Query 020952
Match_columns 319
No_of_seqs 294 out of 1559
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 06:27:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020952.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020952hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00135 60S acidic ribosomal 100.0 7.1E-94 1.5E-98 678.4 29.5 310 1-319 1-310 (310)
2 PTZ00240 60S ribosomal protein 100.0 4.4E-92 9.6E-97 665.4 29.5 309 7-318 4-323 (323)
3 PRK04019 rplP0 acidic ribosoma 100.0 3.8E-72 8.2E-77 536.4 23.3 263 6-274 3-266 (330)
4 KOG0815 60S acidic ribosomal p 100.0 4.7E-69 1E-73 472.6 21.8 245 1-248 1-245 (245)
5 cd05795 Ribosomal_P0_L10e Ribo 100.0 1.1E-56 2.4E-61 394.4 19.1 175 9-185 1-175 (175)
6 cd05796 Ribosomal_P0_like Ribo 100.0 1E-50 2.2E-55 352.8 17.3 162 9-171 1-163 (163)
7 KOG0816 Protein involved in mR 100.0 4.1E-49 8.8E-54 342.5 15.4 196 4-200 16-212 (223)
8 COG0244 RplJ Ribosomal protein 100.0 5.5E-32 1.2E-36 237.5 7.4 171 6-200 3-174 (175)
9 cd00379 Ribosomal_L10_P0 Ribos 99.9 1.9E-24 4.2E-29 185.5 4.0 122 9-138 1-126 (155)
10 PF00466 Ribosomal_L10: Riboso 99.9 3.3E-22 7.2E-27 159.9 10.5 96 7-109 2-99 (100)
11 PRK04019 rplP0 acidic ribosoma 99.9 1.7E-21 3.6E-26 187.0 10.4 242 12-276 35-292 (330)
12 PRK00099 rplJ 50S ribosomal pr 99.8 8.6E-21 1.9E-25 166.3 11.2 97 7-110 2-99 (172)
13 cd05797 Ribosomal_L10 Ribosoma 99.8 1.3E-20 2.8E-25 162.7 10.8 97 7-110 1-98 (157)
14 KOG1762 60s acidic ribosomal p 99.7 4.9E-17 1.1E-21 130.4 5.4 95 199-319 13-114 (114)
15 cd05833 Ribosomal_P2 Ribosomal 99.6 1.8E-15 4E-20 122.7 5.7 86 208-319 17-109 (109)
16 PTZ00373 60S Acidic ribosomal 99.5 7.2E-15 1.6E-19 119.3 6.1 86 208-319 19-112 (112)
17 cd05831 Ribosomal_P1 Ribosomal 99.5 2.8E-14 6E-19 114.9 6.2 91 202-318 11-103 (103)
18 cd04411 Ribosomal_P1_P2_L12p R 99.5 2.9E-14 6.2E-19 115.1 4.8 85 208-318 16-105 (105)
19 PF00428 Ribosomal_60s: 60s Ac 99.5 1.7E-15 3.7E-20 118.8 -2.6 85 234-318 1-88 (88)
20 PLN00138 large subunit ribosom 99.5 9.1E-14 2E-18 113.4 6.3 86 208-319 17-113 (113)
21 PTZ00240 60S ribosomal protein 99.3 1.6E-11 3.5E-16 117.0 13.5 216 12-247 35-277 (323)
22 KOG3449 60S acidic ribosomal p 99.2 1E-11 2.2E-16 99.1 5.1 20 300-319 93-112 (112)
23 COG2058 RPP1A Ribosomal protei 99.1 8.9E-11 1.9E-15 93.8 4.6 86 208-319 16-109 (109)
24 PRK06402 rpl12p 50S ribosomal 98.8 4.8E-09 1E-13 84.5 3.5 86 208-319 16-106 (106)
25 PTZ00135 60S acidic ribosomal 98.8 9.9E-08 2.2E-12 91.1 12.4 216 12-247 37-270 (310)
26 TIGR03685 L21P_arch 50S riboso 98.1 2.9E-06 6.4E-11 68.6 3.3 44 208-277 16-59 (105)
27 cd05832 Ribosomal_L12p Ribosom 98.1 2.3E-06 4.9E-11 69.1 2.6 46 208-279 16-61 (106)
28 KOG4241 Mitochondrial ribosoma 96.8 0.004 8.7E-08 55.7 7.0 87 15-109 79-166 (245)
29 cd05795 Ribosomal_P0_L10e Ribo 93.2 0.46 1E-05 41.8 8.1 128 12-148 30-175 (175)
30 PF00428 Ribosomal_60s: 60s Ac 92.9 0.014 3.1E-07 45.5 -1.7 43 208-250 1-45 (88)
31 COG2058 RPP1A Ribosomal protei 81.3 0.89 1.9E-05 36.8 1.5 15 305-319 92-106 (109)
32 cd05832 Ribosomal_L12p Ribosom 76.8 0.88 1.9E-05 36.9 0.3 21 228-248 9-30 (106)
33 cd04411 Ribosomal_P1_P2_L12p R 76.6 1.7 3.7E-05 35.1 1.9 7 208-214 32-38 (105)
34 PTZ00373 60S Acidic ribosomal 74.6 5.3 0.00012 32.7 4.3 15 298-312 88-102 (112)
35 PF07697 7TMR-HDED: 7TM-HD ext 72.3 2.6 5.5E-05 37.5 2.1 26 158-183 194-219 (222)
36 COG2117 Predicted subunit of t 62.6 11 0.00024 33.1 3.9 80 160-248 2-89 (198)
37 cd05833 Ribosomal_P2 Ribosomal 58.0 6.3 0.00014 32.1 1.6 14 295-309 89-102 (109)
38 KOG3449 60S acidic ribosomal p 56.4 9.9 0.00021 31.0 2.4 24 227-250 25-48 (112)
39 PF08800 VirE_N: VirE N-termin 56.0 18 0.00039 30.3 4.2 33 19-51 24-56 (136)
40 PLN00138 large subunit ribosom 52.1 10 0.00023 31.0 2.0 16 175-190 24-39 (113)
41 TIGR03685 L21P_arch 50S riboso 50.7 11 0.00024 30.4 1.9 14 235-248 17-30 (105)
42 COG1480 Predicted membrane-ass 46.9 16 0.00035 38.6 2.9 49 132-188 219-272 (700)
43 KOG3414 Component of the U4/U6 43.8 45 0.00097 28.1 4.5 77 12-107 42-118 (142)
44 TIGR00762 DegV EDD domain prot 43.8 1.7E+02 0.0036 27.2 9.1 120 12-186 65-186 (275)
45 PLN00208 translation initiatio 43.0 27 0.00058 29.9 3.2 49 145-194 60-119 (145)
46 PTZ00329 eukaryotic translatio 42.2 30 0.00065 30.0 3.4 28 170-197 95-122 (155)
47 PF08496 Peptidase_S49_N: Pept 42.0 23 0.00051 30.6 2.7 26 24-49 96-122 (155)
48 cd03067 PDI_b_PDIR_N PDIb fami 39.3 79 0.0017 25.7 5.1 66 38-111 6-73 (112)
49 PF14226 DIOX_N: non-haem diox 34.0 87 0.0019 24.5 4.8 42 7-49 9-50 (116)
50 PF05872 DUF853: Bacterial pro 30.6 5.8E+02 0.012 26.3 10.7 126 139-275 41-209 (502)
51 COG0303 MoeA Molybdopterin bio 29.4 60 0.0013 32.5 3.7 70 119-189 142-223 (404)
52 smart00226 LMWPc Low molecular 29.0 64 0.0014 26.5 3.3 57 125-187 3-59 (140)
53 PF12953 DUF3842: Domain of un 28.1 80 0.0017 26.6 3.6 76 28-103 2-86 (131)
54 COG1419 FlhF Flagellar GTP-bin 26.8 4E+02 0.0087 26.8 8.8 90 27-130 283-387 (407)
55 TIGR01672 AphA HAD superfamily 24.8 2.2E+02 0.0048 26.2 6.3 122 15-146 51-186 (237)
56 PRK04012 translation initiatio 24.6 78 0.0017 25.3 2.9 37 146-183 50-97 (100)
57 PRK11889 flhF flagellar biosyn 23.5 2.4E+02 0.0053 28.5 6.7 93 27-129 322-425 (436)
58 COG1307 DegV Uncharacterized p 22.8 6.5E+02 0.014 23.7 9.2 118 14-186 69-189 (282)
59 PRK06731 flhF flagellar biosyn 22.7 3.1E+02 0.0067 25.8 7.0 93 26-128 155-258 (270)
60 smart00652 eIF1a eukaryotic tr 22.3 1.1E+02 0.0025 23.4 3.3 37 145-182 33-80 (83)
61 TIGR00253 RNA_bind_YhbY putati 22.2 4E+02 0.0086 21.0 7.1 76 15-95 6-85 (95)
62 PF09778 Guanylate_cyc_2: Guan 22.0 75 0.0016 29.0 2.6 54 168-222 45-100 (212)
63 smart00460 TGc Transglutaminas 21.1 60 0.0013 22.7 1.5 18 138-155 17-34 (68)
64 KOG4300 Predicted methyltransf 20.9 1E+02 0.0023 28.4 3.2 19 38-56 162-180 (252)
65 PF03993 DUF349: Domain of Unk 20.7 61 0.0013 23.7 1.5 37 7-50 32-68 (77)
66 cd05793 S1_IF1A S1_IF1A: Trans 20.5 89 0.0019 23.6 2.3 13 170-182 63-75 (77)
No 1
>PTZ00135 60S acidic ribosomal protein P0; Provisional
Probab=100.00 E-value=7.1e-94 Score=678.39 Aligned_cols=310 Identities=52% Similarity=0.844 Sum_probs=289.2
Q ss_pred CCcccccHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCccccc
Q 020952 1 MVVKASKAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLN 80 (319)
Q Consensus 1 m~~~~~~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~ 80 (319)
|+ ++.+|+||++++++|+++|++|++++|++|+|++++|+|+||+.||++++|+||||||||+||+++.++ .++++.
T Consensus 1 ~~-~~~~re~K~~~v~~l~e~l~~y~~v~vv~~~nv~s~ql~~iR~~LR~~a~~~vgKNTL~r~AL~~~~~~--~~~l~~ 77 (310)
T PTZ00135 1 MA-KPEKKAKKKAYFEKLYELLEKYKKILIVSVDNVGSKQMQDIRRSLRGKAELLMGKNTLIRKALKQRLEE--LPELEK 77 (310)
T ss_pred CC-cchhHHHHHHHHHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHhcCCEEEEEehHHHHHHHhhCccc--ccChHH
Confidence 56 788999999999999999999999999999999999999999999988999999999999999998654 335999
Q ss_pred cccccCCceEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEecC
Q 020952 81 LIPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITP 160 (319)
Q Consensus 81 L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d 160 (319)
|.++|+||+||+|||+||.+++++|.+|++++|||+|.|||+||+||+|||+|+|++++|||+|||||+|++|+|+|.+|
T Consensus 78 L~~~LkG~~gliFTn~dp~ev~k~l~~~k~~~~AKaG~iAp~dv~ip~G~t~~~P~~~~~fq~LgipTkI~kG~I~I~~d 157 (310)
T PTZ00135 78 LLPHVKGNVGFVFTKDDLFEVKPVILENKVPAPARAGVIAPIDVVIPAGPTGMDPSQTSFFQALGIATKIVKGQIEITNE 157 (310)
T ss_pred HHhhccCCEEEEEECCCHHHHHHHHHHcCCccccccCCCCCceEEEcCCCCCCCcchhhHHHHcCCceEecCCeEEEecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcCh
Q 020952 161 VELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAAA 240 (319)
Q Consensus 161 ~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~ 240 (319)
++||++||+||++||+||++|||+||+|+++++++||+|.+|++++|+||+|+|.++|++|++++++||+++||||+++|
T Consensus 158 ~~v~k~Ge~v~~~~A~LL~~L~I~p~~~~l~~~~~yd~g~~~~~~vL~i~~e~~~~~~~~~~~~i~als~aag~pt~~s~ 237 (310)
T PTZ00135 158 VHLIKEGQKVGASQAVLLQKLNIKPFSYGLEVLSIYDNGSIYDAKVLDITDEDIVAKFQEGVQNVAAISLAAGYPTEASA 237 (310)
T ss_pred eEEecCCCCcCHHHHHHHHHcCCCeEEEEEEEEEEEECCeEeCHHHcCCCHHHHHHHHHHHHHHHHHHHHHhCCCcHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCcccccccccCCCCCcchhhhhhhhccCCcccccCCCCCCCCC
Q 020952 241 PHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFAVAAAPVAGGGDAPAAAAKEEEKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 241 p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~~a~~~a~~~~~~~~~~~~~~~~k~e~~ee~d~dmgfglFd 319 (319)
||+|+|+|+++++|+++++|+||+.++++++++||+++++| |++++++++ + +++ +++||+|||||||||||||
T Consensus 238 p~~ia~a~k~~~a~a~~~~~~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~-~--~~~-~~~~~~ee~~~~~g~~lf~ 310 (310)
T PTZ00135 238 PHSILNAFKNLAAIGLESGFTFPLAEKIKEALANPSAAAAA--AAAAAAAAA-A--AAA-APAEEEEEEEDDMGFGLFD 310 (310)
T ss_pred HHHHHHHHHHHHHHHhhcCCCChhhHHHHHhhcCchhhccC--ccccCcccc-c--ccc-cccccccCcchhccccCCC
Confidence 99999999999999999999999999999999999999863 332221111 1 222 2246677889999999998
No 2
>PTZ00240 60S ribosomal protein P0; Provisional
Probab=100.00 E-value=4.4e-92 Score=665.44 Aligned_cols=309 Identities=40% Similarity=0.620 Sum_probs=283.1
Q ss_pred cHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCcccccc-----
Q 020952 7 KAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNL----- 81 (319)
Q Consensus 7 ~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L----- 81 (319)
.++||.+++++|++++++|++|+||+++|++++|||+||+.||++++|+||||||||+||+++.++++.+++++|
T Consensus 4 ~~~~K~~~v~~l~~~l~~y~~v~Iv~~~nv~s~qlq~IR~~lrg~a~~~~GKNtlm~~AL~~~~~~~~~~~~~~ll~~~~ 83 (323)
T PTZ00240 4 ITTAKREYEERLVDCLTKYSCVLFVGMDNVRSQQVHDVRRALRGKAEFVMGKKTLQAKIVEKRAQAKKASAEAKLFNDQC 83 (323)
T ss_pred hhHHHHHHHHHHHHHHHhCCEEEEEEecCCCcHHHHHHHHHhhCCcEEEEecHHHHHHHHhhccccccchhHHHHhhhhc
Confidence 478999999999999999999999999999999999999999999999999999999999998776655556666
Q ss_pred --ccccCCceEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEec
Q 020952 82 --IPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIIT 159 (319)
Q Consensus 82 --~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~ 159 (319)
.++|+||+||+|||+||++|+++|.+|++++|||+|+|||+||+||+|||+|+|++++|||+|||||+|++|+|+|.+
T Consensus 84 ~~~~~l~GnvgliFTn~~p~ev~~~l~~~k~~a~AraG~IAp~dVvvpaG~T~~~P~~~s~fq~LGIpTkI~kGkIeI~~ 163 (323)
T PTZ00240 84 EEKNLLSGNTGLIFTNNEVQEITSVLDSHRVKAPARVGAIAPCDVIVPAGSTGMEPTQTSFFQALNIATKIAKGMVEIVT 163 (323)
T ss_pred cccccccCCEEEEEeCCCHHHHHHHHHHcCCcccccCCCCCCceEEECCCCCCCCCcchHHHHHcCCCeEecCcEEEEec
Confidence 499999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcC
Q 020952 160 PVELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAA 239 (319)
Q Consensus 160 d~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~ 239 (319)
|++||++||+||++||+||++|||+|++|+++++++|++|.+|++++|+||+|+|.++|++|++++++||+++||||+++
T Consensus 164 d~~v~k~Ge~V~~~~A~LL~~L~IkP~~~gl~l~~vyd~g~i~~~~vL~i~~e~~~~~~~~a~~~~~~lsl~~~~pt~~s 243 (323)
T PTZ00240 164 EKKVLSVGDKVDNSTATLLQKLNISPFYYQVEVLSVWDRGVLFTREDLSMTEDVVEKMLMEGLSNVAAMSLGAGIPTAAT 243 (323)
T ss_pred CeEEecCCCCcCHHHHHHHHHcCCCeEEEEEEEEEEEeCCeecCHHHcCCCHHHHHHHHHHHHHHHHHHHHhhCCCcHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCcccc---cccccCCCCCcchhhhhhhhccCCcccccCCCCCC
Q 020952 240 APHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFAVA---AAPVAGGGDAPAAAAKEEEKKEEPAEESDGDMGFS 316 (319)
Q Consensus 240 ~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~~a---~~~a~~~~~~~~~~~~~~~~k~e~~ee~d~dmgfg 316 (319)
+||+|.|||+++++|+++++|+||+..+++..+++|+++++. ++|+|+++ ++++++ +++++||+||+|||||||
T Consensus 244 i~~~i~~a~~~~~alav~~~~~~~~~~~~~~~~A~~~~~~~~~~~a~~~a~~~--~~~~~~-~~~~~~~~e~~~~d~~~~ 320 (323)
T PTZ00240 244 IGPMLVDAFKNLLAVSVATSYEFEEHNGKELREAALEGLLGGGGSAAAEAAAA--APAAAS-AAAKEEEEESDEDDFGMG 320 (323)
T ss_pred HHHHHHHHHHHHHHHhhhcCcCChhhHHHHHhhhCHHhhhccccccccccccc--cccccc-cccccCCccCcccccCcc
Confidence 999999999999999999999999999999999999988742 11222111 111112 223356677888999997
Q ss_pred -CC
Q 020952 317 -LF 318 (319)
Q Consensus 317 -lF 318 (319)
||
T Consensus 321 ~~~ 323 (323)
T PTZ00240 321 ALF 323 (323)
T ss_pred ccC
Confidence 65
No 3
>PRK04019 rplP0 acidic ribosomal protein P0; Validated
Probab=100.00 E-value=3.8e-72 Score=536.43 Aligned_cols=263 Identities=31% Similarity=0.508 Sum_probs=251.6
Q ss_pred ccHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCcccccccccc
Q 020952 6 SKAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLL 85 (319)
Q Consensus 6 ~~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l 85 (319)
.-++||.++|++|+++|++|++++|++|+|++++|+|+||+.||+.++|+|+|||||++||+++.+ +++++|.++|
T Consensus 3 ~~~e~K~~~v~el~~~l~~~~~v~iv~~~gl~~~ql~~lR~~lr~~~~~~v~KNtL~~~Al~~~~~----~~~~~L~~~l 78 (330)
T PRK04019 3 HVPEWKKEEVEELKELIKSYPVVGIVDLEGIPARQLQEIRRKLRGKAELKVSKNTLIKRALEEAGE----EDLEKLEDYL 78 (330)
T ss_pred chHHHHHHHHHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHHcCCEEEEEehHHHHHHHHhcCc----ccHHHHHhhc
Confidence 348999999999999999999999999999999999999999998899999999999999998743 3489999999
Q ss_pred CCceEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcch-hhhhhcCcceEEecceEEEecCeeEe
Q 020952 86 QGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQT-SFFQVLNIPTKINKGTVEIITPVELI 164 (319)
Q Consensus 86 ~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~-~~fq~LgIptki~~G~I~i~~d~~v~ 164 (319)
+|++||+|||+||++++++|.+|++++|||+|+|||+|||||+|||+++|+++ ++||+|||||+|++|+|+|.+|++||
T Consensus 79 ~G~~alift~~dp~~v~k~l~~~~~~~~ak~G~iA~~divip~G~t~~~P~~~~~~l~~lgipt~i~~G~I~i~~~~~v~ 158 (330)
T PRK04019 79 EGQVALIFTNMNPFKLYKLLEKSKTPAPAKPGDIAPEDIVVPAGPTGFPPGPILSELQKLGIPARIQKGKIVIKKDTVVA 158 (330)
T ss_pred cCCEEEEEECCCHHHHHHHHHHcCCcccCCCCCCCCCeEEEcCCCCCCCCcccHHHHHHcCCCeEecCCEEEEecCeEEe
Confidence 99999999999999999999999999999999999999999999999999985 99999999999999999999999999
Q ss_pred ecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHH
Q 020952 165 RKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMF 244 (319)
Q Consensus 165 ~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i 244 (319)
++|++|+++||++|++|||+|++|++++.++|++|.+|++++|+||++++..+|..|++++.+||++++|||++++|++|
T Consensus 159 ~~G~~v~~~~a~lL~~LgI~p~~~~~~i~a~~~~G~~~~~~~l~i~~e~~~~~i~~A~~~a~~Ls~~~~~pt~~tl~~~i 238 (330)
T PRK04019 159 KAGEVISPELANVLQKLGIKPIEVGLDLKAAYEDGVIYTPEVLAIDEEKYRSDIQEAAQNAFNLAVNAAYPTPETLETLI 238 (330)
T ss_pred cCCCCcCHHHHHHHHHcCCCHHHhhhHHHHHHhcCCccCHHHccCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcccCCCCcccHHHHhcC
Q 020952 245 VNAYKNVVAVALATEYSFPQADKVKEYLAD 274 (319)
Q Consensus 245 ~~a~~~~~al~~~~~~~~~~~~~i~~~l~~ 274 (319)
++||+++++|+++++|.+++ .++.+|..
T Consensus 239 ~kA~~~a~aLa~~~~~~t~e--~~~~il~k 266 (330)
T PRK04019 239 QKAFREAKALAVEAGIVTPE--TADDILSK 266 (330)
T ss_pred HHHHHHHHHHHHHcCCCChh--hHHHHHHH
Confidence 99999999999999996554 55655544
No 4
>KOG0815 consensus 60S acidic ribosomal protein P0 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.7e-69 Score=472.59 Aligned_cols=245 Identities=64% Similarity=1.014 Sum_probs=240.1
Q ss_pred CCcccccHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCccccc
Q 020952 1 MVVKASKAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLN 80 (319)
Q Consensus 1 m~~~~~~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~ 80 (319)
|+ +...++||..++.++++++++|+.++++..+|+.+.|||+||+.||+.+++.||||||||+|++.+.++++. ++.
T Consensus 1 m~-~~~~~e~k~~y~~K~~~L~~~y~~~~~v~~dnv~s~ql~~ir~~lrg~a~vlmgkntm~rrair~~~~~~~~--~~~ 77 (245)
T KOG0815|consen 1 MV-RADKAEKKAVYFTKLRQLFEEYPKCFVVGADNVGSTQLQNIRKQLRGDAVVLMGKNTMMRRAIRGHLENNPA--LEK 77 (245)
T ss_pred Cc-chhhhHHHHHHHHHHHHHHHhcCceEEEeecchhhHHHHHHHHHhcCceeeeechhHHHHHHHHhccCCcHH--HHh
Confidence 66 788899999999999999999999999999999999999999999999999999999999999999877666 999
Q ss_pred cccccCCceEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEecC
Q 020952 81 LIPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITP 160 (319)
Q Consensus 81 L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d 160 (319)
+.++++||+||+||++|..++.+.+.++++.++||+|.|||+||+||+++||+.|+++||||+|||||||.||+|||.+|
T Consensus 78 llp~~~g~vgfvftk~~L~ei~~~i~~n~~~apar~GaiAp~dV~V~~~nTg~~P~ktsfFQaLgIpTKIsrGtiEIlsd 157 (245)
T KOG0815|consen 78 LLPVVKGNVGFVFTKGDLKEIRKEIIENKVGAPARVGAIAPIDVTVPAQNTGLGPEKTSFFQALGIPTKISRGTIEILSD 157 (245)
T ss_pred hccceeeceeEEEEeccHHHHHHHHHhcccccccccCCcCCceEEeccccCCCCcchhhhhhhcCCceeeecceEEeccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcCh
Q 020952 161 VELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAAA 240 (319)
Q Consensus 161 ~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~ 240 (319)
+.++++||||++|||.||.||||+||.|||.++++||||.+|+||+||||+|++.+.|.+|+++++++|+++||||-+++
T Consensus 158 V~lik~GDKVGaSEAtLLnmL~IsPFsyGLvv~qVyDnGsiy~pevLDiteE~l~~~f~~~vs~va~~sL~~~ypt~asv 237 (245)
T KOG0815|consen 158 VQLIKTGDKVGASEATLLNMLNISPFSYGLVVQQVYDNGSIYNPEVLDITEEDLFSKFLSGVSNVASVSLAAGYPTLASV 237 (245)
T ss_pred ceeeccCCccChhHHHHHhhhCCCccccceEEEEEecCCcccChhhcCCcHHHHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHH
Q 020952 241 PHMFVNAY 248 (319)
Q Consensus 241 p~~i~~a~ 248 (319)
||.|.|+|
T Consensus 238 ~h~~~n~~ 245 (245)
T KOG0815|consen 238 PHSFINAY 245 (245)
T ss_pred chhhhhcC
Confidence 99999875
No 5
>cd05795 Ribosomal_P0_L10e Ribosomal protein L10 family, P0 and L10e subfamily; composed of eukaryotic 60S ribosomal protein P0 and the archaeal P0 homolog, L10e. P0 or L10e forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-interacting protein (WIP). These eukaryotic and archaeal P0 sequences have an additional C-terminal domain homologous with acidic proteins P1 and P2.
Probab=100.00 E-value=1.1e-56 Score=394.40 Aligned_cols=175 Identities=54% Similarity=0.875 Sum_probs=169.5
Q ss_pred HHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCccccccccccCCc
Q 020952 9 EKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGN 88 (319)
Q Consensus 9 e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~ 88 (319)
+||.++|++|++++++|++++|++|+|++++|+++||+.||++++|+|+|||||++||+++.+ ..++++.|.++|+|+
T Consensus 1 ~~K~~~v~el~e~l~~~~~v~v~~~~gl~~~ql~~lR~~lr~~~~~~v~KNtL~~~Al~~~~~--~~~~~~~L~~~l~G~ 78 (175)
T cd05795 1 EWKKEYVEKLTELLKSYPKVLIVDADNVGSKQLQKIRRSLRGKAEILMGKNTLIRRALRNLGD--ENPELEKLLPYLKGN 78 (175)
T ss_pred ChHHHHHHHHHHHHHhCCEEEEEEecCCChHHHHHHHHHhhCCCEEEEechHHHHHHHHhccc--ccccHHHHHHHhcCC
Confidence 589999999999999999999999999999999999999998899999999999999999853 334599999999999
Q ss_pred eEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEecCeeEeecCc
Q 020952 89 VGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITPVELIRKGD 168 (319)
Q Consensus 89 ~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d~~v~~~G~ 168 (319)
+||+|||+||++++++|.+|++++|||+|+|||+||+||+|+|+|+|+++++||+|||||+|++|+|+|.+|++||++||
T Consensus 79 ~~liFt~~dp~~v~k~l~~~~~~~~ar~G~iA~~dvvi~~G~t~~~p~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G~ 158 (175)
T cd05795 79 VGFIFTNGDPFEIRKILEENKVPAPAKPGAIAPCDVVVPAGPTGMPPGPTSFFQALGIPTKIEKGKIEIISDVVVVKKGE 158 (175)
T ss_pred EEEEEECCCHHHHHHHHHHcCCcccccCCCccCceEEEcCCCcCCCCCchHHHHHcCCceEEecCEEEEecCeEEecCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccChhHHHHHHHhCCCc
Q 020952 169 KVGSSEAALLAKLGIRP 185 (319)
Q Consensus 169 ~v~~~~A~lL~~l~i~p 185 (319)
+||++||+||++|||+|
T Consensus 159 ~v~~~~A~lL~~l~i~P 175 (175)
T cd05795 159 KVGASEATLLNKLNIKP 175 (175)
T ss_pred CcCHHHHHHHHHcCCCC
Confidence 99999999999999998
No 6
>cd05796 Ribosomal_P0_like Ribosomal protein L10 family, P0-like protein subfamily; composed of uncharacterized eukaryotic proteins with similarity to the 60S ribosomal protein P0, including the Saccharomyces cerevisiae protein called mRNA turnover protein 4 (MRT4). MRT4 may be involved in mRNA decay. P0 forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. It occupies the L7/L12 stalk of the ribosome. The stalk is known to contain the binding site for elongation factors EF-G and EF-Tu; however, there is disagreement as to whether or not P0 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, P0 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WAS
Probab=100.00 E-value=1e-50 Score=352.78 Aligned_cols=162 Identities=27% Similarity=0.405 Sum_probs=155.5
Q ss_pred HHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCccccccccccCCc
Q 020952 9 EKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGN 88 (319)
Q Consensus 9 e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~ 88 (319)
+||.+++++|+++|++|++++|++|+|++++|+++||+.||+. +|+|+|||||++||+++.+++..++++.|.++|+|+
T Consensus 1 e~K~~~v~~l~e~l~~y~~v~iv~~~gl~~~ql~~iR~~lr~~-~~~v~KNtl~~~Al~~~~~~~~~~~~~~L~~~l~G~ 79 (163)
T cd05796 1 ELKQKLVENIREAVDKYKYIYVFSVDNMRNNKLKDIRQEWKDS-RFFFGKNKVMQVALGRTPEDEYKPNLHKLSKYLKGQ 79 (163)
T ss_pred ChHHHHHHHHHHHHHhCCEEEEEEecCCCHHHHHHHHHHhcCC-EEEEEchHHHHHHHhhCccccccccHHHHHHHhCCC
Confidence 5899999999999999999999999999999999999999986 999999999999999987666667799999999999
Q ss_pred eEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcc-hhhhhhcCcceEEecceEEEecCeeEeecC
Q 020952 89 VGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQ-TSFFQVLNIPTKINKGTVEIITPVELIRKG 167 (319)
Q Consensus 89 ~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~-~~~fq~LgIptki~~G~I~i~~d~~v~~~G 167 (319)
+||+|||+||++++++|.+|++++|||+|+|||+||+||+|+|++.|++ .++||+|||||+|++|+|+|.+|++||++|
T Consensus 80 ~~lift~~dp~~v~k~l~~~~~~~~ar~G~iA~~dvvi~~G~~~~~p~~~~~~~~~lgiptki~~G~I~i~~d~~v~k~G 159 (163)
T cd05796 80 VGLLFTNEPPEEVIEYFDSYSEPDFARAGSIATETVTLPEGPLEQFPHSMEPQLRKLGLPTKLKKGVITLEADYVVCEEG 159 (163)
T ss_pred EEEEEECCCHHHHHHHHHHcCCcccccCCCCCCceEEEeCCCCCCCCCCcchHHHHcCCCeEEeCCEEEEecCcEEECCC
Confidence 9999999999999999999999999999999999999999999987765 699999999999999999999999999999
Q ss_pred cccC
Q 020952 168 DKVG 171 (319)
Q Consensus 168 ~~v~ 171 (319)
|+||
T Consensus 160 ~~v~ 163 (163)
T cd05796 160 KVLT 163 (163)
T ss_pred CCCc
Confidence 9986
No 7
>KOG0816 consensus Protein involved in mRNA turnover [RNA processing and modification]
Probab=100.00 E-value=4.1e-49 Score=342.53 Aligned_cols=196 Identities=28% Similarity=0.431 Sum_probs=190.5
Q ss_pred ccccHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCcccccccc
Q 020952 4 KASKAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIP 83 (319)
Q Consensus 4 ~~~~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~ 83 (319)
.||.+++|+.+|++|++++++|+++||+++.|||+..+++||.+|+ +++|+||||++|.+||++..++++.+++++++.
T Consensus 16 ~KKg~e~K~~i~~~ir~~vd~Y~~v~Vf~~~nMRn~~lk~iR~~~k-~sr~f~GknKVm~vaLG~~~~dE~~~~l~klsk 94 (223)
T KOG0816|consen 16 AKKGKEKKEAIVEEIREAVDKYPYVFVFEVPNMRNTTLKEIRQDFK-NSRFFFGKNKVMQVALGRSREDEYKENLYKLSK 94 (223)
T ss_pred hhhhHHHHHHHHHHHHHHHhhCCeEEEEEcCCcchHHHHHHHHHhh-ccceecchhhHHHHHhcCCchhhHHHHHHHhhh
Confidence 4678999999999999999999999999999999999999999999 799999999999999999999999999999999
Q ss_pred ccCCceEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCC-CCCCcchhhhhhcCcceEEecceEEEecCee
Q 020952 84 LLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNT-GLDPSQTSFFQVLNIPTKINKGTVEIITPVE 162 (319)
Q Consensus 84 ~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t-~~~p~~~~~fq~LgIptki~~G~I~i~~d~~ 162 (319)
.|+|.+||+|||.++.++..+|.+|...+|||+|++||.+|+||+||. .+.|++.+.+|+|||||++.+|+|++.+|++
T Consensus 95 ll~G~~GLlFTd~~keeV~e~f~sy~~~DyaR~g~vA~~Tv~ip~Gpl~~f~hsmEP~lRklglPt~lk~G~vtL~sdy~ 174 (223)
T KOG0816|consen 95 LLKGSVGLLFTDMSKEEVIEWFRSYVEEDYARAGDVAPETVTIPEGPLEQFAHSMEPQLRKLGLPTKLKKGVVTLLSDYT 174 (223)
T ss_pred hccCceEEEecCCCHHHHHHHHHHHHHHhhhccCCcCcceEeecCcchhhcccccchhhHhhcCceeecCCeEEEecCce
Confidence 999999999999999999999999999999999999999999999997 5789999999999999999999999999999
Q ss_pred EeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCc
Q 020952 163 LIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGS 200 (319)
Q Consensus 163 v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~ 200 (319)
||++|++++++||+||++||+++.+|++.+.++|+...
T Consensus 175 VCeEG~~Ld~rqA~ILKlfg~kma~Fkl~~~~~w~~s~ 212 (223)
T KOG0816|consen 175 VCEEGDVLDPRQAKILKLFGKKMAKFKLAVKAYWSKSS 212 (223)
T ss_pred eecCCcccCHHHHHHHHHHhHhhHhheEEEEEEEcCcc
Confidence 99999999999999999999999999999999999643
No 8
>COG0244 RplJ Ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=5.5e-32 Score=237.49 Aligned_cols=171 Identities=25% Similarity=0.320 Sum_probs=163.4
Q ss_pred ccHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccC-CcEEEEEehHHHHHHHHhchhhcCCccccccccc
Q 020952 6 SKAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRG-DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPL 84 (319)
Q Consensus 6 ~~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~-~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~ 84 (319)
..++||.++|++++++|++|++++|+||+|+++.|+++||++||+ +++++|+||||+++|++++. .+.|.++
T Consensus 3 ~~~e~K~~~v~el~e~~~~s~~~~i~dy~Gl~~~ql~~lR~~lr~~g~~lkV~KNtL~~rAl~~~~-------~e~l~~~ 75 (175)
T COG0244 3 LAREWKKELVAELKELIKESPSVVIVDYRGLTVAQLTELRKKLREAGAKLKVVKNTLLRRALEEAG-------LEGLDDL 75 (175)
T ss_pred ccHHHHHHHHHHHHHHHhhCCEEEEEEeCCCcHHHHHHHHHHHHhCCcEEEEEhhHHHHHHHHhcc-------hhhHHHh
Confidence 357999999999999999999999999999999999999999997 59999999999999999884 6779999
Q ss_pred cCCceEEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEecCeeEe
Q 020952 85 LQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITPVELI 164 (319)
Q Consensus 85 l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d~~v~ 164 (319)
|+|+++++||++||++++|+|.+|..+. |++++.++++++|. .|++|+.+..|+|.+.+|..+.
T Consensus 76 l~Gp~ai~fs~~dp~~~~K~~~~f~k~~----~~~~~~~~~~~eg~------------~l~~~~v~~~aklp~~~el~~~ 139 (175)
T COG0244 76 LKGPTAIAFSNEDPVAAAKLLKDFAKEA----GDKAPIKGGVPEGK------------VLGAAEVIALAKLPSKEELVVM 139 (175)
T ss_pred ccCCeEEEEecCCHHHHHHHHHHHhhhh----cccceEEEEEecCc------------ccCHHHHHHHhcCCcHHHHHHH
Confidence 9999999999999999999999998776 99999999999998 5799999999999999999999
Q ss_pred ecCcccChhHHHHHHHhCCCcccccceeeeEeeCCc
Q 020952 165 RKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGS 200 (319)
Q Consensus 165 ~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~ 200 (319)
..|..+.|.. .++..|++.|.++++.+.++|++|.
T Consensus 140 l~g~~~ap~~-~~~~~L~a~~~~~~~~~~a~~~~g~ 174 (175)
T COG0244 140 LLGVLQAPAT-KLLRALKAVPDKVGLKLLAAYEKGV 174 (175)
T ss_pred HHHhhHhhHH-HHHHHHhccHHHHhhHHHHhhccCC
Confidence 9999999999 9999999999999999999999885
No 9
>cd00379 Ribosomal_L10_P0 Ribosomal protein L10 family; composed of the large subunit ribosomal protein called L10 in bacteria, P0 in eukaryotes, and L10e in archaea, as well as uncharacterized P0-like eukaryotic proteins. In all three kingdoms, L10 forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein and forms the base of the L7/L12 stalk, while the extended C-terminal helix binds to two or three dimers of the NTD of L7/L12 (L7 and L12 are identical except for an acetylated N-terminus). The L7/L12 stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been sho
Probab=99.89 E-value=1.9e-24 Score=185.53 Aligned_cols=122 Identities=33% Similarity=0.472 Sum_probs=115.0
Q ss_pred HHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCC-cEEEEEehHHHHHHHHhchhhcCCccccccccccCC
Q 020952 9 EKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGD-SVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQG 87 (319)
Q Consensus 9 e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~-~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G 87 (319)
++|.+++++++++|++|+.+++++|+|++++++++||+.||+. ++++|+|||||++||+++. ++.+.++|+|
T Consensus 1 ~~K~~~v~~l~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~~v~KNtl~~~Al~~t~-------~~~~~~~l~G 73 (155)
T cd00379 1 EKKEELVEELKELLKKYKSVVVVDYRGLTVAQLTELRKELRESGAKLKVGKNTLMRRALKGTG-------FEELKPLLKG 73 (155)
T ss_pred CchHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEEEEEehHHHHHHHcCCC-------ccchhhhCcC
Confidence 4799999999999999999999999999999999999999975 8999999999999999874 7888899999
Q ss_pred ceEEEEecCChHHHHHHHHhhccC---ccccCCCccCceEEeCCCCCCCCCcch
Q 020952 88 NVGLIFTKGDLKEVKEEVAKYKVG---APARVGLVAPIDVVVPPGNTGLDPSQT 138 (319)
Q Consensus 88 ~~gliFT~~dp~~v~k~l~~~k~~---~~ar~G~iA~~dVvi~~G~t~~~p~~~ 138 (319)
+++++||++||.++.++|.+|+.. .++|+|.++ .+|+.|.+.+.+++.|.
T Consensus 74 ~~~~~f~~~~~~~~~k~~~~~~k~~~~~~~k~g~~~-~~v~~~~~~~~l~~lp~ 126 (155)
T cd00379 74 PTALAFTNEDPVEVAKVLKDFAKENKKLFAKGGVVA-GKVLDPAGVTALAKLPS 126 (155)
T ss_pred CEEEEEeCCChHHHHHHHHHHHHhCCCceEEEEEEc-CEecCHHHHHHHhcCCC
Confidence 999999999999999999999888 899999999 99999999988877763
No 10
>PF00466 Ribosomal_L10: Ribosomal protein L10; InterPro: IPR001790 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 [, ]. On the basis of sequence similarities the following prokaryotic and eukaryotic ribosomal proteins can be grouped: Bacterial 50S ribosomal protein L10; Archaebacterial acidic ribosomal protein P0 homologue (L10E); Eukaryotic 60S ribosomal protein P0 (L10E). This entry represents the ribosomal protein L10P family, with includes the above mentioned ribosomal proteins.; GO: 0042254 ribosome biogenesis, 0005622 intracellular; PDB: 3A1Y_G 3D5D_J 3PYT_I 3PYV_I 3D5B_J 3PYO_I 3PYR_I 3MS1_I 3MRZ_I 1VQ9_G ....
Probab=99.88 E-value=3.3e-22 Score=159.88 Aligned_cols=96 Identities=32% Similarity=0.485 Sum_probs=90.9
Q ss_pred cHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCC-cEEEEEehHHHHHHHHhchhhcCCcccc-ccccc
Q 020952 7 KAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGD-SVVLMGKNTMMKRTIRMHAEKTGNTAFL-NLIPL 84 (319)
Q Consensus 7 ~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~-~~~~v~KNtl~r~Al~~~~~~~~~~~~~-~L~~~ 84 (319)
+|++|.+++++++++|++|+.+++++|+|+++.|+++||+.||+. ++++|+|||||++||+++. .+ .|.++
T Consensus 2 ~~~~K~~~v~~~~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~~v~KN~l~~~Al~~~~-------~~~~l~~~ 74 (100)
T PF00466_consen 2 TKEKKEEIVEELKELLKKSKYVIVVDYNGLSANQLQELRKELRKKGGKFKVVKNTLMKKALKNTG-------FEEALSPL 74 (100)
T ss_dssp SCHHHHHHHHHHHHHHHCSSEEEEEECTTSCHHHHHHHHHHHHHHTEEEEECSHHHHHHHHHHHH-------TSSSSSCC
T ss_pred cHHHHHHHHHHHHHHHHhCCEEEEEEeCCCCHHHHHHHHHHHHhcCcEEEEecHHHHHHHHhcCc-------cccCcccc
Confidence 489999999999999999999999999999999999999999974 9999999999999999985 44 68999
Q ss_pred cCCceEEEEecCChHHHHHHHHhhc
Q 020952 85 LQGNVGLIFTKGDLKEVKEEVAKYK 109 (319)
Q Consensus 85 l~G~~gliFT~~dp~~v~k~l~~~k 109 (319)
|+|+++++||++||.+++++|.+|.
T Consensus 75 l~G~~~~if~~~d~~~~~k~l~~~~ 99 (100)
T PF00466_consen 75 LKGPTALIFSNEDPFEIAKILKKFA 99 (100)
T ss_dssp TSSSEEEEEESSSHHHHHHHHHHST
T ss_pred ccCCEEEEEECCCHHHHHHHHHHhc
Confidence 9999999999999999999999874
No 11
>PRK04019 rplP0 acidic ribosomal protein P0; Validated
Probab=99.85 E-value=1.7e-21 Score=187.04 Aligned_cols=242 Identities=16% Similarity=0.145 Sum_probs=194.0
Q ss_pred HHHHHHHHHHHhccCeEEEEEe-------CCCCcHHHHHHHHHccCCcEEEEEehH--HHHHHHHhchhhcCC-cc----
Q 020952 12 IAYDAKLCQLLEEYTQILVAAA-------DNVGSNQLQNIRRGLRGDSVVLMGKNT--MMKRTIRMHAEKTGN-TA---- 77 (319)
Q Consensus 12 ~~~v~~l~e~l~~y~~v~vv~~-------~~v~~~ql~~iR~~Lr~~~~~~v~KNt--l~r~Al~~~~~~~~~-~~---- 77 (319)
...+.+||..|.....++++.- .+.....+.+|-..|+|..-+.+.+.. -+.+.+.......+. .|
T Consensus 35 ~~ql~~lR~~lr~~~~~~v~KNtL~~~Al~~~~~~~~~~L~~~l~G~~alift~~dp~~v~k~l~~~~~~~~ak~G~iA~ 114 (330)
T PRK04019 35 ARQLQEIRRKLRGKAELKVSKNTLIKRALEEAGEEDLEKLEDYLEGQVALIFTNMNPFKLYKLLEKSKTPAPAKPGDIAP 114 (330)
T ss_pred HHHHHHHHHHHHcCCEEEEEehHHHHHHHHhcCcccHHHHHhhccCCEEEEEECCCHHHHHHHHHHcCCcccCCCCCCCC
Confidence 3567888998887645555422 122113377888899988777776543 344555554332221 11
Q ss_pred ccccccccCCceEEEEecCChHHHHHHHHhhccCccccCCC--ccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceE
Q 020952 78 FLNLIPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGL--VAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTV 155 (319)
Q Consensus 78 ~~~L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~--iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I 155 (319)
.+-..+ .|+ |+.+|+.+...|.+.+.+++++.|. |+++++++++|+| ++|++.+.||+|||++...+++|
T Consensus 115 ~divip--~G~-----t~~~P~~~~~~l~~lgipt~i~~G~I~i~~~~~v~~~G~~-v~~~~a~lL~~LgI~p~~~~~~i 186 (330)
T PRK04019 115 EDIVVP--AGP-----TGFPPGPILSELQKLGIPARIQKGKIVIKKDTVVAKAGEV-ISPELANVLQKLGIKPIEVGLDL 186 (330)
T ss_pred CeEEEc--CCC-----CCCCCcccHHHHHHcCCCeEecCCEEEEecCeEEecCCCC-cCHHHHHHHHHcCCCHHHhhhHH
Confidence 111122 455 7889999999999999999999999 9999999999999 99999999999999999999999
Q ss_pred EEecCeeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCC
Q 020952 156 EIITPVELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSMVTALALAISYP 235 (319)
Q Consensus 156 ~i~~d~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~p 235 (319)
..++..|..++++.+ +|.|..|...+..+|.++..++.+...+|++.+...+.+|++++.+|+.+++||
T Consensus 187 -----~a~~~~G~~~~~~~l------~i~~e~~~~~i~~A~~~a~~Ls~~~~~pt~~tl~~~i~kA~~~a~aLa~~~~~~ 255 (330)
T PRK04019 187 -----KAAYEDGVIYTPEVL------AIDEEKYRSDIQEAAQNAFNLAVNAAYPTPETLETLIQKAFREAKALAVEAGIV 255 (330)
T ss_pred -----HHHHhcCCccCHHHc------cCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 788888999999876 799999999999999999999999999999999999999999999999999999
Q ss_pred CCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCC
Q 020952 236 TLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPS 276 (319)
Q Consensus 236 t~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~ 276 (319)
|+++++++|.+|+.++++|+.+++=. ..+.+-|.+..
T Consensus 256 t~e~~~~il~kA~~~~~ala~~~~~~----~~~~~~~~~~~ 292 (330)
T PRK04019 256 TPETADDILSKAVAQALALAAALADK----DALDEELKEVL 292 (330)
T ss_pred ChhhHHHHHHHHHHHHHHHHHHhcCc----ccccHHHHhhc
Confidence 99999999999999999999987632 34444444433
No 12
>PRK00099 rplJ 50S ribosomal protein L10; Reviewed
Probab=99.84 E-value=8.6e-21 Score=166.32 Aligned_cols=97 Identities=23% Similarity=0.296 Sum_probs=92.2
Q ss_pred cHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccC-CcEEEEEehHHHHHHHHhchhhcCCcccccccccc
Q 020952 7 KAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRG-DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLL 85 (319)
Q Consensus 7 ~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~-~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l 85 (319)
+|++|.++++++++++++|+.+++++|+|++++|+++||+.||+ +++|+|+|||||++|++++. ++.|.++|
T Consensus 2 ~r~~K~~~v~~l~~~l~~~~~v~v~~~~gl~~~~~~~lR~~lr~~~~~~~V~KNtL~~~Al~~~~-------~~~l~~~l 74 (172)
T PRK00099 2 NREEKKEIVAELAEKLKKAQSAVVADYRGLTVAQMTELRKKLREAGVEYKVVKNTLARRALEGTG-------FEGLDDLL 74 (172)
T ss_pred CHHHHHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEEEEehhHHHHHHHhcCC-------chhhhhhC
Confidence 38999999999999999999999999999999999999999997 58999999999999999873 89999999
Q ss_pred CCceEEEEecCChHHHHHHHHhhcc
Q 020952 86 QGNVGLIFTKGDLKEVKEEVAKYKV 110 (319)
Q Consensus 86 ~G~~gliFT~~dp~~v~k~l~~~k~ 110 (319)
+|+++++||++||.++++++.+|..
T Consensus 75 ~G~~al~fs~~d~~~~~k~l~~f~K 99 (172)
T PRK00099 75 KGPTAIAFSYEDPVAAAKVLKDFAK 99 (172)
T ss_pred cCCeEEEEeCCChHHHHHHHHHHHh
Confidence 9999999999999999999998864
No 13
>cd05797 Ribosomal_L10 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein and forms the base of the L7/L12 stalk, while the extended C-terminal helix binds to two or three dimers of the NTD of L7/L12 (L7 and L12 are identical except for an acetylated N-terminus). The L7/L12 stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-in
Probab=99.84 E-value=1.3e-20 Score=162.71 Aligned_cols=97 Identities=27% Similarity=0.346 Sum_probs=92.2
Q ss_pred cHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccC-CcEEEEEehHHHHHHHHhchhhcCCcccccccccc
Q 020952 7 KAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRG-DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLL 85 (319)
Q Consensus 7 ~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~-~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l 85 (319)
.|++|.++++++++++++|+.+++++|+|++++|+++||+.||+ +++|+|+||||+++|++++. ++.|.++|
T Consensus 1 ~~~~K~~~v~~l~~~l~~~~~v~v~~~~gl~~~~~~~lR~~lr~~~~~~~V~KNtL~~~Al~~t~-------~~~l~~~l 73 (157)
T cd05797 1 NREKKEEIVAELKEKLKEAKSVVVADYRGLTVAQLTELRKELREAGVKLKVVKNTLAKRALEGTG-------FEDLDDLL 73 (157)
T ss_pred ChHHHHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEEEEehhHHHHHHHhcCC-------chhhHhhC
Confidence 47999999999999999999999999999999999999999997 48999999999999999874 78999999
Q ss_pred CCceEEEEecCChHHHHHHHHhhcc
Q 020952 86 QGNVGLIFTKGDLKEVKEEVAKYKV 110 (319)
Q Consensus 86 ~G~~gliFT~~dp~~v~k~l~~~k~ 110 (319)
+|+++++||++||.+++++|.+|..
T Consensus 74 ~G~~al~f~~~d~~~~~k~l~~f~k 98 (157)
T cd05797 74 KGPTAIAFSEEDPVAAAKVLKDFAK 98 (157)
T ss_pred cCCEEEEEeCCChHHHHHHHHHHHH
Confidence 9999999999999999999999865
No 14
>KOG1762 consensus 60s acidic ribosomal protein P1 [Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=4.9e-17 Score=130.36 Aligned_cols=95 Identities=35% Similarity=0.499 Sum_probs=69.8
Q ss_pred CcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCc
Q 020952 199 GSVYSPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKF 278 (319)
Q Consensus 199 g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~ 278 (319)
+.++--+.+.+|.+.+. .|.+++|..++.+||.+|++++.++ +++++|+|.+++
T Consensus 13 alIL~d~~i~it~dki~-----------tl~kaa~v~ve~~Wp~lfakale~v---------------ni~~li~n~gag 66 (114)
T KOG1762|consen 13 ALILHDDEIEVTADKIN-----------TLTKAAGVNVEPYWPGLFAKALEGV---------------NIKELICNVGAG 66 (114)
T ss_pred hhhccccceeeehhhhh-----------hHHHhccCcccccchhHHHHHhccC---------------ChHHHHHhcccC
Confidence 34455555567777765 8999999999999999999999996 999999999875
Q ss_pred cccccc-c-c--C---CCCCcchhhhhhhhccCCcccccCCCCCCCCC
Q 020952 279 AVAAAP-V-A--G---GGDAPAAAAKEEEKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 279 ~~a~~~-a-~--~---~~~~~~~~~~~~~~k~e~~ee~d~dmgfglFd 319 (319)
++++++ + + + ++++++++++++++|+|++|||||||||||||
T Consensus 67 ~~a~a~~~~~~~~aa~~~~aA~~~Ekk~eak~EeseesddDmgfGLfd 114 (114)
T KOG1762|consen 67 GGALAAGAAAAGGAAAAGGAAAAEEKKEEAKKEESEESDDDMGFGLFD 114 (114)
T ss_pred CccCCCccccccccccccccccchHHHHHhhhhhhcccccccccCCCC
Confidence 544311 1 1 1 11123334455566678889999999999998
No 15
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=99.58 E-value=1.8e-15 Score=122.69 Aligned_cols=86 Identities=38% Similarity=0.467 Sum_probs=58.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCc-------cc
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKF-------AV 280 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~-------~~ 280 (319)
.||.++|. ++..++|+.+++.||.+|.+++++ .+|.++|++.... ++
T Consensus 17 ~pTa~dI~-----------~IL~AaGveVe~~~~~lf~~~L~G---------------Kdi~eLIa~g~~kl~s~~~~~~ 70 (109)
T cd05833 17 SPSAADVK-----------KILGSVGVEVDDEKLNKVISELEG---------------KDVEELIAAGKEKLASVPAGAG 70 (109)
T ss_pred CCCHHHHH-----------HHHHHcCCCccHHHHHHHHHHHcC---------------CCHHHHHHHhHhhhcCCCcccc
Confidence 56677765 899999999999999999999998 5999999974431 11
Q ss_pred ccccccCCCCCcchhhhhhhhccCCcccccCCCCCCCCC
Q 020952 281 AAAPVAGGGDAPAAAAKEEEKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 281 a~~~a~~~~~~~~~~~~~~~~k~e~~ee~d~dmgfglFd 319 (319)
+++|+++++++++++++++++|+|++|||||||||||||
T Consensus 71 ~aa~a~~~~a~aa~~~~~e~kkee~eee~ddDmGf~LFd 109 (109)
T cd05833 71 GAAPAAAAAAAAAAAAKKEEKKEESEEESDDDMGFGLFD 109 (109)
T ss_pred ccccccccccccccchhhhhhccCCccccccccCCCCCC
Confidence 111222222222222234455556666679999999998
No 16
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=99.55 E-value=7.2e-15 Score=119.28 Aligned_cols=86 Identities=28% Similarity=0.387 Sum_probs=56.3
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcC-------CCCccc
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLAD-------PSKFAV 280 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~-------~~a~~~ 280 (319)
.||.++|. .|..++|+.+++.|+.+|.+.++. .+|.++|+. .+..++
T Consensus 19 ~pTaddI~-----------kIL~AaGveVd~~~~~l~~~~L~G---------------KdI~ELIa~G~~kl~svgg~~~ 72 (112)
T PTZ00373 19 NPTKKEVK-----------NVLSAVNADVEDDVLDNFFKSLEG---------------KTPHELIAAGMKKLQNIGGGVA 72 (112)
T ss_pred CCCHHHHH-----------HHHHHcCCCccHHHHHHHHHHHcC---------------CCHHHHHHHhHHHHhcccCccc
Confidence 36666665 899999999999999999999998 599999973 322211
Q ss_pred c-cccccCCCCCcchhhhhhhhccCCcccccCCCCCCCCC
Q 020952 281 A-AAPVAGGGDAPAAAAKEEEKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 281 a-~~~a~~~~~~~~~~~~~~~~k~e~~ee~d~dmgfglFd 319 (319)
+ ++++++++++++++++++++|+||+|||||||||||||
T Consensus 73 aa~a~a~~~~~~~~~~~~~~e~k~ee~ee~ddDmgf~LFd 112 (112)
T PTZ00373 73 AAAAPAAGAATAGAKAEAKKEEKKEEEEEEEDDLGFSLFG 112 (112)
T ss_pred ccccccccccccccchhhhhhhcccccccccccccccccC
Confidence 1 11111111112222223333456667889999999998
No 17
>cd05831 Ribosomal_P1 Ribosomal protein P1. This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and
Probab=99.50 E-value=2.8e-14 Score=114.88 Aligned_cols=91 Identities=37% Similarity=0.505 Sum_probs=64.9
Q ss_pred cCCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCcccc
Q 020952 202 YSPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFAVA 281 (319)
Q Consensus 202 ~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~~a 281 (319)
+...-..||.+.|. ++..++|+.+++.||.+|.+++.+ .+|.++|+++++.+++
T Consensus 11 L~d~~~~~Tae~I~-----------~ilkAaGveve~~~~~~f~~~L~g---------------k~i~elIa~~~~~~~~ 64 (103)
T cd05831 11 LHDDGIEITADNIN-----------ALLKAAGVNVEPYWPGLFAKALEG---------------KDIKDLLSNVGGGGGG 64 (103)
T ss_pred HccCCCCCCHHHHH-----------HHHHHcCCcccHHHHHHHHHHHcC---------------CCHHHHhhcccccccc
Confidence 33444578888877 889999999999999999999998 5999999998764443
Q ss_pred cccccCCCCC-cc-hhhhhhhhccCCcccccCCCCCCCC
Q 020952 282 AAPVAGGGDA-PA-AAAKEEEKKEEPAEESDGDMGFSLF 318 (319)
Q Consensus 282 ~~~a~~~~~~-~~-~~~~~~~~k~e~~ee~d~dmgfglF 318 (319)
++|+++++++ ++ ++++++++|+|++||+|||||||||
T Consensus 65 aap~a~~a~~~~~~~~~~~~~kk~e~eee~d~dmgfglF 103 (103)
T cd05831 65 AAPAAAAAAAAAAAAEAKKEEKKEEEEEESDDDMGFGLF 103 (103)
T ss_pred ccccccccccccccccchhhhcccccccccccccccccC
Confidence 2233322111 11 1223355556677788999999999
No 18
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=99.48 E-value=2.9e-14 Score=115.07 Aligned_cols=85 Identities=34% Similarity=0.495 Sum_probs=58.2
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCc----ccc-c
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKF----AVA-A 282 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~----~~a-~ 282 (319)
.||.++|. ++...+|..+.+.|+.+|.+++.+. +|.++|++..+- +++ +
T Consensus 16 ~~ta~~I~-----------~IL~aaGveVe~~~~~~~~~aLaGk---------------~V~eli~~g~~kl~~~~~~~~ 69 (105)
T cd04411 16 ELTEDKIK-----------ELLSAAGAEIEPERVKLFLSALNGK---------------NIDEVISKGKELMSSQAAAAA 69 (105)
T ss_pred CCCHHHHH-----------HHHHHcCCCcCHHHHHHHHHHHcCC---------------CHHHHHHHHHhhccCCCCccc
Confidence 47888776 8999999999999999999999984 999999886531 111 1
Q ss_pred ccccCCCCCcchhhhhhhhccCCcccccCCCCCCCC
Q 020952 283 APVAGGGDAPAAAAKEEEKKEEPAEESDGDMGFSLF 318 (319)
Q Consensus 283 ~~a~~~~~~~~~~~~~~~~k~e~~ee~d~dmgfglF 318 (319)
+++++++++++++++++++|+|++||||||||||||
T Consensus 70 a~~~a~~~~~~~~~~~~e~k~ee~eE~dddmgf~LF 105 (105)
T cd04411 70 APAATAAATAEPAEKAEEAKEEEEEEEDEDFGFGLF 105 (105)
T ss_pred cccccccccccchhhhhhhhcccccccccccCcccC
Confidence 111111111222223444455667888999999999
No 19
>PF00428 Ribosomal_60s: 60s Acidic ribosomal protein; InterPro: IPR001813 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The 60S acidic ribosomal protein plays an important role in the elongation step of protein synthesis. This family includes archaebacterial L12, eukaryotic P0, P1 and P2 []. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Alt a 6, Alt a 12, Cla h 3, Cla h 4 and Cla h 12.; GO: 0003735 structural constituent of ribosome, 0006414 translational elongation, 0005622 intracellular, 0005840 ribosome; PDB: 3A1Y_C 3N2D_B 2LBF_A 3IZS_t 3IZR_t 1S4J_A 2JDL_C 2W1O_B 1S4H_A 2ZKR_g.
Probab=99.48 E-value=1.7e-15 Score=118.79 Aligned_cols=85 Identities=41% Similarity=0.424 Sum_probs=57.7
Q ss_pred CCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCccc--ccccccCCCCCcchhhhhhhhccCC-ccccc
Q 020952 234 YPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFAV--AAAPVAGGGDAPAAAAKEEEKKEEP-AEESD 310 (319)
Q Consensus 234 ~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~~--a~~~a~~~~~~~~~~~~~~~~k~e~-~ee~d 310 (319)
|||.+.++++|..++.++.+..+.+.+.+.+..+|+++|++++++.+ +++++++++++++++++++++|+++ +||+|
T Consensus 1 ~pT~~~i~~vl~aag~~v~~~~~~~~~~~l~~~~i~~li~~~~~~~~~~aaa~aaa~aa~~~a~a~~e~kkEeeeeEEed 80 (88)
T PF00428_consen 1 EPTAENIKKVLKAAGVEVEAIWLELFAKALEGKDIKELIANGSAGMAAAAAAAAAAAAAAAAAAAAEEEKKEEEEEEEED 80 (88)
T ss_dssp S-SCCCHHHHHHHHTHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHSTTHHHHT--SS-S
T ss_pred CCCHHHHHHHHHHhCCchhHHHHHHHHHHHcCCcHHHHHhcccccccccccccccccccccccccchhcccccccccccc
Confidence 68999999999999999999999999989999999999999997732 2212222111111122223333333 36889
Q ss_pred CCCCCCCC
Q 020952 311 GDMGFSLF 318 (319)
Q Consensus 311 ~dmgfglF 318 (319)
+|||||||
T Consensus 81 ~dmGf~LF 88 (88)
T PF00428_consen 81 DDMGFGLF 88 (88)
T ss_dssp SSSSTTTT
T ss_pred cccCcCCC
Confidence 99999999
No 20
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=99.46 E-value=9.1e-14 Score=113.36 Aligned_cols=86 Identities=30% Similarity=0.359 Sum_probs=56.9
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcC-------CCCccc
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLAD-------PSKFAV 280 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~-------~~a~~~ 280 (319)
.||.++|. .|..++|+.+++.|+.+|.++++. .+|.++|++ .+++++
T Consensus 17 ~pta~dI~-----------~IL~AaGvevd~~~~~~f~~~L~g---------------K~i~eLIa~G~~kl~sv~~gg~ 70 (113)
T PLN00138 17 CPSAEDLK-----------DILGSVGADADDDRIELLLSEVKG---------------KDITELIASGREKLASVPSGGG 70 (113)
T ss_pred CCCHHHHH-----------HHHHHcCCcccHHHHHHHHHHHcC---------------CCHHHHHHhchhccccCCCCCc
Confidence 46777766 889999999999999999999998 599999964 444332
Q ss_pred ccccccCC--C--CCcchhhhhhhhccCCcccccCCCCCCCCC
Q 020952 281 AAAPVAGG--G--DAPAAAAKEEEKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 281 a~~~a~~~--~--~~~~~~~~~~~~k~e~~ee~d~dmgfglFd 319 (319)
++++++++ + ++++++++++++|+|++|||||||||||||
T Consensus 71 aa~a~a~a~~~~~~~~~~~~~~~e~k~e~eeE~ddDmGfgLFd 113 (113)
T PLN00138 71 VAVAAAAAPAAGGAAAPAAEAKKEEKVEEKEESDDDMGFSLFD 113 (113)
T ss_pred cccccccccccccccccccchhhhhhccccccccccccccccC
Confidence 21111111 1 111111222333345667889999999998
No 21
>PTZ00240 60S ribosomal protein P0; Provisional
Probab=99.33 E-value=1.6e-11 Score=117.02 Aligned_cols=216 Identities=13% Similarity=0.126 Sum_probs=161.6
Q ss_pred HHHHHHHHHHHhccCeEEEEEeC-----------CCCcHHHHHHH-------HHccCCcEEEEEehHHHH--HHHHhchh
Q 020952 12 IAYDAKLCQLLEEYTQILVAAAD-----------NVGSNQLQNIR-------RGLRGDSVVLMGKNTMMK--RTIRMHAE 71 (319)
Q Consensus 12 ~~~v~~l~e~l~~y~~v~vv~~~-----------~v~~~ql~~iR-------~~Lr~~~~~~v~KNtl~r--~Al~~~~~ 71 (319)
...+.++|..+.....+++-.-+ +.....++++- ..++|+.-|++.+-.... .-+.....
T Consensus 35 s~qlq~IR~~lrg~a~~~~GKNtlm~~AL~~~~~~~~~~~~~~ll~~~~~~~~~l~GnvgliFTn~~p~ev~~~l~~~k~ 114 (323)
T PTZ00240 35 SQQVHDVRRALRGKAEFVMGKKTLQAKIVEKRAQAKKASAEAKLFNDQCEEKNLLSGNTGLIFTNNEVQEITSVLDSHRV 114 (323)
T ss_pred cHHHHHHHHHhhCCcEEEEecHHHHHHHHhhccccccchhHHHHhhhhccccccccCCEEEEEeCCCHHHHHHHHHHcCC
Confidence 34677888888866666554211 11112356663 677887777777665543 33443322
Q ss_pred hcCC-cc----ccccccccCCceEEEEecCChHHHHHHHHhhccCccccCCC--ccCceEEeCCCCCCCCCcchhhhhhc
Q 020952 72 KTGN-TA----FLNLIPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGL--VAPIDVVVPPGNTGLDPSQTSFFQVL 144 (319)
Q Consensus 72 ~~~~-~~----~~~L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~--iA~~dVvi~~G~t~~~p~~~~~fq~L 144 (319)
..+. .| .+-..+ .|+ |+.+|. ....|.+...|+....|. |..+.+++++|.. ++|++...|+.|
T Consensus 115 ~a~AraG~IAp~dVvvp--aG~-----T~~~P~-~~s~fq~LGIpTkI~kGkIeI~~d~~v~k~Ge~-V~~~~A~LL~~L 185 (323)
T PTZ00240 115 KAPARVGAIAPCDVIVP--AGS-----TGMEPT-QTSFFQALNIATKIAKGMVEIVTEKKVLSVGDK-VDNSTATLLQKL 185 (323)
T ss_pred cccccCCCCCCceEEEC--CCC-----CCCCCc-chHHHHHcCCCeEecCcEEEEecCeEEecCCCC-cCHHHHHHHHHc
Confidence 2211 01 111222 455 667887 488999999999999998 7888889999998 999999999999
Q ss_pred CcceEEecceEEEecCeeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHH
Q 020952 145 NIPTKINKGTVEIITPVELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSM 224 (319)
Q Consensus 145 gIptki~~G~I~i~~d~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~ 224 (319)
||.+---+-+| ..+...|...+++ -|+|....|.-++...+.+-..++-+.-++|++.+.-.+.+|+++
T Consensus 186 ~IkP~~~gl~l-----~~vyd~g~i~~~~------vL~i~~e~~~~~~~~a~~~~~~lsl~~~~pt~~si~~~i~~a~~~ 254 (323)
T PTZ00240 186 NISPFYYQVEV-----LSVWDRGVLFTRE------DLSMTEDVVEKMLMEGLSNVAAMSLGAGIPTAATIGPMLVDAFKN 254 (323)
T ss_pred CCCeEEEEEEE-----EEEEeCCeecCHH------HcCCCHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHH
Confidence 99998888887 5666678888886 466888888888888888877888999999999999999999999
Q ss_pred HHHHHHHcCCCCCcChhHHHHHH
Q 020952 225 VTALALAISYPTLAAAPHMFVNA 247 (319)
Q Consensus 225 ~~~ls~~a~~pt~~~~p~~i~~a 247 (319)
+.+|+++++|+++++.+..+.+|
T Consensus 255 ~~alav~~~~~~~~~~~~~~~~A 277 (323)
T PTZ00240 255 LLAVSVATSYEFEEHNGKELREA 277 (323)
T ss_pred HHHHhhhcCcCChhhHHHHHhhh
Confidence 99999999999999998877666
No 22
>KOG3449 consensus 60S acidic ribosomal protein P2 [Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=1e-11 Score=99.12 Aligned_cols=20 Identities=75% Similarity=1.119 Sum_probs=16.1
Q ss_pred hhccCCcccccCCCCCCCCC
Q 020952 300 EKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 300 ~~k~e~~ee~d~dmgfglFd 319 (319)
++|+||+|||||||||+|||
T Consensus 93 e~keEe~eesddDmgf~lFd 112 (112)
T KOG3449|consen 93 EEKEEEKEESDDDMGFGLFD 112 (112)
T ss_pred hhhhhhcccccccccccccC
Confidence 34455568999999999998
No 23
>COG2058 RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]
Probab=99.09 E-value=8.9e-11 Score=93.76 Aligned_cols=86 Identities=36% Similarity=0.464 Sum_probs=59.1
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCccccc--ccc
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFAVAA--APV 285 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~~a~--~~a 285 (319)
.||.+.+. ++..++|+.+++.|-..+..++... +|+++|.+.....+++ +++
T Consensus 16 ei~e~~l~-----------~vl~aaGveve~~r~k~lvaaLeg~---------------~idE~i~~~~~~~~a~a~a~a 69 (109)
T COG2058 16 EITEDNLK-----------SVLEAAGVEVEEARAKALVAALEGV---------------DIDEVIKNAAEAPAAAAAAGA 69 (109)
T ss_pred cCCHHHHH-----------HHHHHcCCCccHHHHHHHHHHhcCC---------------CHHHHHHHhcccccccCCccc
Confidence 67777776 8888999999999999999999995 9999999976532221 111
Q ss_pred cC-----CCCCcch-hhhhhhhccCCcccccCCCCCCCCC
Q 020952 286 AG-----GGDAPAA-AAKEEEKKEEPAEESDGDMGFSLFD 319 (319)
Q Consensus 286 ~~-----~~~~~~~-~~~~~~~k~e~~ee~d~dmgfglFd 319 (319)
++ +.++++. ++++++++++++||||+||||||||
T Consensus 70 aaa~~A~~~~a~~~~ea~eEe~eEe~~EE~~~~~lf~LF~ 109 (109)
T COG2058 70 AAAAAAGAEAAAEADEAEEEEKEEEAEEESDDDMLFGLFG 109 (109)
T ss_pred ccccccccccccchhhHHHHHhhhchhhcccccchhhccC
Confidence 11 1111111 2233334456677889999999998
No 24
>PRK06402 rpl12p 50S ribosomal protein L12P; Reviewed
Probab=98.77 E-value=4.8e-09 Score=84.51 Aligned_cols=86 Identities=33% Similarity=0.402 Sum_probs=56.2
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCcccccccccC
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFAVAAAPVAG 287 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~~a~~~a~~ 287 (319)
.||.+.|. ++..++|+.+.+.|+.+|.+++.+. +|.++|.+.++..++++++++
T Consensus 16 ~it~e~I~-----------~IL~AAGveVee~~~k~~v~aL~Gk---------------dIeElI~~a~~~~~a~~~a~~ 69 (106)
T PRK06402 16 EINEDNLK-----------KVLEAAGVEVDEARVKALVAALEDV---------------NIEEAIKKAAAAPVAAAAAAA 69 (106)
T ss_pred CCCHHHHH-----------HHHHHcCCCccHHHHHHHHHHHcCC---------------CHHHHHHhccccccccccccc
Confidence 68888876 8999999999999999999999995 999999998774443322222
Q ss_pred CCCCcc-hhhh-hhhhccCCcccccCCCCCC---CCC
Q 020952 288 GGDAPA-AAAK-EEEKKEEPAEESDGDMGFS---LFD 319 (319)
Q Consensus 288 ~~~~~~-~~~~-~~~~k~e~~ee~d~dmgfg---lFd 319 (319)
++++++ ++++ ++++++|+++++|++++.| ||+
T Consensus 70 ~~~~~~~~~~~~~~~~~ee~~~~~ee~~~~gl~~lfg 106 (106)
T PRK06402 70 AAAAAAAAEEKKEEEEEEEEKEESEEEAAAGLGALFG 106 (106)
T ss_pred ccccccccchhhhhhhhhhhccccHHHHHhhHHHhcC
Confidence 111111 1112 2223344455566666555 685
No 25
>PTZ00135 60S acidic ribosomal protein P0; Provisional
Probab=98.75 E-value=9.9e-08 Score=91.10 Aligned_cols=216 Identities=15% Similarity=0.101 Sum_probs=153.3
Q ss_pred HHHHHHHHHHHhccCeEEEEEe-------CCCC--cHHHHHHHHHccCCcEEEEEehHH--HHHHHHhchhhcCC-cc--
Q 020952 12 IAYDAKLCQLLEEYTQILVAAA-------DNVG--SNQLQNIRRGLRGDSVVLMGKNTM--MKRTIRMHAEKTGN-TA-- 77 (319)
Q Consensus 12 ~~~v~~l~e~l~~y~~v~vv~~-------~~v~--~~ql~~iR~~Lr~~~~~~v~KNtl--~r~Al~~~~~~~~~-~~-- 77 (319)
...+.+||..+.....+++..- .+.. ...+..|-..|+|+.-+.+.+... +++.+.+.....+. .|
T Consensus 37 s~ql~~iR~~LR~~a~~~vgKNTL~r~AL~~~~~~~~~l~~L~~~LkG~~gliFTn~dp~ev~k~l~~~k~~~~AKaG~i 116 (310)
T PTZ00135 37 SKQMQDIRRSLRGKAELLMGKNTLIRKALKQRLEELPELEKLLPHVKGNVGFVFTKDDLFEVKPVILENKVPAPARAGVI 116 (310)
T ss_pred HHHHHHHHHHHhcCCEEEEEehHHHHHHHhhCcccccChHHHHhhccCCEEEEEECCCHHHHHHHHHHcCCccccccCCC
Confidence 4567888888887655544421 1211 124778888899887777775543 33334443221111 01
Q ss_pred --ccccccccCCceEEEEecCChHHHHHHHHhhccCccccCCC--ccCceEEeCCCCCCCCCcchhhhhhcCcceEEecc
Q 020952 78 --FLNLIPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGL--VAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKG 153 (319)
Q Consensus 78 --~~~L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~--iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G 153 (319)
.+-..+ .|+ |..+|.. ...|.+...|+....|. |..+.+++.+|.. ++|++...|+.|||..---+-
T Consensus 117 Ap~dv~ip--~G~-----t~~~P~~-~~~fq~LgipTkI~kG~I~I~~d~~v~k~Ge~-v~~~~A~LL~~L~I~p~~~~l 187 (310)
T PTZ00135 117 APIDVVIP--AGP-----TGMDPSQ-TSFFQALGIATKIVKGQIEITNEVHLIKEGQK-VGASQAVLLQKLNIKPFSYGL 187 (310)
T ss_pred CCceEEEc--CCC-----CCCCcch-hhHHHHcCCceEecCCeEEEecCeEEecCCCC-cCHHHHHHHHHcCCCeEEEEE
Confidence 111112 355 6778885 78999999999999998 7888889999998 999999999999999988888
Q ss_pred eEEEecCeeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeCCcccCCCcccCChHHHHHHHHHHHHHHHHHHHHcC
Q 020952 154 TVEIITPVELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYENGSVYSPEVLDLSEDDLVEKFASSVSMVTALALAIS 233 (319)
Q Consensus 154 ~I~i~~d~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~ 233 (319)
+| ..+...|...+++ -|+|....+.-++...+.+-..++...-++|+..+...|.+|++++.+++++++
T Consensus 188 ~~-----~~~yd~g~~~~~~------vL~i~~e~~~~~~~~~~~~i~als~aag~pt~~s~p~~ia~a~k~~~a~a~~~~ 256 (310)
T PTZ00135 188 EV-----LSIYDNGSIYDAK------VLDITDEDIVAKFQEGVQNVAAISLAAGYPTEASAPHSILNAFKNLAAIGLESG 256 (310)
T ss_pred EE-----EEEEECCeEeCHH------HcCCCHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHhhcC
Confidence 88 4555566666665 355777666666666666655566777789999999999999999999999999
Q ss_pred CCCCcChhHHHHHH
Q 020952 234 YPTLAAAPHMFVNA 247 (319)
Q Consensus 234 ~pt~~~~p~~i~~a 247 (319)
|+.+...+.....|
T Consensus 257 ~~~~~~~~~~~~~a 270 (310)
T PTZ00135 257 FTFPLAEKIKEALA 270 (310)
T ss_pred CCChhhHHHHHhhc
Confidence 99888777544433
No 26
>TIGR03685 L21P_arch 50S ribosomal protein L12P. This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome.
Probab=98.06 E-value=2.9e-06 Score=68.57 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=39.1
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCC
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSK 277 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a 277 (319)
.||.+.+. .|...+|+.+++.|+.+|++++.+ .+|.++|.++.+
T Consensus 16 ~iT~e~I~-----------~IL~AAGv~ve~~~~~~la~~L~g---------------k~i~eli~~~~~ 59 (105)
T TIGR03685 16 EINEENLK-----------AVLEAAGVEVDEARVKALVAALEG---------------VNIEEAIKKAAA 59 (105)
T ss_pred CCCHHHHH-----------HHHHHhCCcccHHHHHHHHHHHcC---------------CCHHHHHHhhhc
Confidence 78888876 888899999999999999999988 599999988774
No 27
>cd05832 Ribosomal_L12p Ribosomal protein L12p. This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly intera
Probab=98.06 E-value=2.3e-06 Score=69.12 Aligned_cols=46 Identities=17% Similarity=0.194 Sum_probs=40.5
Q ss_pred cCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhcccCCCCcccHHHHhcCCCCcc
Q 020952 208 DLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALATEYSFPQADKVKEYLADPSKFA 279 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~~~~~~~~~~i~~~l~~~~a~~ 279 (319)
.||.+.+. .|...+|+.+.+.|+.+|++++.+ .+|.++|++.++.+
T Consensus 16 eITae~I~-----------~IL~AAGveVd~~~~~ala~aL~g---------------kdIeElIa~~~~~~ 61 (106)
T cd05832 16 EINEENLK-----------KVLEAAGIEVDEARVKALVAALEE---------------VNIDEAIKKAAVAA 61 (106)
T ss_pred CCCHHHHH-----------HHHHHhCCcccHHHHHHHHHHHcC---------------CCHHHHHHhccccc
Confidence 68888877 888899999999999999999998 49999999988633
No 28
>KOG4241 consensus Mitochondrial ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=96.80 E-value=0.004 Score=55.72 Aligned_cols=87 Identities=20% Similarity=0.236 Sum_probs=77.8
Q ss_pred HHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccC-CcEEEEEehHHHHHHHHhchhhcCCccccccccccCCceEEEE
Q 020952 15 DAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRG-DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVGLIF 93 (319)
Q Consensus 15 v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~-~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~gliF 93 (319)
..++...++++..+.++.+--++..++--.|.+||. +..|+..-|++++.+++++. ++.|.++|.||.+++|
T Consensus 79 ~re~~~v~~~~R~~Avcq~~~v~a~d~~~~r~QLrk~ni~~ksygnkIlk~~~~~t~-------y~~l~plfvgnh~ill 151 (245)
T KOG4241|consen 79 LREDWMVREEFRVMAVCQFLPVPARDLWFARNQLRKKNIEFKSYGNKILKKIFDKTP-------YSSLNPLFVGNHAILL 151 (245)
T ss_pred HHHHHHHHhhhhheeeeecccCcHHHHHHHHHHHHhccchhhhchHHHHHHHHhcCc-------hhhhhhheeccceEEE
Confidence 345677889999999999999999999999999996 57999999999999999885 8999999999999999
Q ss_pred ecCChHHHHHHHHhhc
Q 020952 94 TKGDLKEVKEEVAKYK 109 (319)
Q Consensus 94 T~~dp~~v~k~l~~~k 109 (319)
. .|+.+++.++...+
T Consensus 152 ~-~d~~kik~~lri~r 166 (245)
T KOG4241|consen 152 A-KDISKIKSILRITR 166 (245)
T ss_pred c-CChHHHHHHHHHHh
Confidence 7 57888888887653
No 29
>cd05795 Ribosomal_P0_L10e Ribosomal protein L10 family, P0 and L10e subfamily; composed of eukaryotic 60S ribosomal protein P0 and the archaeal P0 homolog, L10e. P0 or L10e forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-interacting protein (WIP). These eukaryotic and archaeal P0 sequences have an additional C-terminal domain homologous with acidic proteins P1 and P2.
Probab=93.25 E-value=0.46 Score=41.76 Aligned_cols=128 Identities=16% Similarity=0.205 Sum_probs=84.4
Q ss_pred HHHHHHHHHHHhccCeEEEEE-------eCCCC--cHHHHHHHHHccCCcEEEEEehHH--HHHHHHhchhhcCC-cc--
Q 020952 12 IAYDAKLCQLLEEYTQILVAA-------ADNVG--SNQLQNIRRGLRGDSVVLMGKNTM--MKRTIRMHAEKTGN-TA-- 77 (319)
Q Consensus 12 ~~~v~~l~e~l~~y~~v~vv~-------~~~v~--~~ql~~iR~~Lr~~~~~~v~KNtl--~r~Al~~~~~~~~~-~~-- 77 (319)
...+.+||..+.....+++.- +.+.. ...+..|...|+|..-+.+.+... +.+.+.+.....+. .|
T Consensus 30 ~~ql~~lR~~lr~~~~~~v~KNtL~~~Al~~~~~~~~~~~~L~~~l~G~~~liFt~~dp~~v~k~l~~~~~~~~ar~G~i 109 (175)
T cd05795 30 SKQLQKIRRSLRGKAEILMGKNTLIRRALRNLGDENPELEKLLPYLKGNVGFIFTNGDPFEIRKILEENKVPAPAKPGAI 109 (175)
T ss_pred hHHHHHHHHHhhCCCEEEEechHHHHHHHHhcccccccHHHHHHHhcCCEEEEEECCCHHHHHHHHHHcCCcccccCCCc
Confidence 356778888888764444431 11221 112778888999887777775444 34445554322221 11
Q ss_pred --ccccccccCCceEEEEecCChHHHHHHHHhhccCccccCCC--ccCceEEeCCCCCCCCCcchhhhhhcCcce
Q 020952 78 --FLNLIPLLQGNVGLIFTKGDLKEVKEEVAKYKVGAPARVGL--VAPIDVVVPPGNTGLDPSQTSFFQVLNIPT 148 (319)
Q Consensus 78 --~~~L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~~~ar~G~--iA~~dVvi~~G~t~~~p~~~~~fq~LgIpt 148 (319)
.+-..+ .|++ ..+|...- .|.+...|+....|. |..+.+++.+|.. ++|++...|+.|||.+
T Consensus 110 A~~dvvi~--~G~t-----~~~p~~~~-~~~~lgiptki~~G~i~i~~d~~v~k~G~~-v~~~~A~lL~~l~i~P 175 (175)
T cd05795 110 APCDVVVP--AGPT-----GMPPGPTS-FFQALGIPTKIEKGKIEIISDVVVVKKGEK-VGASEATLLNKLNIKP 175 (175)
T ss_pred cCceEEEc--CCCc-----CCCCCchH-HHHHcCCceEEecCEEEEecCeEEecCCCC-cCHHHHHHHHHcCCCC
Confidence 111112 4653 45565544 899999999999998 7888899999998 9999999999999964
No 30
>PF00428 Ribosomal_60s: 60s Acidic ribosomal protein; InterPro: IPR001813 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The 60S acidic ribosomal protein plays an important role in the elongation step of protein synthesis. This family includes archaebacterial L12, eukaryotic P0, P1 and P2 []. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Alt a 6, Alt a 12, Cla h 3, Cla h 4 and Cla h 12.; GO: 0003735 structural constituent of ribosome, 0006414 translational elongation, 0005622 intracellular, 0005840 ribosome; PDB: 3A1Y_C 3N2D_B 2LBF_A 3IZS_t 3IZR_t 1S4J_A 2JDL_C 2W1O_B 1S4H_A 2ZKR_g.
Probab=92.94 E-value=0.014 Score=45.51 Aligned_cols=43 Identities=9% Similarity=0.052 Sum_probs=19.3
Q ss_pred cCChHHHHHHHHHHHHHHHHHH--HHcCCCCCcChhHHHHHHHHH
Q 020952 208 DLSEDDLVEKFASSVSMVTALA--LAISYPTLAAAPHMFVNAYKN 250 (319)
Q Consensus 208 ~it~e~~~~~~~~a~~~~~~ls--~~a~~pt~~~~p~~i~~a~~~ 250 (319)
+||.+.|...+..+..++.... +-+.+.....+-.+|.+....
T Consensus 1 ~pT~~~i~~vl~aag~~v~~~~~~~~~~~l~~~~i~~li~~~~~~ 45 (88)
T PF00428_consen 1 EPTAENIKKVLKAAGVEVEAIWLELFAKALEGKDIKELIANGSAG 45 (88)
T ss_dssp S-SCCCHHHHHHHHTHHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHhCCchhHHHHHHHHHHHcCCcHHHHHhccccc
Confidence 3566777655555555333322 222233344444444444443
No 31
>COG2058 RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]
Probab=81.29 E-value=0.89 Score=36.84 Aligned_cols=15 Identities=20% Similarity=0.180 Sum_probs=10.9
Q ss_pred CcccccCCCCCCCCC
Q 020952 305 PAEESDGDMGFSLFD 319 (319)
Q Consensus 305 ~~ee~d~dmgfglFd 319 (319)
+++.++++..++||+
T Consensus 92 eEe~~EE~~~~~lf~ 106 (109)
T COG2058 92 EEEAEEESDDDMLFG 106 (109)
T ss_pred hhchhhcccccchhh
Confidence 344467889999995
No 32
>cd05832 Ribosomal_L12p Ribosomal protein L12p. This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly intera
Probab=76.83 E-value=0.88 Score=36.89 Aligned_cols=21 Identities=10% Similarity=-0.162 Sum_probs=10.3
Q ss_pred HHHHcCC-CCCcChhHHHHHHH
Q 020952 228 LALAISY-PTLAAAPHMFVNAY 248 (319)
Q Consensus 228 ls~~a~~-pt~~~~p~~i~~a~ 248 (319)
|+...|. ||.+.+..++..+-
T Consensus 9 LL~~~G~eITae~I~~IL~AAG 30 (106)
T cd05832 9 LLHYAGKEINEENLKKVLEAAG 30 (106)
T ss_pred HHHhcCCCCCHHHHHHHHHHhC
Confidence 3334443 55555555555443
No 33
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=76.62 E-value=1.7 Score=35.15 Aligned_cols=7 Identities=0% Similarity=0.449 Sum_probs=3.2
Q ss_pred cCChHHH
Q 020952 208 DLSEDDL 214 (319)
Q Consensus 208 ~it~e~~ 214 (319)
+++++.+
T Consensus 32 eVe~~~~ 38 (105)
T cd04411 32 EIEPERV 38 (105)
T ss_pred CcCHHHH
Confidence 4444444
No 34
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=74.59 E-value=5.3 Score=32.72 Aligned_cols=15 Identities=47% Similarity=0.627 Sum_probs=6.8
Q ss_pred hhhhccCCcccccCC
Q 020952 298 EEEKKEEPAEESDGD 312 (319)
Q Consensus 298 ~~~~k~e~~ee~d~d 312 (319)
+++++++++||++++
T Consensus 88 ~~~~~e~k~ee~ee~ 102 (112)
T PTZ00373 88 AEAKKEEKKEEEEEE 102 (112)
T ss_pred hhhhhhhcccccccc
Confidence 334434444545554
No 35
>PF07697 7TMR-HDED: 7TM-HD extracellular; InterPro: IPR011624 This entry represents the extracellular domain of the 7TM-HD (7TM Receptors with HD hydrolase) protein family []. These proteins are known or predicted, to posses metal-dependent phospohydrolase activity.
Probab=72.34 E-value=2.6 Score=37.51 Aligned_cols=26 Identities=27% Similarity=0.401 Sum_probs=22.4
Q ss_pred ecCeeEeecCcccChhHHHHHHHhCC
Q 020952 158 ITPVELIRKGDKVGSSEAALLAKLGI 183 (319)
Q Consensus 158 ~~d~~v~~~G~~v~~~~A~lL~~l~i 183 (319)
.+.-.++++|++||+++..+|+.||+
T Consensus 194 ~~Ge~IV~kGe~VT~e~~~~L~~l~~ 219 (222)
T PF07697_consen 194 KKGEVIVRKGEIVTEEQYEKLESLGL 219 (222)
T ss_pred cCCCEEecCCcEeCHHHHHHHHHcCC
Confidence 33346999999999999999999986
No 36
>COG2117 Predicted subunit of tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=62.58 E-value=11 Score=33.10 Aligned_cols=80 Identities=25% Similarity=0.268 Sum_probs=54.6
Q ss_pred CeeEeecCcccChhHHHHHHHhCCCcc----cccceeeeEeeC----CcccCCCcccCChHHHHHHHHHHHHHHHHHHHH
Q 020952 160 PVELIRKGDKVGSSEAALLAKLGIRPF----SYGLVVQSVYEN----GSVYSPEVLDLSEDDLVEKFASSVSMVTALALA 231 (319)
Q Consensus 160 d~~v~~~G~~v~~~~A~lL~~l~i~p~----~~~l~i~~~~~~----g~~~~~~~l~it~e~~~~~~~~a~~~~~~ls~~ 231 (319)
|+.++--|-|=|+=.|-+|++||+.|- .||+.-.|-|-. -..|+-+++.++.+.+. +|..++++
T Consensus 2 ~v~vLfSGGKDSSLaA~iL~klgyev~LVTvnFGv~d~~k~A~~tA~~lgF~h~vl~Ldr~ile--------~A~em~ie 73 (198)
T COG2117 2 DVYVLFSGGKDSSLAALILDKLGYEVELVTVNFGVLDSWKYARETAAILGFPHEVLQLDREILE--------DAVEMIIE 73 (198)
T ss_pred ceEEEecCCCchhHHHHHHHHhCCCcEEEEEEeccccchhhHHHHHHHhCCCcceeccCHHHHH--------HHHHHHHh
Confidence 345667788888888999999999984 333333333321 12378888888887765 77899999
Q ss_pred cCCCCCcChhHHHHHHH
Q 020952 232 ISYPTLAAAPHMFVNAY 248 (319)
Q Consensus 232 a~~pt~~~~p~~i~~a~ 248 (319)
-|||..+ +.++=..|+
T Consensus 74 dg~P~~a-Iq~iH~~al 89 (198)
T COG2117 74 DGYPRNA-IQYIHEMAL 89 (198)
T ss_pred cCCCchH-HHHHHHHHH
Confidence 9999854 444444443
No 37
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=58.02 E-value=6.3 Score=32.11 Aligned_cols=14 Identities=36% Similarity=0.605 Sum_probs=6.1
Q ss_pred hhhhhhhccCCcccc
Q 020952 295 AAKEEEKKEEPAEES 309 (319)
Q Consensus 295 ~~~~~~~k~e~~ee~ 309 (319)
+++++++ +||+++.
T Consensus 89 e~kkee~-eee~ddD 102 (109)
T cd05833 89 EEKKEES-EEESDDD 102 (109)
T ss_pred hhhccCC-ccccccc
Confidence 3344443 3445544
No 38
>KOG3449 consensus 60S acidic ribosomal protein P2 [Translation, ribosomal structure and biogenesis]
Probab=56.40 E-value=9.9 Score=30.95 Aligned_cols=24 Identities=4% Similarity=0.039 Sum_probs=12.4
Q ss_pred HHHHHcCCCCCcChhHHHHHHHHH
Q 020952 227 ALALAISYPTLAAAPHMFVNAYKN 250 (319)
Q Consensus 227 ~ls~~a~~pt~~~~p~~i~~a~~~ 250 (319)
.+.-..|..+...+-.++.+.++.
T Consensus 25 kIl~sVG~E~d~e~i~~visel~G 48 (112)
T KOG3449|consen 25 KILESVGAEIDDERINLVLSELKG 48 (112)
T ss_pred HHHHHhCcccCHHHHHHHHHHhcC
Confidence 444555665555444455555444
No 39
>PF08800 VirE_N: VirE N-terminal domain; InterPro: IPR014907 This domain is associated with the N terminus of Virulence E proteins. The function of the domain is unknown.
Probab=55.97 E-value=18 Score=30.30 Aligned_cols=33 Identities=21% Similarity=0.396 Sum_probs=29.2
Q ss_pred HHHHhccCeEEEEEeCCCCcHHHHHHHHHccCC
Q 020952 19 CQLLEEYTQILVAAADNVGSNQLQNIRRGLRGD 51 (319)
Q Consensus 19 ~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~ 51 (319)
...+..|+.++++|++++...++.++|+.++..
T Consensus 24 ~~~l~~~sglv~lDiD~l~~ee~~~~r~~l~~~ 56 (136)
T PF08800_consen 24 ADNLKAYSGLVVLDIDHLDPEEAEELRQLLFED 56 (136)
T ss_pred hhhhhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Confidence 456788999999999999999999999999853
No 40
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=52.15 E-value=10 Score=31.04 Aligned_cols=16 Identities=13% Similarity=0.196 Sum_probs=6.8
Q ss_pred HHHHHHhCCCcccccc
Q 020952 175 AALLAKLGIRPFSYGL 190 (319)
Q Consensus 175 A~lL~~l~i~p~~~~l 190 (319)
.+||+--|+....+++
T Consensus 24 ~~IL~AaGvevd~~~~ 39 (113)
T PLN00138 24 KDILGSVGADADDDRI 39 (113)
T ss_pred HHHHHHcCCcccHHHH
Confidence 3444444444443333
No 41
>TIGR03685 L21P_arch 50S ribosomal protein L12P. This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome.
Probab=50.69 E-value=11 Score=30.44 Aligned_cols=14 Identities=7% Similarity=-0.187 Sum_probs=7.0
Q ss_pred CCCcChhHHHHHHH
Q 020952 235 PTLAAAPHMFVNAY 248 (319)
Q Consensus 235 pt~~~~p~~i~~a~ 248 (319)
||...+..++..+-
T Consensus 17 iT~e~I~~IL~AAG 30 (105)
T TIGR03685 17 INEENLKAVLEAAG 30 (105)
T ss_pred CCHHHHHHHHHHhC
Confidence 45555555544443
No 42
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=46.87 E-value=16 Score=38.65 Aligned_cols=49 Identities=27% Similarity=0.478 Sum_probs=34.4
Q ss_pred CCCCcchhhhh-----hcCcceEEecceEEEecCeeEeecCcccChhHHHHHHHhCCCcccc
Q 020952 132 GLDPSQTSFFQ-----VLNIPTKINKGTVEIITPVELIRKGDKVGSSEAALLAKLGIRPFSY 188 (319)
Q Consensus 132 ~~~p~~~~~fq-----~LgIptki~~G~I~i~~d~~v~~~G~~v~~~~A~lL~~l~i~p~~~ 188 (319)
-++++++...+ +.. |++|.+|+ .++++|+.|+.++..+|++||+---+.
T Consensus 219 ~~D~e~T~~~~~ea~~~v~-~V~I~~gq-------iIv~~ge~It~~~~~~L~~lgl~~~s~ 272 (700)
T COG1480 219 VYDEEQTENLRQEALSKVE-PVKISKGQ-------IIVKEGEIITDEDYVILDLLGLLSLSV 272 (700)
T ss_pred ccCHHHHHHHHHHHHhccC-ceEEecCc-------eEeecCceecHHHHHHHHHhhHHhccc
Confidence 36666654433 222 55555555 689999999999999999998765443
No 43
>KOG3414 consensus Component of the U4/U6.U5 snRNP/mitosis protein DIM1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=43.80 E-value=45 Score=28.10 Aligned_cols=77 Identities=14% Similarity=0.162 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCCcEEEEEehHHHHHHHHhchhhcCCccccccccccCCceEE
Q 020952 12 IAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVGL 91 (319)
Q Consensus 12 ~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~gl 91 (319)
.++++++.+.++++-.+|++|.+.+ ..+.+.=.---.-+.+++-.|+=|+.-++.- .|+=+
T Consensus 42 D~~L~~i~~~vsnfa~IylvdideV--~~~~~~~~l~~p~tvmfFfn~kHmkiD~gtg-----------------dn~Ki 102 (142)
T KOG3414|consen 42 DELLSSIAEDVSNFAVIYLVDIDEV--PDFVKMYELYDPPTVMFFFNNKHMKIDLGTG-----------------DNNKI 102 (142)
T ss_pred HHHHHHHHHHHhhceEEEEEecchh--hhhhhhhcccCCceEEEEEcCceEEEeeCCC-----------------CCceE
Confidence 4678899999999999999999944 3333333222234788998888777766532 23456
Q ss_pred EEecCChHHHHHHHHh
Q 020952 92 IFTKGDLKEVKEEVAK 107 (319)
Q Consensus 92 iFT~~dp~~v~k~l~~ 107 (319)
.|.-+|-.+...+++-
T Consensus 103 n~~~~~kq~~Idiie~ 118 (142)
T KOG3414|consen 103 NFAFEDKQEFIDIIET 118 (142)
T ss_pred EEEeccHHHHHHHHHH
Confidence 6777888888888865
No 44
>TIGR00762 DegV EDD domain protein, DegV family. This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each than to most homologs from other species. This suggests both recent paralogy and diversity of function. DegV itself is encoded immediately downstream of DegU, a transcriptional regulator of degradation, but is itself uncharacterized. Crystallography suggested a lipid-binding site, while comparison of the crystal structure to dihydroxyacetone kinase and to a mannose transporter EIIA domain suggests a conserved domain, EDD, with phosphotransferase activity.
Probab=43.79 E-value=1.7e+02 Score=27.24 Aligned_cols=120 Identities=17% Similarity=0.166 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccC--CcEEEEEehHHHHHHHHhchhhcCCccccccccccCCce
Q 020952 12 IAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRG--DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNV 89 (319)
Q Consensus 12 ~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~--~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~ 89 (319)
.++.+-+.+++++|..|+.+.+..--|...+..|..-.. +-.+.|.-...+..+.+-.... ..++.+
T Consensus 65 ~~~~~~~~~l~~~~~~vi~i~iSs~lSgty~~a~~aa~~~~~~~i~ViDS~~~s~~~g~~v~~-----a~~~~~------ 133 (275)
T TIGR00762 65 GEFLELYEKLLEEGDEVLSIHLSSGLSGTYQSARQAAEMVDEAKVTVIDSKSASMGLGLLVLE-----AAKLAE------ 133 (275)
T ss_pred HHHHHHHHHHHhCCCeEEEEEcCCchhHHHHHHHHHHhhCCCCCEEEECChHHHHHHHHHHHH-----HHHHHH------
Confidence 455666777888999999999987667777777665543 2368887777777776655311 122222
Q ss_pred EEEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEecCeeEeecCcc
Q 020952 90 GLIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITPVELIRKGDK 169 (319)
Q Consensus 90 gliFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d~~v~~~G~~ 169 (319)
.+.++.++.+.+++++... ..++++ .|..-+++|-.
T Consensus 134 ----~G~s~~eI~~~l~~~~~~~---------~~~f~v-------------------------------~~L~~L~~gGR 169 (275)
T TIGR00762 134 ----EGKSLEEILAKLEELRERT---------KLYFVV-------------------------------DTLEYLVKGGR 169 (275)
T ss_pred ----cCCCHHHHHHHHHHHHhhc---------EEEEEE-------------------------------CcHHHHHhcCC
Confidence 2357888999888876532 111111 12222234555
Q ss_pred cChhHHHHHHHhCCCcc
Q 020952 170 VGSSEAALLAKLGIRPF 186 (319)
Q Consensus 170 v~~~~A~lL~~l~i~p~ 186 (319)
|+.-++.+-++|+|+|.
T Consensus 170 is~~~~~~g~lL~ikPI 186 (275)
T TIGR00762 170 ISKAAALIGSLLNIKPI 186 (275)
T ss_pred ccHHHHHHHHhhcceeE
Confidence 78888999999999986
No 45
>PLN00208 translation initiation factor (eIF); Provisional
Probab=42.96 E-value=27 Score=29.94 Aligned_cols=49 Identities=31% Similarity=0.249 Sum_probs=33.6
Q ss_pred CcceEEecceEEEe-cCeeEe-------ecCcc---cChhHHHHHHHhCCCcccccceeee
Q 020952 145 NIPTKINKGTVEII-TPVELI-------RKGDK---VGSSEAALLAKLGIRPFSYGLVVQS 194 (319)
Q Consensus 145 gIptki~~G~I~i~-~d~~v~-------~~G~~---v~~~~A~lL~~l~i~p~~~~l~i~~ 194 (319)
-||.|+.+ +|||. .|++++ .+|+. .+++|++-|+..|.=|..|.+.=..
T Consensus 60 ~IpGKmRK-rIWI~~GD~VlVel~~~d~~KgdIv~ry~~dqvr~Lkk~G~~P~~f~~~~~~ 119 (145)
T PLN00208 60 HIRGKMRK-KVWIAAGDIILVGLRDYQDDKADVILKYMPDEARLLKAYGELPENTRLNEGI 119 (145)
T ss_pred EEecccee-eEEecCCCEEEEEccCCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeecccc
Confidence 35666665 56665 355555 34443 6899999999999999888764433
No 46
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=42.23 E-value=30 Score=29.96 Aligned_cols=28 Identities=18% Similarity=0.237 Sum_probs=24.4
Q ss_pred cChhHHHHHHHhCCCcccccceeeeEee
Q 020952 170 VGSSEAALLAKLGIRPFSYGLVVQSVYE 197 (319)
Q Consensus 170 v~~~~A~lL~~l~i~p~~~~l~i~~~~~ 197 (319)
.+++|++-|+..|.=|..|.+.=...+.
T Consensus 95 y~~devr~Lk~~g~~P~~~~~~~~~~~~ 122 (155)
T PTZ00329 95 YTPDEARALKQHGELPETAKINETDIFD 122 (155)
T ss_pred cCHHHHHHHHHcCCCCcceeeccccccC
Confidence 7899999999999999999887766663
No 47
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=42.02 E-value=23 Score=30.58 Aligned_cols=26 Identities=8% Similarity=0.310 Sum_probs=23.8
Q ss_pred ccCeEEEEEeCC-CCcHHHHHHHHHcc
Q 020952 24 EYTQILVAAADN-VGSNQLQNIRRGLR 49 (319)
Q Consensus 24 ~y~~v~vv~~~~-v~~~ql~~iR~~Lr 49 (319)
.-+++||+|++| +++++...||.+..
T Consensus 96 ~~~r~~VldF~Gdi~A~~v~~LReeis 122 (155)
T PF08496_consen 96 PKPRLFVLDFKGDIKASEVESLREEIS 122 (155)
T ss_pred CCCeEEEEecCCCccHHHHHHHHHHHH
Confidence 468999999997 99999999999985
No 48
>cd03067 PDI_b_PDIR_N PDIb family, PDIR subfamily, N-terminal TRX-like b domain; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity. The TRX-like b domain of PDIR is critical for its chaperone activity.
Probab=39.33 E-value=79 Score=25.68 Aligned_cols=66 Identities=15% Similarity=0.217 Sum_probs=46.7
Q ss_pred cHHHHHHHHHccC--CcEEEEEehHHHHHHHHhchhhcCCccccccccccCCceEEEEecCChHHHHHHHHhhccC
Q 020952 38 SNQLQNIRRGLRG--DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVGLIFTKGDLKEVKEEVAKYKVG 111 (319)
Q Consensus 38 ~~ql~~iR~~Lr~--~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~gliFT~~dp~~v~k~l~~~k~~ 111 (319)
..+.+++.+.||- +.-+.+.|..--.-+.-.. +....+.++|+--++|-++.-.|-+++..+.++.
T Consensus 6 i~d~KdfKKLLRTr~NVLvLy~ks~k~a~~~Lk~--------~~~~A~~vkG~gT~~~vdCgd~e~kKLCKKlKv~ 73 (112)
T cd03067 6 ISDHKDFKKLLRTRNNVLVLYSKSAKSAEALLKL--------LSDVAQAVKGQGTIAWIDCGDSESRKLCKKLKVD 73 (112)
T ss_pred ccchHHHHHHHhhcCcEEEEEecchhhHHHHHHH--------HHHHHHHhcCceeEEEEecCChHHHHHHHHHccC
Confidence 4567888899984 3445566654433332222 4556667899988999999999999999999874
No 49
>PF14226 DIOX_N: non-haem dioxygenase in morphine synthesis N-terminal; PDB: 3OOX_A 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=34.01 E-value=87 Score=24.54 Aligned_cols=42 Identities=10% Similarity=0.157 Sum_probs=34.6
Q ss_pred cHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHcc
Q 020952 7 KAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLR 49 (319)
Q Consensus 7 ~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr 49 (319)
..+.+.+++++|.+.++++-.++|++. |++...++++.+..+
T Consensus 9 ~~~~~~~~~~~l~~A~~~~GFf~l~nh-Gi~~~l~~~~~~~~~ 50 (116)
T PF14226_consen 9 DPADREEVAEQLRDACEEWGFFYLVNH-GIPQELIDRVFAAAR 50 (116)
T ss_dssp CHHHHHHHHHHHHHHHHHTSEEEEESS-SSSHHHHHHHHHHHH
T ss_pred CCccHHHHHHHHHHHHHhCCEEEEecc-cccchhhHHHHHHHH
Confidence 457889999999999999888777665 899887887777765
No 50
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=30.62 E-value=5.8e+02 Score=26.31 Aligned_cols=126 Identities=14% Similarity=0.188 Sum_probs=88.9
Q ss_pred hhhhhcCcceEE--ecceEEEecCeeEeecCcccChhHHHHHHHhCCCcccccceeeeEeeC----Cccc----------
Q 020952 139 SFFQVLNIPTKI--NKGTVEIITPVELIRKGDKVGSSEAALLAKLGIRPFSYGLVVQSVYEN----GSVY---------- 202 (319)
Q Consensus 139 ~~fq~LgIptki--~~G~I~i~~d~~v~~~G~~v~~~~A~lL~~l~i~p~~~~l~i~~~~~~----g~~~---------- 202 (319)
.-|...|+|+=+ .||-+ ..+|++|+. ++....-++.+|+..++|.--....||= |.-+
T Consensus 41 E~fS~~GVPVflaDvKGDL-----sGla~~G~~-~~ki~~R~~~~gl~~~~~~~~Pv~fwdl~g~~G~PvRaTvsemGPl 114 (502)
T PF05872_consen 41 EQFSDAGVPVFLADVKGDL-----SGLAAPGEP-NEKIEERAEKLGLQDFEPRAFPVEFWDLFGEKGHPVRATVSEMGPL 114 (502)
T ss_pred HHhhhcCCcEEEeecccch-----hcccCCCCC-CHHHHHHHHHcCCCCCCCCCCCEEEEecCCCCCceEEeeHHhhchH
Confidence 667899999988 47777 789999988 7788888999999988888777777872 2110
Q ss_pred ------------------------CCCcccCChHHHHHHHHHHHHHHHHHHHHcCCCCCcChhHHHHHHHHHHHHHHHhc
Q 020952 203 ------------------------SPEVLDLSEDDLVEKFASSVSMVTALALAISYPTLAAAPHMFVNAYKNVVAVALAT 258 (319)
Q Consensus 203 ------------------------~~~~l~it~e~~~~~~~~a~~~~~~ls~~a~~pt~~~~p~~i~~a~~~~~al~~~~ 258 (319)
+...+-+|..++++++.-.-.|...++...|...+.|+-. -.+.++.|--..
T Consensus 115 LLsrlL~LNdtQ~gvL~i~F~~ADd~gLlLlDLkDLra~l~~v~e~~~e~~~~yG~is~aS~ga----I~R~ll~LE~qG 190 (502)
T PF05872_consen 115 LLSRLLELNDTQEGVLNIVFRIADDEGLLLLDLKDLRAMLQYVSENAKELSAEYGNISSASIGA----IQRALLVLEQQG 190 (502)
T ss_pred HHHHHhccchHHHHHHHHHHHHhccCCCccccHHHHHHHHHHHHhhHHHHHHHcCCccHHHHHH----HHHHHHHHHHcc
Confidence 1345567788888888888888888888888876655543 334444444332
Q ss_pred c---cCCCCcccHHHHhcCC
Q 020952 259 E---YSFPQADKVKEYLADP 275 (319)
Q Consensus 259 ~---~~~~~~~~i~~~l~~~ 275 (319)
+ |--|.. ++.||+..-
T Consensus 191 ~d~FFGEPal-di~Dl~r~~ 209 (502)
T PF05872_consen 191 GDQFFGEPAL-DIEDLMRTD 209 (502)
T ss_pred hHhhCCCccC-CHHHHhccC
Confidence 2 333443 788887654
No 51
>COG0303 MoeA Molybdopterin biosynthesis enzyme [Coenzyme metabolism]
Probab=29.35 E-value=60 Score=32.45 Aligned_cols=70 Identities=34% Similarity=0.424 Sum_probs=43.6
Q ss_pred ccCceEEeCCCCCCCCCcchhhhhhcCcceEE--ecceEEEec-CeeEe------ecCcccCh---hHHHHHHHhCCCcc
Q 020952 119 VAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKI--NKGTVEIIT-PVELI------RKGDKVGS---SEAALLAKLGIRPF 186 (319)
Q Consensus 119 iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki--~~G~I~i~~-d~~v~------~~G~~v~~---~~A~lL~~l~i~p~ 186 (319)
+++-+|++++| |-+.|.....|-.+||..-- .+=+|-|.+ .-.++ ++|+..+. -.+.+|+.+|..+.
T Consensus 142 i~~G~vil~~G-~~L~p~~i~llas~Gi~~V~V~rkprV~IisTGdELv~~~~~l~~gqI~dsN~~~l~a~l~~~G~e~~ 220 (404)
T COG0303 142 VAKGDVILRAG-TRLTPAEIALLASLGIAEVKVYRKPRVAIISTGDELVEPGQPLEPGQIYDSNSYMLAALLERAGGEVV 220 (404)
T ss_pred ccCCCEeecCC-CCcCHHHHHHHHhCCCceEEEecCCEEEEEecCccccCCCCCCCCCeEEecCHHHHHHHHHHcCCcee
Confidence 89999999999 66999988999999986432 234443321 22222 33333333 45666777776655
Q ss_pred ccc
Q 020952 187 SYG 189 (319)
Q Consensus 187 ~~~ 189 (319)
.++
T Consensus 221 ~~g 223 (404)
T COG0303 221 DLG 223 (404)
T ss_pred ecc
Confidence 444
No 52
>smart00226 LMWPc Low molecular weight phosphatase family.
Probab=28.95 E-value=64 Score=26.46 Aligned_cols=57 Identities=19% Similarity=0.200 Sum_probs=39.3
Q ss_pred EeCCCCCCCCCcchhhhhhcCcceEEecceEEEecCeeEeecCcccChhHHHHHHHhCCCccc
Q 020952 125 VVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITPVELIRKGDKVGSSEAALLAKLGIRPFS 187 (319)
Q Consensus 125 vi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d~~v~~~G~~v~~~~A~lL~~l~i~p~~ 187 (319)
+|-.|++.-+|=-..+|+++. ++.+++.+=-+....|+++++.-+.+|+..||.+..
T Consensus 3 FVC~~N~cRSpmAEa~~~~~~------~~~~~v~SAG~~~~~g~~~~~~a~~~l~~~Gid~~~ 59 (140)
T smart00226 3 FVCTGNICRSPMAEALFKAIV------GDRVKIDSAGTGAWVGGGADPRAVEVLKEHGIALSH 59 (140)
T ss_pred EEeCChhhhHHHHHHHHHHhc------CCCEEEEcCcccCCCCCCCCHHHHHHHHHcCcCccc
Confidence 455566655544457777765 335666655444458899999999999999998753
No 53
>PF12953 DUF3842: Domain of unknown function (DUF3842); InterPro: IPR024208 This family of proteins has no known function.
Probab=28.14 E-value=80 Score=26.58 Aligned_cols=76 Identities=17% Similarity=0.403 Sum_probs=52.6
Q ss_pred EEEEEeC--CCCcHHHHHHHHHccCCc-EEEEEehHHHHHHHHhchhhcCCcccccc------ccccCCceEEEEecCCh
Q 020952 28 ILVAAAD--NVGSNQLQNIRRGLRGDS-VVLMGKNTMMKRTIRMHAEKTGNTAFLNL------IPLLQGNVGLIFTKGDL 98 (319)
Q Consensus 28 v~vv~~~--~v~~~ql~~iR~~Lr~~~-~~~v~KNtl~r~Al~~~~~~~~~~~~~~L------~~~l~G~~gliFT~~dp 98 (319)
+.|+|=+ |+...-+.+||+.+..+. .+-+|=|.+.--++-+...+...+|-..+ .+++-|+.|+++.|.=.
T Consensus 2 I~VIDGQGGGiG~~iv~~lr~~~~~~~eI~AlGTNa~AT~~MlKaGA~~gATGENaIv~n~~~aDiIvGpigIv~a~sml 81 (131)
T PF12953_consen 2 IAVIDGQGGGIGKQIVEKLRKELPEEVEIIALGTNAIATSAMLKAGANEGATGENAIVVNARKADIIVGPIGIVIANSML 81 (131)
T ss_pred EEEEeCCCChhHHHHHHHHHHhCCCCcEEEEEehhHHHHHHHHHcCCCCcccccchheeccCCCCEEECcHHHhccCccc
Confidence 5666666 477888899999999754 55779999999998887666555432111 45677777777777544
Q ss_pred HHHHH
Q 020952 99 KEVKE 103 (319)
Q Consensus 99 ~~v~k 103 (319)
.|+--
T Consensus 82 GEiTp 86 (131)
T PF12953_consen 82 GEITP 86 (131)
T ss_pred ccccH
Confidence 44433
No 54
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=26.81 E-value=4e+02 Score=26.77 Aligned_cols=90 Identities=19% Similarity=0.238 Sum_probs=64.4
Q ss_pred eEEEEEeCCCC---cHHHHHHHHHccCC---cEEEE----EehHHHHHHHHhchhhcCCccccccccccCCceEEEEecC
Q 020952 27 QILVAAADNVG---SNQLQNIRRGLRGD---SVVLM----GKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVGLIFTKG 96 (319)
Q Consensus 27 ~v~vv~~~~v~---~~ql~~iR~~Lr~~---~~~~v----~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~gliFT~~ 96 (319)
.+++||--|.+ ..++.+|+.-+... -.+++ .|+.-|+.++.+.. . -+-.++|||+.
T Consensus 283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~------------~--~~i~~~I~TKl 348 (407)
T COG1419 283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFS------------L--FPIDGLIFTKL 348 (407)
T ss_pred CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhc------------c--CCcceeEEEcc
Confidence 88899999876 45667777777642 23333 57777777776542 1 35678999996
Q ss_pred ----ChHHHHHHHHhhcc-CccccCCCccCceEEeCCCC
Q 020952 97 ----DLKEVKEEVAKYKV-GAPARVGLVAPIDVVVPPGN 130 (319)
Q Consensus 97 ----dp~~v~k~l~~~k~-~~~ar~G~iA~~dVvi~~G~ 130 (319)
..+.+..++.+.+. -+|.--|..-|+||+++.-.
T Consensus 349 DET~s~G~~~s~~~e~~~PV~YvT~GQ~VPeDI~va~~~ 387 (407)
T COG1419 349 DETTSLGNLFSLMYETRLPVSYVTNGQRVPEDIVVANPD 387 (407)
T ss_pred cccCchhHHHHHHHHhCCCeEEEeCCCCCCchhhhcChH
Confidence 46778888776654 46999999999999987643
No 55
>TIGR01672 AphA HAD superfamily (subfamily IIIB) phosphatase, TIGR01672. Supporting evidence for the inclusion in the HAD superfamily, whose phosphatase members are magnesium dependent, is the inhibition by EDTA and calcium ions, and stimulation by magnesium ion.
Probab=24.81 E-value=2.2e+02 Score=26.16 Aligned_cols=122 Identities=17% Similarity=0.110 Sum_probs=60.8
Q ss_pred HHHHHHHHhccC-eEEEEEeCCC--CcHHHHHHHHHcc--CCcEEEEEehHHHHHHHHhchhhcCC--cccccccccc--
Q 020952 15 DAKLCQLLEEYT-QILVAAADNV--GSNQLQNIRRGLR--GDSVVLMGKNTMMKRTIRMHAEKTGN--TAFLNLIPLL-- 85 (319)
Q Consensus 15 v~~l~e~l~~y~-~v~vv~~~~v--~~~ql~~iR~~Lr--~~~~~~v~KNtl~r~Al~~~~~~~~~--~~~~~L~~~l-- 85 (319)
|++|++-|+.-+ ..+++|+|+. .+.... +.-+. ....+..-+|.-+.....+....+.. .+...+..++
T Consensus 51 ~~~~~~~~~~~~p~aViFDlDgTLlDSs~~~--~~G~~~~s~~~~~~l~g~~~w~~~~~~~~~~s~p~~~a~elL~~l~~ 128 (237)
T TIGR01672 51 VAQIENSLEGRPPIAVSFDIDDTVLFSSPGF--WRGKKTFSPGSEDYLKNQVFWEKVNNGWDEFSIPKEVARQLIDMHQR 128 (237)
T ss_pred HHHHHHhcCCCCCeEEEEeCCCccccCcHHH--hCCcccCCHHHhhhhcChHHHHHHHHhcccCCcchhHHHHHHHHHHH
Confidence 678888887664 4999999984 344433 21111 11224444444444444433322111 1244444444
Q ss_pred CCceEEEEecCC---hH-HHHHHHHhhccCccccCCCccCceEEeCCCCCC-CCCcchhhhhhcCc
Q 020952 86 QGNVGLIFTKGD---LK-EVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTG-LDPSQTSFFQVLNI 146 (319)
Q Consensus 86 ~G~~gliFT~~d---p~-~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~-~~p~~~~~fq~LgI 146 (319)
+|-...+.||.+ +. -+..+++.+..+.+ .++++....++ -.|++...++++|+
T Consensus 129 ~G~~i~iVTnr~~~k~~~~a~~ll~~lGi~~~--------f~~i~~~d~~~~~Kp~~~~~l~~~~i 186 (237)
T TIGR01672 129 RGDAIFFVTGRTPGKTDTVSKTLAKNFHIPAM--------NPVIFAGDKPGQYQYTKTQWIQDKNI 186 (237)
T ss_pred CCCEEEEEeCCCCCcCHHHHHHHHHHhCCchh--------eeEEECCCCCCCCCCCHHHHHHhCCC
Confidence 355677778762 33 34444445666432 24555544332 23445555556555
No 56
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=24.63 E-value=78 Score=25.34 Aligned_cols=37 Identities=27% Similarity=0.355 Sum_probs=21.5
Q ss_pred cceEEecceEEEe-cCeeEee-------cCcc---cChhHHHHHHHhCC
Q 020952 146 IPTKINKGTVEII-TPVELIR-------KGDK---VGSSEAALLAKLGI 183 (319)
Q Consensus 146 Iptki~~G~I~i~-~d~~v~~-------~G~~---v~~~~A~lL~~l~i 183 (319)
||.|+.+ +|||. .|++++. +|+. .+++|+.-|+..|.
T Consensus 50 i~GK~Rk-~IwI~~GD~VlVe~~~~~~~kg~Iv~r~~~~qv~~L~~~g~ 97 (100)
T PRK04012 50 IPGKMKK-RMWIREGDVVIVAPWDFQDEKADIIWRYTKPQVDWLRRKGY 97 (100)
T ss_pred Echhhcc-cEEecCCCEEEEEecccCCCEEEEEEEcCHHHHHHHHHcCC
Confidence 5666666 66665 4555553 3333 46777777776654
No 57
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.54 E-value=2.4e+02 Score=28.50 Aligned_cols=93 Identities=13% Similarity=0.102 Sum_probs=58.3
Q ss_pred eEEEEEeCCCCc---HHHHHHHHHccC---CcEEEEEehHHHHHHHHhchhhcCCccccccccccCCceEEEEecCC---
Q 020952 27 QILVAAADNVGS---NQLQNIRRGLRG---DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVGLIFTKGD--- 97 (319)
Q Consensus 27 ~v~vv~~~~v~~---~ql~~iR~~Lr~---~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~gliFT~~d--- 97 (319)
-++|+|.-|... .++.++++.++. ...++|.-=+.-...+... ++.+.. .|-.++|||..|
T Consensus 322 DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i--------~~~F~~--~~idglI~TKLDET~ 391 (436)
T PRK11889 322 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEI--------ITNFKD--IHIDGIVFTKFDETA 391 (436)
T ss_pred CEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHH--------HHHhcC--CCCCEEEEEcccCCC
Confidence 577888887654 357777777652 3345553223333333222 222233 478899999965
Q ss_pred -hHHHHHHHHhhccC-ccccCCCccCceEEeCCC
Q 020952 98 -LKEVKEEVAKYKVG-APARVGLVAPIDVVVPPG 129 (319)
Q Consensus 98 -p~~v~k~l~~~k~~-~~ar~G~iA~~dVvi~~G 129 (319)
...+..+...++.| .|.-.|.--|+|+..+.+
T Consensus 392 k~G~iLni~~~~~lPIsyit~GQ~VPeDI~~A~~ 425 (436)
T PRK11889 392 SSGELLKIPAVSSAPIVLMTDGQDVKKNIHIATA 425 (436)
T ss_pred CccHHHHHHHHHCcCEEEEeCCCCCCcchhhCCH
Confidence 57777888777665 477888888888876543
No 58
>COG1307 DegV Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.76 E-value=6.5e+02 Score=23.71 Aligned_cols=118 Identities=13% Similarity=0.202 Sum_probs=77.0
Q ss_pred HHHHHHHHHhc-cCeEEEEEeCCCCcHHHHHHHHHcc--CCcEEEEEehHHHHHHHHhchhhcCCccccccccccCCceE
Q 020952 14 YDAKLCQLLEE-YTQILVAAADNVGSNQLQNIRRGLR--GDSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVG 90 (319)
Q Consensus 14 ~v~~l~e~l~~-y~~v~vv~~~~v~~~ql~~iR~~Lr--~~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~g 90 (319)
+.+-+.++.++ |+.|+.+.+..-=|...+.-|...+ .+..++|.-......+++-.... ..++.+
T Consensus 69 ~~~~~~~l~~~g~~~vi~i~iSs~LSgty~~a~~a~~~~~~~~v~viDS~~~s~~~g~~v~~-----a~~l~~------- 136 (282)
T COG1307 69 FEELFEKLLQKGYDEVISIHISSGLSGTYQSAQLAAELVEGAKVHVIDSKSVSMGLGFLVLE-----AAELAK------- 136 (282)
T ss_pred HHHHHHHHHhCCCcEEEEEEcCCCccHHHHHHHHHHHhccCceEEEEcCcchhhHHHHHHHH-----HHHHHH-------
Confidence 34445555556 6688888888766777766444333 33579998888888888765321 222333
Q ss_pred EEEecCChHHHHHHHHhhccCccccCCCccCceEEeCCCCCCCCCcchhhhhhcCcceEEecceEEEecCeeEeecCccc
Q 020952 91 LIFTKGDLKEVKEEVAKYKVGAPARVGLVAPIDVVVPPGNTGLDPSQTSFFQVLNIPTKINKGTVEIITPVELIRKGDKV 170 (319)
Q Consensus 91 liFT~~dp~~v~k~l~~~k~~~~ar~G~iA~~dVvi~~G~t~~~p~~~~~fq~LgIptki~~G~I~i~~d~~v~~~G~~v 170 (319)
.+.++.++.+.+.+++.... ..-+..|..-+.+|-.|
T Consensus 137 ---~G~s~~ei~~~l~~~~~~t~----------------------------------------~~~~v~~L~~L~kgGRI 173 (282)
T COG1307 137 ---AGKSFEEILKKLEEIREKTK----------------------------------------AYFVVDDLDNLVKGGRI 173 (282)
T ss_pred ---cCCCHHHHHHHHHHHHhhcE----------------------------------------EEEEECchhHHHhCCCc
Confidence 34578889999988775321 11223344445566688
Q ss_pred ChhHHHHHHHhCCCcc
Q 020952 171 GSSEAALLAKLGIRPF 186 (319)
Q Consensus 171 ~~~~A~lL~~l~i~p~ 186 (319)
+.-++.|-++|+|+|.
T Consensus 174 s~~~a~lg~lL~ikPI 189 (282)
T COG1307 174 SKAAAFLGNLLKIKPI 189 (282)
T ss_pred chhHHHHHhhhcceEE
Confidence 9999999999999995
No 59
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=22.68 E-value=3.1e+02 Score=25.76 Aligned_cols=93 Identities=14% Similarity=0.115 Sum_probs=55.3
Q ss_pred CeEEEEEeCCCC---cHHHHHHHHHccC---CcEEEEEehHHHHHHHHhchhhcCCccccccccccCCceEEEEecCC--
Q 020952 26 TQILVAAADNVG---SNQLQNIRRGLRG---DSVVLMGKNTMMKRTIRMHAEKTGNTAFLNLIPLLQGNVGLIFTKGD-- 97 (319)
Q Consensus 26 ~~v~vv~~~~v~---~~ql~~iR~~Lr~---~~~~~v~KNtl~r~Al~~~~~~~~~~~~~~L~~~l~G~~gliFT~~d-- 97 (319)
-.++++|.-|-. ..++.++++.++. .-.++|.-=+.-..-+.+. +..+.. .+-.++|||+.|
T Consensus 155 ~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~--------~~~f~~--~~~~~~I~TKlDet 224 (270)
T PRK06731 155 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEI--------ITNFKD--IHIDGIVFTKFDET 224 (270)
T ss_pred CCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHH--------HHHhCC--CCCCEEEEEeecCC
Confidence 367788988866 5667778777653 2234443222211111111 111222 477899999965
Q ss_pred --hHHHHHHHHhhccC-ccccCCCccCceEEeCC
Q 020952 98 --LKEVKEEVAKYKVG-APARVGLVAPIDVVVPP 128 (319)
Q Consensus 98 --p~~v~k~l~~~k~~-~~ar~G~iA~~dVvi~~ 128 (319)
...+..+...++.| .|.-.|.--|+|+....
T Consensus 225 ~~~G~~l~~~~~~~~Pi~~it~Gq~vp~di~~a~ 258 (270)
T PRK06731 225 ASSGELLKIPAVSSAPIVLMTDGQDVKKNIHIAT 258 (270)
T ss_pred CCccHHHHHHHHHCcCEEEEeCCCCCCcchhhCC
Confidence 56777777776655 47777888888776544
No 60
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=22.34 E-value=1.1e+02 Score=23.39 Aligned_cols=37 Identities=35% Similarity=0.377 Sum_probs=19.9
Q ss_pred CcceEEecceEEEe-cCeeEeecC-------c---ccChhHHHHHHHhC
Q 020952 145 NIPTKINKGTVEII-TPVELIRKG-------D---KVGSSEAALLAKLG 182 (319)
Q Consensus 145 gIptki~~G~I~i~-~d~~v~~~G-------~---~v~~~~A~lL~~l~ 182 (319)
-||.|+.+ +|||. .|++++..- + +.+.+|.+-|++.|
T Consensus 33 ~ipgK~Rk-~iwI~~GD~VlVe~~~~~~~kg~Iv~r~~~~~vk~L~k~g 80 (83)
T smart00652 33 RIPGKMRK-KVWIRRGDIVLVDPWDFQDVKADIIYKYTKDEVRWLKKEG 80 (83)
T ss_pred EEchhhcc-cEEEcCCCEEEEEecCCCCCEEEEEEEeCHHHHHHHHHcC
Confidence 35666665 56664 455555422 1 24566666666554
No 61
>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family. A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.
Probab=22.24 E-value=4e+02 Score=21.03 Aligned_cols=76 Identities=9% Similarity=0.136 Sum_probs=52.4
Q ss_pred HHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccCC--cEEEEEehHHHHH-HHH-hchhhcCCccccccccccCCceE
Q 020952 15 DAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRGD--SVVLMGKNTMMKR-TIR-MHAEKTGNTAFLNLIPLLQGNVG 90 (319)
Q Consensus 15 v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~~--~~~~v~KNtl~r~-Al~-~~~~~~~~~~~~~L~~~l~G~~g 90 (319)
-..|+..-..-+-++.+.=+|++-+-+.+++..|... .++++.+|.--.+ .+- ...+.. -..+... -|++.
T Consensus 6 r~~Lr~~ah~l~p~v~IGK~Glt~~vi~ei~~aL~~hELIKVkvl~~~~~~~~e~a~~i~~~~----~a~~Vq~-iG~~~ 80 (95)
T TIGR00253 6 KRHLRGKAHHLKPVVLVGKNGLTEGVIKEIEQALEHRELIKVKVATEDREDKTLIAEALVKET----GACNVQV-IGKTI 80 (95)
T ss_pred HHHHHHHhCCCCCeEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCChhHHHHHHHHHHHHH----CCEEEEE-EccEE
Confidence 3458888888999999999999999999999999864 6788888853322 222 211111 1223333 49999
Q ss_pred EEEec
Q 020952 91 LIFTK 95 (319)
Q Consensus 91 liFT~ 95 (319)
++|-.
T Consensus 81 vlYR~ 85 (95)
T TIGR00253 81 VLYRP 85 (95)
T ss_pred EEEec
Confidence 99864
No 62
>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate.
Probab=22.02 E-value=75 Score=28.98 Aligned_cols=54 Identities=24% Similarity=0.308 Sum_probs=37.2
Q ss_pred cccChhHHHHHHHhCCCcccccce--eeeEeeCCcccCCCcccCChHHHHHHHHHHH
Q 020952 168 DKVGSSEAALLAKLGIRPFSYGLV--VQSVYENGSVYSPEVLDLSEDDLVEKFASSV 222 (319)
Q Consensus 168 ~~v~~~~A~lL~~l~i~p~~~~l~--i~~~~~~g~~~~~~~l~it~e~~~~~~~~a~ 222 (319)
..-|.+.|-||++||++...|... +...|.....|. +.++-+...+...|.+|.
T Consensus 45 SiWTIDLayLL~~f~v~~~f~T~TlGvnp~y~~~~FY~-~~~~~D~~RV~~lF~~A~ 100 (212)
T PF09778_consen 45 SIWTIDLAYLLRRFGVRHSFYTVTLGVNPNYSVESFYK-KNFDEDENRVNRLFQKAK 100 (212)
T ss_pred ceehhHHHHHHHHcCCCeeEecCccccCcCccccchHH-HhhhhHHHHHHHHHHHHH
Confidence 346789999999999998666655 566676666665 555555566655555544
No 63
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=21.13 E-value=60 Score=22.71 Aligned_cols=18 Identities=22% Similarity=0.600 Sum_probs=15.1
Q ss_pred hhhhhhcCcceEEecceE
Q 020952 138 TSFFQVLNIPTKINKGTV 155 (319)
Q Consensus 138 ~~~fq~LgIptki~~G~I 155 (319)
..+++.+|||+++..|-.
T Consensus 17 ~~llr~~GIpar~v~g~~ 34 (68)
T smart00460 17 VALLRSLGIPARVVSGYL 34 (68)
T ss_pred HHHHHHCCCCeEEEeeee
Confidence 467899999999998753
No 64
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=20.91 E-value=1e+02 Score=28.37 Aligned_cols=19 Identities=32% Similarity=0.515 Sum_probs=16.4
Q ss_pred cHHHHHHHHHccCCcEEEE
Q 020952 38 SNQLQNIRRGLRGDSVVLM 56 (319)
Q Consensus 38 ~~ql~~iR~~Lr~~~~~~v 56 (319)
+++|+++|+-||.++++++
T Consensus 162 ~k~L~e~~rlLRpgG~iif 180 (252)
T KOG4300|consen 162 VKQLNEVRRLLRPGGRIIF 180 (252)
T ss_pred HHHHHHHHHhcCCCcEEEE
Confidence 7899999999998777655
No 65
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=20.74 E-value=61 Score=23.68 Aligned_cols=37 Identities=16% Similarity=0.142 Sum_probs=29.5
Q ss_pred cHHHHHHHHHHHHHHHhccCeEEEEEeCCCCcHHHHHHHHHccC
Q 020952 7 KAEKKIAYDAKLCQLLEEYTQILVAAADNVGSNQLQNIRRGLRG 50 (319)
Q Consensus 7 ~~e~K~~~v~~l~e~l~~y~~v~vv~~~~v~~~ql~~iR~~Lr~ 50 (319)
..+.|..++++++.+...-+ -+-....+++|++.|+.
T Consensus 32 n~~~K~~Li~~~~~l~~~~d-------~~~~~~~~k~l~~~Wk~ 68 (77)
T PF03993_consen 32 NLEKKEALIEEAEALAESED-------WKEAAEEIKELQQEWKE 68 (77)
T ss_pred HHHHHHHHHHHHHHhccccc-------HHHHHHHHHHHHHHHHH
Confidence 56789999999988887655 34447889999999985
No 66
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=20.50 E-value=89 Score=23.64 Aligned_cols=13 Identities=23% Similarity=0.307 Sum_probs=7.3
Q ss_pred cChhHHHHHHHhC
Q 020952 170 VGSSEAALLAKLG 182 (319)
Q Consensus 170 v~~~~A~lL~~l~ 182 (319)
.+++|.+-|+..|
T Consensus 63 ~~~~~v~~L~~~g 75 (77)
T cd05793 63 YTPDEVRWLKRKG 75 (77)
T ss_pred cCHHHHHHHHHcC
Confidence 4556666665544
Done!