIF-6 of eukaryotes, which is a ribosome dissociation factor. It also finds a set of apparent archaeal orthologs, slightly shorter proteins not yet shown to act as initiation factors; these probably should be designated as translation initiation factor aIF-6, putative.
Probab=100.00 E-value=1.2e-32 Score=232.32 Aligned_cols=158 Identities=18% Similarity=0.252 Sum_probs=147.9
Q ss_pred ccccCCeEEeCCCCCHHHHHHHHhhCCCCceEEEec-cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEe
Q psy3570 2 SVGNRHGLIVPNATTDTELQHIRNSLPDSVKLQRVE-ERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 2 ~~gN~nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~-~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~t 80 (184)
+..|++=.++|+.+.++..+.+++.| ++.+.++. .+.+.+|.|+++||+|+++|+..+++..+.+++.|+|++++++
T Consensus 14 ~~~~~~~~~vp~~~~~~~~~~~~e~l--~v~i~~~~i~gs~~IGv~~~~n~~~~lvp~~~~~~~~~~l~e~l~V~~i~t~ 91 (215)
T TIGR00323 14 AKVTEEYALVPVNGSENFYSAFEEEL--EVPVLHTTIAGSSLVGAMTAGNSRGLLVPDQVLDHELDSLPDSLKVQRIEER 91 (215)
T ss_pred EEEeCcEEEEcCCCCHHHHHHHHHHh--CCcEEEEEEcCCcceeEEEEEcCCEEEECCCcCHHHHHhhHhhcCeEEEeeE
Confidence 45577778999999999999999987 45555553 4789999999999999999999999999999999999999999
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHH
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESV 160 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~Iedv 160 (184)
| +++|+++++||+|+|+||.++++|++.|++.|++++.+.++ .+.+++|+.++|||+||||||+++++|++.|+|+
T Consensus 92 i---~~iGnli~~Nd~G~lv~~~~~~~e~~~i~~~L~v~V~~~~i-~~~~~vG~~~v~nN~G~lvhP~~s~ee~~~i~d~ 167 (215)
T TIGR00323 92 L---TALGNNILCNDYGALASPELDRDTEELISDVLGVEVFRGTI-AGLITVGSYAVVTNRGGLVHPQTSVQEQEELSSL 167 (215)
T ss_pred E---EeeeeEEEEcCceEEeCCCCCHHHHHHHHHhcCCcEEEEec-ccccccceEEEEeCcEEEECCCCCHHHHHHHHHH
Confidence 9 99999999999999999999999999999999999998888 9999999999999999999999999999999999
Q ss_pred hCCCC
Q psy3570 161 FKLNE 165 (184)
Q Consensus 161 Lgv~~ 165 (184)
|||+.
T Consensus 168 LgV~v 172 (215)
T TIGR00323 168 LGVEL 172 (215)
T ss_pred hCCcE
Confidence 99996
No 14
>COG1976 TIF6 Translation initiation factor 6 (eIF-6) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.7e-33 Score=232.32 Aligned_cols=127 Identities=26% Similarity=0.435 Sum_probs=121.7
Q ss_pred cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEe-----------------
Q psy3570 38 ERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLV----------------- 100 (184)
Q Consensus 38 ~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV----------------- 100 (184)
++.+.||.|+.++|+||++||+.+++.++.|+++|+||+++++|+||+++|+|+++|+||+||
T Consensus 9 ~gs~~IGvy~~~t~~~~lv~~~~~e~~~~~i~e~L~v~vv~ttI~gS~lvG~l~~gNsnG~lvP~~~~d~El~~l~~~~~ 88 (222)
T COG1976 9 EGSPNIGVYAKATESYALVPPGLDEKFVDVIREVLGVPVVETTIAGSRLVGALTAGNSNGLLVPYGVRDEELRRLKNALG 88 (222)
T ss_pred cCCCceEEEEEecccEEEEcCCCCHHHHHHHHHHhCCcEEEEEecCceEEeEEEeecCCceEcCCcccHHHHHhhcccCC
Confidence 578999999999999999999999999999999999999999999999999999996666665
Q ss_pred --------------------------CCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHH
Q psy3570 101 --------------------------HPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEI 154 (184)
Q Consensus 101 --------------------------~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El 154 (184)
||+++++..|.|+|+|||++.+||+ +|.+.|||..++|+||+||||++|++|+
T Consensus 89 v~V~~l~~k~nAlGN~Il~ND~~Alvhp~l~~~a~k~I~d~LgVev~rgtI-ag~~tVGsa~v~tnkG~LvhP~~s~~El 167 (222)
T COG1976 89 VEVLILPTKLNALGNLILANDKGALVHPDLSDEAEKEIEDVLGVEVVRGTI-AGIPTVGSAGVLTNKGGLVHPETSDEEL 167 (222)
T ss_pred ceEEEeCccccccccEEEecCceeEecCccCHHHHHHHHhhcceEEEEEEe-cCccceeeEEEEecCcceeCCCCCHHHH
Confidence 9999999999999999999999999 9999999999999999999999999999
Q ss_pred HHHHHHhCCCC
Q psy3570 155 SVIESVFKLNE 165 (184)
Q Consensus 155 ~~IedvLgv~~ 165 (184)
++++++|||+.
T Consensus 168 e~Lse~f~V~v 178 (222)
T COG1976 168 EELSELFGVPV 178 (222)
T ss_pred HHHHHHhCeeE
Confidence 99999999986
No 15
>PTZ00136 eukaryotic translation initiation factor 6-like protein; Provisional
Probab=100.00 E-value=5.2e-32 Score=232.34 Aligned_cols=127 Identities=17% Similarity=0.278 Sum_probs=119.4
Q ss_pred cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcC--ceEEEEeecCceeeeeEEEEcCCeEEe---------------
Q psy3570 38 ERLSALGNVIACNDYVALVHPDLDRETEEILADTLN--VEVFRQTVSSNVLVGSYCALTNQGGLV--------------- 100 (184)
Q Consensus 38 ~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~Lg--Vevi~~tIags~lVGsl~v~Nn~G~LV--------------- 100 (184)
++.+.+|+|+++||+||++||+.+++..+.|++.|+ ||+++|+|+||+++|+|++||+||+||
T Consensus 8 ~gs~~IGVf~~~t~~y~lvp~~~~~~~~~~~~~~L~~~v~vv~tsI~gs~lvG~l~~gN~nGllvp~~~~d~El~~l~~~ 87 (247)
T PTZ00136 8 ENSNDIGVFSKLTNSYCLVALGGSENFYSVFESELAPHIPVVHTTIGGTRVIGRLTVGNRKGLLVPSICTDQELQHLRNS 87 (247)
T ss_pred cCCCcEEEEEEEeCcEEEEcCCCCHHHHHHHHHHhcCCccEEEEEecCceeEEEEEeecCCeEEcCCcCCHHHHHHHHHh
Confidence 477999999999999999999999999999999999 999999999999999999998888888
Q ss_pred ------------------------------CCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCC
Q psy3570 101 ------------------------------HPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTT 150 (184)
Q Consensus 101 ------------------------------~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt 150 (184)
||+++++..+.|++.|+|++.++|+ +|.+.||+.+++||+||||||+++
T Consensus 88 l~d~v~V~~l~~~~saiGn~i~~ND~~alV~p~l~~~~~e~I~d~L~VeVi~~tI-ag~~lVGs~~v~Nn~G~LVhP~~s 166 (247)
T PTZ00136 88 LPDSVKVQRVEERLSALGNCIACNDYVALIHPDLDRETEEIIQDVLGVEVFRTTI-AGNVLVGTYCVFTNQGGLVHPKTS 166 (247)
T ss_pred CcCCccEEEeCCccccceeEEEEcCCEEEECCCCCHHHHHHHHHhhCCcEEEEEe-cCCceEEEEEEEeCcEEEECCCCC
Confidence 7777777777777778888889998 999999999999999999999999
Q ss_pred HHHHHHHHHHhCCCC
Q psy3570 151 STEISVIESVFKLNE 165 (184)
Q Consensus 151 ~~El~~IedvLgv~~ 165 (184)
++|++.|+|+|||+.
T Consensus 167 ~ee~~~i~d~L~V~v 181 (247)
T PTZ00136 167 VQEMDELSSLLQVPL 181 (247)
T ss_pred HHHHHHHHHHhCCcE
Confidence 999999999999996
No 16
>KOG3185|consensus
Probab=99.87 E-value=5.2e-22 Score=165.72 Aligned_cols=128 Identities=19% Similarity=0.265 Sum_probs=125.1
Q ss_pred cccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcC--ceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhh
Q psy3570 38 ERLSALGNVIACNDYVALVHPDLDRETEEILADTLN--VEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSL 115 (184)
Q Consensus 38 ~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~Lg--Vevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~ 115 (184)
++.+-+|.|...++.||+|..+-++.....++..|+ +|++.|+|+|++++|++++||.+|+|||..++|+|++.|++.
T Consensus 8 ens~eiGvf~kLTNtYclva~ggS~nfys~~e~el~d~IPiV~tsI~g~riiGrl~~GNr~GLLvp~~tTDqElqHlRnS 87 (245)
T KOG3185|consen 8 ENSNEIGVFSKLTNTYCLVAIGGSENFYSAFEAELGDVIPIVHTSIGGTRIIGRLCVGNRHGLLVPHTTTDQELQHLRNS 87 (245)
T ss_pred cCCcceeeeeecccceEEEEecCchhHHHHHHHHhcCccceEEeeccceeeeehhhccCcCceecCCcCcHHHHHHHHhc
Confidence 466899999999999999999999999999999999 999999999999999999999999999999999999999999
Q ss_pred cCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHHhCCCC
Q psy3570 116 LQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESVFKLNE 165 (184)
Q Consensus 116 l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~IedvLgv~~ 165 (184)
|+-++...++....+++|+.+.+||+-|+|||+++.+.-+.|.|+|+|++
T Consensus 88 LPd~V~i~RveErlsALGNviaCNDyvAlvH~dldketEeii~dVL~VeV 137 (245)
T KOG3185|consen 88 LPDEVVIQRVEERLSALGNVIACNDYVALVHPDLDKETEEIIADVLKVEV 137 (245)
T ss_pred CCcceeeehhhhHHhhhcCEEEecceeEEecCccchhHHHHHHHHhheee
Confidence 99999999999999999999999999999999999999999999999997
No 17
>TIGR03380 agmatine_aguA agmatine deiminase. Members of this family are agmatine deiminase (3.5.3.12), as characterized in Pseudomonas aeruginosa and plants. Related deiminases include the peptidyl-arginine deiminase (3.5.3.15) as found in Porphyromonas gingivalis.
Probab=64.99 E-value=59 Score=29.76 Aligned_cols=100 Identities=18% Similarity=0.333 Sum_probs=62.8
Q ss_pred HHHHHHHHhhCCCCceEEEeccccccc---eeEEEeeCc--EEE----------------EcCCCChhHHHHHhhhcCce
Q psy3570 17 DTELQHIRNSLPDSVKLQRVEERLSAL---GNVIACNDY--VAL----------------VHPDLDRETEEILADTLNVE 75 (184)
Q Consensus 17 ~~E~~~l~~~l~~~~~v~~l~~k~~~i---Gn~i~aNd~--~al----------------Vpp~~~~~~~~~I~e~LgVe 75 (184)
+++.+..+..+...+.+..++...+.+ |-....+++ .++ -+...+....+.|.+.+|++
T Consensus 61 ~~~~~~~~~~l~~~v~~~~~p~~D~W~RD~GP~fv~~~~g~~~~vdf~FNgWG~k~~~k~~~~~~D~~v~~~ia~~~g~~ 140 (357)
T TIGR03380 61 PAQYENARAQLPSNIRVVEMSSNDAWMRDTGPTFVVNDKGEIRGVDWEFNAWGGLVDGLYFPWDKDDLVARKVCELEGID 140 (357)
T ss_pred HHHHHHHHHhcccCeEEEECCCCCchhhcCCCEEEEcCCCCEEEEeeeeecccCcccCccCCcchHHHHHHHHHHHcCCC
Confidence 455555555554456666666555533 322222333 222 24566678889999999999
Q ss_pred EEEEeecCceeeeeEEEEcCCeEEe-----------CCCCCHHHHH-HHhhhcCcc
Q psy3570 76 VFRQTVSSNVLVGSYCALTNQGGLV-----------HPHTSPQDQD-ELSSLLQIP 119 (184)
Q Consensus 76 vi~~tIags~lVGsl~v~Nn~G~LV-----------~p~~~d~El~-~l~~~l~V~ 119 (184)
.+++ +.-+=|=....|-.|-++ .|..+++|++ .|++.||++
T Consensus 141 ~~~~---~lvlEGG~ie~dG~GtlltTe~clln~nRNP~ls~~eIe~~Lk~~LGv~ 193 (357)
T TIGR03380 141 RYRA---DFVLEGGSIHVDGEGTLLTTEECLLSEGRNPHLTKEQIEEKLKDYLGVE 193 (357)
T ss_pred cccc---CeEEeCCcEEECCCeeEEEEhhhhcCCCCCCCCCHHHHHHHHHHHHCCC
Confidence 8875 333334444457777665 7888999987 788889998
No 18
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=61.69 E-value=19 Score=26.51 Aligned_cols=46 Identities=9% Similarity=0.193 Sum_probs=35.0
Q ss_pred EEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHH-HHhhhcCccee
Q psy3570 54 ALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQD-ELSSLLQIPLV 121 (184)
Q Consensus 54 alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~-~l~~~l~V~v~ 121 (184)
.|..|-++++....+++. |...+.|+|.++..|++ .++.+++|.|.
T Consensus 4 iI~~PviTEK~~~~~e~~----------------------n~y~F~V~~~anK~eIK~AvE~lf~VkV~ 50 (84)
T PRK14548 4 IIKYPLVTEKAMNLIEKE----------------------NKLTFIVDRRATKPDIKRAVEELFDVKVE 50 (84)
T ss_pred chhccccCHHHHHHHHhC----------------------CEEEEEECCCCCHHHHHHHHHHHhCCceE
Confidence 355667777766654432 67889999999999998 67778999986
No 19
>PRK04323 hypothetical protein; Provisional
Probab=56.83 E-value=61 Score=24.35 Aligned_cols=67 Identities=18% Similarity=0.305 Sum_probs=45.3
Q ss_pred ceeEEEeeCcEEEEcCCCChhHHHHHhhhcC-ceEEEEeecCceeeeeEEEEcCCe-EEeCCCCCHHHHHHHh
Q psy3570 43 LGNVIACNDYVALVHPDLDRETEEILADTLN-VEVFRQTVSSNVLVGSYCALTNQG-GLVHPHTSPQDQDELS 113 (184)
Q Consensus 43 iGn~i~aNd~~alVpp~~~~~~~~~I~e~Lg-Vevi~~tIags~lVGsl~v~Nn~G-~LV~p~~~d~El~~l~ 113 (184)
.||++.+++=.|+++|+ |....+.+++.=. =.++..|-++ -.=++++ .+.| ++++|.-++.=.+++.
T Consensus 10 fgn~V~~~rIIAIv~~~-Sap~Kr~~~~ak~~g~lidaT~Gr--ktrsvII-tds~hV~LSai~~eTl~~R~~ 78 (91)
T PRK04323 10 FGNIVSANRIIAIVSPE-SAPIKRIIQEARERGMLIDATYGR--KTRAVII-TDSGHVILSAIQPETIAHRLS 78 (91)
T ss_pred CCcEEEcccEEEEECCC-cHHHHHHHHHHHHcCeEEeccCCC--ceeEEEE-ecCCeEEEeeCCHHHHHHHHh
Confidence 47799999999999999 5656665554332 3477777532 2234444 5666 8889888777666664
No 20
>COG0309 HypE Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=52.04 E-value=15 Score=33.58 Aligned_cols=71 Identities=8% Similarity=0.031 Sum_probs=55.5
Q ss_pred eEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhh-------cC
Q psy3570 45 NVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSL-------LQ 117 (184)
Q Consensus 45 n~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~-------l~ 117 (184)
.+.+++|.|.+.|+-++... -|-=.+..+..+..+-|+--.-=+-+++++|..+.++++++-+. +|
T Consensus 50 ~la~tTD~~~i~P~ff~~~d-------iG~lAV~gt~NDlav~GA~P~~l~~~lil~eg~~~e~l~~i~~si~e~a~~~G 122 (339)
T COG0309 50 VLAFTTDPFVIDPLFFPGGD-------IGKLAVHGTANDVAVSGAKPRYLSVGLILPEGLPIEDLERILKSIDEEAEEAG 122 (339)
T ss_pred eEEEEeCCeEecccccCCCc-------eEEEEEEEehhhhhhcCCCceeeeEeEecCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 58999999999999998762 12335667777777777766667789999999999999977543 78
Q ss_pred cceee
Q psy3570 118 IPLVA 122 (184)
Q Consensus 118 V~v~~ 122 (184)
|.+..
T Consensus 123 v~Ivt 127 (339)
T COG0309 123 VSIVT 127 (339)
T ss_pred CeEEc
Confidence 88754
No 21
>PRK13551 agmatine deiminase; Provisional
Probab=51.97 E-value=1.4e+02 Score=27.39 Aligned_cols=61 Identities=20% Similarity=0.313 Sum_probs=43.1
Q ss_pred cCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEe-----------CCCCCHHHHH-HHhhhcCcc
Q psy3570 57 HPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLV-----------HPHTSPQDQD-ELSSLLQIP 119 (184)
Q Consensus 57 pp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV-----------~p~~~d~El~-~l~~~l~V~ 119 (184)
+.+.+....+.|.+.+|++.++.+ +..+=|=....|-.|-|+ .|..+++|++ .|++.||++
T Consensus 124 ~~~~D~~v~~~la~~~g~~~~~~~--~lvlEGG~ie~DG~GtlltTe~clln~nRNP~ls~~~ie~~Lk~~LGv~ 196 (362)
T PRK13551 124 PWDKDDQVAQKVLEIEGRDRYRAK--PFVLEGGSIHVDGEGTLLTTEECLLNPNRNPHLTKEQIEQLLRDYLGVE 196 (362)
T ss_pred CCccHHHHHHHHHHHcCCCccccc--CeEEcCCcEEECCCeEEEEEhhhhcCCCCCCCCCHHHHHHHHHHHHCCC
Confidence 344556778899999999976641 233334444557777665 7889999987 788889998
No 22
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=46.09 E-value=28 Score=25.12 Aligned_cols=28 Identities=11% Similarity=0.179 Sum_probs=24.3
Q ss_pred cCCeEEeCCCCCHHHHH-HHhhhcCccee
Q psy3570 94 TNQGGLVHPHTSPQDQD-ELSSLLQIPLV 121 (184)
Q Consensus 94 Nn~G~LV~p~~~d~El~-~l~~~l~V~v~ 121 (184)
|..-+.|+|.++..|++ .++.+++|.|.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~ 43 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVE 43 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceE
Confidence 56789999999999998 67778999976
No 23
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=42.78 E-value=43 Score=27.19 Aligned_cols=46 Identities=11% Similarity=0.152 Sum_probs=38.1
Q ss_pred EEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHH-HHhhhcCccee
Q psy3570 54 ALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQD-ELSSLLQIPLV 121 (184)
Q Consensus 54 alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~-~l~~~l~V~v~ 121 (184)
.|..|-++|+....+++. |-.-++|++.++..|++ .++++++|.|.
T Consensus 65 IIk~Pl~TEKa~~~~E~~----------------------N~yvF~Vd~kAnK~qIK~AVEklf~VkV~ 111 (145)
T PTZ00191 65 IIKYPLTTEKAMKKIEDN----------------------NTLVFIVDQRANKTQIKKAVEKLYDVKVV 111 (145)
T ss_pred hhhcccccHHHHHHHhhC----------------------CEEEEEEcCCCCHHHHHHHHHHHhCCeeE
Confidence 466788888888877765 67789999999999998 67778999976
No 24
>PLN02591 tryptophan synthase
Probab=41.89 E-value=77 Score=27.50 Aligned_cols=110 Identities=20% Similarity=0.223 Sum_probs=62.4
Q ss_pred CeEEeCCCCCHHHHHHHHhhC-CCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCce
Q psy3570 7 HGLIVPNATTDTELQHIRNSL-PDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNV 85 (184)
Q Consensus 7 nGllvp~~~~~~E~~~l~~~l-~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~ 85 (184)
.|+|+|+.-. +|.+.+++.+ ..++ +-+.+++|..+++.++.|.+.=.==+ -
T Consensus 108 ~GviipDLP~-ee~~~~~~~~~~~gl-------------------~~I~lv~Ptt~~~ri~~ia~~~~gFI--------Y 159 (250)
T PLN02591 108 HGLVVPDLPL-EETEALRAEAAKNGI-------------------ELVLLTTPTTPTERMKAIAEASEGFV--------Y 159 (250)
T ss_pred CEEEeCCCCH-HHHHHHHHHHHHcCC-------------------eEEEEeCCCCCHHHHHHHHHhCCCcE--------E
Confidence 7999999876 4444444321 1122 24578999999888888877632112 2
Q ss_pred eeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCc---ceeeEEEEcCceEEEcCCC
Q psy3570 86 LVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSE---VIGAGMVVNDWAAFCGFDT 149 (184)
Q Consensus 86 lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~---~VGs~ivaNd~GalV~p~t 149 (184)
+|++..+.-.+.-+ |.--++-++.+++..++++.+| +|.+ .+....-..-.|++||..+
T Consensus 160 ~Vs~~GvTG~~~~~--~~~~~~~i~~vk~~~~~Pv~vG---FGI~~~e~v~~~~~~GADGvIVGSal 221 (250)
T PLN02591 160 LVSSTGVTGARASV--SGRVESLLQELKEVTDKPVAVG---FGISKPEHAKQIAGWGADGVIVGSAM 221 (250)
T ss_pred EeeCCCCcCCCcCC--chhHHHHHHHHHhcCCCceEEe---CCCCCHHHHHHHHhcCCCEEEECHHH
Confidence 33333332222211 3333555888998888888754 3443 3333223336788888754
No 25
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=40.97 E-value=1.6e+02 Score=26.06 Aligned_cols=119 Identities=15% Similarity=0.240 Sum_probs=69.9
Q ss_pred CeEEeCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCcee
Q psy3570 7 HGLIVPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNVL 86 (184)
Q Consensus 7 nGllvp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~l 86 (184)
+|+|+|+.--|+.-+..+-....++ |-+-|++|..+++.++.|.+.=.==++..+..|..
T Consensus 124 dGlivpDLP~ee~~~~~~~~~~~gi-------------------~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~~GvT- 183 (265)
T COG0159 124 DGLLVPDLPPEESDELLKAAEKHGI-------------------DPIFLVAPTTPDERLKKIAEAASGFIYYVSRMGVT- 183 (265)
T ss_pred CEEEeCCCChHHHHHHHHHHHHcCC-------------------cEEEEeCCCCCHHHHHHHHHhCCCcEEEEeccccc-
Confidence 6899999988776654443211122 33568999999999998887764334444443332
Q ss_pred eeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcc---eeeEEEEcCceEEEcCCCCHHHHHHHHHHhC
Q psy3570 87 VGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEV---IGAGMVVNDWAAFCGFDTTSTEISVIESVFK 162 (184)
Q Consensus 87 VGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~---VGs~ivaNd~GalV~p~tt~~El~~IedvLg 162 (184)
|+ +.- ++.. .++-+++++++.++++.+|= |... +-...-+ -.|++||..+ ++.|++-++
T Consensus 184 -G~------~~~-~~~~-~~~~v~~vr~~~~~Pv~vGF---GIs~~e~~~~v~~~-ADGVIVGSAi----V~~i~~~~~ 245 (265)
T COG0159 184 -GA------RNP-VSAD-VKELVKRVRKYTDVPVLVGF---GISSPEQAAQVAEA-ADGVIVGSAI----VKIIEEGLD 245 (265)
T ss_pred -CC------Ccc-cchh-HHHHHHHHHHhcCCCeEEec---CcCCHHHHHHHHHh-CCeEEEcHHH----HHHHHhccc
Confidence 11 111 1222 68889999999999987552 2221 1111122 5677777543 455555544
No 26
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=38.44 E-value=1.2e+02 Score=22.71 Aligned_cols=60 Identities=15% Similarity=0.201 Sum_probs=44.0
Q ss_pred HHHHHHHhhhcCcceeeEee-----ccCCcceeeEEE---------EcCceEEEcCCCCHHHHHHHHHHhCCCC
Q psy3570 106 PQDQDELSSLLQIPLVAGTV-----NRGSEVIGAGMV---------VNDWAAFCGFDTTSTEISVIESVFKLNE 165 (184)
Q Consensus 106 d~El~~l~~~l~V~v~~gtv-----n~g~~~VGs~iv---------aNd~GalV~p~tt~~El~~IedvLgv~~ 165 (184)
=+|++.|.+..|.++....+ ....+++|+|=+ .+-.-+++..++|......+++.||+++
T Consensus 10 l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~rNLe~~~~~~V 83 (95)
T PF13167_consen 10 LEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQRNLEKALGVKV 83 (95)
T ss_pred HHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHHHHHHHHHCCee
Confidence 36788888889988753222 134568888743 2445577888899999999999999987
No 27
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=38.02 E-value=42 Score=27.56 Aligned_cols=22 Identities=36% Similarity=0.539 Sum_probs=18.4
Q ss_pred CCChhHHHHHhhhcCceEEEEe
Q psy3570 59 DLDRETEEILADTLNVEVFRQT 80 (184)
Q Consensus 59 ~~~~~~~~~I~e~LgVevi~~t 80 (184)
+...+.++.+++.||+|+++-.
T Consensus 92 d~~~~~a~~~~~~lgIpvl~h~ 113 (168)
T PF09419_consen 92 DPDGERAEALEKALGIPVLRHR 113 (168)
T ss_pred CccHHHHHHHHHhhCCcEEEeC
Confidence 3467889999999999998765
No 28
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=37.62 E-value=42 Score=24.76 Aligned_cols=28 Identities=11% Similarity=0.133 Sum_probs=24.2
Q ss_pred cCCeEEeCCCCCHHHHH-HHhhhcCccee
Q psy3570 94 TNQGGLVHPHTSPQDQD-ELSSLLQIPLV 121 (184)
Q Consensus 94 Nn~G~LV~p~~~d~El~-~l~~~l~V~v~ 121 (184)
|-.-+.|+|.++..|++ .++++++|+|.
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV~ 49 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKVE 49 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCcee
Confidence 56678999999999998 67788999985
No 29
>COG2052 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.90 E-value=36 Score=25.14 Aligned_cols=62 Identities=13% Similarity=0.259 Sum_probs=41.7
Q ss_pred ceeEEEeeCcEEEEcCCCChhHHHHHhhhcCc-eEEEEeecCceeeeeEEEEcCCeEEeCCCCCHH
Q psy3570 43 LGNVIACNDYVALVHPDLDRETEEILADTLNV-EVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQ 107 (184)
Q Consensus 43 iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgV-evi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~ 107 (184)
+||.+.+|--.|+|+|+-. ...+.|.|.-+- ..+..|.+.- .-+..+.-++-++++---.|.
T Consensus 10 FGNivsanRviaIVsPESa-PiKRii~eArdr~~LIDATYGRr--TRavii~DS~hvILSAiQPET 72 (89)
T COG2052 10 FGNIVSANRVIAIVSPESA-PIKRIIQEARDRGMLIDATYGRR--TRAVIITDSDHVILSAIQPET 72 (89)
T ss_pred cccEeecceEEEEECCCcc-cHHHHHHHHHhcCcEEEcccCce--eeEEEEecCCcEEEeccChHH
Confidence 6899999999999999964 466777776553 3666666543 234556667777775544443
No 30
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=35.46 E-value=2.7e+02 Score=24.16 Aligned_cols=111 Identities=19% Similarity=0.254 Sum_probs=62.1
Q ss_pred CCeEEeCCCCCHHHHHHHHhhC-CCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCc
Q psy3570 6 RHGLIVPNATTDTELQHIRNSL-PDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSN 84 (184)
Q Consensus 6 ~nGllvp~~~~~~E~~~l~~~l-~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags 84 (184)
=.|+|+|+.-.+ |.+.+.+.+ ..++ +-+.+++|..+++.++.|.+.=.==+...+..|.
T Consensus 118 vdGviipDLp~e-e~~~~~~~~~~~gl-------------------~~I~lvap~t~~eri~~i~~~s~gfIY~vs~~Gv 177 (258)
T PRK13111 118 VDGLIIPDLPPE-EAEELRAAAKKHGL-------------------DLIFLVAPTTTDERLKKIASHASGFVYYVSRAGV 177 (258)
T ss_pred CcEEEECCCCHH-HHHHHHHHHHHcCC-------------------cEEEEeCCCCCHHHHHHHHHhCCCcEEEEeCCCC
Confidence 379999998765 555554332 0112 2346789999988888887762211332232221
Q ss_pred eeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCc---ceeeEEEEcCceEEEcCCCC
Q psy3570 85 VLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSE---VIGAGMVVNDWAAFCGFDTT 150 (184)
Q Consensus 85 ~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~---~VGs~ivaNd~GalV~p~tt 150 (184)
.| ...+. |.--++.++.+++..++++..| +|.. -+....-. -.|++||..+.
T Consensus 178 --TG-----~~~~~---~~~~~~~i~~vk~~~~~pv~vG---fGI~~~e~v~~~~~~-ADGviVGSaiv 232 (258)
T PRK13111 178 --TG-----ARSAD---AADLAELVARLKAHTDLPVAVG---FGISTPEQAAAIAAV-ADGVIVGSALV 232 (258)
T ss_pred --CC-----cccCC---CccHHHHHHHHHhcCCCcEEEE---cccCCHHHHHHHHHh-CCEEEEcHHHH
Confidence 22 12222 4445678899999888887643 2331 11111111 57888887654
No 31
>CHL00030 rpl23 ribosomal protein L23
Probab=34.68 E-value=53 Score=24.54 Aligned_cols=28 Identities=4% Similarity=0.035 Sum_probs=24.0
Q ss_pred cCCeEEeCCCCCHHHHH-HHhhhcCccee
Q psy3570 94 TNQGGLVHPHTSPQDQD-ELSSLLQIPLV 121 (184)
Q Consensus 94 Nn~G~LV~p~~~d~El~-~l~~~l~V~v~ 121 (184)
|-.-+.|++.++..|++ .++++++|.|.
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~ 48 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVI 48 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEE
Confidence 56778999999999998 66778999976
No 32
>PF02274 Amidinotransf: Amidinotransferase; InterPro: IPR003198 This family contains glycine and inosamine amidinotransferases, enzymes which are involved in creatine and streptomycin biosynthesis respectively. This family also includes arginine deiminases, which catalyse the reversible reaction: arginine + H2O = citrulline + NH3 The Streptococcus anti-tumour glycoprotein is also found in this family [].; GO: 0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines, 0005737 cytoplasm; PDB: 2CI7_A 2CI1_A 2CI4_A 2CI3_A 2CI5_A 2C6Z_A 2CI6_A 3I4A_B 3I2E_B 2JAI_A ....
Probab=33.66 E-value=2.9e+02 Score=23.28 Aligned_cols=157 Identities=16% Similarity=0.146 Sum_probs=84.0
Q ss_pred cCCeEEeCCCCC---HHHHHHHHhhCC----CCceEEEe------ccccccceeEEEeeCcEEE--EcCCCChhHHHHHh
Q psy3570 5 NRHGLIVPNATT---DTELQHIRNSLP----DSVKLQRV------EERLSALGNVIACNDYVAL--VHPDLDRETEEILA 69 (184)
Q Consensus 5 N~nGllvp~~~~---~~E~~~l~~~l~----~~~~v~~l------~~k~~~iGn~i~aNd~~al--Vpp~~~~~~~~~I~ 69 (184)
-.+|++++++.. ..|.+..+..+. ....+.-+ +....- |.++...+...+ ++.--+++.++.++
T Consensus 72 ~~~~~ii~~m~~~~R~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lEG-GDv~~~~~~~~v~G~g~RTn~~g~~~l~ 150 (281)
T PF02274_consen 72 IGGGVIIGRMRAPSRRGEEDVYKEIFEKHPFNIPRVLDIEEENGDPGYLEG-GDVLVLGDNVLVIGVGSRTNEEGIEQLA 150 (281)
T ss_dssp ECTEEEE-B-SSGGGHGHHHHHHHHHHHSCCCTCCEEEEEEC--TTS-B-G-GGEEEESTEEEEEEESSSS-HHHHHHHH
T ss_pred EcCCEEEeCCChHHhcCcchHHHHHHHhhccccceeeCCccccccCceecC-cEEEEECCEEEEEeecCCCCHHHHHHHH
Confidence 457888888865 345554443321 01122222 233444 888877777666 77788889999999
Q ss_pred hhcCce-----E-EEEee---cCceeeeeEEEEcCCeEEeCCCCCHHH-HHHHhhhcC---cceeeEeeccCCcceeeEE
Q psy3570 70 DTLNVE-----V-FRQTV---SSNVLVGSYCALTNQGGLVHPHTSPQD-QDELSSLLQ---IPLVAGTVNRGSEVIGAGM 136 (184)
Q Consensus 70 e~LgVe-----v-i~~tI---ags~lVGsl~v~Nn~G~LV~p~~~d~E-l~~l~~~l~---V~v~~gtvn~g~~~VGs~i 136 (184)
+.|+-. + ....- .-..+=-.++.+..+-++++|.+-+++ .+.+.+.|+ .++..-+-.....+-+|.+
T Consensus 151 ~~l~~~~~~~~v~~~~~~~~~~~~HLD~~~~~l~~~~~l~~~~~~~~~~~~~l~~~l~~~~~~iI~v~~~e~~~~~~N~l 230 (281)
T PF02274_consen 151 RALGEEEVVFEVVVVVVPVDPGFLHLDTVFNPLDPDLVLVYPDAFDPEEEEELEQALKERGFEIIEVPEEEQWNFACNVL 230 (281)
T ss_dssp HHHCCTTSESEEEEEEEEECSSSSSGGGTEEEEETTEEEEECCHHCTHHHHHHHHHHSSSTCEEEEESSCSCSGGGGS-E
T ss_pred HHhcccccccccceeeccCccCccccceEEEEcCCCEEEEeCcccchHHHHHHHHHhcccCcEEEEeccchhhhccCCEE
Confidence 999977 1 12111 122233457777788888888776544 666776655 4555333222335555666
Q ss_pred EEcCceEEEcCCCCHHHHHHHHHHhCCC
Q psy3570 137 VVNDWAAFCGFDTTSTEISVIESVFKLN 164 (184)
Q Consensus 137 vaNd~GalV~p~tt~~El~~IedvLgv~ 164 (184)
..++.=+++.. -....-+.+++. |++
T Consensus 231 ~l~~~~vi~~~-~~~~~~~~L~~~-G~~ 256 (281)
T PF02274_consen 231 SLGPGKVIAYA-SNPRTNEQLEKA-GIE 256 (281)
T ss_dssp EECTTEEEEET-THHHHHHHHHHT-T-E
T ss_pred EecCCEEEECC-CCHHHHHHHHhc-CCe
Confidence 77554444444 333333444432 444
No 33
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=30.64 E-value=67 Score=24.21 Aligned_cols=28 Identities=11% Similarity=0.215 Sum_probs=23.5
Q ss_pred cCCeEEeCCCCCHHHHH-HHhhhcCccee
Q psy3570 94 TNQGGLVHPHTSPQDQD-ELSSLLQIPLV 121 (184)
Q Consensus 94 Nn~G~LV~p~~~d~El~-~l~~~l~V~v~ 121 (184)
|..=+.|+|.++..|++ .++++++|.+.
T Consensus 22 nk~vF~V~~~AtK~~IK~AvE~lF~VkV~ 50 (94)
T COG0089 22 NKYVFIVDPDATKPEIKAAVEELFGVKVE 50 (94)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEE
Confidence 45568899999999998 67889999975
No 34
>PF04371 PAD_porph: Porphyromonas-type peptidyl-arginine deiminase; InterPro: IPR007466 Peptidyl-arginine deiminase (PAD) enzymes catalyse the deimination of the guanidino group from carboxy-terminal arginine residues of various peptides to produce ammonia. PAD from Porphyromonas gingivalis (Bacteroides gingivalis) (PPAD) appears to be evolutionarily unrelated to mammalian PAD (IPR004303 from INTERPRO), which is a metalloenzyme. PPAD is thought to belong to the same superfamily as aminotransferase and arginine deiminase, and to form an alpha/beta propeller structure. This family has previously been named PPADH (Porphyromonas peptidyl-arginine deiminase homologs) []. The predicted catalytic residues in PPAD (Q9RQJ2 from SWISSPROT) are Asp130, Asp187, His236, Asp238 and Cys351 []. These are absolutely conserved with the exception of Asp187 which is absent in two family members. PPAD is also able to catalyse the deimination of free L-arginine, but has primarily peptidyl-arginine specificity. It may have a FMN cofactor [].; PDB: 2Q3U_A 1VKP_A 3H7C_X 3H7K_A 2EWO_K 1ZBR_B 1XKN_A 2JER_B 3HVM_A 2CMU_A.
Probab=29.40 E-value=1.1e+02 Score=27.48 Aligned_cols=60 Identities=23% Similarity=0.372 Sum_probs=41.1
Q ss_pred cCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEe-----------CCCCCHHHHH-HHhhhcCcc
Q psy3570 57 HPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLV-----------HPHTSPQDQD-ELSSLLQIP 119 (184)
Q Consensus 57 pp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV-----------~p~~~d~El~-~l~~~l~V~ 119 (184)
+...++...+.+.+.+|.+..++.+--.- |++ ..|-.|-++ .|..+++|++ +|++.||++
T Consensus 111 ~~~~D~~~~~~~a~~~~~~~~~~~lvlEG--G~i-~~dG~Gtli~Te~~ll~~nRNp~~s~~eie~~L~~~lG~~ 182 (329)
T PF04371_consen 111 PWDLDNQVARKIAKALGLPVIKSPLVLEG--GNI-ESDGEGTLITTESCLLNPNRNPGLSKAEIEAELKRYLGVE 182 (329)
T ss_dssp --TTGGGHHHHHHHHHTTTEEEEEEE--G--GGE-EEESSSEEEEEHHHHTSTTTSTTS-HHHHHHHHHHHHT-S
T ss_pred CcchHHHHHHHHHHHhCCCcccCCeEEec--CcE-EECCCceEEEEeeeEecCccCccCCHHHHHHHHHHHhCCC
Confidence 34555566788999999999998843222 444 347777777 6788999987 788899997
No 35
>PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
Probab=29.40 E-value=2.2e+02 Score=27.02 Aligned_cols=112 Identities=12% Similarity=0.069 Sum_probs=66.2
Q ss_pred CCChhHHHHHhhhcCceEEEEeecCceeeeeEEEE-------------cCCe--EEeCCCCCHHHHHHHhh-hcCccee-
Q psy3570 59 DLDRETEEILADTLNVEVFRQTVSSNVLVGSYCAL-------------TNQG--GLVHPHTSPQDQDELSS-LLQIPLV- 121 (184)
Q Consensus 59 ~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~-------------Nn~G--~LV~p~~~d~El~~l~~-~l~V~v~- 121 (184)
-..++..+.+++.|..|+...+||.-. =++.+| |.-+ +-|.+..++++++...+ +-++...
T Consensus 44 ~~~~~~~~~l~~~~~ppi~~V~iG~G~--~~~~iGGEtvL~rhe~tf~np~~Ia~eI~D~l~~e~i~~r~~~~~~~~~~r 121 (450)
T PRK04165 44 YLSEEAKEKLEEASAPPIREVKIGTGE--RAVKIGGETVLYRHEKTFFNPTGIAVDVSDTMDDEEIDARLKKINNFQFER 121 (450)
T ss_pred CCCHHHHHHHHHHhCCCceeeeecCCC--eEEEECCcceeeecCcCCCCCCEEEEEEeCCCChHHHHHHHHHhhcchHhh
Confidence 346779999999999999999987421 123334 4433 34478888888775443 4344433
Q ss_pred eEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHHhCCCCCCCchhHHHHHHHh
Q psy3570 122 AGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESVFKLNEAQPSAITTSMRASL 179 (184)
Q Consensus 122 ~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~IedvLgv~~~~~~~~~~~~~~~~ 179 (184)
.|. +.+-.+| .+-+..+ .|+.=.+-++.+.+..+++..+-+...++++++|
T Consensus 122 vG~-~~~AD~I---aL~~~s~---dp~~v~~~Vk~V~~~~dvPLSIDT~dpevleaAl 172 (450)
T PRK04165 122 VGE-ILKLDMV---ALRNASG---DPEKFAKAVKKVAETTDLPLILCSEDPAVLKAAL 172 (450)
T ss_pred hcc-cccCCEE---EEeCCCC---CHHHHHHHHHHHHHhcCCCEEEeCCCHHHHHHHH
Confidence 121 1334444 1112222 4443455677777777888766566667777766
No 36
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=29.01 E-value=3.6e+02 Score=24.36 Aligned_cols=135 Identities=10% Similarity=0.131 Sum_probs=70.3
Q ss_pred eCCCCCHHHHHHHHhhCCCCceEEEeccccccceeEEEeeCcEEEEcCCCChhHHHHHhhhcCce----EEEEeecCc--
Q psy3570 11 VPNATTDTELQHIRNSLPDSVKLQRVEERLSALGNVIACNDYVALVHPDLDRETEEILADTLNVE----VFRQTVSSN-- 84 (184)
Q Consensus 11 vp~~~~~~E~~~l~~~l~~~~~v~~l~~k~~~iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgVe----vi~~tIags-- 84 (184)
||+.++++||+.+-+..+.=..+.++.++.+-. +--||+|--.-.++..+.|++.=+.. .++...+.-
T Consensus 115 Lp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~------srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~ 188 (346)
T TIGR01659 115 LPQDMTDRELYALFRTIGPINTCRIMRDYKTGY------SFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGG 188 (346)
T ss_pred CCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCc------cCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccc
Confidence 599999999998876543223344444333211 11378888776777777776533332 222221110
Q ss_pred -ee-eeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcC-ceEEEcCCCCHHHHHHHHHHh
Q psy3570 85 -VL-VGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVND-WAAFCGFDTTSTEISVIESVF 161 (184)
Q Consensus 85 -~l-VGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd-~GalV~p~tt~~El~~IedvL 161 (184)
.. -=.+.|+| +++.+++++|+.+-.-+|.-.. -++-... .-| .. .-|+|.-...+.-.+.|+..=
T Consensus 189 ~~~~~~~lfV~n-----Lp~~vtee~L~~~F~~fG~V~~-v~i~~d~-~tg-----~~kG~aFV~F~~~e~A~~Ai~~ln 256 (346)
T TIGR01659 189 ESIKDTNLYVTN-----LPRTITDDQLDTIFGKYGQIVQ-KNILRDK-LTG-----TPRGVAFVRFNKREEAQEAISALN 256 (346)
T ss_pred cccccceeEEeC-----CCCcccHHHHHHHHHhcCCEEE-EEEeecC-CCC-----ccceEEEEEECCHHHHHHHHHHhC
Confidence 00 00122222 3899999999877665553211 1210000 000 01 147777777777777777654
Q ss_pred CC
Q psy3570 162 KL 163 (184)
Q Consensus 162 gv 163 (184)
+.
T Consensus 257 g~ 258 (346)
T TIGR01659 257 NV 258 (346)
T ss_pred CC
Confidence 44
No 37
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=28.69 E-value=1.1e+02 Score=27.96 Aligned_cols=98 Identities=11% Similarity=0.082 Sum_probs=59.0
Q ss_pred hHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEE-eCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCc
Q psy3570 63 ETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGL-VHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDW 141 (184)
Q Consensus 63 ~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~L-V~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~ 141 (184)
..++.+=+.+|+++....=+|+++=-.-.+++..--+ ++|.....-.+.+++-+|++....
T Consensus 182 ~ei~~lL~~~Gi~v~~~~~~~~~~~ei~~~~~A~lniv~~~~~g~~~a~~Lee~~GiP~~~~------------------ 243 (426)
T cd01972 182 DEFKRLLNELGLRVNAIIAGGCSVEELERASEAAANVTLCLDLGYYLGAALEQRFGVPEIKA------------------ 243 (426)
T ss_pred HHHHHHHHHcCCeEEEEeCCCCCHHHHHhcccCCEEEEEChhHHHHHHHHHHHHhCCCeEec------------------
Confidence 4455555668999876544434332222333333333 366655666677887778886521
Q ss_pred eEEEcCCCCHHHHHHHHHHhCCCCCCCchhHHHHHHHh
Q psy3570 142 AAFCGFDTTSTEISVIESVFKLNEAQPSAITTSMRASL 179 (184)
Q Consensus 142 GalV~p~tt~~El~~IedvLgv~~~~~~~~~~~~~~~~ 179 (184)
..-+|++-|...++.|.+.||.+...+..+ ++.|+.+
T Consensus 244 ~~P~G~~~T~~~l~~ia~~~g~~~~~e~~i-~~e~~~~ 280 (426)
T cd01972 244 PQPYGIEATDKWLREIAKVLGMEAEAEAVI-EREHERV 280 (426)
T ss_pred CCccCHHHHHHHHHHHHHHhCCcHHHHHHH-HHHHHHH
Confidence 123578889999999999999865433344 4444433
No 38
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=27.94 E-value=2.5e+02 Score=25.82 Aligned_cols=63 Identities=13% Similarity=0.145 Sum_probs=44.6
Q ss_pred EEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHHhCCCCCCCchhHHHHHH
Q psy3570 98 GLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESVFKLNEAQPSAITTSMRA 177 (184)
Q Consensus 98 ~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~IedvLgv~~~~~~~~~~~~~~ 177 (184)
++++|.....-.+.+++-+|++..... ..+|.+-|...++.|.+.||.+. +..+ +..|+
T Consensus 230 iv~~~~~~~~~a~~Le~~~giP~~~~~------------------~p~G~~~t~~~l~~l~~~~g~~~--~~~i-~~er~ 288 (435)
T cd01974 230 LALQEYATEKTAKFLEKKCKVPVETLN------------------MPIGVAATDEFLMALSELTGKPI--PEEL-EEERG 288 (435)
T ss_pred EEECccccHHHHHHHHHHhCCCeeecC------------------CCcChHHHHHHHHHHHHHhCCCC--CHHH-HHHHH
Confidence 456787777778888888888866221 34688889999999999999874 3333 55555
Q ss_pred Hhhh
Q psy3570 178 SLID 181 (184)
Q Consensus 178 ~~~~ 181 (184)
.+.+
T Consensus 289 ~~~~ 292 (435)
T cd01974 289 RLVD 292 (435)
T ss_pred HHHH
Confidence 5544
No 39
>PF04025 DUF370: Domain of unknown function (DUF370); InterPro: IPR007169 This is a bacterial family of unknown function.
Probab=27.62 E-value=2.2e+02 Score=20.48 Aligned_cols=60 Identities=15% Similarity=0.222 Sum_probs=38.7
Q ss_pred ceeEEEeeCcEEEEcCCCChhHHHHHhhhcCc--eEEEEeecC-ceeeeeEEEEcCCeEEeCCCCCHH
Q psy3570 43 LGNVIACNDYVALVHPDLDRETEEILADTLNV--EVFRQTVSS-NVLVGSYCALTNQGGLVHPHTSPQ 107 (184)
Q Consensus 43 iGn~i~aNd~~alVpp~~~~~~~~~I~e~LgV--evi~~tIag-s~lVGsl~v~Nn~G~LV~p~~~d~ 107 (184)
.|||+.++.=.|++||+-.+ ..+ +.+.-.- ..+..|-+. ++ +..+..+.-+++++.-.+.
T Consensus 6 fgn~V~~~rIiAIv~~~Sap-~Kr-l~~~ak~~~~lIdaT~Grktr---sviitdsghviLSa~~~eT 68 (73)
T PF04025_consen 6 FGNFVNADRIIAIVSPDSAP-IKR-LIQEAKEEGKLIDATYGRKTR---SVIITDSGHVILSALQPET 68 (73)
T ss_pred CCcEEEcceEEEEECCcchh-HHH-HHHHHHHcCcEEEeeCCCcee---EEEEEcCCcEEEeeCCHHH
Confidence 58899999999999999543 344 4444442 377777665 33 4455445557777765543
No 40
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=26.83 E-value=1.3e+02 Score=28.66 Aligned_cols=94 Identities=18% Similarity=0.127 Sum_probs=66.2
Q ss_pred hhHHHHHhhhcCceEEEE----eecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEE
Q psy3570 62 RETEEILADTLNVEVFRQ----TVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMV 137 (184)
Q Consensus 62 ~~~~~~I~e~LgVevi~~----tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~iv 137 (184)
...++.+=+-+|++|... ++...+-+| .|-.=++++|..+ +-...|++-++++.. . .++.
T Consensus 207 ~~~i~~lL~~lGI~v~~~lp~~~~~eL~~~~----~~~~~c~~~P~ls-~aa~~Le~~~gvp~~--~----~P~P----- 270 (457)
T CHL00073 207 ASQLTLELKRQGIKVSGWLPSQRYTDLPSLG----EGVYVCGVNPFLS-RTATTLMRRRKCKLI--G----APFP----- 270 (457)
T ss_pred HHHHHHHHHHcCCeEeEEeCCCCHHHHHhhC----cccEEEEcCcchH-HHHHHHHHHhCCcee--e----cCCc-----
Confidence 556677777788988632 233344444 3566688899999 778889888898865 1 2333
Q ss_pred EcCceEEEcCCCCHHHHHHHHHHhCCCCCCCchhHHHHHHHhhhh
Q psy3570 138 VNDWAAFCGFDTTSTEISVIESVFKLNEAQPSAITTSMRASLIDS 182 (184)
Q Consensus 138 aNd~GalV~p~tt~~El~~IedvLgv~~~~~~~~~~~~~~~~~~~ 182 (184)
+|++-|+.-++.|.+++|++ |..+ ...|+.+.+.
T Consensus 271 -------iGi~~Td~fLr~Ia~~~G~~---pe~l-~~Er~rl~da 304 (457)
T CHL00073 271 -------IGPDGTRAWIEKICSVFGIE---PQGL-EEREEQIWES 304 (457)
T ss_pred -------CcHHHHHHHHHHHHHHhCcC---HHHH-HHHHHHHHHH
Confidence 89999999999999999975 5555 5555555543
No 41
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=26.04 E-value=1.3e+02 Score=22.19 Aligned_cols=68 Identities=13% Similarity=0.158 Sum_probs=39.7
Q ss_pred EEeCCCCCHHHHHHHhhhc-------CcceeeEeeccCCcceeeEEEEcCce--EEEcCCCCHHHHHHHHHHhCCCCC
Q psy3570 98 GLVHPHTSPQDQDELSSLL-------QIPLVAGTVNRGSEVIGAGMVVNDWA--AFCGFDTTSTEISVIESVFKLNEA 166 (184)
Q Consensus 98 ~LV~p~~~d~El~~l~~~l-------~V~v~~gtvn~g~~~VGs~ivaNd~G--alV~p~tt~~El~~IedvLgv~~~ 166 (184)
+|++|++++++++.+-+-+ |..+..-. +.|.--+-=-|==+.+| ++++-..+++-+..+++.|+..+.
T Consensus 12 ~Il~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~-~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler~lri~e~ 88 (97)
T CHL00123 12 YLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQ-NRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEKALKLDEN 88 (97)
T ss_pred EEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEE-eecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHHHhCCCCC
Confidence 5789999999988654432 33332111 12222111111124556 456666778899999999988664
No 42
>PRK08005 epimerase; Validated
Probab=25.70 E-value=2.1e+02 Score=24.19 Aligned_cols=117 Identities=12% Similarity=0.056 Sum_probs=72.6
Q ss_pred eEEeCC-CCCHHHHHHHHhhCCCCceEEEe-ccccccceeEEEeeCcEEEEcCCCCh---hHHHHHhhhcCceEEEEeec
Q psy3570 8 GLIVPN-ATTDTELQHIRNSLPDSVKLQRV-EERLSALGNVIACNDYVALVHPDLDR---ETEEILADTLNVEVFRQTVS 82 (184)
Q Consensus 8 Gllvp~-~~~~~E~~~l~~~l~~~~~v~~l-~~k~~~iGn~i~aNd~~alVpp~~~~---~~~~~I~e~LgVevi~~tIa 82 (184)
|--||+ .+..+.++.|++..+.-++|+.+ ..-...+--|+.+.=++..+|.+..+ +.++.|++. |
T Consensus 37 G~FVPN~tfG~~~i~~l~~~t~~~~DvHLMv~~P~~~i~~~~~~gad~It~H~Ea~~~~~~~l~~Ik~~-G--------- 106 (210)
T PRK08005 37 TSFINNITFGMKTIQAVAQQTRHPLSFHLMVSSPQRWLPWLAAIRPGWIFIHAESVQNPSEILADIRAI-G--------- 106 (210)
T ss_pred CCcCCccccCHHHHHHHHhcCCCCeEEEeccCCHHHHHHHHHHhCCCEEEEcccCccCHHHHHHHHHHc-C---------
Confidence 456787 56678888898865445777765 33444555555665567777877543 344555543 2
Q ss_pred CceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHHh
Q psy3570 83 SNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESVF 161 (184)
Q Consensus 83 gs~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~IedvL 161 (184)
-.-|+.+.|.++-+.++.+-+.++. +..-|++-|+. |...-..-+++|+++-
T Consensus 107 -----------~k~GlAlnP~Tp~~~i~~~l~~vD~-VlvMsV~PGf~---------------GQ~f~~~~~~KI~~l~ 158 (210)
T PRK08005 107 -----------AKAGLALNPATPLLPYRYLALQLDA-LMIMTSEPDGR---------------GQQFIAAMCEKVSQSR 158 (210)
T ss_pred -----------CcEEEEECCCCCHHHHHHHHHhcCE-EEEEEecCCCc---------------cceecHHHHHHHHHHH
Confidence 2358889999999988876654332 44456666543 4455566666666544
No 43
>PLN02690 Agmatine deiminase
Probab=25.21 E-value=1.7e+02 Score=27.04 Aligned_cols=59 Identities=20% Similarity=0.327 Sum_probs=40.6
Q ss_pred CCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEe-----------CCCCCHHHHH-HHhhhcCcc
Q psy3570 58 PDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLV-----------HPHTSPQDQD-ELSSLLQIP 119 (184)
Q Consensus 58 p~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV-----------~p~~~d~El~-~l~~~l~V~ 119 (184)
-+.+....+.|.+.+|++.++. +..+=|=..-.|-.|-|+ .|..+++|++ .|++.||++
T Consensus 135 ~~~D~~v~~~la~~~g~~~~~~---~lvlEGGsie~DG~GtlltTe~clln~nRNP~lsk~~ie~~Lk~~LGv~ 205 (374)
T PLN02690 135 WSLDLLVARKILEAERLPRFPH---SMILEGGSIHVDGEGTCLTTEECLLNPNRNPHLTKEEIEEELKEYLGVE 205 (374)
T ss_pred cchHHHHHHHHHHHcCCCeecC---CeEEcCCcEEECCCceEEEehhhhcCCCCCCCCCHHHHHHHHHHHhCCC
Confidence 4455677888999999987764 222333334446666554 6789999987 788899998
No 44
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 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 domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=24.10 E-value=95 Score=22.68 Aligned_cols=34 Identities=12% Similarity=0.191 Sum_probs=25.7
Q ss_pred cCCeEEeCCCCCHHHHH-HHhhhcCccee-eEeecc
Q psy3570 94 TNQGGLVHPHTSPQDQD-ELSSLLQIPLV-AGTVNR 127 (184)
Q Consensus 94 Nn~G~LV~p~~~d~El~-~l~~~l~V~v~-~gtvn~ 127 (184)
|-.-+.|+|.++..|++ .|+.++||++. +.|++.
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~ 56 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNY 56 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEe
Confidence 44568899999999998 67889999984 344433
No 45
>cd01977 Nitrogenase_VFe_alpha Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V- and Fe- nitrogenases there is a molybdenum (Mo)-dependent nitrogenase which is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha sub
Probab=23.86 E-value=1.3e+02 Score=27.44 Aligned_cols=82 Identities=13% Similarity=0.192 Sum_probs=51.4
Q ss_pred HHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEe-CCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceE
Q psy3570 65 EEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLV-HPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAA 143 (184)
Q Consensus 65 ~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV-~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~Ga 143 (184)
++.+=+.+|+++....-+++.+==.-.+++..--|+ .|.....-.+.|++-+|+|.. .. .
T Consensus 180 i~~lL~~~Gl~v~~~~~~~~t~~ei~~~~~A~lnlv~~~~~~~~~A~~L~er~GiP~~--~~-------------~---- 240 (415)
T cd01977 180 LQKYFERMGIQVLSTFTGNGTYDDLRWMHRAKLNVVNCARSAGYIANELKKRYGIPRL--DV-------------D---- 240 (415)
T ss_pred HHHHHHHcCCeEEEEECCCCCHHHHHhcccCCEEEEEchhHHHHHHHHHHHHhCCCeE--Ee-------------c----
Confidence 444445579998754433333222223334444343 555556667788887788865 21 1
Q ss_pred EEcCCCCHHHHHHHHHHhCCCC
Q psy3570 144 FCGFDTTSTEISVIESVFKLNE 165 (184)
Q Consensus 144 lV~p~tt~~El~~IedvLgv~~ 165 (184)
..|.+-|+.-++.|.+.||.+.
T Consensus 241 ~~G~~~t~~~l~~la~~~g~~~ 262 (415)
T cd01977 241 GFGFEYCAESLRKIGAFFGIED 262 (415)
T ss_pred cCCHHHHHHHHHHHHHHhCcch
Confidence 1578889999999999999875
No 46
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=23.77 E-value=1.3e+02 Score=21.12 Aligned_cols=41 Identities=22% Similarity=0.323 Sum_probs=31.7
Q ss_pred HhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhh
Q psy3570 68 LADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSL 115 (184)
Q Consensus 68 I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~ 115 (184)
+...|++|++.-. .++|.+++.+.... +..+++|++.++.+
T Consensus 114 i~~~l~vPl~~~~----~~~G~l~~~~~~~~---~~~~~~e~~ll~~l 154 (175)
T COG2203 114 IRSYLGVPLIAQG----ELLGLLCVHDSEPR---RQWSEEELELLEEL 154 (175)
T ss_pred HHHheeeeeeECC----EeeEEeeeeccCCC---CCCCHHHHHHHHHH
Confidence 7899999987654 89999999876542 25788888877754
No 47
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=23.48 E-value=3.5e+02 Score=23.20 Aligned_cols=100 Identities=14% Similarity=0.222 Sum_probs=65.8
Q ss_pred eEEeCC-CCCHHHHHHHHhhCCCCceEEEe-ccccccceeEEEeeCcEEEEcCCCCh----hHHHHHhhhcCceEEEEee
Q psy3570 8 GLIVPN-ATTDTELQHIRNSLPDSVKLQRV-EERLSALGNVIACNDYVALVHPDLDR----ETEEILADTLNVEVFRQTV 81 (184)
Q Consensus 8 Gllvp~-~~~~~E~~~l~~~l~~~~~v~~l-~~k~~~iGn~i~aNd~~alVpp~~~~----~~~~~I~e~LgVevi~~tI 81 (184)
|--||+ .+..+.++.||+..+.-++++.+ ..-...+--|+-+.=++..+|.+... ..++.|++. |
T Consensus 38 G~FVPN~tfg~~~i~~ir~~t~~~~DvHLMv~~P~~~i~~~~~aGad~it~H~Ea~~~~~~~~i~~Ik~~-G-------- 108 (229)
T PRK09722 38 GHFVPNLTLSPFFVSQVKKLASKPLDVHLMVTDPQDYIDQLADAGADFITLHPETINGQAFRLIDEIRRA-G-------- 108 (229)
T ss_pred CccCCCcccCHHHHHHHHhcCCCCeEEEEEecCHHHHHHHHHHcCCCEEEECccCCcchHHHHHHHHHHc-C--------
Confidence 566888 56678889998864344777765 44555677777777778888888542 344555543 2
Q ss_pred cCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcCcceeeEeeccCC
Q psy3570 82 SSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQIPLVAGTVNRGS 129 (184)
Q Consensus 82 ags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~ 129 (184)
-.-|+.+.|.++-+.++.+-+.++. +..-||+-|+
T Consensus 109 ------------~kaGlalnP~T~~~~l~~~l~~vD~-VLvMsV~PGf 143 (229)
T PRK09722 109 ------------MKVGLVLNPETPVESIKYYIHLLDK-ITVMTVDPGF 143 (229)
T ss_pred ------------CCEEEEeCCCCCHHHHHHHHHhcCE-EEEEEEcCCC
Confidence 2358889999998888866554332 4445666554
No 48
>PRK01388 arginine deiminase; Provisional
Probab=23.30 E-value=6.1e+02 Score=23.57 Aligned_cols=156 Identities=12% Similarity=0.123 Sum_probs=92.3
Q ss_pred CeEEeCCCCCH---HHHHHHHhhCC---C--CceEEEec---ccccc-ceeEEEeeCcEEEE--cCCCChhHHHHHhhhc
Q psy3570 7 HGLIVPNATTD---TELQHIRNSLP---D--SVKLQRVE---ERLSA-LGNVIACNDYVALV--HPDLDRETEEILADTL 72 (184)
Q Consensus 7 nGllvp~~~~~---~E~~~l~~~l~---~--~~~v~~l~---~k~~~-iGn~i~aNd~~alV--pp~~~~~~~~~I~e~L 72 (184)
+|+++.++... .|-..++..+. . +..+.... ...+. =|.++..++++.+| +.--+.+.++.+++.|
T Consensus 168 ~g~ii~~m~~~~Rr~E~~~~~~i~~~hp~f~~~~~~i~~~~~~~~~iEGGDvl~l~~~~l~IG~s~RTn~~gie~La~~l 247 (406)
T PRK01388 168 GGVTINPMAWPARRRETLLTEAIYKHHPRFAGADVPVWDDRHGNATLEGGDVLVLGKGVVAIGMSERTSPQAIEQLARSL 247 (406)
T ss_pred CEEEEeCCCChhhCccHHHHHHHHHhCcccccCCceEEecCCCCCCCccceEEEECCCEEEEEecccCCHHHHHHHHHHH
Confidence 57787777443 34444444321 0 11233322 12111 36687888887664 4556677788888776
Q ss_pred -----CceEEEEeecCc----eeeeeEEEEcCCeEEeCCCCCH-----------------------HHHHHHhhhcCcc-
Q psy3570 73 -----NVEVFRQTVSSN----VLVGSYCALTNQGGLVHPHTSP-----------------------QDQDELSSLLQIP- 119 (184)
Q Consensus 73 -----gVevi~~tIags----~lVGsl~v~Nn~G~LV~p~~~d-----------------------~El~~l~~~l~V~- 119 (184)
+-+|+...+.+. .+=..|...-.+=++++|.+-+ .-.+.|++.+|++
T Consensus 248 ~~~~~~~~Vi~v~ip~~r~~mHLDtvft~vd~d~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~lg~~~ 327 (406)
T PRK01388 248 FKKGAAKRVLAVEIPKSRAFMHLDTVFTMVDYDKFTVYPEIVGDLNAFSLTPDDDGGGLDIREEKAPFLEVLAEALGLDK 327 (406)
T ss_pred hhcCCCcEEEEEeccCCCCceeCCccccccCCCeEEEehhhccCceeEEEecCCCCCceeEeccCcCHHHHHHHHhCCCC
Confidence 346777777554 5666777777777888887632 1345666677765
Q ss_pred eeeEeeccC-Cc--------ceeeEEEEcCceEEEcCCCCHHHHHHHHHHhCCCC
Q psy3570 120 LVAGTVNRG-SE--------VIGAGMVVNDWAAFCGFDTTSTEISVIESVFKLNE 165 (184)
Q Consensus 120 v~~gtvn~g-~~--------~VGs~ivaNd~GalV~p~tt~~El~~IedvLgv~~ 165 (184)
+. .|..| .. .-|+-+++=..|-++.++-.....+.+++. |+++
T Consensus 328 ~~--lI~~ggd~~~~~~Eq~~~g~N~l~i~pg~Vv~~~~n~~t~~~L~~~-G~~v 379 (406)
T PRK01388 328 LR--VIETGGDDIAAEREQWNDGNNTLAIAPGVVVAYDRNTVTNALLRKA-GIEV 379 (406)
T ss_pred ce--EEecCCCcccchHHHHhcCCCEEEecCCEEEEeCCcHHHHHHHHHC-CCEE
Confidence 22 22222 11 126666777888888888777666666544 7765
No 49
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=22.87 E-value=1.3e+02 Score=27.40 Aligned_cols=98 Identities=14% Similarity=0.154 Sum_probs=52.0
Q ss_pred HHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEE-eCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCce
Q psy3570 64 TEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGL-VHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWA 142 (184)
Q Consensus 64 ~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~L-V~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~G 142 (184)
.++.+=+.+|+++....-+++++=-..-+++..--| +.|.....-.+.|++-+|++... .
T Consensus 175 el~~lL~~~Gl~v~~~~~~~~s~eei~~~~~A~lniv~~~~~~~~~a~~L~~~fGip~~~-------------------~ 235 (410)
T cd01968 175 GVKPLLEKLGIRVLASITGDSRVDEIRRAHRAKLNVVQCSKSMIYLARKMEEKYGIPYIE-------------------V 235 (410)
T ss_pred HHHHHHHHcCCeEEEEeCCCCCHHHHHhhhhCcEEEEEchhHHHHHHHHHHHHhCCCeEe-------------------c
Confidence 344444567898776432222211111222222223 23433344455666666666441 1
Q ss_pred EEEcCCCCHHHHHHHHHHhCCCC--CCCchhHHHHHHHhh
Q psy3570 143 AFCGFDTTSTEISVIESVFKLNE--AQPSAITTSMRASLI 180 (184)
Q Consensus 143 alV~p~tt~~El~~IedvLgv~~--~~~~~~~~~~~~~~~ 180 (184)
...|.+-|+..++.|.+.||.+. +.....++..|+.+.
T Consensus 236 ~p~G~~~t~~~l~~ia~~~g~~~~~~~~~~~i~~e~~~~~ 275 (410)
T cd01968 236 SFYGIRDTSKSLRNIAELLGDEELIERTEELIAREEARLR 275 (410)
T ss_pred CcCcHHHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHH
Confidence 14688899999999999999874 333334455444443
No 50
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=22.20 E-value=1.3e+02 Score=21.49 Aligned_cols=30 Identities=17% Similarity=0.241 Sum_probs=20.9
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhh
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSL 115 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~ 115 (184)
..| .++|.+.+.+... ...++++++.++.+
T Consensus 110 ~~~-~~~Gvl~l~~~~~----~~f~~~~~~~l~~l 139 (148)
T PF13185_consen 110 SGG-EVIGVLSLYSKEP----NAFSEEDLELLEAL 139 (148)
T ss_dssp ETT-EEEEEEEEEESST----T---HHHHHHHHHH
T ss_pred ECC-EEEEEEEEeeCCC----CCcCHHHHHHHHHH
Confidence 445 9999999998665 56788888877653
No 51
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=21.76 E-value=2.8e+02 Score=26.56 Aligned_cols=64 Identities=16% Similarity=0.190 Sum_probs=44.3
Q ss_pred EEeCCCCCHHHHHHHhhhcCcceeeEeeccCCcceeeEEEEcCceEEEcCCCCHHHHHHHHHHhCCCCCCCchhHHHHHH
Q psy3570 98 GLVHPHTSPQDQDELSSLLQIPLVAGTVNRGSEVIGAGMVVNDWAAFCGFDTTSTEISVIESVFKLNEAQPSAITTSMRA 177 (184)
Q Consensus 98 ~LV~p~~~d~El~~l~~~l~V~v~~gtvn~g~~~VGs~ivaNd~GalV~p~tt~~El~~IedvLgv~~~~~~~~~~~~~~ 177 (184)
+.++|.....-.+.+++-+|++.. ..+.| +|..-|+.-++.|.+.+|.+. |..+ +..|.
T Consensus 290 ivl~~~~~~~~a~~l~~~~g~p~~----~~~~P--------------iGi~~Td~fL~~la~~~g~~i--p~~i-~~eR~ 348 (515)
T TIGR01286 290 VLLQPYTLRKTKEYIEKTWKQETP----KLNIP--------------LGVKGTDEFLMKVSEISGQPI--PAEL-TKERG 348 (515)
T ss_pred EEEchhhhHHHHHHHHHHhCCCcc----cCCCC--------------ccHHHHHHHHHHHHHHHCCCC--CHHH-HHHHH
Confidence 445777777777888888888854 12222 788999999999999999864 3344 44454
Q ss_pred Hhhhh
Q psy3570 178 SLIDS 182 (184)
Q Consensus 178 ~~~~~ 182 (184)
.+.|.
T Consensus 349 rl~da 353 (515)
T TIGR01286 349 RLVDA 353 (515)
T ss_pred HHHHH
Confidence 55543
No 52
>PF09830 ATP_transf: ATP adenylyltransferase; InterPro: IPR019200 Diadenosine 5',5'''-P-1,P-4-tetraphosphate (Ap4A) and related diadenosine oligoposphates such as Ap3A are important intracellular and extracellular signalling molecules in prokaryotes and eukaryotes []. They are implicated in the regulation of many vital celluar functions including stress response, cell division and apoptosis. Synthesis primarily occurs via aminoacyl-tRNA synthetases adding the AMP moiety of an aminoacyl-AMP to an acceptor nucleotide, and is an inevitable byproduct of protein synthesis. The concentration of these compounds must thus be controlled both to ensure the proper regulation of various celluar processes, but also to prevent their buildup to potentially toxic levels. This domain is found in a group of ATP adenylyltransferases found in bacteria and lower eukaryotes which catalyse the interconversion of Ap4A to ATP and ADP [, , ]. While these enzymes are thought to act primarily to break down Ap4A, there is evidence to suggest that in some circumstances they may also act in a biosynthetic role. Some variability in substrate range is apparent eg the cyanobacterial enzyme can also utilise Ap3A as a substrate, while the Saccharomyces enzymes apparently cannot.; GO: 0003877 ATP adenylyltransferase activity
Probab=21.02 E-value=2.2e+02 Score=19.38 Aligned_cols=48 Identities=17% Similarity=0.116 Sum_probs=33.5
Q ss_pred eEEEeeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhh
Q psy3570 45 NVIACNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSL 115 (184)
Q Consensus 45 n~i~aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~ 115 (184)
|++++.+-.++||..-..- ....++...-+.|++.| -+++|++.+++.
T Consensus 3 Nll~T~~wm~lvPR~~~~~------------~~~i~~Nalg~~G~llv-----------k~~~~~~~~~~~ 50 (62)
T PF09830_consen 3 NLLMTRRWMMLVPRSREGF------------SGGISVNALGFAGMLLV-----------KSEEELDWLKED 50 (62)
T ss_pred eEEEecCeEEEEecccccc------------CCceeechhhheeeeee-----------CCHHHHHHHHHc
Confidence 6888999999999875332 23345566667777776 457777887765
No 53
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=20.78 E-value=1.2e+02 Score=24.92 Aligned_cols=33 Identities=6% Similarity=0.077 Sum_probs=26.0
Q ss_pred cCCeEEeCCCCCHHHHH-HHhhhcCccee-eEeec
Q psy3570 94 TNQGGLVHPHTSPQDQD-ELSSLLQIPLV-AGTVN 126 (184)
Q Consensus 94 Nn~G~LV~p~~~d~El~-~l~~~l~V~v~-~gtvn 126 (184)
|-.-|.|+|.++..|++ .++.+++|.|. +-|++
T Consensus 23 N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~ 57 (158)
T PRK12280 23 NVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFN 57 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEe
Confidence 56778999999999998 67778999974 33443
No 54
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=20.69 E-value=1e+02 Score=22.23 Aligned_cols=32 Identities=19% Similarity=0.225 Sum_probs=24.9
Q ss_pred ecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhh
Q psy3570 81 VSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSL 115 (184)
Q Consensus 81 Iags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~ 115 (184)
..+-.++|.+++.+... +...+++|++.++.+
T Consensus 115 ~~~g~~~G~l~l~~~~~---~~~~~~~d~~ll~~~ 146 (154)
T PF01590_consen 115 ISGGRLIGVLSLYRTRP---GRPFTEEDLALLESF 146 (154)
T ss_dssp EETTEEEEEEEEEEESS---SSS--HHHHHHHHHH
T ss_pred ecccCcEEEEEEEECCC---CCCcCHHHHHHHHHH
Confidence 56678999999998887 789999999987754
No 55
>PRK15427 colanic acid biosynthesis glycosyltransferase WcaL; Provisional
Probab=20.46 E-value=6e+02 Score=22.77 Aligned_cols=53 Identities=15% Similarity=0.122 Sum_probs=33.3
Q ss_pred CChhHHHHHhhhcCceEEEEeecCceeeeeEEEEcCCeEEeCCCCCHHHHHHHhhhcC
Q psy3570 60 LDRETEEILADTLNVEVFRQTVSSNVLVGSYCALTNQGGLVHPHTSPQDQDELSSLLQ 117 (184)
Q Consensus 60 ~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~Nn~G~LV~p~~~d~El~~l~~~l~ 117 (184)
++-...|.+ ..|+||+-+.++|.+= ++.-+.+|++++|.-.++=.+.|.+++.
T Consensus 317 ~p~~llEAm--a~G~PVI~t~~~g~~E---~v~~~~~G~lv~~~d~~~la~ai~~l~~ 369 (406)
T PRK15427 317 IPVALMEAM--AVGIPVVSTLHSGIPE---LVEADKSGWLVPENDAQALAQRLAAFSQ 369 (406)
T ss_pred ccHHHHHHH--hCCCCEEEeCCCCchh---hhcCCCceEEeCCCCHHHHHHHHHHHHh
Confidence 334445544 3689999998887541 2223467999988655555566666554
No 56
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=20.16 E-value=88 Score=30.01 Aligned_cols=73 Identities=11% Similarity=0.137 Sum_probs=57.0
Q ss_pred eeCcEEEEcCCCChhHHHHHhhhcCceEEEEeecCceeeeeEEEE----cCCeEEeCCCCCHHHHHHHhhhcCcceeeEe
Q psy3570 49 CNDYVALVHPDLDRETEEILADTLNVEVFRQTVSSNVLVGSYCAL----TNQGGLVHPHTSPQDQDELSSLLQIPLVAGT 124 (184)
Q Consensus 49 aNd~~alVpp~~~~~~~~~I~e~LgVevi~~tIags~lVGsl~v~----Nn~G~LV~p~~~d~El~~l~~~l~V~v~~gt 124 (184)
.+..=++++.+- +.+.|++.+.+||+...+.+..++=++.-+ ...|++-+|.+. .+++.+.+.|++++..-+
T Consensus 52 ~~~~dviIsrG~---ta~~i~~~~~iPVv~i~~s~~Dil~al~~a~~~~~~ia~vg~~~~~-~~~~~~~~ll~~~i~~~~ 127 (526)
T TIGR02329 52 AERCDVVVAGGS---NGAYLKSRLSLPVIVIKPTGFDVMQALARARRIASSIGVVTHQDTP-PALRRFQAAFNLDIVQRS 127 (526)
T ss_pred hCCCcEEEECch---HHHHHHHhCCCCEEEecCChhhHHHHHHHHHhcCCcEEEEecCccc-HHHHHHHHHhCCceEEEE
Confidence 345568888886 778899999999999999998876665433 455677788887 578999999999987655
Q ss_pred e
Q psy3570 125 V 125 (184)
Q Consensus 125 v 125 (184)
+
T Consensus 128 ~ 128 (526)
T TIGR02329 128 Y 128 (526)
T ss_pred e
Confidence 5
Done!