Query 035720
Match_columns 217
No_of_seqs 189 out of 1241
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 05:44:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035720.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035720hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0816 Protein involved in mR 100.0 6.8E-65 1.5E-69 416.6 16.1 203 1-204 1-215 (223)
2 PTZ00135 60S acidic ribosomal 100.0 6.2E-60 1.4E-64 418.9 20.2 190 16-206 3-202 (310)
3 PTZ00240 60S ribosomal protein 100.0 4.1E-59 8.9E-64 413.8 20.5 187 19-206 4-209 (323)
4 cd05795 Ribosomal_P0_L10e Ribo 100.0 3.7E-56 8.1E-61 366.6 17.5 165 21-186 1-175 (175)
5 PRK04019 rplP0 acidic ribosoma 100.0 3.4E-54 7.5E-59 385.9 14.2 189 18-206 3-199 (330)
6 cd05796 Ribosomal_P0_like Ribo 100.0 5.8E-51 1.3E-55 332.2 15.7 151 21-172 1-163 (163)
7 KOG0815 60S acidic ribosomal p 100.0 5.7E-50 1.2E-54 332.5 16.3 195 15-210 2-206 (245)
8 COG0244 RplJ Ribosomal protein 100.0 1.1E-31 2.5E-36 221.0 3.7 165 19-201 4-174 (175)
9 cd00379 Ribosomal_L10_P0 Ribos 99.9 7E-23 1.5E-27 164.5 6.8 113 21-134 1-122 (155)
10 PF00466 Ribosomal_L10: Riboso 99.9 4.7E-22 1E-26 149.1 8.4 93 18-110 1-100 (100)
11 PRK00099 rplJ 50S ribosomal pr 99.8 3.1E-21 6.7E-26 158.3 8.7 104 19-131 2-111 (172)
12 cd05797 Ribosomal_L10 Ribosoma 99.8 4.8E-21 1E-25 154.8 8.6 94 19-112 1-100 (157)
13 PRK04019 rplP0 acidic ribosoma 97.3 0.00024 5.1E-09 64.2 4.4 164 24-200 35-219 (330)
14 KOG4241 Mitochondrial ribosoma 96.2 0.012 2.6E-07 49.8 5.7 82 26-108 78-165 (245)
15 PTZ00329 eukaryotic translatio 80.9 3.1 6.7E-05 33.8 4.6 52 146-198 60-122 (155)
16 PF07697 7TMR-HDED: 7TM-HD ext 79.8 1.3 2.8E-05 36.7 2.2 27 158-184 193-219 (222)
17 PF03622 IBV_3B: IBV 3B protei 71.5 4.2 9.2E-05 27.7 2.5 28 184-216 34-61 (64)
18 PF14226 DIOX_N: non-haem diox 65.1 19 0.00042 26.5 5.4 42 19-61 9-50 (116)
19 PF08496 Peptidase_S49_N: Pept 64.8 11 0.00023 30.6 4.1 27 36-62 96-123 (155)
20 PLN00208 translation initiatio 62.7 13 0.00028 29.9 4.1 46 146-192 60-116 (145)
21 PF08800 VirE_N: VirE N-termin 59.9 17 0.00037 28.5 4.3 33 31-63 24-56 (136)
22 PF07905 PucR: Purine cataboli 50.5 27 0.00058 26.6 4.0 81 63-151 11-104 (123)
23 PF14552 Tautomerase_2: Tautom 46.7 25 0.00055 25.2 3.1 36 1-36 23-58 (82)
24 PF06781 UPF0233: Uncharacteri 45.5 8.3 0.00018 28.3 0.4 14 1-14 1-14 (87)
25 PRK00159 putative septation in 42.4 10 0.00022 27.9 0.4 13 1-13 1-13 (87)
26 COG1480 Predicted membrane-ass 40.8 24 0.00051 35.2 2.8 28 161-188 244-271 (700)
27 smart00460 TGc Transglutaminas 35.3 26 0.00057 23.0 1.6 19 137-155 15-33 (68)
28 PLN02276 gibberellin 20-oxidas 33.3 1.1E+02 0.0024 27.9 5.8 51 10-61 44-94 (361)
29 PLN03176 flavanone-3-hydroxyla 30.5 1.8E+02 0.0039 22.1 5.8 40 21-61 51-90 (120)
30 PF03993 DUF349: Domain of Unk 29.2 35 0.00077 23.3 1.5 38 18-62 31-68 (77)
31 KOG3414 Component of the U4/U6 29.0 3E+02 0.0064 21.9 7.3 76 23-107 41-118 (142)
32 PF01985 CRS1_YhbY: CRS1 / Yhb 28.8 48 0.001 23.7 2.2 32 30-61 9-40 (84)
33 smart00652 eIF1a eukaryotic tr 28.6 77 0.0017 22.8 3.2 39 145-184 32-81 (83)
34 COG1576 Uncharacterized conser 28.1 2.4E+02 0.0053 22.9 6.3 43 20-62 50-94 (155)
35 smart00455 RBD Raf-like Ras-bi 28.0 57 0.0012 22.6 2.4 33 162-194 13-45 (70)
36 PLN03178 leucoanthocyanidin di 26.3 1.7E+02 0.0037 26.6 5.8 51 10-61 51-101 (360)
37 PF01841 Transglut_core: Trans 26.2 51 0.0011 23.7 2.0 25 134-158 57-81 (113)
38 PLN02393 leucoanthocyanidin di 25.3 2E+02 0.0044 26.1 6.1 51 10-61 55-105 (362)
39 PF02196 RBD: Raf-like Ras-bin 24.6 1E+02 0.0022 21.3 3.1 34 162-195 14-47 (71)
40 cd01760 RBD Ubiquitin-like dom 24.6 77 0.0017 22.2 2.5 35 161-195 12-46 (72)
41 PRK02251 putative septation in 24.2 34 0.00074 25.1 0.7 13 1-13 1-13 (87)
42 PRK04012 translation initiatio 23.4 88 0.0019 23.4 2.8 38 146-184 49-97 (100)
43 PF07370 DUF1489: Protein of u 23.3 66 0.0014 25.6 2.2 86 61-147 46-136 (137)
44 TIGR01602 PY-rept-46 Plasmodiu 23.2 25 0.00055 22.2 -0.1 21 3-23 1-21 (46)
45 PRK01964 4-oxalocrotonate taut 23.1 1.1E+02 0.0024 20.2 3.0 27 10-36 4-30 (64)
46 PRK07451 translation initiatio 22.8 1.3E+02 0.0028 23.2 3.7 63 87-154 51-115 (115)
47 PF10454 DUF2458: Protein of u 22.5 34 0.00074 27.5 0.4 40 133-182 105-144 (150)
48 cd04456 S1_IF1A_like S1_IF1A_l 22.3 1.2E+02 0.0026 21.5 3.2 37 146-183 28-76 (78)
49 PF03453 MoeA_N: MoeA N-termin 21.9 84 0.0018 25.1 2.6 24 160-183 139-162 (162)
50 PTZ00321 ribosomal protein L11 21.4 91 0.002 28.3 2.9 86 97-186 28-133 (342)
51 cd00887 MoeA MoeA family. Memb 21.2 1.6E+02 0.0034 27.2 4.6 30 160-189 136-165 (394)
52 cd05792 S1_eIF1AD_like S1_eIF1 20.5 1.7E+02 0.0036 21.0 3.6 21 146-167 28-49 (78)
53 PRK03573 transcriptional regul 20.2 1.3E+02 0.0029 23.0 3.4 50 2-61 82-131 (144)
No 1
>KOG0816 consensus Protein involved in mRNA turnover [RNA processing and modification]
Probab=100.00 E-value=6.8e-65 Score=416.62 Aligned_cols=203 Identities=52% Similarity=0.859 Sum_probs=198.8
Q ss_pred CCCCCCCcceeccccccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc---
Q 035720 1 MPKSKRDRPVTLSKTKKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS--- 76 (217)
Q Consensus 1 mp~skr~~~v~ltk~~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A--- 76 (217)
||||||+|.||||+|+||++|+|+.++++|++++++|+++||+++.|||+.-+++||.+|+ +|+|++||| +|++|
T Consensus 1 MprSkRdk~vtL~kt~KKg~e~K~~i~~~ir~~vd~Y~~v~Vf~~~nMRn~~lk~iR~~~k-~sr~f~GknKVm~vaLG~ 79 (223)
T KOG0816|consen 1 MPRSKRDKKVTLTKTAKKGKEKKEAIVEEIREAVDKYPYVFVFEVPNMRNTTLKEIRQDFK-NSRFFFGKNKVMQVALGR 79 (223)
T ss_pred CCccccccccchhHhhhhhHHHHHHHHHHHHHHHhhCCeEEEEEcCCcchHHHHHHHHHhh-ccceecchhhHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999999999999 899999999 99999
Q ss_pred --------ccccccccccCcEEEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCc
Q 035720 77 --------QAYKVSKFLCGNTGLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMP 148 (217)
Q Consensus 77 --------~~~~L~~~L~G~~aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgip 148 (217)
++++++..|+|.+||+|||.++.++.++|.+|...+|||+|++||.+|+||+||+.+++|+|+|+||+||||
T Consensus 80 ~~~dE~~~~l~klskll~G~~GLlFTd~~keeV~e~f~sy~~~DyaR~g~vA~~Tv~ip~Gpl~~f~hsmEP~lRklglP 159 (223)
T KOG0816|consen 80 SREDEYKENLYKLSKLLKGSVGLLFTDMSKEEVIEWFRSYVEEDYARAGDVAPETVTIPEGPLEQFAHSMEPQLRKLGLP 159 (223)
T ss_pred CchhhHHHHHHHhhhhccCceEEEecCCCHHHHHHHHHHHHHHhhhccCCcCcceEeecCcchhhcccccchhhHhhcCc
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEecceEEEecceEEEecCcccChhHHHHHHHcCCceeEEEEEEEEEEeCCceEE
Q 035720 149 VRLNKGVVELVSDFVVCEEGKPLSPESARILRLLGIKMATFKLHLICRWSAEDFEL 204 (217)
Q Consensus 149 tki~~G~i~i~~d~~v~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~~~~~g~~~~ 204 (217)
|++++|+|+|.+||+||++|++++++||+||++||+++++|++.++++|+..+.+.
T Consensus 160 t~lk~G~vtL~sdy~VCeEG~~Ld~rqA~ILKlfg~kma~Fkl~~~~~w~~s~~~~ 215 (223)
T KOG0816|consen 160 TKLKKGVVTLLSDYTVCEEGDVLDPRQAKILKLFGKKMAKFKLAVKAYWSKSSGQK 215 (223)
T ss_pred eeecCCeEEEecCceeecCCcccCHHHHHHHHHHhHhhHhheEEEEEEEcCcccee
Confidence 99999999999999999999999999999999999999999999999999655443
No 2
>PTZ00135 60S acidic ribosomal protein P0; Provisional
Probab=100.00 E-value=6.2e-60 Score=418.85 Aligned_cols=190 Identities=22% Similarity=0.364 Sum_probs=183.6
Q ss_pred ccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc---------ccccccccc
Q 035720 16 KKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS---------QAYKVSKFL 85 (217)
Q Consensus 16 ~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A---------~~~~L~~~L 85 (217)
++.+++||.+++++|++++++|+.++|++|+||+++|+++||+.||++++++|||| ||++| +++.|.++|
T Consensus 3 ~~~~re~K~~~v~~l~e~l~~y~~v~vv~~~nv~s~ql~~iR~~LR~~a~~~vgKNTL~r~AL~~~~~~~~~l~~L~~~L 82 (310)
T PTZ00135 3 KPEKKAKKKAYFEKLYELLEKYKKILIVSVDNVGSKQMQDIRRSLRGKAELLMGKNTLIRKALKQRLEELPELEKLLPHV 82 (310)
T ss_pred cchhHHHHHHHHHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHhcCCEEEEEehHHHHHHHhhCcccccChHHHHhhc
Confidence 45678999999999999999999999999999999999999999998899999999 99999 278999999
Q ss_pred cCcEEEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecceEEE
Q 035720 86 CGNTGLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDFVVC 165 (217)
Q Consensus 86 ~G~~aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v~ 165 (217)
+|++||+|||+||.+++++|.+|++++|||+|.+||+||+||+|||+ |+|+++++||+|||||+|++|+|+|.+|++||
T Consensus 83 kG~~gliFTn~dp~ev~k~l~~~k~~~~AKaG~iAp~dv~ip~G~t~-~~P~~~~~fq~LgipTkI~kG~I~I~~d~~v~ 161 (310)
T PTZ00135 83 KGNVGFVFTKDDLFEVKPVILENKVPAPARAGVIAPIDVVIPAGPTG-MDPSQTSFFQALGIATKIVKGQIEITNEVHLI 161 (310)
T ss_pred cCCEEEEEECCCHHHHHHHHHHcCCccccccCCCCCceEEEcCCCCC-CCcchhhHHHHcCCceEecCCeEEEecCeEEe
Confidence 99999999999999999999999999999999999999999999998 88889999999999999999999999999999
Q ss_pred ecCcccChhHHHHHHHcCCceeEEEEEEEEEEeCCceEEcc
Q 035720 166 EEGKPLSPESARILRLLGIKMATFKLHLICRWSAEDFELYR 206 (217)
Q Consensus 166 k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~~~~~g~~~~~~ 206 (217)
++||+||++||+||++|||+|++|+|+|+++||+|.+|.-+
T Consensus 162 k~Ge~v~~~~A~LL~~L~I~p~~~~l~~~~~yd~g~~~~~~ 202 (310)
T PTZ00135 162 KEGQKVGASQAVLLQKLNIKPFSYGLEVLSIYDNGSIYDAK 202 (310)
T ss_pred cCCCCcCHHHHHHHHHcCCCeEEEEEEEEEEEECCeEeCHH
Confidence 99999999999999999999999999999999999998843
No 3
>PTZ00240 60S ribosomal protein P0; Provisional
Probab=100.00 E-value=4.1e-59 Score=413.81 Aligned_cols=187 Identities=20% Similarity=0.335 Sum_probs=179.5
Q ss_pred ChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc------c-----cccc-----
Q 035720 19 GKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS------Q-----AYKV----- 81 (217)
Q Consensus 19 ~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A------~-----~~~L----- 81 (217)
.++||.+++++|++++++|++++||+++|++++|||+||+.||++++++|||| ||++| + +++|
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 36789999999999999999999999999999999999999998899999999 99999 1 5566
Q ss_pred --cccccCcEEEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEe
Q 035720 82 --SKFLCGNTGLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELV 159 (217)
Q Consensus 82 --~~~L~G~~aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~ 159 (217)
.++|+|++||+|||+||+++.++|++|+.++|||+|++||+||+||+|||+ |+|+++++||+|||||+|++|+|+|.
T Consensus 84 ~~~~~l~GnvgliFTn~~p~ev~~~l~~~k~~a~AraG~IAp~dVvvpaG~T~-~~P~~~s~fq~LGIpTkI~kGkIeI~ 162 (323)
T PTZ00240 84 EEKNLLSGNTGLIFTNNEVQEITSVLDSHRVKAPARVGAIAPCDVIVPAGSTG-MEPTQTSFFQALNIATKIAKGMVEIV 162 (323)
T ss_pred cccccccCCEEEEEeCCCHHHHHHHHHHcCCcccccCCCCCCceEEECCCCCC-CCCcchHHHHHcCCCeEecCcEEEEe
Confidence 499999999999999999999999999999999999999999999999999 88889999999999999999999999
Q ss_pred cceEEEecCcccChhHHHHHHHcCCceeEEEEEEEEEEeCCceEEcc
Q 035720 160 SDFVVCEEGKPLSPESARILRLLGIKMATFKLHLICRWSAEDFELYR 206 (217)
Q Consensus 160 ~d~~v~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~~~~~g~~~~~~ 206 (217)
+|++||++||+||++||+||++|||+|++|+|+|+++||+|.+|.-+
T Consensus 163 ~d~~v~k~Ge~V~~~~A~LL~~L~IkP~~~gl~l~~vyd~g~i~~~~ 209 (323)
T PTZ00240 163 TEKKVLSVGDKVDNSTATLLQKLNISPFYYQVEVLSVWDRGVLFTRE 209 (323)
T ss_pred cCeEEecCCCCcCHHHHHHHHHcCCCeEEEEEEEEEEEeCCeecCHH
Confidence 99999999999999999999999999999999999999999998743
No 4
>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=3.7e-56 Score=366.60 Aligned_cols=165 Identities=24% Similarity=0.445 Sum_probs=161.1
Q ss_pred hHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc---------ccccccccccCcEE
Q 035720 21 EHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS---------QAYKVSKFLCGNTG 90 (217)
Q Consensus 21 e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A---------~~~~L~~~L~G~~a 90 (217)
+||.+++++|++++++|++++|++|+||+++|+++||+.||++++|+|||| ||++| +++.|.++|+|++|
T Consensus 1 ~~K~~~v~el~e~l~~~~~v~v~~~~gl~~~ql~~lR~~lr~~~~~~v~KNtL~~~Al~~~~~~~~~~~~L~~~l~G~~~ 80 (175)
T cd05795 1 EWKKEYVEKLTELLKSYPKVLIVDADNVGSKQLQKIRRSLRGKAEILMGKNTLIRRALRNLGDENPELEKLLPYLKGNVG 80 (175)
T ss_pred ChHHHHHHHHHHHHHhCCEEEEEEecCCChHHHHHHHHHhhCCCEEEEechHHHHHHHHhcccccccHHHHHHHhcCCEE
Confidence 689999999999999999999999999999999999999998799999999 99999 27789999999999
Q ss_pred EEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecceEEEecCcc
Q 035720 91 LFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDFVVCEEGKP 170 (217)
Q Consensus 91 liFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G~~ 170 (217)
|+||++||++++++|++|+.++|||+|++||+||+||+|||+ |||+++++||+|||||+|++|+|+|.+|++||++||+
T Consensus 81 liFt~~dp~~v~k~l~~~~~~~~ar~G~iA~~dvvi~~G~t~-~~p~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G~~ 159 (175)
T cd05795 81 FIFTNGDPFEIRKILEENKVPAPAKPGAIAPCDVVVPAGPTG-MPPGPTSFFQALGIPTKIEKGKIEIISDVVVVKKGEK 159 (175)
T ss_pred EEEECCCHHHHHHHHHHcCCcccccCCCccCceEEEcCCCcC-CCCCchHHHHHcCCceEEecCEEEEecCeEEecCCCC
Confidence 999999999999999999999999999999999999999999 8888899999999999999999999999999999999
Q ss_pred cChhHHHHHHHcCCce
Q 035720 171 LSPESARILRLLGIKM 186 (217)
Q Consensus 171 i~~~qA~lL~~lgi~p 186 (217)
||++||+||++|||+|
T Consensus 160 v~~~~A~lL~~l~i~P 175 (175)
T cd05795 160 VGASEATLLNKLNIKP 175 (175)
T ss_pred cCHHHHHHHHHcCCCC
Confidence 9999999999999998
No 5
>PRK04019 rplP0 acidic ribosomal protein P0; Validated
Probab=100.00 E-value=3.4e-54 Score=385.92 Aligned_cols=189 Identities=25% Similarity=0.369 Sum_probs=184.6
Q ss_pred CChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc----c---cccccccccCcE
Q 035720 18 KGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS----Q---AYKVSKFLCGNT 89 (217)
Q Consensus 18 k~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A----~---~~~L~~~L~G~~ 89 (217)
+.++||.++|++|+++|++|++++|++|+||+++|+++||++||+.++|+|||| ||++| + ++.|.++|+|++
T Consensus 3 ~~~e~K~~~v~el~~~l~~~~~v~iv~~~gl~~~ql~~lR~~lr~~~~~~v~KNtL~~~Al~~~~~~~~~~L~~~l~G~~ 82 (330)
T PRK04019 3 HVPEWKKEEVEELKELIKSYPVVGIVDLEGIPARQLQEIRRKLRGKAELKVSKNTLIKRALEEAGEEDLEKLEDYLEGQV 82 (330)
T ss_pred chHHHHHHHHHHHHHHHHhCCEEEEEEcCCCCHHHHHHHHHHHHcCCEEEEEehHHHHHHHHhcCcccHHHHHhhccCCE
Confidence 558999999999999999999999999999999999999999998799999999 99999 5 889999999999
Q ss_pred EEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecceEEEecCc
Q 035720 90 GLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDFVVCEEGK 169 (217)
Q Consensus 90 aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G~ 169 (217)
||+|||+||++++++|.+|+.++|||+|++||+||+||+|||+..||+++++||+|||||+|++|+|+|.+|++||++|+
T Consensus 83 alift~~dp~~v~k~l~~~~~~~~ak~G~iA~~divip~G~t~~~P~~~~~~l~~lgipt~i~~G~I~i~~~~~v~~~G~ 162 (330)
T PRK04019 83 ALIFTNMNPFKLYKLLEKSKTPAPAKPGDIAPEDIVVPAGPTGFPPGPILSELQKLGIPARIQKGKIVIKKDTVVAKAGE 162 (330)
T ss_pred EEEEECCCHHHHHHHHHHcCCcccCCCCCCCCCeEEEcCCCCCCCCcccHHHHHHcCCCeEecCCEEEEecCeEEecCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccChhHHHHHHHcCCceeEEEEEEEEEEeCCceEEcc
Q 035720 170 PLSPESARILRLLGIKMATFKLHLICRWSAEDFELYR 206 (217)
Q Consensus 170 ~i~~~qA~lL~~lgi~p~~~~l~l~~~~~~g~~~~~~ 206 (217)
+|+++||++|++|||+|++|++++.++|++|.+|..+
T Consensus 163 ~v~~~~a~lL~~LgI~p~~~~~~i~a~~~~G~~~~~~ 199 (330)
T PRK04019 163 VISPELANVLQKLGIKPIEVGLDLKAAYEDGVIYTPE 199 (330)
T ss_pred CcCHHHHHHHHHcCCCHHHhhhHHHHHHhcCCccCHH
Confidence 9999999999999999999999999999999988754
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=5.8e-51 Score=332.21 Aligned_cols=151 Identities=54% Similarity=0.884 Sum_probs=147.4
Q ss_pred hHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc-----------ccccccccccCc
Q 035720 21 EHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS-----------QAYKVSKFLCGN 88 (217)
Q Consensus 21 e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A-----------~~~~L~~~L~G~ 88 (217)
+||.+++++|+++|++|++++|++|+||+++|+++||++||+. +|+|||| ||++| +++.|.++|+|+
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 6999999999999999999999999999999999999999976 9999999 99999 277899999999
Q ss_pred EEEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecceEEEecC
Q 035720 89 TGLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDFVVCEEG 168 (217)
Q Consensus 89 ~aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G 168 (217)
+||+|||+||++++++|.+|+.++|||+|++||+||+||+|||+.+||+|+++||+|||||+|++|+|+|.+|++||++|
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q 035720 169 KPLS 172 (217)
Q Consensus 169 ~~i~ 172 (217)
|+||
T Consensus 160 ~~v~ 163 (163)
T cd05796 160 KVLT 163 (163)
T ss_pred CCCc
Confidence 9986
No 7
>KOG0815 consensus 60S acidic ribosomal protein P0 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.7e-50 Score=332.48 Aligned_cols=195 Identities=20% Similarity=0.319 Sum_probs=187.2
Q ss_pred cccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhcc---------cccccccc
Q 035720 15 TKKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYS---------QAYKVSKF 84 (217)
Q Consensus 15 ~~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A---------~~~~L~~~ 84 (217)
++...++||..+..++++++++|+.++++..+|+.+.|||++|+.||+++++.|||| +||+| .++.+.++
T Consensus 2 ~~~~~~e~k~~y~~K~~~L~~~y~~~~~v~~dnv~s~ql~~ir~~lrg~a~vlmgkntm~rrair~~~~~~~~~~~llp~ 81 (245)
T KOG0815|consen 2 VRADKAEKKAVYFTKLRQLFEEYPKCFVVGADNVGSTQLQNIRKQLRGDAVVLMGKNTMMRRAIRGHLENNPALEKLLPV 81 (245)
T ss_pred cchhhhHHHHHHHHHHHHHHHhcCceEEEeecchhhHHHHHHHHHhcCceeeeechhHHHHHHHHhccCCcHHHHhhccc
Confidence 456678999999999999999999999999999999999999999999999999999 99999 46789999
Q ss_pred ccCcEEEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecceEE
Q 035720 85 LCGNTGLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDFVV 164 (217)
Q Consensus 85 L~G~~aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v 164 (217)
++|+++|+||++|..++.+.+.++++.++||+|++||+||+||+++|+ |.|..++|||+|||||||.+|+|||.+|+.+
T Consensus 82 ~~g~vgfvftk~~L~ei~~~i~~n~~~apar~GaiAp~dV~V~~~nTg-~~P~ktsfFQaLgIpTKIsrGtiEIlsdV~l 160 (245)
T KOG0815|consen 82 VKGNVGFVFTKGDLKEIRKEIIENKVGAPARVGAIAPIDVTVPAQNTG-LGPEKTSFFQALGIPTKISRGTIEILSDVQL 160 (245)
T ss_pred eeeceeEEEEeccHHHHHHHHHhcccccccccCCcCCceEEeccccCC-CCcchhhhhhhcCCceeeecceEEeccccee
Confidence 999999999999999999999999999999999999999999999999 9999999999999999999999999999999
Q ss_pred EecCcccChhHHHHHHHcCCceeEEEEEEEEEEeCCceEEccCCCc
Q 035720 165 CEEGKPLSPESARILRLLGIKMATFKLHLICRWSAEDFELYREGLD 210 (217)
Q Consensus 165 ~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~~~~~g~~~~~~~~~~ 210 (217)
+++||+|+++||.||.+|||+||.|||.+..+||||.+|.=|.-|.
T Consensus 161 ik~GDKVGaSEAtLLnmL~IsPFsyGLvv~qVyDnGsiy~pevLDi 206 (245)
T KOG0815|consen 161 IKTGDKVGASEATLLNMLNISPFSYGLVVQQVYDNGSIYNPEVLDI 206 (245)
T ss_pred eccCCccChhHHHHHhhhCCCccccceEEEEEecCCcccChhhcCC
Confidence 9999999999999999999999999999999999999998654333
No 8
>COG0244 RplJ Ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.1e-31 Score=220.95 Aligned_cols=165 Identities=18% Similarity=0.287 Sum_probs=157.9
Q ss_pred ChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcC-CCeEEEecc-hhhcc----ccccccccccCcEEEE
Q 035720 19 GKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKP-SRLLWVGRY-PMRYS----QAYKVSKFLCGNTGLF 92 (217)
Q Consensus 19 ~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~-~~~~~v~KN-l~~~A----~~~~L~~~L~G~~ali 92 (217)
.++||.++|+++++.|++|++++|+||+|+++.|+++||++||+ +++++|+|| |+++| +.+.|.++|+||+|++
T Consensus 4 ~~e~K~~~v~el~e~~~~s~~~~i~dy~Gl~~~ql~~lR~~lr~~g~~lkV~KNtL~~rAl~~~~~e~l~~~l~Gp~ai~ 83 (175)
T COG0244 4 AREWKKELVAELKELIKESPSVVIVDYRGLTVAQLTELRKKLREAGAKLKVVKNTLLRRALEEAGLEGLDDLLKGPTAIA 83 (175)
T ss_pred cHHHHHHHHHHHHHHHhhCCEEEEEEeCCCcHHHHHHHHHHHHhCCcEEEEEhhHHHHHHHHhcchhhHHHhccCCeEEE
Confidence 46999999999999999999999999999999999999999996 599999999 99999 8888999999999999
Q ss_pred EecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecceEEEecCcccC
Q 035720 93 LTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDFVVCEEGKPLS 172 (217)
Q Consensus 93 Ft~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G~~i~ 172 (217)
||++||.+++|++.+|.++. |++++.++.+++|+ .+++|+.+..|+|.+.++.++...|....
T Consensus 84 fs~~dp~~~~K~~~~f~k~~----~~~~~~~~~~~eg~-------------~l~~~~v~~~aklp~~~el~~~l~g~~~a 146 (175)
T COG0244 84 FSNEDPVAAAKLLKDFAKEA----GDKAPIKGGVPEGK-------------VLGAAEVIALAKLPSKEELVVMLLGVLQA 146 (175)
T ss_pred EecCCHHHHHHHHHHHhhhh----cccceEEEEEecCc-------------ccCHHHHHHHhcCCcHHHHHHHHHHhhHh
Confidence 99999999999999987765 89999999999997 69999999999999999999999999999
Q ss_pred hhHHHHHHHcCCceeEEEEEEEEEEeCCc
Q 035720 173 PESARILRLLGIKMATFKLHLICRWSAED 201 (217)
Q Consensus 173 ~~qA~lL~~lgi~p~~~~l~l~~~~~~g~ 201 (217)
|.. .++..|++.|..+++++.++|++|.
T Consensus 147 p~~-~~~~~L~a~~~~~~~~~~a~~~~g~ 174 (175)
T COG0244 147 PAT-KLLRALKAVPDKVGLKLLAAYEKGV 174 (175)
T ss_pred hHH-HHHHHHhccHHHHhhHHHHhhccCC
Confidence 999 9999999999999999999999875
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=99.88 E-value=7e-23 Score=164.47 Aligned_cols=113 Identities=28% Similarity=0.409 Sum_probs=106.3
Q ss_pred hHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCC-CeEEEecc-hhhcc----ccccccccccCcEEEEEe
Q 035720 21 EHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPS-RLLWVGRY-PMRYS----QAYKVSKFLCGNTGLFLT 94 (217)
Q Consensus 21 e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~-~~~~v~KN-l~~~A----~~~~L~~~L~G~~aliFt 94 (217)
++|..+++++++.|++|+.+++++|+|++++++++||++|++. ++++|+|| ||++| +++.+.++|+|++|++||
T Consensus 1 ~~K~~~v~~l~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~~v~KNtl~~~Al~~t~~~~~~~~l~G~~~~~f~ 80 (155)
T cd00379 1 EKKEELVEELKELLKKYKSVVVVDYRGLTVAQLTELRKELRESGAKLKVGKNTLMRRALKGTGFEELKPLLKGPTALAFT 80 (155)
T ss_pred CchHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEEEEEehHHHHHHHcCCCccchhhhCcCCEEEEEe
Confidence 5799999999999999999999999999999999999999964 89999999 99999 788999999999999999
Q ss_pred cCCHHHHHHHHhhcccc---cccccCCCccceEEeCCCCCCCC
Q 035720 95 NMPKEEVESLFNKYEDY---DFARTGSTATEKVELPEGPLEQF 134 (217)
Q Consensus 95 ~~dp~~v~k~l~~~~~~---~~ak~G~ia~~dv~I~~G~~~~~ 134 (217)
++||.++++++.+|.+. .++++|.++ .+|+.|.+.+..-
T Consensus 81 ~~~~~~~~k~~~~~~k~~~~~~~k~g~~~-~~v~~~~~~~~l~ 122 (155)
T cd00379 81 NEDPVEVAKVLKDFAKENKKLFAKGGVVA-GKVLDPAGVTALA 122 (155)
T ss_pred CCChHHHHHHHHHHHHhCCCceEEEEEEc-CEecCHHHHHHHh
Confidence 99999999999999988 899999999 8999999866533
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=99.87 E-value=4.7e-22 Score=149.08 Aligned_cols=93 Identities=22% Similarity=0.353 Sum_probs=87.3
Q ss_pred CChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcC-CCeEEEecc-hhhcc----ccc-cccccccCcEE
Q 035720 18 KGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKP-SRLLWVGRY-PMRYS----QAY-KVSKFLCGNTG 90 (217)
Q Consensus 18 k~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~-~~~~~v~KN-l~~~A----~~~-~L~~~L~G~~a 90 (217)
+++++|.++++++++.|++|+.+++++|+|++++|+++||++||+ +++++|+|| ||++| +.+ .|.++|+|++|
T Consensus 1 m~~~~K~~~v~~~~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~~v~KN~l~~~Al~~~~~~~~l~~~l~G~~~ 80 (100)
T PF00466_consen 1 MTKEKKEEIVEELKELLKKSKYVIVVDYNGLSANQLQELRKELRKKGGKFKVVKNTLMKKALKNTGFEEALSPLLKGPTA 80 (100)
T ss_dssp -SCHHHHHHHHHHHHHHHCSSEEEEEECTTSCHHHHHHHHHHHHHHTEEEEECSHHHHHHHHHHHHTSSSSSCCTSSSEE
T ss_pred CcHHHHHHHHHHHHHHHHhCCEEEEEEeCCCCHHHHHHHHHHHHhcCcEEEEecHHHHHHHHhcCccccCccccccCCEE
Confidence 368999999999999999999999999999999999999999997 499999999 99999 666 79999999999
Q ss_pred EEEecCCHHHHHHHHhhccc
Q 035720 91 LFLTNMPKEEVESLFNKYED 110 (217)
Q Consensus 91 liFt~~dp~~v~k~l~~~~~ 110 (217)
++||++||.++++++.+|.+
T Consensus 81 ~if~~~d~~~~~k~l~~~~K 100 (100)
T PF00466_consen 81 LIFSNEDPFEIAKILKKFAK 100 (100)
T ss_dssp EEEESSSHHHHHHHHHHSTT
T ss_pred EEEECCCHHHHHHHHHHhcC
Confidence 99999999999999998753
No 11
>PRK00099 rplJ 50S ribosomal protein L10; Reviewed
Probab=99.85 E-value=3.1e-21 Score=158.32 Aligned_cols=104 Identities=15% Similarity=0.263 Sum_probs=94.6
Q ss_pred ChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcC-CCeEEEecc-hhhcc----ccccccccccCcEEEE
Q 035720 19 GKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKP-SRLLWVGRY-PMRYS----QAYKVSKFLCGNTGLF 92 (217)
Q Consensus 19 ~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~-~~~~~v~KN-l~~~A----~~~~L~~~L~G~~ali 92 (217)
.|++|.+++++|++++++|+.+++++|+|++++|+++||++||+ +++++|+|| ||++| +++.|.++|+|++|++
T Consensus 2 ~r~~K~~~v~~l~~~l~~~~~v~v~~~~gl~~~~~~~lR~~lr~~~~~~~V~KNtL~~~Al~~~~~~~l~~~l~G~~al~ 81 (172)
T PRK00099 2 NREEKKEIVAELAEKLKKAQSAVVADYRGLTVAQMTELRKKLREAGVEYKVVKNTLARRALEGTGFEGLDDLLKGPTAIA 81 (172)
T ss_pred CHHHHHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEEEEehhHHHHHHHhcCCchhhhhhCcCCeEEE
Confidence 57899999999999999999999999999999999999999996 589999999 99999 8899999999999999
Q ss_pred EecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCC
Q 035720 93 LTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPL 131 (217)
Q Consensus 93 Ft~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~ 131 (217)
||++||.++++++.+|.+.. ..+.+.+|.+
T Consensus 82 fs~~d~~~~~k~l~~f~K~~---------~~~~l~gg~~ 111 (172)
T PRK00099 82 FSYEDPVAAAKVLKDFAKDN---------KKLEIKGGAI 111 (172)
T ss_pred EeCCChHHHHHHHHHHHhhC---------cCceEEEEEE
Confidence 99999999999999986643 2356666654
No 12
>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=4.8e-21 Score=154.80 Aligned_cols=94 Identities=16% Similarity=0.284 Sum_probs=89.2
Q ss_pred ChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcC-CCeEEEecc-hhhcc----ccccccccccCcEEEE
Q 035720 19 GKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKP-SRLLWVGRY-PMRYS----QAYKVSKFLCGNTGLF 92 (217)
Q Consensus 19 ~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~-~~~~~v~KN-l~~~A----~~~~L~~~L~G~~ali 92 (217)
.+++|.++++++++++++|+.+++++|+|++++|+++||++||+ +++++|+|| ||++| +++.+.++|+|++|++
T Consensus 1 ~~~~K~~~v~~l~~~l~~~~~v~v~~~~gl~~~~~~~lR~~lr~~~~~~~V~KNtL~~~Al~~t~~~~l~~~l~G~~al~ 80 (157)
T cd05797 1 NREKKEEIVAELKEKLKEAKSVVVADYRGLTVAQLTELRKELREAGVKLKVVKNTLAKRALEGTGFEDLDDLLKGPTAIA 80 (157)
T ss_pred ChHHHHHHHHHHHHHHHhCCEEEEEecCCCcHHHHHHHHHHHHHcCCEEEEehhHHHHHHHhcCCchhhHhhCcCCEEEE
Confidence 37899999999999999999999999999999999999999996 489999999 99999 7889999999999999
Q ss_pred EecCCHHHHHHHHhhccccc
Q 035720 93 LTNMPKEEVESLFNKYEDYD 112 (217)
Q Consensus 93 Ft~~dp~~v~k~l~~~~~~~ 112 (217)
||++||.++++++.+|.+..
T Consensus 81 f~~~d~~~~~k~l~~f~k~~ 100 (157)
T cd05797 81 FSEEDPVAAAKVLKDFAKEN 100 (157)
T ss_pred EeCCChHHHHHHHHHHHHhC
Confidence 99999999999999987754
No 13
>PRK04019 rplP0 acidic ribosomal protein P0; Validated
Probab=97.33 E-value=0.00024 Score=64.20 Aligned_cols=164 Identities=13% Similarity=0.133 Sum_probs=114.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecC----CCc---HHHHHHHHHhcCCCeEEEecc-hhhcc----ccccccccccC----
Q 035720 24 EVIVNSIRNAVENYKSIYVFSFEN----MRN---LKFKEFREQIKPSRLLWVGRY-PMRYS----QAYKVSKFLCG---- 87 (217)
Q Consensus 24 ~~~v~~l~e~l~~y~~v~i~~~~g----l~~---~ql~~lR~~lr~~~~~~v~KN-l~~~A----~~~~L~~~L~G---- 87 (217)
...+.+||..+.....+.+.--+= +.. ..+..|-..|++..-+.+.+. ....+ .+..-...=.|
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 445788888888764444432111 111 237778888887766777765 66555 11111111111
Q ss_pred cEEEE---EecCCHHHHHHHHhhcccccccccCC--CccceEEeCCCCCCCCCCCchHHHHhcCCceEEecceEEEecce
Q 035720 88 NTGLF---LTNMPKEEVESLFNKYEDYDFARTGS--TATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKGVVELVSDF 162 (217)
Q Consensus 88 ~~ali---Ft~~dp~~v~k~l~~~~~~~~ak~G~--ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G~i~i~~d~ 162 (217)
...++ -|+.+|..+...|.+...+..++.|. +++.++++++|.+ +++.....|++|||+....++++ .
T Consensus 115 ~divip~G~t~~~P~~~~~~l~~lgipt~i~~G~I~i~~~~~v~~~G~~--v~~~~a~lL~~LgI~p~~~~~~i-----~ 187 (330)
T PRK04019 115 EDIVVPAGPTGFPPGPILSELQKLGIPARIQKGKIVIKKDTVVAKAGEV--ISPELANVLQKLGIKPIEVGLDL-----K 187 (330)
T ss_pred CeEEEcCCCCCCCCcccHHHHHHcCCCeEecCCEEEEecCeEEecCCCC--cCHHHHHHHHHcCCCHHHhhhHH-----H
Confidence 11222 35678999999999999999999999 9999999999987 77788999999999999999988 5
Q ss_pred EEEecCcccChhHHHHHHHcCCceeEEEEEEEEEEeCC
Q 035720 163 VVCEEGKPLSPESARILRLLGIKMATFKLHLICRWSAE 200 (217)
Q Consensus 163 ~v~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~~~~~g 200 (217)
.+...|..++++.+ +|.|..+...+..+|.++
T Consensus 188 a~~~~G~~~~~~~l------~i~~e~~~~~i~~A~~~a 219 (330)
T PRK04019 188 AAYEDGVIYTPEVL------AIDEEKYRSDIQEAAQNA 219 (330)
T ss_pred HHHhcCCccCHHHc------cCCHHHHHHHHHHHHHHH
Confidence 66788999998877 677666665555555443
No 14
>KOG4241 consensus Mitochondrial ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=96.17 E-value=0.012 Score=49.76 Aligned_cols=82 Identities=11% Similarity=0.110 Sum_probs=72.2
Q ss_pred HHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcC-CCeEEEecc-hhhcc----ccccccccccCcEEEEEecCCHH
Q 035720 26 IVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKP-SRLLWVGRY-PMRYS----QAYKVSKFLCGNTGLFLTNMPKE 99 (217)
Q Consensus 26 ~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~-~~~~~v~KN-l~~~A----~~~~L~~~L~G~~aliFt~~dp~ 99 (217)
...++...++++..+.++.+--+++.++--.|..||. +.+|+..=| +++.+ .++.|.+.+.||.+++|+. |+.
T Consensus 78 ~~re~~~v~~~~R~~Avcq~~~v~a~d~~~~r~QLrk~ni~~ksygnkIlk~~~~~t~y~~l~plfvgnh~ill~~-d~~ 156 (245)
T KOG4241|consen 78 NLREDWMVREEFRVMAVCQFLPVPARDLWFARNQLRKKNIEFKSYGNKILKKIFDKTPYSSLNPLFVGNHAILLAK-DIS 156 (245)
T ss_pred HHHHHHHHHhhhhheeeeecccCcHHHHHHHHHHHHhccchhhhchHHHHHHHHhcCchhhhhhheeccceEEEcC-ChH
Confidence 4456788899999999999999999999999999995 689999999 99999 7899999999999999985 567
Q ss_pred HHHHHHhhc
Q 035720 100 EVESLFNKY 108 (217)
Q Consensus 100 ~v~k~l~~~ 108 (217)
+++.++...
T Consensus 157 kik~~lri~ 165 (245)
T KOG4241|consen 157 KIKSILRIT 165 (245)
T ss_pred HHHHHHHHH
Confidence 777777554
No 15
>PTZ00329 eukaryotic translation initiation factor 1A; Provisional
Probab=80.95 E-value=3.1 Score=33.78 Aligned_cols=52 Identities=19% Similarity=0.257 Sum_probs=38.7
Q ss_pred CCceEEecceEEEe-cceEEE-------ecCc---ccChhHHHHHHHcCCceeEEEEEEEEEEe
Q 035720 146 GMPVRLNKGVVELV-SDFVVC-------EEGK---PLSPESARILRLLGIKMATFKLHLICRWS 198 (217)
Q Consensus 146 giptki~~G~i~i~-~d~~v~-------k~G~---~i~~~qA~lL~~lgi~p~~~~l~l~~~~~ 198 (217)
-||.|+.+ .|||. .|++++ .+|+ ..++.|++-|+..|.=|..|.+.=.-.+.
T Consensus 60 ~I~GKmRK-~IWI~~GD~VlVel~~yd~~KgdIi~Ry~~devr~Lk~~g~~P~~~~~~~~~~~~ 122 (155)
T PTZ00329 60 HIRGKMRK-RVWINIGDIILVSLRDFQDSKADVILKYTPDEARALKQHGELPETAKINETDIFD 122 (155)
T ss_pred Eeecccee-eEEecCCCEEEEeccCCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeeccccccC
Confidence 36777776 46665 466655 3444 46899999999999999999988766664
No 16
>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=79.83 E-value=1.3 Score=36.71 Aligned_cols=27 Identities=22% Similarity=0.348 Sum_probs=23.2
Q ss_pred EecceEEEecCcccChhHHHHHHHcCC
Q 035720 158 LVSDFVVCEEGKPLSPESARILRLLGI 184 (217)
Q Consensus 158 i~~d~~v~k~G~~i~~~qA~lL~~lgi 184 (217)
|.+.-+++++|+.||+++..+|..||+
T Consensus 193 V~~Ge~IV~kGe~VT~e~~~~L~~l~~ 219 (222)
T PF07697_consen 193 VKKGEVIVRKGEIVTEEQYEKLESLGL 219 (222)
T ss_pred ccCCCEEecCCcEeCHHHHHHHHHcCC
Confidence 344557889999999999999999986
No 17
>PF03622 IBV_3B: IBV 3B protein ; InterPro: IPR005295 These proteins are the product of ORF 3B from Infectious bronchitis virus). Currently, the function of this protein remains unknown [].
Probab=71.48 E-value=4.2 Score=27.69 Aligned_cols=28 Identities=11% Similarity=0.097 Sum_probs=22.3
Q ss_pred CceeEEEEEEEEEEeCCceEEccCCCccccccC
Q 035720 184 IKMATFKLHLICRWSAEDFELYREGLDESDVES 216 (217)
Q Consensus 184 i~p~~~~l~l~~~~~~g~~~~~~~~~~~~~~~~ 216 (217)
..||++ ++|..|.++++|..++..+||+
T Consensus 34 FDPFE~-----cyyrgGsfwEieSad~~Sgdde 61 (64)
T PF03622_consen 34 FDPFEV-----CYYRGGSFWEIESADEFSGDDE 61 (64)
T ss_pred cCCeeE-----EEEecCcEEEeecccccCCccc
Confidence 346664 8899999999999888877764
No 18
>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=65.07 E-value=19 Score=26.47 Aligned_cols=42 Identities=12% Similarity=0.281 Sum_probs=36.0
Q ss_pred ChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 19 GKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 19 ~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
..+.+.+++++|.+.+.++-.++|++. |++...++++.+..+
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 567899999999999999999888765 999988888877665
No 19
>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=64.79 E-value=11 Score=30.58 Aligned_cols=27 Identities=19% Similarity=0.501 Sum_probs=24.7
Q ss_pred cCCeEEEEEecC-CCcHHHHHHHHHhcC
Q 035720 36 NYKSIYVFSFEN-MRNLKFKEFREQIKP 62 (217)
Q Consensus 36 ~y~~v~i~~~~g-l~~~ql~~lR~~lr~ 62 (217)
.-+.+||+||+| +++++...||.+.-.
T Consensus 96 ~~~r~~VldF~Gdi~A~~v~~LReeisa 123 (155)
T PF08496_consen 96 PKPRLFVLDFKGDIKASEVESLREEISA 123 (155)
T ss_pred CCCeEEEEecCCCccHHHHHHHHHHHHH
Confidence 579999999999 999999999999863
No 20
>PLN00208 translation initiation factor (eIF); Provisional
Probab=62.72 E-value=13 Score=29.86 Aligned_cols=46 Identities=20% Similarity=0.375 Sum_probs=35.3
Q ss_pred CCceEEecceEEEe-cceEEE-------ecCc---ccChhHHHHHHHcCCceeEEEEE
Q 035720 146 GMPVRLNKGVVELV-SDFVVC-------EEGK---PLSPESARILRLLGIKMATFKLH 192 (217)
Q Consensus 146 giptki~~G~i~i~-~d~~v~-------k~G~---~i~~~qA~lL~~lgi~p~~~~l~ 192 (217)
-||.++.+ .|||. .|++++ .+|+ ..+++|++-|+..|.=|..|.+.
T Consensus 60 ~IpGKmRK-rIWI~~GD~VlVel~~~d~~KgdIv~ry~~dqvr~Lkk~G~~P~~f~~~ 116 (145)
T PLN00208 60 HIRGKMRK-KVWIAAGDIILVGLRDYQDDKADVILKYMPDEARLLKAYGELPENTRLN 116 (145)
T ss_pred EEecccee-eEEecCCCEEEEEccCCCCCEEEEEEEcCHHHHHHHHHcCCCCcceeec
Confidence 37777777 67775 477776 4454 35899999999999999988874
No 21
>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=59.88 E-value=17 Score=28.49 Aligned_cols=33 Identities=12% Similarity=0.341 Sum_probs=29.3
Q ss_pred HHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCC
Q 035720 31 RNAVENYKSIYVFSFENMRNLKFKEFREQIKPS 63 (217)
Q Consensus 31 ~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~ 63 (217)
...+..|+.++++|++++...++.++|+.+..+
T Consensus 24 ~~~l~~~sglv~lDiD~l~~ee~~~~r~~l~~~ 56 (136)
T PF08800_consen 24 ADNLKAYSGLVVLDIDHLDPEEAEELRQLLFED 56 (136)
T ss_pred hhhhhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Confidence 346778999999999999999999999999854
No 22
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=50.51 E-value=27 Score=26.61 Aligned_cols=81 Identities=20% Similarity=0.299 Sum_probs=55.7
Q ss_pred CCeEEEecc-hhhcc------ccccccccccCcEEEE-----EecCCHHHHHHHHhhcccccccccCCCccceEEeCCC-
Q 035720 63 SRLLWVGRY-PMRYS------QAYKVSKFLCGNTGLF-----LTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEG- 129 (217)
Q Consensus 63 ~~~~~v~KN-l~~~A------~~~~L~~~L~G~~ali-----Ft~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G- 129 (217)
++++.-|++ +-+.. ...+..++++|.--++ +.++++.+...++.+.... |. .-+.|.-|
T Consensus 11 ~~~lvaG~~gL~r~V~~v~v~e~~d~~~~l~~gElvlttg~~~~~~~~~~~~~~i~~L~~~-----~~---agL~i~~~~ 82 (123)
T PF07905_consen 11 DAKLVAGENGLDRPVRWVHVMEAPDPSDWLRGGELVLTTGYALRDDDEEELREFIRELAEK-----GA---AGLGIKTGR 82 (123)
T ss_pred CCEEecCCccCCCcEEEEEEeecCCHHHhCCCCeEEEECCcccCCCCHHHHHHHHHHHHHC-----CC---eEEEEeccC
Confidence 467888888 77666 5556777888874444 4444677788887664332 22 14566666
Q ss_pred CCCCCCCCchHHHHhcCCceEE
Q 035720 130 PLEQFTHEMEPFLRKQGMPVRL 151 (217)
Q Consensus 130 ~~~~~~~~~~~~~~~lgiptki 151 (217)
....+|..+.....++++|.-.
T Consensus 83 ~~~~iP~~~i~~A~~~~lPli~ 104 (123)
T PF07905_consen 83 YLDEIPEEIIELADELGLPLIE 104 (123)
T ss_pred ccccCCHHHHHHHHHcCCCEEE
Confidence 5557999999999999999744
No 23
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=46.66 E-value=25 Score=25.23 Aligned_cols=36 Identities=8% Similarity=0.219 Sum_probs=26.9
Q ss_pred CCCCCCCcceeccccccCChhHHHHHHHHHHHHHhc
Q 035720 1 MPKSKRDRPVTLSKTKKKGKEHKEVIVNSIRNAVEN 36 (217)
Q Consensus 1 mp~skr~~~v~ltk~~kk~~e~K~~~v~~l~e~l~~ 36 (217)
++||.+--.++.|.-+-++.+.|.+++..|.+.|..
T Consensus 23 ~~Rs~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~ 58 (82)
T PF14552_consen 23 IDRSDDFVIIQITSGAGRSTEQKKALYRALAERLAE 58 (82)
T ss_dssp -TS-TT-EEEEEEECS---HHHHHHHHHHHHHHHHH
T ss_pred CCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence 468888888899998899999999999999999875
No 24
>PF06781 UPF0233: Uncharacterised protein family (UPF0233); InterPro: IPR009619 This is a group of proteins of unknown function.
Probab=45.45 E-value=8.3 Score=28.31 Aligned_cols=14 Identities=36% Similarity=0.522 Sum_probs=11.1
Q ss_pred CCCCCCCcceeccc
Q 035720 1 MPKSKRDRPVTLSK 14 (217)
Q Consensus 1 mp~skr~~~v~ltk 14 (217)
||+||..|+-.-|-
T Consensus 1 MPkSk~rKk~~~~~ 14 (87)
T PF06781_consen 1 MPKSKVRKKAAYTP 14 (87)
T ss_pred CCCccccccccCCC
Confidence 99999987776653
No 25
>PRK00159 putative septation inhibitor protein; Reviewed
Probab=42.43 E-value=10 Score=27.89 Aligned_cols=13 Identities=38% Similarity=0.554 Sum_probs=10.1
Q ss_pred CCCCCCCcceecc
Q 035720 1 MPKSKRDRPVTLS 13 (217)
Q Consensus 1 mp~skr~~~v~lt 13 (217)
||+||+.|+-.-|
T Consensus 1 MPkSK~RKk~~~t 13 (87)
T PRK00159 1 MPKSKVRKKNDFT 13 (87)
T ss_pred CCCccccCCCCCC
Confidence 9999998874444
No 26
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=40.84 E-value=24 Score=35.16 Aligned_cols=28 Identities=29% Similarity=0.467 Sum_probs=24.1
Q ss_pred ceEEEecCcccChhHHHHHHHcCCceeE
Q 035720 161 DFVVCEEGKPLSPESARILRLLGIKMAT 188 (217)
Q Consensus 161 d~~v~k~G~~i~~~qA~lL~~lgi~p~~ 188 (217)
+.+++++|+.|+.++..+|++||+---+
T Consensus 244 gqiIv~~ge~It~~~~~~L~~lgl~~~s 271 (700)
T COG1480 244 GQIIVKEGEIITDEDYVILDLLGLLSLS 271 (700)
T ss_pred CceEeecCceecHHHHHHHHHhhHHhcc
Confidence 5678999999999999999999875443
No 27
>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=35.32 E-value=26 Score=22.98 Aligned_cols=19 Identities=32% Similarity=0.581 Sum_probs=16.1
Q ss_pred CchHHHHhcCCceEEecce
Q 035720 137 EMEPFLRKQGMPVRLNKGV 155 (217)
Q Consensus 137 ~~~~~~~~lgiptki~~G~ 155 (217)
-+...+|.+|||+++..|-
T Consensus 15 l~~~llr~~GIpar~v~g~ 33 (68)
T smart00460 15 LFVALLRSLGIPARVVSGY 33 (68)
T ss_pred HHHHHHHHCCCCeEEEeee
Confidence 4567899999999999883
No 28
>PLN02276 gibberellin 20-oxidase
Probab=33.31 E-value=1.1e+02 Score=27.87 Aligned_cols=51 Identities=10% Similarity=0.064 Sum_probs=39.2
Q ss_pred eeccccccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 10 VTLSKTKKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 10 v~ltk~~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
|.|+.-.....+.+.+++++|.++++++-+++|++ +|++...+++++...+
T Consensus 44 IDls~~~~~~~~~~~~~~~~l~~Ac~~~GFF~l~n-HGI~~~l~~~~~~~~~ 94 (361)
T PLN02276 44 IDLGGFLSGDEAATAEAARLVREACLKHGFFQVVN-HGVDAALIRAAHEYMD 94 (361)
T ss_pred EEChhhcCCChHHHHHHHHHHHHHHHHCcEEEEEc-CCCCHHHHHHHHHHHH
Confidence 45554332234557789999999999999999887 8999998888877665
No 29
>PLN03176 flavanone-3-hydroxylase; Provisional
Probab=30.52 E-value=1.8e+02 Score=22.13 Aligned_cols=40 Identities=20% Similarity=0.262 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 21 EHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 21 e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
+.+.+++++|.+.+.++-.++|++ +|++...+.++....+
T Consensus 51 ~~~~~~~~~L~~A~~~~GFf~l~n-hGi~~elid~~~~~~~ 90 (120)
T PLN03176 51 EKRAEICNKIVEACEEWGVFQIVD-HGVDAKLVSEMTTLAK 90 (120)
T ss_pred hHHHHHHHHHHHHHHHCCEEEEEC-CCCCHHHHHHHHHHHH
Confidence 346778999999999998777775 7899888888776554
No 30
>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=29.19 E-value=35 Score=23.28 Aligned_cols=38 Identities=18% Similarity=0.227 Sum_probs=30.7
Q ss_pred CChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcC
Q 035720 18 KGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKP 62 (217)
Q Consensus 18 k~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~ 62 (217)
...+.|.++++++..+....+ -.-....+++|+..|+.
T Consensus 31 ~n~~~K~~Li~~~~~l~~~~d-------~~~~~~~~k~l~~~Wk~ 68 (77)
T PF03993_consen 31 ENLEKKEALIEEAEALAESED-------WKEAAEEIKELQQEWKE 68 (77)
T ss_pred HHHHHHHHHHHHHHHhccccc-------HHHHHHHHHHHHHHHHH
Confidence 346789999999988887666 45667889999999985
No 31
>KOG3414 consensus Component of the U4/U6.U5 snRNP/mitosis protein DIM1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=29.04 E-value=3e+02 Score=21.90 Aligned_cols=76 Identities=18% Similarity=0.348 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhcCCCeEEEecc-hhhccccccccccccC-cEEEEEecCCHHH
Q 035720 23 KEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIKPSRLLWVGRY-PMRYSQAYKVSKFLCG-NTGLFLTNMPKEE 100 (217)
Q Consensus 23 K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr~~~~~~v~KN-l~~~A~~~~L~~~L~G-~~aliFt~~dp~~ 100 (217)
=.++.+.+.+.++++-.+|++|.+.+ ..+.+.=.---.-+.+++..| =|++- +=+| ++-+.|.-++..+
T Consensus 41 mD~~L~~i~~~vsnfa~IylvdideV--~~~~~~~~l~~p~tvmfFfn~kHmkiD-------~gtgdn~Kin~~~~~kq~ 111 (142)
T KOG3414|consen 41 MDELLSSIAEDVSNFAVIYLVDIDEV--PDFVKMYELYDPPTVMFFFNNKHMKID-------LGTGDNNKINFAFEDKQE 111 (142)
T ss_pred HHHHHHHHHHHHhhceEEEEEecchh--hhhhhhhcccCCceEEEEEcCceEEEe-------eCCCCCceEEEEeccHHH
Confidence 35688999999999999999999943 334443322223478888888 66554 2233 4566676678777
Q ss_pred HHHHHhh
Q 035720 101 VESLFNK 107 (217)
Q Consensus 101 v~k~l~~ 107 (217)
...+++-
T Consensus 112 ~Idiie~ 118 (142)
T KOG3414|consen 112 FIDIIET 118 (142)
T ss_pred HHHHHHH
Confidence 7777755
No 32
>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain. The name chloroplast RNA splicing and ribosome maturation (CRM) has been suggested to reflect the functions established for the four characterised members of the family: Zea mays (Maize) CRS1 (Q9FYT6 from SWISSPROT), CAF1 (Q84N49 from SWISSPROT) and CAF2 (Q84N48 from SWISSPROT) proteins and the Escherichia coli protein YhbY (P0AGK4 from SWISSPROT). The CRM domain is found in eubacteria, archaea, and plants. The CRM domain is represented as a stand-alone protein in archaea and bacteria, and in single- and multi-domain proteins in plants. It has been suggested that prokaryotic CRM proteins existed as ribosome-associated proteins prior to the divergence of archaea and bacteria, and that they were co-opted in the plant lineage as RNA binding modules by incorporation into diverse protein contexts. Plant CRM domains are predicted to reside not only in the chloroplast, but also in the mitochondrion and the nucleo/cytoplasmic compartment. The diversity of the CRM domain family in plants suggests a diverse set of RNA targets [, ]. The CRM domain is a compact alpha/beta domain consisting of a four-stranded beta sheet and three alpha helices with an alpha-beta-alpha-beta-alpha-beta-beta topology. The beta sheet face is basic, consistent with a role in RNA binding. Proximal to the basic beta sheet face is another moiety that could contribute to nucleic acid recognition. Connecting strand beta1 and helix alpha2 is a loop with a six amino acid motif, GxxG flanked by large aliphatic residues, within which one 'x' is typically a basic residue []. Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants []. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing []. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes []. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome [].; GO: 0003723 RNA binding; PDB: 1RQ8_A 1JO0_B 1LN4_A.
Probab=28.82 E-value=48 Score=23.69 Aligned_cols=32 Identities=9% Similarity=0.252 Sum_probs=14.1
Q ss_pred HHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 30 IRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 30 l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
|+.....-+-++-+.=+|++-+-+++++..|.
T Consensus 9 Lr~~a~~l~p~v~IGk~Glt~~vi~~i~~~l~ 40 (84)
T PF01985_consen 9 LRKLAHHLKPVVQIGKNGLTDGVIEEIDDALE 40 (84)
T ss_dssp HHHHHTTC--SEEE-TTSS-HHHHHHHHHHHH
T ss_pred HHHHhcCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence 44444444444555555555555555555554
No 33
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=28.63 E-value=77 Score=22.79 Aligned_cols=39 Identities=21% Similarity=0.298 Sum_probs=23.9
Q ss_pred cCCceEEecceEEEe-cceEEEecCc----------ccChhHHHHHHHcCC
Q 035720 145 QGMPVRLNKGVVELV-SDFVVCEEGK----------PLSPESARILRLLGI 184 (217)
Q Consensus 145 lgiptki~~G~i~i~-~d~~v~k~G~----------~i~~~qA~lL~~lgi 184 (217)
.-||.++.+ .|+|. .|++++..-+ .++++|.+-|+..|.
T Consensus 32 a~ipgK~Rk-~iwI~~GD~VlVe~~~~~~~kg~Iv~r~~~~~vk~L~k~g~ 81 (83)
T smart00652 32 ARIPGKMRK-KVWIRRGDIVLVDPWDFQDVKADIIYKYTKDEVRWLKKEGE 81 (83)
T ss_pred EEEchhhcc-cEEEcCCCEEEEEecCCCCCEEEEEEEeCHHHHHHHHHcCC
Confidence 347777776 66664 5777775332 345666666666553
No 34
>COG1576 Uncharacterized conserved protein [Function unknown]
Probab=28.14 E-value=2.4e+02 Score=22.87 Aligned_cols=43 Identities=14% Similarity=0.237 Sum_probs=37.3
Q ss_pred hhHHHHHHHHHHHHHhcCCeEEEEEecC--CCcHHHHHHHHHhcC
Q 035720 20 KEHKEVIVNSIRNAVENYKSIYVFSFEN--MRNLKFKEFREQIKP 62 (217)
Q Consensus 20 ~e~K~~~v~~l~e~l~~y~~v~i~~~~g--l~~~ql~~lR~~lr~ 62 (217)
...|++.=+.|...+...++++..|.+| +++.++.+.=..|+.
T Consensus 50 ~~~~~~E~~~il~~i~~~~~vi~Ld~~Gk~~sSe~fA~~l~~~~~ 94 (155)
T COG1576 50 ELIKKKEGEAILAAIPKGSYVVLLDIRGKALSSEEFADFLERLRD 94 (155)
T ss_pred HHHHHHHHHHHHHhcCCCCeEEEEecCCCcCChHHHHHHHHHHHh
Confidence 3567777788999999999999999999 999999999998884
No 35
>smart00455 RBD Raf-like Ras-binding domain.
Probab=27.96 E-value=57 Score=22.58 Aligned_cols=33 Identities=21% Similarity=0.263 Sum_probs=30.4
Q ss_pred eEEEecCcccChhHHHHHHHcCCceeEEEEEEE
Q 035720 162 FVVCEEGKPLSPESARILRLLGIKMATFKLHLI 194 (217)
Q Consensus 162 ~~v~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~ 194 (217)
.+.+++|+.+..-.+.+|++-|+.|..+.+.+.
T Consensus 13 ~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~ 45 (70)
T smart00455 13 VVKVRPGKTVRDALAKALKKRGLNPECCVVRLR 45 (70)
T ss_pred EEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEc
Confidence 467899999999999999999999999998875
No 36
>PLN03178 leucoanthocyanidin dioxygenase; Provisional
Probab=26.35 E-value=1.7e+02 Score=26.60 Aligned_cols=51 Identities=16% Similarity=0.241 Sum_probs=38.5
Q ss_pred eeccccccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 10 VTLSKTKKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 10 v~ltk~~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
+.|+.-.....+.+.+++++|.+++.++-+++|++ +|++...+.++....+
T Consensus 51 IDls~~~~~~~~~~~~~~~~l~~Ac~~~GFF~l~n-HGI~~~l~~~~~~~~~ 101 (360)
T PLN03178 51 VDLSNIESDDEVVREACVEAVRAAAAEWGVMHLVG-HGIPADLLDRVRKAGE 101 (360)
T ss_pred EEchhhcCCChhhHHHHHHHHHHHHHHCCEEEEEc-CCCCHHHHHHHHHHHH
Confidence 44544433344557789999999999999999986 9999888888765544
No 37
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=26.22 E-value=51 Score=23.72 Aligned_cols=25 Identities=28% Similarity=0.511 Sum_probs=18.6
Q ss_pred CCCCchHHHHhcCCceEEecceEEE
Q 035720 134 FTHEMEPFLRKQGMPVRLNKGVVEL 158 (217)
Q Consensus 134 ~~~~~~~~~~~lgiptki~~G~i~i 158 (217)
+..-+...+|++|||+++.-|...-
T Consensus 57 ~a~l~~allr~~Gipar~v~g~~~~ 81 (113)
T PF01841_consen 57 YASLFVALLRALGIPARVVSGYVKG 81 (113)
T ss_dssp HHHHHHHHHHHHT--EEEEEEEEEE
T ss_pred HHHHHHHHHhhCCCceEEEEEEcCC
Confidence 4445788999999999999987764
No 38
>PLN02393 leucoanthocyanidin dioxygenase like protein
Probab=25.27 E-value=2e+02 Score=26.14 Aligned_cols=51 Identities=16% Similarity=0.227 Sum_probs=37.4
Q ss_pred eeccccccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 10 VTLSKTKKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 10 v~ltk~~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
+.|+.-.....+.+.+++++|.++++++-.++|++ +|++...+.+++...+
T Consensus 55 IDls~l~~~~~~~r~~~~~~l~~Ac~~~GFF~l~n-HGI~~~li~~~~~~~~ 105 (362)
T PLN02393 55 IDLSSLFSDDARLRDATLRAISEACREWGFFQVVN-HGVRPELMDRAREAWR 105 (362)
T ss_pred EECccccCCChHHHHHHHHHHHHHHHHCcEEEEEe-CCCCHHHHHHHHHHHH
Confidence 44544332234456789999999999999999886 7999888888765444
No 39
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=24.58 E-value=1e+02 Score=21.34 Aligned_cols=34 Identities=12% Similarity=0.212 Sum_probs=27.4
Q ss_pred eEEEecCcccChhHHHHHHHcCCceeEEEEEEEE
Q 035720 162 FVVCEEGKPLSPESARILRLLGIKMATFKLHLIC 195 (217)
Q Consensus 162 ~~v~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~ 195 (217)
.+.+++|+.+-.-.+.+|++=|+.|..+.+-+.+
T Consensus 14 ~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~ 47 (71)
T PF02196_consen 14 VVQVRPGMTIRDALSKACKKRGLNPECCDVRLVG 47 (71)
T ss_dssp EEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEE
T ss_pred EEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence 4789999999999999999999999988887655
No 40
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=24.56 E-value=77 Score=22.19 Aligned_cols=35 Identities=14% Similarity=0.181 Sum_probs=31.8
Q ss_pred ceEEEecCcccChhHHHHHHHcCCceeEEEEEEEE
Q 035720 161 DFVVCEEGKPLSPESARILRLLGIKMATFKLHLIC 195 (217)
Q Consensus 161 d~~v~k~G~~i~~~qA~lL~~lgi~p~~~~l~l~~ 195 (217)
-.+-+++|..+-.-.+.++++-|+.|..+.+.+.+
T Consensus 12 t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 12 TVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred EEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 35778999999999999999999999999998885
No 41
>PRK02251 putative septation inhibitor protein; Reviewed
Probab=24.18 E-value=34 Score=25.12 Aligned_cols=13 Identities=31% Similarity=0.383 Sum_probs=10.0
Q ss_pred CCCCCCCcceecc
Q 035720 1 MPKSKRDRPVTLS 13 (217)
Q Consensus 1 mp~skr~~~v~lt 13 (217)
||+||..|.-.-|
T Consensus 1 MPkSk~rkk~~~~ 13 (87)
T PRK02251 1 MPKSQVRKMADRQ 13 (87)
T ss_pred CCcccccccccCC
Confidence 9999988875444
No 42
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=23.40 E-value=88 Score=23.43 Aligned_cols=38 Identities=18% Similarity=0.279 Sum_probs=26.6
Q ss_pred CCceEEecceEEEe-cceEEEe-------cCcc---cChhHHHHHHHcCC
Q 035720 146 GMPVRLNKGVVELV-SDFVVCE-------EGKP---LSPESARILRLLGI 184 (217)
Q Consensus 146 giptki~~G~i~i~-~d~~v~k-------~G~~---i~~~qA~lL~~lgi 184 (217)
-||.++.+ .|||. .|++++. +|+. .+++|++-|+..|.
T Consensus 49 ~i~GK~Rk-~IwI~~GD~VlVe~~~~~~~kg~Iv~r~~~~qv~~L~~~g~ 97 (100)
T PRK04012 49 RIPGKMKK-RMWIREGDVVIVAPWDFQDEKADIIWRYTKPQVDWLRRKGY 97 (100)
T ss_pred EEchhhcc-cEEecCCCEEEEEecccCCCEEEEEEEcCHHHHHHHHHcCC
Confidence 37888887 78876 5777775 4543 46778888877665
No 43
>PF07370 DUF1489: Protein of unknown function (DUF1489); InterPro: IPR008320 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=23.31 E-value=66 Score=25.60 Aligned_cols=86 Identities=10% Similarity=0.156 Sum_probs=47.9
Q ss_pred cCCCeEEEecc-hhhccccccccccccC----cEEEEEecCCHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCC
Q 035720 61 KPSRLLWVGRY-PMRYSQAYKVSKFLCG----NTGLFLTNMPKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFT 135 (217)
Q Consensus 61 r~~~~~~v~KN-l~~~A~~~~L~~~L~G----~~aliFt~~dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~ 135 (217)
.++|-|+|.|- +.-+-.+-.+.+.-.| -|++++..+=......--.-|.-=.|.++.+ ||.|+.-..+.-..||
T Consensus 46 ~GGSlYWVikg~i~~RQ~Il~i~~~~~~dG~~rc~ivL~P~li~v~~~p~RpFQGWRYL~~~D-AP~DL~~~~~~~~~lP 124 (137)
T PF07370_consen 46 DGGSLYWVIKGQIQCRQRILDIEEVTDGDGIRRCAIVLDPELIRVEPRPRRPFQGWRYLKPED-APPDLPAGRAGEDELP 124 (137)
T ss_pred cCCcEEEEECCEEEEeeeeeeeeEecCCCCcccEEEEECCcEEEcccccCCCCCccccCCccc-CCCCcccCCcCcccCC
Confidence 46789999999 7655544445555455 6888885321000000001111112333333 5666653333324699
Q ss_pred CCchHHHHhcCC
Q 035720 136 HEMEPFLRKQGM 147 (217)
Q Consensus 136 ~~~~~~~~~lgi 147 (217)
+.|...|+.||+
T Consensus 125 ~~L~~eL~eLGl 136 (137)
T PF07370_consen 125 PELRRELAELGL 136 (137)
T ss_pred HHHHHHHHHhcC
Confidence 999999999986
No 44
>TIGR01602 PY-rept-46 Plasmodium yoelii repeat of length 46. This repeat is found in only 2 genes in Plasmodium yoelii, in each of these genes it is repeated 9 times. It is found in no other organism.
Probab=23.16 E-value=25 Score=22.24 Aligned_cols=21 Identities=57% Similarity=0.574 Sum_probs=16.9
Q ss_pred CCCCCcceeccccccCChhHH
Q 035720 3 KSKRDRPVTLSKTKKKGKEHK 23 (217)
Q Consensus 3 ~skr~~~v~ltk~~kk~~e~K 23 (217)
||||.+.-+|-+..|+.++.|
T Consensus 1 KSKkSkF~sMFKrDK~dkedk 21 (46)
T TIGR01602 1 KSKRSRFPTMFKKDKKDKEDK 21 (46)
T ss_pred CcccchhhHHHhccccccccc
Confidence 699999999998877766544
No 45
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=23.09 E-value=1.1e+02 Score=20.17 Aligned_cols=27 Identities=11% Similarity=0.274 Sum_probs=21.4
Q ss_pred eeccccccCChhHHHHHHHHHHHHHhc
Q 035720 10 VTLSKTKKKGKEHKEVIVNSIRNAVEN 36 (217)
Q Consensus 10 v~ltk~~kk~~e~K~~~v~~l~e~l~~ 36 (217)
|+.+....++.++|.++++.|.+.+.+
T Consensus 4 v~i~l~~grt~eqk~~l~~~it~~l~~ 30 (64)
T PRK01964 4 VQIQLLEGRPEEKIKNLIREVTEAISA 30 (64)
T ss_pred EEEEEeCCCCHHHHHHHHHHHHHHHHH
Confidence 455555567899999999999998874
No 46
>PRK07451 translation initiation factor Sui1; Validated
Probab=22.78 E-value=1.3e+02 Score=23.17 Aligned_cols=63 Identities=17% Similarity=0.327 Sum_probs=38.0
Q ss_pred CcEEEEEecCC--HHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCceEEecc
Q 035720 87 GNTGLFLTNMP--KEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMPVRLNKG 154 (217)
Q Consensus 87 G~~aliFt~~d--p~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgiptki~~G 154 (217)
|.+.-+...-+ ..++.+++..++.. ++-.|.+....|.|-...-. .+..+|.++|...++..|
T Consensus 51 GK~VTvV~Gl~~~~~dlk~LaK~LK~k-~gcGGtvkd~~IelQGD~r~----~v~~~L~~~Gf~~k~~gg 115 (115)
T PRK07451 51 GKTVTVITGFQHKPETLAKLLKQLKTQ-CGSGGTVKDNTIEIQGDHRQ----KILEILIKLGYKAKISGG 115 (115)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHH-hcCCceEcCCEEEEcCcHHH----HHHHHHHHCCCeEeeccC
Confidence 45555554433 34556666555443 77777776666666553222 567788888888887655
No 47
>PF10454 DUF2458: Protein of unknown function (DUF2458); InterPro: IPR018858 This entry represents a family of uncharacterised proteins.
Probab=22.47 E-value=34 Score=27.51 Aligned_cols=40 Identities=28% Similarity=0.350 Sum_probs=32.5
Q ss_pred CCCCCchHHHHhcCCceEEecceEEEecceEEEecCcccChhHHHHHHHc
Q 035720 133 QFTHEMEPFLRKQGMPVRLNKGVVELVSDFVVCEEGKPLSPESARILRLL 182 (217)
Q Consensus 133 ~~~~~~~~~~~~lgiptki~~G~i~i~~d~~v~k~G~~i~~~qA~lL~~l 182 (217)
.|...+...|+.||||.=-.+. +-..+.+...|.++|.+|
T Consensus 105 ~m~~~~~~~L~~LgVPfF~~~~----------~~~~~el~~~q~rmL~lL 144 (150)
T PF10454_consen 105 QMSKEQQAELKELGVPFFYIKE----------DISDEELRELQKRMLQLL 144 (150)
T ss_pred HHHHHHHHHHHhcCCCeeeCCC----------CCCcHHHHHHHHHHHHHH
Confidence 4777899999999999877666 556677888888888876
No 48
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. 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=22.31 E-value=1.2e+02 Score=21.55 Aligned_cols=37 Identities=24% Similarity=0.508 Sum_probs=23.0
Q ss_pred CCceEEecceEEEe-cceEEEec---Cc--------ccChhHHHHHHHcC
Q 035720 146 GMPVRLNKGVVELV-SDFVVCEE---GK--------PLSPESARILRLLG 183 (217)
Q Consensus 146 giptki~~G~i~i~-~d~~v~k~---G~--------~i~~~qA~lL~~lg 183 (217)
-||.++.+- |+|. .|++++.. |+ ..+++|++-|+..|
T Consensus 28 ~i~gK~Rk~-iwI~~GD~VlV~~~~~~~~~kg~Iv~r~~~~~vk~L~k~g 76 (78)
T cd04456 28 SIPGKLRKN-IWIKRGDFLIVDPIEEGEDVKADIIFVYCKDHVRSLKKEG 76 (78)
T ss_pred EEchhhccC-EEEcCCCEEEEEecccCCCceEEEEEEeCHHHHHHHHHcC
Confidence 366666666 6664 57777755 21 35677777777665
No 49
>PF03453 MoeA_N: MoeA N-terminal region (domain I and II); InterPro: IPR005110 This entry represents the N-terminal and linker domains of the MoeA protein. Proteins in this family contain two structural domains, one of which contains the conserved DGXA motif. These two domains are found in proteins involved in biosynthesis of molybdopterin cofactor however the exact molecular function of this region is uncertain. The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) [].; GO: 0032324 molybdopterin cofactor biosynthetic process; PDB: 1UZ5_A 1T3E_B 2FTS_A 2FU3_A 1XI8_A 1WU2_A 2NRS_A 2NRP_B 2NRO_A 2NQV_A ....
Probab=21.90 E-value=84 Score=25.14 Aligned_cols=24 Identities=25% Similarity=0.401 Sum_probs=18.2
Q ss_pred cceEEEecCcccChhHHHHHHHcC
Q 035720 160 SDFVVCEEGKPLSPESARILRLLG 183 (217)
Q Consensus 160 ~d~~v~k~G~~i~~~qA~lL~~lg 183 (217)
.+-+++++|+.|++..-.+|..+|
T Consensus 139 ~G~~ll~~G~~l~p~~i~lLas~G 162 (162)
T PF03453_consen 139 KGEVLLKKGTRLTPAHIGLLASAG 162 (162)
T ss_dssp TTSEEE-TTBB--HHHHHHHHHTT
T ss_pred CCCEEECCCCCCCHHHHHHHHhCC
Confidence 566899999999999999998776
No 50
>PTZ00321 ribosomal protein L11; Provisional
Probab=21.36 E-value=91 Score=28.30 Aligned_cols=86 Identities=13% Similarity=0.130 Sum_probs=53.5
Q ss_pred CHHHHHHHHhhcccccccccCCCccceEEeCCCCCCCCCCCchHHHHhcCCc-----------eE--Eecc-----eEEE
Q 035720 97 PKEEVESLFNKYEDYDFARTGSTATEKVELPEGPLEQFTHEMEPFLRKQGMP-----------VR--LNKG-----VVEL 158 (217)
Q Consensus 97 dp~~v~k~l~~~~~~~~ak~G~ia~~dv~I~~G~~~~~~~~~~~~~~~lgip-----------tk--i~~G-----~i~i 158 (217)
|+...+|.=+=|.++.|.-.-.++--.+.||+|--. ..||+-|.|.++||. |+ +..| .|++
T Consensus 28 ~~~~~~~~~~~~~~~~~~~KkV~~~IKL~VpAGKAt-PaPPVGPALGq~GVNImqFCKeFNerTK~~fk~GvpVPV~ITV 106 (342)
T PTZ00321 28 DAAVMAKAKDIFAVPEFPGKRVLHNWRFFIKAGKAA-TGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQV 106 (342)
T ss_pred chHHHHhhhhcccCCCCCCCeeeEEEEEEEECCCcC-CCCCCcccccccCCCHHHHHHHHHHHHHhhccCCCeEeEEEEE
Confidence 566666766667788776555566678899999766 666777777777765 33 2344 3344
Q ss_pred ecc--eEEEecCcccChhHHHHHHHcCCce
Q 035720 159 VSD--FVVCEEGKPLSPESARILRLLGIKM 186 (217)
Q Consensus 159 ~~d--~~v~k~G~~i~~~qA~lL~~lgi~p 186 (217)
-.| |.+.- ...|--+-|++.+||+-
T Consensus 107 y~DKSF~F~I---ktPPtS~LLKKAAGI~K 133 (342)
T PTZ00321 107 YFDKSYLFTI---EPPPTAWFILRALRKKR 133 (342)
T ss_pred eCCCeEEEEE---CCCCHHHHHHHHhCCCC
Confidence 333 22211 34556677788888854
No 51
>cd00887 MoeA MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MoeA, together with MoaB, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes.
Probab=21.18 E-value=1.6e+02 Score=27.16 Aligned_cols=30 Identities=27% Similarity=0.380 Sum_probs=26.7
Q ss_pred cceEEEecCcccChhHHHHHHHcCCceeEE
Q 035720 160 SDFVVCEEGKPLSPESARILRLLGIKMATF 189 (217)
Q Consensus 160 ~d~~v~k~G~~i~~~qA~lL~~lgi~p~~~ 189 (217)
..-+++++|+.|+|....+|..+||.-.+.
T Consensus 136 ~G~~ll~~G~~l~p~~i~~Las~Gi~~v~V 165 (394)
T cd00887 136 AGDVLLPAGTRLTPADIGLLASLGIAEVPV 165 (394)
T ss_pred CCCEEECCCCCCCHHHHHHHHhCCCCEEEE
Confidence 455899999999999999999999998755
No 52
>cd05792 S1_eIF1AD_like S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A 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.
Probab=20.52 E-value=1.7e+02 Score=20.95 Aligned_cols=21 Identities=33% Similarity=0.613 Sum_probs=14.5
Q ss_pred CCceEEecceEEEe-cceEEEec
Q 035720 146 GMPVRLNKGVVELV-SDFVVCEE 167 (217)
Q Consensus 146 giptki~~G~i~i~-~d~~v~k~ 167 (217)
-||.|+.+ .|+|. .||+++.+
T Consensus 28 ~iP~KfRk-~iWIkrGd~VlV~p 49 (78)
T cd05792 28 SMPTKFRK-NIWIKRGDFVLVEP 49 (78)
T ss_pred Eechhhcc-cEEEEeCCEEEEEe
Confidence 47777764 56664 58888866
No 53
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=20.19 E-value=1.3e+02 Score=22.96 Aligned_cols=50 Identities=8% Similarity=0.180 Sum_probs=31.1
Q ss_pred CCCCCCcceeccccccCChhHHHHHHHHHHHHHhcCCeEEEEEecCCCcHHHHHHHHHhc
Q 035720 2 PKSKRDRPVTLSKTKKKGKEHKEVIVNSIRNAVENYKSIYVFSFENMRNLKFKEFREQIK 61 (217)
Q Consensus 2 p~skr~~~v~ltk~~kk~~e~K~~~v~~l~e~l~~y~~v~i~~~~gl~~~ql~~lR~~lr 61 (217)
|.-+|.+.++||-.-+. ...++.....+..+.. +.+++..+.+.+.+-++
T Consensus 82 ~~DrR~~~l~LT~~G~~---~~~~~~~~~~~~~~~~-------~~~l~~ee~~~l~~~l~ 131 (144)
T PRK03573 82 ASDRRAKRIKLTEKAEP---LISEVEAVINKTRAEI-------LHGISAEEIEQLITLIA 131 (144)
T ss_pred CCCcCeeeeEEChHHHH---HHHHHHHHHHHHHHHH-------HhCCCHHHHHHHHHHHH
Confidence 67899999999964333 2223222222222222 46889999988888775
Done!