Query psy6163
Match_columns 137
No_of_seqs 112 out of 764
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 19:17:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6163.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6163hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00054 60S ribosomal protein 100.0 5.2E-52 1.1E-56 316.2 14.2 131 4-134 3-133 (139)
2 PRK08571 rpl14p 50S ribosomal 100.0 2.1E-51 4.5E-56 310.6 13.9 125 11-135 3-127 (132)
3 TIGR03673 rpl14p_arch 50S ribo 100.0 5.3E-51 1.1E-55 308.1 13.6 124 11-134 2-125 (131)
4 COG0093 RplN Ribosomal protein 100.0 1.9E-49 4.1E-54 294.8 13.0 111 19-133 1-115 (122)
5 CHL00057 rpl14 ribosomal prote 100.0 8.9E-48 1.9E-52 287.4 13.0 112 19-134 1-116 (122)
6 PRK05483 rplN 50S ribosomal pr 100.0 1.1E-47 2.4E-52 286.9 13.3 112 19-134 1-116 (122)
7 TIGR01067 rplN_bact ribosomal 100.0 2.2E-47 4.8E-52 285.1 13.6 112 19-134 1-116 (122)
8 PF00238 Ribosomal_L14: Riboso 100.0 7.1E-45 1.5E-49 271.1 8.9 111 19-133 1-115 (122)
9 PTZ00320 ribosomal protein L14 100.0 2.6E-42 5.7E-47 272.1 13.1 109 20-134 60-182 (188)
10 KOG0901|consensus 100.0 2E-39 4.4E-44 248.1 11.9 131 1-131 1-136 (145)
11 KOG3441|consensus 99.8 5.2E-21 1.1E-25 144.7 7.9 95 17-127 29-131 (149)
12 cd04497 hPOT1_OB1_like hPOT1_O 60.2 19 0.00042 26.7 4.4 39 24-64 39-78 (138)
13 PF02721 DUF223: Domain of unk 52.5 11 0.00024 26.0 2.0 27 103-133 2-28 (95)
14 PF10382 DUF2439: Protein of u 50.8 29 0.00063 24.0 3.8 27 91-118 20-48 (83)
15 TIGR01024 rplS_bact ribosomal 50.5 37 0.0008 25.3 4.5 35 52-86 16-51 (113)
16 CHL00084 rpl19 ribosomal prote 50.0 35 0.00076 25.6 4.4 35 52-86 20-55 (117)
17 PRK05338 rplS 50S ribosomal pr 48.7 41 0.0009 25.1 4.6 35 52-86 16-51 (116)
18 PF08447 PAS_3: PAS fold; Int 48.6 25 0.00055 22.4 3.1 30 84-113 56-85 (91)
19 PF01245 Ribosomal_L19: Riboso 45.3 55 0.0012 24.2 4.8 36 51-86 15-51 (113)
20 cd03695 CysN_NodQ_II CysN_NodQ 45.0 78 0.0017 21.2 5.2 46 17-67 24-69 (81)
21 cd04480 RPA1_DBD_A_like RPA1_D 43.1 52 0.0011 22.0 4.1 28 102-133 22-49 (86)
22 cd03696 selB_II selB_II: this 39.4 74 0.0016 21.1 4.4 49 17-70 24-72 (83)
23 cd03698 eRF3_II_like eRF3_II_l 37.9 70 0.0015 21.3 4.1 49 17-70 24-72 (83)
24 cd03693 EF1_alpha_II EF1_alpha 37.3 80 0.0017 21.5 4.3 49 17-70 28-76 (91)
25 COG0335 RplS Ribosomal protein 32.0 84 0.0018 23.7 3.9 35 52-86 18-53 (115)
26 PF09353 DUF1995: Domain of un 31.1 33 0.00072 27.0 1.8 33 101-133 124-156 (209)
27 TIGR00523 eIF-1A eukaryotic/ar 30.3 2.1E+02 0.0045 20.6 5.8 24 53-76 56-79 (99)
28 cd04089 eRF3_II eRF3_II: domai 29.8 1.2E+02 0.0026 20.1 4.2 47 19-70 25-71 (82)
29 smart00359 PUA Putative RNA-bi 29.8 97 0.0021 19.6 3.6 38 98-135 31-70 (77)
30 PRK13149 H/ACA RNA-protein com 25.8 65 0.0014 21.8 2.3 26 95-123 23-50 (73)
31 COG3269 Predicted RNA-binding 23.7 79 0.0017 22.0 2.4 20 53-72 44-63 (73)
32 cd03694 GTPBP_II Domain II of 23.5 1.6E+02 0.0036 19.8 4.0 49 17-70 24-76 (87)
33 PF01176 eIF-1a: Translation i 22.7 1.8E+02 0.0038 18.9 3.9 48 24-77 16-63 (65)
34 TIGR03711 acc_sec_asp3 accesso 22.4 88 0.0019 24.0 2.6 27 92-118 15-41 (135)
35 PF04773 FecR: FecR protein; 21.6 2E+02 0.0043 18.8 4.0 28 87-114 12-39 (98)
36 COG2721 UxaA Altronate dehydra 20.8 79 0.0017 28.3 2.3 31 103-137 297-334 (381)
37 KOG0171|consensus 20.2 1.9E+02 0.0041 23.3 4.2 40 94-133 114-160 (176)
No 1
>PTZ00054 60S ribosomal protein L23; Provisional
Probab=100.00 E-value=5.2e-52 Score=316.21 Aligned_cols=131 Identities=74% Similarity=1.167 Sum_probs=122.1
Q ss_pred CCCCCCCcccceeccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCCccceeeEEEEe
Q psy6163 4 RGRGGSAGAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPELRKKVMPAVVIR 83 (137)
Q Consensus 4 ~~~~~~~~~~~~~~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~Kg~v~kAVIVR 83 (137)
.+.|+..++++++++|||.+|+|+|+|||||++++||++++.++.++++++|++||+|+||||++.|..|+|+++|||||
T Consensus 3 ~~~~~~~~~~~~~~~mIq~~t~L~vaDNSGAk~v~cI~vlg~~g~~~r~~~a~iGD~IvvsVKk~~p~~kg~V~kAVIVR 82 (139)
T PTZ00054 3 RGRGGVGGNKFRVTLGLPVGAVVNCADNSGAKNLYIIAVKGIHGRLNRLPSASLGDMVLATVKKGKPELRKKVLNAVIIR 82 (139)
T ss_pred ccccCccccccccceeecCCCEEEEeeCCCccEEEEEEEeccCcCCccCcccccCCEEEEEEEECCCcccCCEeeEEEEE
Confidence 36677889999999999999999999999999999999997544455557899999999999999999999999999999
Q ss_pred eecceecCCCcEEEeCCceEEEEcCCCCeeceEEecchhHHHHHhcCcCcc
Q psy6163 84 QRKPFRRRDGVFIYFEDNAGVIVNNKGEMKGSAITGPVAKENAQICGHGIG 134 (137)
Q Consensus 84 tKk~~~R~dG~~i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~~~p~~~~ 134 (137)
||++++|+||++++||||||||||++++|+|||||||||+||+++||+.+.
T Consensus 83 tKk~~rR~dGs~i~F~dNA~VLin~~~~p~GTRI~GpV~rEl~~~~~KI~S 133 (139)
T PTZ00054 83 QRKAWRRKDGVFIYFEDNAGVIVNPKGEMKGSAITGPVAKECADLWPKISS 133 (139)
T ss_pred ECcceEcCCCcEEEeCCcEEEEECCCCCEeeeEEeCchhHHHHhCccHhhc
Confidence 999999999999999999999999999999999999999999999998654
No 2
>PRK08571 rpl14p 50S ribosomal protein L14P; Reviewed
Probab=100.00 E-value=2.1e-51 Score=310.62 Aligned_cols=125 Identities=54% Similarity=0.831 Sum_probs=116.9
Q ss_pred cccceeccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCCccceeeEEEEeeecceec
Q psy6163 11 GAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPELRKKVMPAVVIRQRKPFRR 90 (137)
Q Consensus 11 ~~~~~~~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~Kg~v~kAVIVRtKk~~~R 90 (137)
+++++++.|||.+|+|+|+|||||++++||+++++++.++++++|.+||+|+||||++.|..|+|+++|||||||++++|
T Consensus 3 ~~~~~~~~mIq~~T~L~VaDNSGAk~v~cI~vlg~~g~~~r~~~a~iGD~IvvsVK~~~p~~kg~v~kAVIVRtkk~~~R 82 (132)
T PRK08571 3 GIRSKVTRGLPVGARLVCADNTGAKEVEIISVKGYKGVKRRLPKAGVGDMVVVSVKKGTPEMRKQVLRAVVVRQRKEYRR 82 (132)
T ss_pred cccccccceecCCCEEEEeeCCCCCeEEEEEEeccCCCCccCCccccCCEEEEEEEECCCcccCCEeEEEEEEeccceEc
Confidence 67899999999999999999999999999999976545555568999999999999999999999999999999999999
Q ss_pred CCCcEEEeCCceEEEEcCCCCeeceEEecchhHHHHHhcCcCccc
Q psy6163 91 RDGVFIYFEDNAGVIVNNKGEMKGSAITGPVAKENAQICGHGIGI 135 (137)
Q Consensus 91 ~dG~~i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~~~p~~~~~ 135 (137)
+||++++|||||+||||++++|+||||+||||+||+++||+.+.+
T Consensus 83 ~dGs~i~F~dNa~VLin~~~~p~GTRI~GpV~~El~~~~~Ki~sL 127 (132)
T PRK08571 83 PDGTRVKFEDNAAVIVTPEGTPKGTEIKGPVAREAAERWPKIASI 127 (132)
T ss_pred CCCcEEEeCCcEEEEECCCCCEeeeEEeccchHHHhhCCchheec
Confidence 999999999999999999999999999999999999999987643
No 3
>TIGR03673 rpl14p_arch 50S ribosomal protein L14P. Part of the 50S ribosomal subunit. Forms a cluster with proteins L3 and L24e, part of which may contact the 16S rRNA in 2 intersubunit bridges.
Probab=100.00 E-value=5.3e-51 Score=308.09 Aligned_cols=124 Identities=56% Similarity=0.832 Sum_probs=116.2
Q ss_pred cccceeccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCCccceeeEEEEeeecceec
Q psy6163 11 GAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPELRKKVMPAVVIRQRKPFRR 90 (137)
Q Consensus 11 ~~~~~~~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~Kg~v~kAVIVRtKk~~~R 90 (137)
+.+++++.|||.+|+|+|+|||||++++||+++++++.++++++|.+||+|+||||++.|..|+|+++|||||||++++|
T Consensus 2 ~~~~~~~~mIq~~t~L~VaDNSGak~v~cI~vl~~~g~~~r~~~a~iGD~IvvsVK~~~p~~kg~v~kAVIVRtkk~~~R 81 (131)
T TIGR03673 2 GIRAGITRALPVGSLLVCADNTGAKEVEVISVKGYKGVKRRLPCAGVGDMVVVSVKKGTPEMRKQVFKAVVVRQRKEYRR 81 (131)
T ss_pred CcccccceeeccCCEEEEeeCCCCceEEEEEEeeeCCCcccCCccccCCEEEEEEEECCccccCCEeEEEEEEeCcceec
Confidence 45788999999999999999999999999999976555556678999999999999999999999999999999999999
Q ss_pred CCCcEEEeCCceEEEEcCCCCeeceEEecchhHHHHHhcCcCcc
Q psy6163 91 RDGVFIYFEDNAGVIVNNKGEMKGSAITGPVAKENAQICGHGIG 134 (137)
Q Consensus 91 ~dG~~i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~~~p~~~~ 134 (137)
+||++++|||||+||||++++|+|||||||||+||+++|++.+.
T Consensus 82 ~dGs~i~FddNa~VLin~~~~P~GTRI~GpV~rEl~~~~~Ki~S 125 (131)
T TIGR03673 82 PDGTRVKFEDNAVVIVTPDGEPKGTEIKGPVAREAAERWPKIAS 125 (131)
T ss_pred CCCcEEEeCCcEEEEECCCCCEeeeEEEccchHHHHhCccHhee
Confidence 99999999999999999999999999999999999999998654
No 4
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-49 Score=294.84 Aligned_cols=111 Identities=43% Similarity=0.634 Sum_probs=104.9
Q ss_pred CcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCC---CccceeeEEEEeeecceecCCCcE
Q psy6163 19 ALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPE---LRKKVMPAVVIRQRKPFRRRDGVF 95 (137)
Q Consensus 19 mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~---~Kg~v~kAVIVRtKk~~~R~dG~~ 95 (137)
|||.+|+|+|||||||++++||+|+++++|+ +|++||+|++|||++.|. .|||+++|||||||++++|+||++
T Consensus 1 miq~~t~l~vADNSGAk~v~~I~V~gg~~r~----~A~vGD~ivvsVKka~P~~~vKkg~V~~AViVRtkk~~rR~DGs~ 76 (122)
T COG0093 1 MIQVQTRLNVADNSGAKEVMCIKVLGGSRRR----YAGVGDIIVVSVKKAIPRGMVKKGDVVKAVVVRTKKEVRRPDGSY 76 (122)
T ss_pred CcccccEEEEccCCCCcEEEEEEEecccccc----ccCCCCEEEEEEeeccCCcceeccceEEEEEEEeCCceEcCCCCE
Confidence 8999999999999999999999999876653 899999999999999994 378999999999999999999999
Q ss_pred EEeCCceEEEEcCCCCeeceEEecchhHHHHHh-cCcCc
Q psy6163 96 IYFEDNAGVIVNNKGEMKGSAITGPVAKENAQI-CGHGI 133 (137)
Q Consensus 96 i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~~-~p~~~ 133 (137)
|+||||||||+|++++|+||||||||++|||++ ||+-.
T Consensus 77 i~FddNA~Viin~~g~P~GtrI~GPVaRElr~~~~~kI~ 115 (122)
T COG0093 77 IKFDDNAAVIINPDGEPRGTRIFGPVARELRERGFMKIA 115 (122)
T ss_pred EEeCCceEEEECCCCCcccceEecchhHHHHhcCCceee
Confidence 999999999999999999999999999999998 99754
No 5
>CHL00057 rpl14 ribosomal protein L14
Probab=100.00 E-value=8.9e-48 Score=287.42 Aligned_cols=112 Identities=35% Similarity=0.617 Sum_probs=104.7
Q ss_pred CcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCC---ccceeeEEEEeeecceecCCCcE
Q psy6163 19 ALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPEL---RKKVMPAVVIRQRKPFRRRDGVF 95 (137)
Q Consensus 19 mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~---Kg~v~kAVIVRtKk~~~R~dG~~ 95 (137)
|||.+|+|+|+|||||++++||++|+++++ ++|++||+|+||||++.|+. |||+++|||||||++++|+||++
T Consensus 1 MIq~~t~l~v~DNSGak~v~cI~v~~~~~~----~~a~vGD~IvvsVk~~~~~~k~kkg~v~kAvIVrtk~~~~r~dG~~ 76 (122)
T CHL00057 1 MIQPQTYLNVADNSGARKLMCIRVLGASNR----KYAHIGDVIIAVVKEAVPNMPLKRSEVVRAVIVRTCKELKRDNGMI 76 (122)
T ss_pred CCCcCCEEEEeECCCCcEEEEEEEeCCCCC----ccccCCCEEEEEEEeccCCCceecCCEEEEEEEEeccccCcCCCcE
Confidence 999999999999999999999999986543 47999999999999999964 89999999999999999999999
Q ss_pred EEeCCceEEEEcCCCCeeceEEecchhHHHHH-hcCcCcc
Q psy6163 96 IYFEDNAGVIVNNKGEMKGSAITGPVAKENAQ-ICGHGIG 134 (137)
Q Consensus 96 i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~-~~p~~~~ 134 (137)
++|||||+||+|++++|+||||+||||+|||+ +|++.+.
T Consensus 77 i~F~~Na~VLin~~~~p~GTrI~Gpv~~elr~k~~~Ki~s 116 (122)
T CHL00057 77 IRFDDNAAVVIDQEGNPKGTRVFGPIARELREKNFTKIVS 116 (122)
T ss_pred EEcCCceEEEECCCCCEeEeEEEccchHHHhhcCCeEEEe
Confidence 99999999999999999999999999999975 5998654
No 6
>PRK05483 rplN 50S ribosomal protein L14; Validated
Probab=100.00 E-value=1.1e-47 Score=286.85 Aligned_cols=112 Identities=40% Similarity=0.599 Sum_probs=104.8
Q ss_pred CcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCC---ccceeeEEEEeeecceecCCCcE
Q psy6163 19 ALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPEL---RKKVMPAVVIRQRKPFRRRDGVF 95 (137)
Q Consensus 19 mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~---Kg~v~kAVIVRtKk~~~R~dG~~ 95 (137)
|||.+|+|+|+|||||++++||++|+++++ ++|++||+|+||||++.|+. |||+++|||||||++++|+||++
T Consensus 1 MIq~~t~l~v~DNSGak~v~cI~v~g~~~~----~~a~iGD~I~vsVkk~~~~~~~kkg~v~~AvIVrtkk~~~r~dG~~ 76 (122)
T PRK05483 1 MIQQETRLNVADNSGAKEVMCIKVLGGSKR----RYASIGDVIVVSVKEAIPRGKVKKGDVVKAVVVRTKKGVRRPDGSY 76 (122)
T ss_pred CCCCCCEEEEeECCCCCEEEEEEEeCCCCC----CccccCCEEEEEEEEcCCCCcccCCCEeeEEEEEeccceecCCCCE
Confidence 999999999999999999999999975443 37999999999999999964 79999999999999999999999
Q ss_pred EEeCCceEEEEcCCCCeeceEEecchhHHHH-HhcCcCcc
Q psy6163 96 IYFEDNAGVIVNNKGEMKGSAITGPVAKENA-QICGHGIG 134 (137)
Q Consensus 96 i~F~~NavVLln~k~~P~GTRI~GpV~~Elr-~~~p~~~~ 134 (137)
++|||||+||||++++|+||||+||||+||| ++||+.+.
T Consensus 77 i~F~dNavVLin~~~~p~GTrI~Gpv~~elr~~~~~Ki~s 116 (122)
T PRK05483 77 IRFDDNAAVLLNNDGEPRGTRIFGPVARELRDKKFMKIVS 116 (122)
T ss_pred EEcCCCEEEEECCCCCEeEeEEeccchHHHhhcCCcEEEe
Confidence 9999999999999999999999999999997 69998654
No 7
>TIGR01067 rplN_bact ribosomal protein L14, bacterial/organelle. This model distinguishes bacterial and most organellar examples of ribosomal protein L14 from all archaeal and eukaryotic forms.
Probab=100.00 E-value=2.2e-47 Score=285.15 Aligned_cols=112 Identities=38% Similarity=0.547 Sum_probs=104.5
Q ss_pred CcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCC---ccceeeEEEEeeecceecCCCcE
Q psy6163 19 ALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPEL---RKKVMPAVVIRQRKPFRRRDGVF 95 (137)
Q Consensus 19 mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~---Kg~v~kAVIVRtKk~~~R~dG~~ 95 (137)
|||.+|+|+|+|||||++++||++|+++++ ++|.+||+|+||||++.|+. |+|+++|||||||++++|+||++
T Consensus 1 MIq~~t~l~v~DNSGak~v~cI~v~~~~~~----~~a~iGD~I~vsVk~~~~~~~~kkg~v~~AvIVrtkk~~~r~dG~~ 76 (122)
T TIGR01067 1 MIQQQSRLNVADNSGAKKVQCIKVLGGSRR----RYATVGDVIVVVVKDAIPNGKVKKGDVVKAVIVRTKKGVRRKDGSY 76 (122)
T ss_pred CCCcCCEEEEeECCCCcEEEEEEEeCCCCC----CccccCCEEEEEEEEcCCCCccccccEEEEEEEEeecceEeCCCCE
Confidence 999999999999999999999999975443 47999999999999999964 69999999999999999999999
Q ss_pred EEeCCceEEEEcCCCCeeceEEecchhHHHHH-hcCcCcc
Q psy6163 96 IYFEDNAGVIVNNKGEMKGSAITGPVAKENAQ-ICGHGIG 134 (137)
Q Consensus 96 i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~-~~p~~~~ 134 (137)
++|||||+||+|++++|+||||+||||+|||+ +||+.+.
T Consensus 77 i~F~~Na~VLin~~~~p~GTrI~Gpv~~elr~~~~~Ki~s 116 (122)
T TIGR01067 77 IRFDDNACVLINKNKEPRGTRIFGPVARELRDKGFMKIVS 116 (122)
T ss_pred EECCCceEEEECCCCCEeeeEEEccchHHHhhcCCceeee
Confidence 99999999999999999999999999999976 6998754
No 8
>PF00238 Ribosomal_L14: Ribosomal protein L14p/L23e; InterPro: IPR000218 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L14 is one of the proteins from the large ribosomal subunit. In eubacteria, L14 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins, which have been grouped on the basis of sequence similarities []. Based on amino-acid sequence homology, it is predicted that ribosomal protein L14 is a member of a recently identified family of structurally related RNA-binding proteins []. L14 is a protein of 119 to 137 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZR_M 4A1C_J 4A1E_J 4A1A_J 4A17_J 1VSP_I 3D5D_O 1VSA_I 3MRZ_K 3F1F_O ....
Probab=100.00 E-value=7.1e-45 Score=271.08 Aligned_cols=111 Identities=42% Similarity=0.686 Sum_probs=100.3
Q ss_pred CcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCC---ccceeeEEEEeeecceecCCCcE
Q psy6163 19 ALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPEL---RKKVMPAVVIRQRKPFRRRDGVF 95 (137)
Q Consensus 19 mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~---Kg~v~kAVIVRtKk~~~R~dG~~ 95 (137)
|||.+|+|+|+|||||++++||++++++++ ++|++||+|+||||++++.. |||+++|||||||++++|.||++
T Consensus 1 MIq~~t~L~v~DNSGak~v~cI~v~~~~~~----~~a~vGD~I~vsVkk~~~~~~vkkg~v~~avIVrtk~~~~r~dg~~ 76 (122)
T PF00238_consen 1 MIQKGTILKVADNSGAKKVKCIKVLGGKRR----KYASVGDIIVVSVKKGRPKSKVKKGQVYKAVIVRTKKPIRRKDGSF 76 (122)
T ss_dssp -BETTEEEEESBSSSEEEEEEEEETSSTTT----SEE-TTSEEEEEEEEE-SSSSSTTTEEEEEEEEECSSEEETTTSEE
T ss_pred CCCCCCEEEEeeCCCCcEEEEEEEeCCcCc----cccccceEEEEEEeecccCccccccceEEEEEEEEeEEEEEeCCcE
Confidence 999999999999999999999999986543 47999999999999996653 68999999999999999999999
Q ss_pred EEeCCceEEEEcCCCCeeceEEecchhHHHH-HhcCcCc
Q psy6163 96 IYFEDNAGVIVNNKGEMKGSAITGPVAKENA-QICGHGI 133 (137)
Q Consensus 96 i~F~~NavVLln~k~~P~GTRI~GpV~~Elr-~~~p~~~ 133 (137)
++|||||+||+|++++|+||||+||||+||| ++|++.+
T Consensus 77 i~F~~Na~VLln~~~~p~GtrI~Gpv~~elr~~~~~ki~ 115 (122)
T PF00238_consen 77 IKFDDNAVVLLNKKGNPLGTRIFGPVPRELRKKKFPKIL 115 (122)
T ss_dssp EEESSEEEEEEETTSSBSSSSBCSEEEHHHHHTTSHHHH
T ss_pred EEeCCccEEEEcCCCCEeeeEEEeeehHHhhHcCCchHH
Confidence 9999999999999999999999999999995 6888654
No 9
>PTZ00320 ribosomal protein L14; Provisional
Probab=100.00 E-value=2.6e-42 Score=272.09 Aligned_cols=109 Identities=15% Similarity=0.191 Sum_probs=99.9
Q ss_pred cccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCE----EEEEEecccC---------CCccceeeEEEEeeec
Q psy6163 20 LPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDM----FVATVKKGKP---------ELRKKVMPAVVIRQRK 86 (137)
Q Consensus 20 Iq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~----I~vsVKk~~~---------~~Kg~v~kAVIVRtKk 86 (137)
..-+|+|+|+|||||++++||+|+. ++ ++|.+||+ |+||||++.| ..||||++|||||||+
T Consensus 60 ~~~qT~L~VaDNSGAK~V~CIkVl~--~r----r~A~IGDi~~~~IvVsVKka~P~~~~~~~~kVKKG~V~kAVIVRTKK 133 (188)
T PTZ00320 60 FSDQVKLHCVDNTNCKHVRLISKAT--AE----RFAHCRVFPAVAHRVSVQRFKSGRGEVSRHRVKPGNIYWVCLLSRRQ 133 (188)
T ss_pred cCCCcEEEEEeCCCCcEEEEEEEec--CC----CceeeccccCceEEEEEeecccCccccccCceecCCEEEEEEEEECc
Confidence 4579999999999999999999992 22 38999999 9999999999 2489999999999999
Q ss_pred ceecCCCcEEEeCCceEEEEcCCCCeeceEEecchhHHHH-HhcCcCcc
Q psy6163 87 PFRRRDGVFIYFEDNAGVIVNNKGEMKGSAITGPVAKENA-QICGHGIG 134 (137)
Q Consensus 87 ~~~R~dG~~i~F~~NavVLln~k~~P~GTRI~GpV~~Elr-~~~p~~~~ 134 (137)
+++|+||++|+||||||||||++++|+||||||||++||| ++|++.+-
T Consensus 134 ~irR~DGs~IrFDdNAaVLIN~qgePlGTRIfGPVaRELR~k~f~KIvS 182 (188)
T PTZ00320 134 TNTRMSGLQTNFDRNTCILMNDQRVPLGTRVMYCAGRHVNHKYHLKAVV 182 (188)
T ss_pred ccCCCCCCEEEeCCcEEEEECCCCCEeeeEEecchhHHHhhcCCceeee
Confidence 9999999999999999999999999999999999999997 58887654
No 10
>KOG0901|consensus
Probab=100.00 E-value=2e-39 Score=248.09 Aligned_cols=131 Identities=76% Similarity=1.167 Sum_probs=126.5
Q ss_pred CCCCCCCCCCcccceeccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEec--ccCCCc---cc
Q psy6163 1 MSKRGRGGSAGAKFRISLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKK--GKPELR---KK 75 (137)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk--~~~~~K---g~ 75 (137)
||+++.||+++.+|+++.|||++|.++|+||||||.++||++.+.+++.||.+.|.+||+++++||+ ..|+.+ ++
T Consensus 1 ~~~~~~~gs~~~k~r~s~~~~~g~~incaDNSgAknL~~isv~g~~Grlnrl~~A~~GD~vva~vKka~~~Pe~r~k~g~ 80 (145)
T KOG0901|consen 1 MSSRGRGGSSGVKFRISLGLPVGAVINCADNSGAKNLYCISVKGIKGRLNRLPAAGVGDMVVATVKKAHGKPELRKKVGE 80 (145)
T ss_pred CcccccCcccchhhhhhhccccceEEEecCCCCcceEEEEEEeccccccccccCCCcCCEEEEEEecccCCCccCcEecc
Confidence 7999999999999999999999999999999999999999999998999999999999999999999 788764 56
Q ss_pred eeeEEEEeeecceecCCCcEEEeCCceEEEEcCCCCeeceEEecchhHHHHHhcCc
Q psy6163 76 VMPAVVIRQRKPFRRRDGVFIYFEDNAGVIVNNKGEMKGSAITGPVAKENAQICGH 131 (137)
Q Consensus 76 v~kAVIVRtKk~~~R~dG~~i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~~~p~ 131 (137)
++.|+|||+++++.|.||+++.|+|||+|++|++++|+||+|+|||++|++..||.
T Consensus 81 ~~~avvVr~~k~~~r~dgs~~~f~dnA~v~~~~~~e~~gs~i~G~v~~e~~~~~~k 136 (145)
T KOG0901|consen 81 VLPAVVVRQKKSKRRKDGSIAYFEDNAGVIVNNKGEPKGSAITGPVGKELADLWPK 136 (145)
T ss_pred cceeeEEeeccccccCCCcEEEEcCceEEEEcccCccccceeccccChhHhhhhHH
Confidence 79999999999999999999999999999999999999999999999999999996
No 11
>KOG3441|consensus
Probab=99.84 E-value=5.2e-21 Score=144.66 Aligned_cols=95 Identities=21% Similarity=0.352 Sum_probs=83.2
Q ss_pred ccCcccCCEEEEecCCC--------CceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCCccceeeEEEEeeecce
Q psy6163 17 SLALPVGAVINCADNTG--------AKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPELRKKVMPAVVIRQRKPF 88 (137)
Q Consensus 17 ~~mIq~~T~L~VaDNSG--------ak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~Kg~v~kAVIVRtKk~~ 88 (137)
...|++.|+|+|+|||. .+..+||+||++.+ .+.+||.|+|+|| ||+.+|+||.....
T Consensus 29 ~~~I~k~tRlrVVDNSaLGk~a~~~gr~PrCIHVYkkrg------vg~~GDkiLvAIk-------GQmkKa~vVGh~~~- 94 (149)
T KOG3441|consen 29 LMGIHKRTRLRVVDNSALGKEADTTGRLPRCIHVYKKRG------VGELGDKILVAIK-------GQMKKAYVVGHVHY- 94 (149)
T ss_pred HHhhhhhheEEEecchhhcccccccCCCCceEEEEeccc------ccccccEEEEEEe-------cceeeeEEEEeecc-
Confidence 45799999999999995 37899999997433 6999999999996 99999999996654
Q ss_pred ecCCCcEEEeCCceEEEEcCCCCeeceEEecchhHHHHH
Q psy6163 89 RRRDGVFIYFEDNAGVIVNNKGEMKGSAITGPVAKENAQ 127 (137)
Q Consensus 89 ~R~dG~~i~F~~NavVLln~k~~P~GTRI~GpV~~Elr~ 127 (137)
++.| ..+||.|.+||++++|+|+||||.-|||..||.
T Consensus 95 -~k~~-~P~fDsNniVLiddnGnPlGtRI~~PIPT~Lr~ 131 (149)
T KOG3441|consen 95 -RKHG-VPVFDSNNIVLIDDNGNPLGTRITAPIPTKLRA 131 (149)
T ss_pred -CCCC-CcccCCCcEEEECCCCCcccceEeccCcHHHHh
Confidence 4445 579999999999999999999999999999984
No 12
>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB
Probab=60.16 E-value=19 Score=26.69 Aligned_cols=39 Identities=15% Similarity=0.244 Sum_probs=28.2
Q ss_pred CEEEEecCCCC-ceEEEEEEeccCCccccCCCCCCCCEEEEE
Q psy6163 24 AVINCADNTGA-KNLFVIAVQGVKGRLNRLPAAGSGDMFVAT 64 (137)
Q Consensus 24 T~L~VaDNSGa-k~v~cI~v~~~~~r~~r~~~a~iGD~I~vs 64 (137)
..|.++|-|++ ...-.+++++.. ...+|...+||+|.+-
T Consensus 39 ~tl~i~D~S~~~~~~l~v~~F~~~--~~~LP~v~~GDVIll~ 78 (138)
T cd04497 39 CTLTITDPSLANSDGLTVKLFRPN--EESLPIVKVGDIILLR 78 (138)
T ss_pred EEEEEECCCCCCCCcEEEEEECCC--hhhCCCCCCCCEEEEE
Confidence 46999999997 455666677532 3456767999999764
No 13
>PF02721 DUF223: Domain of unknown function DUF223; InterPro: IPR003871 The function of this domain has not been characterised, but may be involved in nucleic acid or nucleotide binding.
Probab=52.50 E-value=11 Score=26.00 Aligned_cols=27 Identities=26% Similarity=0.390 Sum_probs=22.9
Q ss_pred EEEEcCCCCeeceEEecchhHHHHHhcCcCc
Q psy6163 103 GVIVNNKGEMKGSAITGPVAKENAQICGHGI 133 (137)
Q Consensus 103 vVLln~k~~P~GTRI~GpV~~Elr~~~p~~~ 133 (137)
.||+|++| ++|...|++++-++|.+.+
T Consensus 2 mvL~De~G----~~I~A~I~~~~~~~f~~~l 28 (95)
T PF02721_consen 2 MVLVDEKG----DKIQATIPKELVDKFKDSL 28 (95)
T ss_pred EEEEecCC----CEEEEEECHHHHHHHHhhc
Confidence 58888876 8999999999999987765
No 14
>PF10382 DUF2439: Protein of unknown function (DUF2439); InterPro: IPR018838 This domain is found at the N-terminal of proteins implicated in telomere maintenance in Saccharomyces cerevisiae (Baker's yeast) [] and in meiotic chromosome segregation in Schizosaccharomyces pombe (Fission yeast) [].
Probab=50.81 E-value=29 Score=23.98 Aligned_cols=27 Identities=19% Similarity=0.505 Sum_probs=21.8
Q ss_pred CCCcEEEeC--CceEEEEcCCCCeeceEEe
Q psy6163 91 RDGVFIYFE--DNAGVIVNNKGEMKGSAIT 118 (137)
Q Consensus 91 ~dG~~i~F~--~NavVLln~k~~P~GTRI~ 118 (137)
.||. ++|. .|-+.|.|+++..+|+.+.
T Consensus 20 ~DG~-l~~~~~~~kv~Lyde~~~~i~~~~~ 48 (83)
T PF10382_consen 20 HDGF-LKYHSFNKKVMLYDEDGNLIGSDFL 48 (83)
T ss_pred ECCE-EEEEeCCCEEEEEcCCCCEEeEEEE
Confidence 4996 4555 7779999999999999875
No 15
>TIGR01024 rplS_bact ribosomal protein L19, bacterial type. This model describes bacterial ribosomoal protein L19 and its chloroplast equivalent. Putative mitochondrial L19 are found in several species (but not Saccharomyces cerevisiae) and score between trusted and noise cutoffs.
Probab=50.47 E-value=37 Score=25.29 Aligned_cols=35 Identities=34% Similarity=0.375 Sum_probs=27.9
Q ss_pred CCCCCCCCEEEEEEecccCC-CccceeeEEEEeeec
Q psy6163 52 LPAAGSGDMFVATVKKGKPE-LRKKVMPAVVIRQRK 86 (137)
Q Consensus 52 ~~~a~iGD~I~vsVKk~~~~-~Kg~v~kAVIVRtKk 86 (137)
.|.-.+||+|.|.++-...+ .+-|.|.++|+..+.
T Consensus 16 ip~f~~GD~v~V~~~i~eg~k~R~q~f~GvvI~~~~ 51 (113)
T TIGR01024 16 LPDFRVGDTVRVHVKIVEGKKERIQVFEGVVIARRG 51 (113)
T ss_pred CCccCCCCEEEEEEEEccCCceEcccEEEEEEEEeC
Confidence 56778999999999865533 367999999998874
No 16
>CHL00084 rpl19 ribosomal protein L19
Probab=50.01 E-value=35 Score=25.56 Aligned_cols=35 Identities=23% Similarity=0.274 Sum_probs=27.1
Q ss_pred CCCCCCCCEEEEEEecccCC-CccceeeEEEEeeec
Q psy6163 52 LPAAGSGDMFVATVKKGKPE-LRKKVMPAVVIRQRK 86 (137)
Q Consensus 52 ~~~a~iGD~I~vsVKk~~~~-~Kg~v~kAVIVRtKk 86 (137)
.|.-.+||+|.|.++-...+ .+-|.|.++|+..+.
T Consensus 20 ~p~f~~GDtV~V~~~i~eg~k~R~q~F~GvvI~~r~ 55 (117)
T CHL00084 20 LPKIRVGDTVKVGVLIQEGNKERVQFYEGTVIAKKN 55 (117)
T ss_pred CCccCCCCEEEEEEEEecCCeeEeceEEEEEEEEeC
Confidence 46688999999999655443 367899999998763
No 17
>PRK05338 rplS 50S ribosomal protein L19; Provisional
Probab=48.72 E-value=41 Score=25.12 Aligned_cols=35 Identities=29% Similarity=0.349 Sum_probs=27.4
Q ss_pred CCCCCCCCEEEEEEecccCC-CccceeeEEEEeeec
Q psy6163 52 LPAAGSGDMFVATVKKGKPE-LRKKVMPAVVIRQRK 86 (137)
Q Consensus 52 ~~~a~iGD~I~vsVKk~~~~-~Kg~v~kAVIVRtKk 86 (137)
.|.-.+||+|.|.++-...+ .+-|.|.++|+..+.
T Consensus 16 ~p~f~~GD~V~V~~~i~eg~k~R~q~f~GvvI~~~~ 51 (116)
T PRK05338 16 IPEFRPGDTVRVHVKVVEGNKERIQAFEGVVIARRG 51 (116)
T ss_pred CCCcCCCCEEEEEEEEccCCceEeccEEEEEEEEeC
Confidence 46778999999998755443 367899999998774
No 18
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=48.60 E-value=25 Score=22.38 Aligned_cols=30 Identities=23% Similarity=0.399 Sum_probs=25.0
Q ss_pred eecceecCCCcEEEeCCceEEEEcCCCCee
Q psy6163 84 QRKPFRRRDGVFIYFEDNAGVIVNNKGEMK 113 (137)
Q Consensus 84 tKk~~~R~dG~~i~F~~NavVLln~k~~P~ 113 (137)
.-..++++||.+.-+...+.++-+++|+|.
T Consensus 56 ~e~R~~~~~G~~~wi~~~~~~~~d~~g~~~ 85 (91)
T PF08447_consen 56 IEYRIRRKDGEYRWIEVRGRPIFDENGKPI 85 (91)
T ss_dssp EEEEEEGTTSTEEEEEEEEEEEETTTS-EE
T ss_pred EEEEEECCCCCEEEEEEEEEEEECCCCCEE
Confidence 345567899999999999999999999985
No 19
>PF01245 Ribosomal_L19: Ribosomal protein L19; InterPro: IPR001857 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L19 is one of the proteins from the large ribosomal subunit [, ]. In Escherichia coli, L19 is known to be located at the 30S-50S ribosomal subunit interface [] and may play a role in the structure and function of the aminoacyl-tRNA binding site. It belongs to a family of ribosomal proteins, including L19 from bacteria and the chloroplasts of red algae. L19 is a protein of 120 to 130 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3HUZ_T 3V2D_T 3I8I_R 2XG2_T 2V49_T 2XUX_T 3HUX_T 3I9C_R 3V25_T 3UZ2_R ....
Probab=45.26 E-value=55 Score=24.18 Aligned_cols=36 Identities=31% Similarity=0.404 Sum_probs=29.0
Q ss_pred cCCCCCCCCEEEEEEecccCC-CccceeeEEEEeeec
Q psy6163 51 RLPAAGSGDMFVATVKKGKPE-LRKKVMPAVVIRQRK 86 (137)
Q Consensus 51 r~~~a~iGD~I~vsVKk~~~~-~Kg~v~kAVIVRtKk 86 (137)
..|.-.+||+|.|.++....+ .+-|.|.++++.-+.
T Consensus 15 ~~p~f~~GD~v~V~~~i~e~~k~r~q~f~GvvIa~~~ 51 (113)
T PF01245_consen 15 DIPEFRVGDTVRVTYKISEGNKERIQVFEGVVIARRR 51 (113)
T ss_dssp SSSSSSSSSEEEEEEEEESSSSEEEEEEEEEEEEEEB
T ss_pred CCCCcCCCCEEEEEEEEecCCCceeEEEEEEEEEEEC
Confidence 446788999999999876443 467899999998876
No 20
>cd03695 CysN_NodQ_II CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN and a smaller subunit CysD and CysN. ATPS produces adenosine-5'-phosphosulfate (APS) from ATP and sulfate, coupled with GTP hydrolysis. In the subsequent reaction APS is phosphorylated by an APS kinase (CysC), to produce 3'-phosphoadenosine-5'-phosphosulfate (PAPS) for use in amino acid (aa) biosynthesis. The Rhizobiaceae group (alpha-proteobacteria) appears to carry out the same chemistry for the sufation of a nodulation factor. In Rhizobium meliloti, a the hererodimeric complex comprised of NodP and NodQ appears to possess both ATPS and APS kinase activities. The N and C termini of NodQ correspond to CysN and CysC, respectively. Other eubacteria, Archaea, and eukaryotes use a different ATP sulfurylase, which sho
Probab=44.99 E-value=78 Score=21.20 Aligned_cols=46 Identities=17% Similarity=0.162 Sum_probs=32.1
Q ss_pred ccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEec
Q psy6163 17 SLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKK 67 (137)
Q Consensus 17 ~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk 67 (137)
+=.++.+..|.+.+.-=.-.++-|+.....- ..|..||.|-+.++.
T Consensus 24 ~G~v~~Gd~v~~~P~~~~~~V~si~~~~~~~-----~~a~aGd~v~l~l~~ 69 (81)
T cd03695 24 SGSIRVGDEVVVLPSGKTSRVKSIETFDGEL-----DEAGAGESVTLTLED 69 (81)
T ss_pred cceEECCCEEEEcCCCCeEEEEEEEECCcEe-----CEEcCCCEEEEEECC
Confidence 3456788888888753334577777664322 469999999999974
No 21
>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.
Probab=43.11 E-value=52 Score=22.01 Aligned_cols=28 Identities=25% Similarity=0.278 Sum_probs=23.8
Q ss_pred eEEEEcCCCCeeceEEecchhHHHHHhcCcCc
Q psy6163 102 AGVIVNNKGEMKGSAITGPVAKENAQICGHGI 133 (137)
Q Consensus 102 avVLln~k~~P~GTRI~GpV~~Elr~~~p~~~ 133 (137)
..+|+|++ |++|.+-+|+++.++|...+
T Consensus 22 ~miL~De~----G~~I~a~i~~~~~~~f~~~L 49 (86)
T cd04480 22 EMVLVDEK----GNRIHATIPKRLAAKFRPLL 49 (86)
T ss_pred EEEEEcCC----CCEEEEEECHHHHHhhhhhc
Confidence 56899986 66999999999999987765
No 22
>cd03696 selB_II selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=39.39 E-value=74 Score=21.05 Aligned_cols=49 Identities=18% Similarity=0.186 Sum_probs=32.5
Q ss_pred ccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccC
Q psy6163 17 SLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKP 70 (137)
Q Consensus 17 ~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~ 70 (137)
+=.|+.+..|.+..+--.-.++=|+..... ...|..||.|-++++...+
T Consensus 24 sG~i~~g~~v~~~p~~~~~~V~sI~~~~~~-----~~~a~aGd~v~i~l~~~~~ 72 (83)
T cd03696 24 SGSVKVGDKVEILPLGEETRVRSIQVHGKD-----VEEAKAGDRVALNLTGVDA 72 (83)
T ss_pred ecEEeCCCEEEECCCCceEEEEEEEECCcC-----cCEEcCCCEEEEEEcCCCH
Confidence 445788999999885433344555543221 2368999999999986543
No 23
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=37.89 E-value=70 Score=21.28 Aligned_cols=49 Identities=14% Similarity=0.074 Sum_probs=32.7
Q ss_pred ccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccC
Q psy6163 17 SLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKP 70 (137)
Q Consensus 17 ~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~ 70 (137)
+=.|+.+..+.+.-..-.-.++-|+..... ...|..||.|-+.++...+
T Consensus 24 ~G~i~~Gd~v~i~P~~~~~~V~si~~~~~~-----~~~a~aGd~v~~~l~~~~~ 72 (83)
T cd03698 24 SGSIQKGDTLLVMPSKESVEVKSIYVDDEE-----VDYAVAGENVRLKLKGIDE 72 (83)
T ss_pred eeEEeCCCEEEEeCCCcEEEEEEEEECCeE-----CCEECCCCEEEEEECCCCH
Confidence 345778888888765433456666655322 2369999999999986543
No 24
>cd03693 EF1_alpha_II EF1_alpha_II: this family represents the domain II of elongation factor 1-alpha (EF-1a) that is found in archaea and all eukaryotic lineages. EF-1A is very abundant in the cytosol, where it is involved in the GTP-dependent binding of aminoacyl-tRNAs to the A site of the ribosomes in the second step of translation from mRNAs to proteins. Both domain II of EF1A and domain IV of IF2/eIF5B have been implicated in recognition of the 3'-ends of tRNA. More than 61% of eukaryotic elongation factor 1A (eEF-1A) in cells is estimated to be associated with actin cytoskeleton. The binding of eEF1A to actin is a noncanonical function that may link two distinct cellular processes, cytoskeleton organization and gene expression.
Probab=37.32 E-value=80 Score=21.49 Aligned_cols=49 Identities=18% Similarity=0.064 Sum_probs=33.2
Q ss_pred ccCcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccC
Q psy6163 17 SLALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKP 70 (137)
Q Consensus 17 ~~mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~ 70 (137)
+=.|+.+..+.+.-+-=.-.++-|+.....- ..|..||.+-+.++.+.+
T Consensus 28 ~G~i~~gd~v~i~P~~~~~~V~sI~~~~~~~-----~~a~aG~~v~i~l~~i~~ 76 (91)
T cd03693 28 TGVLKPGMVVTFAPAGVTGEVKSVEMHHEPL-----EEALPGDNVGFNVKNVSK 76 (91)
T ss_pred cceeecCCEEEECCCCcEEEEEEEEECCcCc-----CEECCCCEEEEEECCCCH
Confidence 4467888888888753234566666554322 368999999999986544
No 25
>COG0335 RplS Ribosomal protein L19 [Translation, ribosomal structure and biogenesis]
Probab=32.03 E-value=84 Score=23.69 Aligned_cols=35 Identities=29% Similarity=0.359 Sum_probs=27.5
Q ss_pred CCCCCCCCEEEEEEecccCCC-ccceeeEEEEeeec
Q psy6163 52 LPAAGSGDMFVATVKKGKPEL-RKKVMPAVVIRQRK 86 (137)
Q Consensus 52 ~~~a~iGD~I~vsVKk~~~~~-Kg~v~kAVIVRtKk 86 (137)
.|.-.+||.|.|.||-..... +-|.|-++|++-+-
T Consensus 18 iP~f~~GDtvrv~vki~Eg~keR~Q~FeGvVia~r~ 53 (115)
T COG0335 18 IPSFRPGDTVRVHVKIVEGSKERVQAFEGVVIARRG 53 (115)
T ss_pred CCCCCCCCEEEEEEEEEeCCeEEEeeeeEEEEEECC
Confidence 456679999999998776654 56899999988664
No 26
>PF09353 DUF1995: Domain of unknown function (DUF1995); InterPro: IPR018962 This family of proteins are functionally uncharacterised.
Probab=31.10 E-value=33 Score=26.95 Aligned_cols=33 Identities=15% Similarity=-0.039 Sum_probs=26.7
Q ss_pred ceEEEEcCCCCeeceEEecchhHHHHHhcCcCc
Q psy6163 101 NAGVIVNNKGEMKGSAITGPVAKENAQICGHGI 133 (137)
Q Consensus 101 NavVLln~k~~P~GTRI~GpV~~Elr~~~p~~~ 133 (137)
--+||+|.+.+-.++-.+|+.++++++.|=+.+
T Consensus 124 rpvvl~Np~l~~~~~~g~g~~~r~~~~~Fl~~f 156 (209)
T PF09353_consen 124 RPVVLLNPQLEDVRSVGFGFPGRKLRERFLSSF 156 (209)
T ss_pred CeEEEEecccccCCccccccccHHHHHHHHhhc
Confidence 578999999887776669999999999875543
No 27
>TIGR00523 eIF-1A eukaryotic/archaeal initiation factor 1A. Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C
Probab=30.34 E-value=2.1e+02 Score=20.59 Aligned_cols=24 Identities=8% Similarity=0.021 Sum_probs=16.6
Q ss_pred CCCCCCCEEEEEEecccCCCccce
Q psy6163 53 PAAGSGDMFVATVKKGKPELRKKV 76 (137)
Q Consensus 53 ~~a~iGD~I~vsVKk~~~~~Kg~v 76 (137)
-+-..||+|+|+.-+...+.|++|
T Consensus 56 iwI~~GD~VlVsp~d~~~~~kg~I 79 (99)
T TIGR00523 56 IWIREGDVVIVKPWEFQGDDKCDI 79 (99)
T ss_pred EEecCCCEEEEEEccCCCCccEEE
Confidence 478899999998765543445443
No 28
>cd04089 eRF3_II eRF3_II: domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM is a non-pathogenic prion-li
Probab=29.83 E-value=1.2e+02 Score=20.14 Aligned_cols=47 Identities=15% Similarity=0.138 Sum_probs=31.0
Q ss_pred CcccCCEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccC
Q psy6163 19 ALPVGAVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKP 70 (137)
Q Consensus 19 mIq~~T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~ 70 (137)
.|+.+..|.+...--.-.++-|++.+.. ...|..||.+-+.++.+.+
T Consensus 25 ~i~~G~~v~i~P~~~~~~V~si~~~~~~-----~~~a~aGd~v~l~l~~i~~ 71 (82)
T cd04089 25 TIKKGDKLLVMPNKTQVEVLSIYNEDVE-----VRYARPGENVRLRLKGIEE 71 (82)
T ss_pred EEecCCEEEEeCCCcEEEEEEEEECCEE-----CCEECCCCEEEEEecCCCH
Confidence 4677777877765333346666655321 2468999999999986544
No 29
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase.
Probab=29.80 E-value=97 Score=19.65 Aligned_cols=38 Identities=29% Similarity=0.455 Sum_probs=27.4
Q ss_pred eCCce-EEEEcCCCCeeceEEecchhHHHHHhc-CcCccc
Q psy6163 98 FEDNA-GVIVNNKGEMKGSAITGPVAKENAQIC-GHGIGI 135 (137)
Q Consensus 98 F~~Na-vVLln~k~~P~GTRI~GpV~~Elr~~~-p~~~~~ 135 (137)
|..+. +.|++.+++++|.=+.-|=+.++.+.. ++++.+
T Consensus 31 ~~~g~~V~v~~~~g~~vg~G~~~~~s~~~~~~~~~~g~~v 70 (77)
T smart00359 31 IKEGDVVVIVDEKGEPLGIGLANMSSEEMARIKGEKGLAV 70 (77)
T ss_pred cCCCCEEEEEcCCCCEEEEEEEeCCHHHHHHHhccCceEE
Confidence 33444 556677899999999999888877765 555543
No 30
>PRK13149 H/ACA RNA-protein complex component Gar1; Reviewed
Probab=25.83 E-value=65 Score=21.77 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=19.0
Q ss_pred EEEeCCceEEEEcCCCCeece--EEecchhH
Q psy6163 95 FIYFEDNAGVIVNNKGEMKGS--AITGPVAK 123 (137)
Q Consensus 95 ~i~F~~NavVLln~k~~P~GT--RI~GpV~~ 123 (137)
..+| |+.| .+++++.+|. .|||||..
T Consensus 23 ~P~~--n~~V-~~~~~~~IGkV~dIfGPV~~ 50 (73)
T PRK13149 23 QPPI--GSVV-YDKKLKKIGKVVDVFGPVKE 50 (73)
T ss_pred CCCC--CCEe-ECCCCCEeEEEEEEECCCCC
Confidence 4556 4444 7888999997 68999853
No 31
>COG3269 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=23.73 E-value=79 Score=21.98 Aligned_cols=20 Identities=35% Similarity=0.557 Sum_probs=17.2
Q ss_pred CCCCCCCEEEEEEecccCCC
Q psy6163 53 PAAGSGDMFVATVKKGKPEL 72 (137)
Q Consensus 53 ~~a~iGD~I~vsVKk~~~~~ 72 (137)
|-|..||.+.+.|++.+++.
T Consensus 44 p~a~~Gd~V~vkI~~v~~~~ 63 (73)
T COG3269 44 PGAEVGDEVKVKITKVKPNF 63 (73)
T ss_pred CCCCCCCeeeEEEEEeeccc
Confidence 36899999999999988874
No 32
>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=23.48 E-value=1.6e+02 Score=19.76 Aligned_cols=49 Identities=12% Similarity=0.072 Sum_probs=33.4
Q ss_pred ccCcccCCEEEEecCC-C---CceEEEEEEeccCCccccCCCCCCCCEEEEEEecccC
Q psy6163 17 SLALPVGAVINCADNT-G---AKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKP 70 (137)
Q Consensus 17 ~~mIq~~T~L~VaDNS-G---ak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~ 70 (137)
+=.++++..|.+...- | .-.++-|++....- ..|..||.+-+.++.+.+
T Consensus 24 ~G~v~~g~~v~~~P~~~g~~~~~~V~sI~~~~~~~-----~~a~aGd~v~l~l~~i~~ 76 (87)
T cd03694 24 KGVIRLGDTLLLGPDQDGSFRPVTVKSIHRNRSPV-----RVVRAGQSASLALKKIDR 76 (87)
T ss_pred cCEEeCCCEEEECCCCCCCEeEEEEEEEEECCeEC-----CEECCCCEEEEEEcCCCH
Confidence 3457788888887752 4 33567777653322 369999999999976554
No 33
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=22.72 E-value=1.8e+02 Score=18.92 Aligned_cols=48 Identities=10% Similarity=0.192 Sum_probs=22.8
Q ss_pred CEEEEecCCCCceEEEEEEeccCCccccCCCCCCCCEEEEEEecccCCCcccee
Q psy6163 24 AVINCADNTGAKNLFVIAVQGVKGRLNRLPAAGSGDMFVATVKKGKPELRKKVM 77 (137)
Q Consensus 24 T~L~VaDNSGak~v~cI~v~~~~~r~~r~~~a~iGD~I~vsVKk~~~~~Kg~v~ 77 (137)
..+.|-...|-... | ++.++ .++ .-+-..||+|+|.+-... ..||++.
T Consensus 16 ~~~~V~~~dg~~~l-~-~i~gK--~r~-~iwI~~GD~V~V~~~~~d-~~kG~Ii 63 (65)
T PF01176_consen 16 NLFEVECEDGEERL-A-RIPGK--FRK-RIWIKRGDFVLVEPSPYD-KVKGRII 63 (65)
T ss_dssp SEEEEEETTSEEEE-E-EE-HH--HHT-CC---TTEEEEEEESTTC-TTEEEEE
T ss_pred CEEEEEeCCCCEEE-E-Eeccc--eee-eEecCCCCEEEEEecccC-CCeEEEE
Confidence 34455554454322 2 23333 223 347899999999983322 3455543
No 34
>TIGR03711 acc_sec_asp3 accessory Sec system protein Asp3. This protein is designated Asp3 because, along with SecY2, SecA2, and other proteins it is part of the accessory Sec system. The system is involved in the export of serine-rich glycoproteins important for virulence in a number of Gram-positive species, including Streptococcus gordonii and Staphylococcus aureus. This protein family is assigned to transport rather than glycosylation function, but the specific molecular role is unknown.
Probab=22.41 E-value=88 Score=24.02 Aligned_cols=27 Identities=22% Similarity=0.220 Sum_probs=23.2
Q ss_pred CCcEEEeCCceEEEEcCCCCeeceEEe
Q psy6163 92 DGVFIYFEDNAGVIVNNKGEMKGSAIT 118 (137)
Q Consensus 92 dG~~i~F~~NavVLln~k~~P~GTRI~ 118 (137)
=|+.|+|.++.-|...+..-|-||.|.
T Consensus 15 YGs~i~f~~~~~V~feN~lMpsG~~I~ 41 (135)
T TIGR03711 15 YGTTVKFLSDNEVYFENPLMPSGETIH 41 (135)
T ss_pred cccEEEEccCCcEEEeccCCCCCCEEE
Confidence 489999988778888888999999886
No 35
>PF04773 FecR: FecR protein; InterPro: IPR006860 FecR is involved in regulation of iron dicitrate transport. In the absence of citrate FecR inactivates FecI. FecR is probably a sensor that recognises iron dicitrate in the periplasm.
Probab=21.65 E-value=2e+02 Score=18.84 Aligned_cols=28 Identities=18% Similarity=0.194 Sum_probs=19.7
Q ss_pred ceecCCCcEEEeCCceEEEEcCCCCeec
Q psy6163 87 PFRRRDGVFIYFEDNAGVIVNNKGEMKG 114 (137)
Q Consensus 87 ~~~R~dG~~i~F~~NavVLln~k~~P~G 114 (137)
.+.-.||+.+.++.|+.+..........
T Consensus 12 ~i~l~dgs~v~l~~~s~~~~~~~~~~~~ 39 (98)
T PF04773_consen 12 EIALSDGSRVRLGPNSRVSVDRDSGSEP 39 (98)
T ss_pred EEEECCCCEEEECCCcEEEEEcccCCCc
Confidence 4556799999999999995555444433
No 36
>COG2721 UxaA Altronate dehydratase [Carbohydrate transport and metabolism]
Probab=20.79 E-value=79 Score=28.30 Aligned_cols=31 Identities=29% Similarity=0.386 Sum_probs=23.9
Q ss_pred EEEEcCCCCeeceEEecchh-------HHHHHhcCcCccccC
Q psy6163 103 GVIVNNKGEMKGSAITGPVA-------KENAQICGHGIGIKC 137 (137)
Q Consensus 103 vVLln~k~~P~GTRI~GpV~-------~Elr~~~p~~~~~~~ 137 (137)
++--+-+|+|.| .|+| .++.++|++.|||.|
T Consensus 297 ~~FTTGRGtp~G----~~~P~iKiatN~~~~~~~~~~iDin~ 334 (381)
T COG2721 297 VLFTTGRGTPYG----GPVPTIKIATNSELAERMKEWIDINA 334 (381)
T ss_pred EEEeCCCCCcCC----CCCceEEeecCHHHHHhhHhhcCcch
Confidence 344456799999 4444 689999999999987
No 37
>KOG0171|consensus
Probab=20.23 E-value=1.9e+02 Score=23.31 Aligned_cols=40 Identities=18% Similarity=0.096 Sum_probs=27.2
Q ss_pred cEEEeCCceEEEEc-CCCCeeceEEecchhHHHHH------hcCcCc
Q psy6163 94 VFIYFEDNAGVIVN-NKGEMKGSAITGPVAKENAQ------ICGHGI 133 (137)
Q Consensus 94 ~~i~F~~NavVLln-~k~~P~GTRI~GpV~~Elr~------~~p~~~ 133 (137)
+.++--++-+-+.- +..+.+-+|-+||+|..|-. -||.+.
T Consensus 114 ~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~ 160 (176)
T KOG0171|consen 114 TPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSR 160 (176)
T ss_pred ceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchh
Confidence 33444455555554 45789999999999998743 477654
Done!