Query 029226
Match_columns 197
No_of_seqs 169 out of 694
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 09:31:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029226.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029226hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00222 60S ribosomal protein 99.9 1.5E-22 3.1E-27 177.9 12.8 141 7-179 61-221 (263)
2 PTZ00365 60S ribosomal protein 99.9 8.4E-22 1.8E-26 173.5 11.8 142 7-180 63-222 (266)
3 KOG3387 60S ribosomal protein 99.9 8.4E-22 1.8E-26 157.7 9.7 88 64-180 33-124 (131)
4 COG1358 RPL8A Ribosomal protei 99.8 4.7E-20 1E-24 145.4 10.5 98 31-169 5-102 (116)
5 PRK13600 putative ribosomal pr 99.8 9.7E-20 2.1E-24 136.7 7.3 70 64-163 12-82 (84)
6 KOG3167 Box H/ACA snoRNP compo 99.8 1.1E-18 2.3E-23 142.2 7.6 116 19-179 29-144 (153)
7 PRK04175 rpl7ae 50S ribosomal 99.7 8.2E-17 1.8E-21 127.2 11.2 103 33-177 10-113 (122)
8 TIGR03677 rpl7ae 50S ribosomal 99.7 1.4E-16 3.1E-21 124.8 11.4 103 33-177 6-109 (117)
9 PF01248 Ribosomal_L7Ae: Ribos 99.7 8.6E-17 1.9E-21 119.1 7.7 76 64-168 14-90 (95)
10 PRK13602 putative ribosomal pr 99.5 1.5E-14 3.3E-19 107.2 7.6 70 64-163 10-80 (82)
11 PRK13601 putative L7Ae-like ri 99.5 9.9E-14 2.1E-18 103.5 7.2 68 63-160 6-73 (82)
12 PRK01018 50S ribosomal protein 99.4 6.9E-13 1.5E-17 101.2 9.7 73 65-167 16-90 (99)
13 PRK06683 hypothetical protein; 99.4 4.5E-13 9.7E-18 99.6 7.5 70 64-163 10-80 (82)
14 PRK07714 hypothetical protein; 99.4 1E-11 2.2E-16 94.5 10.7 86 40-167 5-90 (100)
15 PF08228 RNase_P_pop3: RNase P 99.4 1.6E-11 3.5E-16 101.6 12.8 102 65-190 55-158 (158)
16 KOG3406 40S ribosomal protein 99.2 3.2E-11 7E-16 97.2 8.0 75 65-168 34-120 (134)
17 PTZ00106 60S ribosomal protein 99.2 9.1E-11 2E-15 91.3 9.2 73 65-167 25-99 (108)
18 PRK07283 hypothetical protein; 99.1 1.5E-09 3.2E-14 82.7 10.3 71 65-166 18-88 (98)
19 KOG3166 60S ribosomal protein 98.9 2.7E-09 5.9E-14 92.0 6.0 127 7-177 42-182 (209)
20 PRK05583 ribosomal protein L7A 98.8 2.7E-08 5.8E-13 76.9 9.1 74 65-168 17-90 (104)
21 PRK09190 hypothetical protein; 98.5 8.3E-07 1.8E-11 77.0 10.1 115 8-167 69-189 (220)
22 COG1911 RPL30 Ribosomal protei 97.7 0.00042 9.2E-09 54.0 9.9 74 65-167 19-93 (100)
23 PF15608 PELOTA_1: PELOTA RNA 96.7 0.0043 9.4E-08 48.4 5.8 53 64-143 38-90 (100)
24 PF08032 SpoU_sub_bind: RNA 2' 93.8 0.22 4.7E-06 34.7 5.6 61 66-157 1-62 (76)
25 PF03465 eRF1_3: eRF1 domain 3 90.9 1.2 2.6E-05 34.6 7.0 60 65-153 21-98 (113)
26 PRK04011 peptide chain release 87.3 3.7 8.1E-05 38.6 8.7 26 118-143 365-390 (411)
27 TIGR00108 eRF peptide chain re 85.4 4.5 9.8E-05 38.0 8.3 24 120-143 363-386 (409)
28 TIGR03676 aRF1/eRF1 peptide ch 84.3 6.1 0.00013 37.2 8.6 25 119-143 358-382 (403)
29 PF10087 DUF2325: Uncharacteri 73.4 5.7 0.00012 29.4 3.9 37 107-143 49-85 (97)
30 TIGR00111 pelota probable tran 73.3 21 0.00046 32.8 8.3 60 65-153 277-337 (351)
31 PF00391 PEP-utilizers: PEP-ut 70.7 5 0.00011 29.0 2.9 34 108-141 11-61 (80)
32 PF13611 Peptidase_S76: Serine 69.7 7.4 0.00016 31.5 4.0 31 112-143 30-60 (121)
33 PF13727 CoA_binding_3: CoA-bi 66.8 12 0.00027 28.7 4.6 49 67-140 127-175 (175)
34 KOG2988 60S ribosomal protein 66.6 37 0.0008 27.3 7.2 72 64-166 25-99 (112)
35 cd01856 YlqF YlqF. Proteins o 62.9 6.4 0.00014 31.4 2.4 21 61-81 1-21 (171)
36 PRK10864 putative methyltransf 60.8 56 0.0012 30.5 8.5 81 64-174 108-191 (346)
37 PRK11181 23S rRNA (guanosine-2 56.7 1.2E+02 0.0025 26.4 9.4 64 65-157 3-66 (244)
38 KOG4201 Anthranilate synthase 50.7 87 0.0019 28.5 7.6 66 119-191 172-246 (289)
39 COG2984 ABC-type uncharacteriz 50.4 53 0.0011 30.6 6.5 84 67-182 196-281 (322)
40 PRK00400 hisE phosphoribosyl-A 41.3 16 0.00034 28.7 1.4 75 36-139 3-84 (105)
41 PF00009 GTP_EFTU: Elongation 38.7 1.1E+02 0.0024 24.4 6.1 37 107-143 96-132 (188)
42 PRK00124 hypothetical protein; 37.8 44 0.00096 27.8 3.6 30 110-141 3-32 (151)
43 PF07085 DRTGG: DRTGG domain; 35.4 46 0.001 24.6 3.1 33 107-142 62-94 (105)
44 PLN02821 1-hydroxy-2-methyl-2- 35.1 93 0.002 30.4 5.8 67 107-179 363-447 (460)
45 PRK02759 bifunctional phosphor 34.5 35 0.00077 29.8 2.6 74 34-136 112-192 (203)
46 PF11823 DUF3343: Protein of u 33.0 60 0.0013 22.9 3.2 52 124-186 16-67 (73)
47 COG1503 eRF1 Peptide chain rel 32.7 2.4E+02 0.0052 27.3 8.0 25 119-143 364-388 (411)
48 PRK10124 putative UDP-glucose 32.3 2.6E+02 0.0057 26.5 8.3 37 107-143 204-240 (463)
49 COG1671 Uncharacterized protei 31.4 70 0.0015 26.8 3.8 33 109-143 3-35 (150)
50 PRK05562 precorrin-2 dehydroge 31.4 1.4E+02 0.0031 26.0 5.9 58 107-167 86-143 (223)
51 PF02603 Hpr_kinase_N: HPr Ser 31.4 66 0.0014 25.2 3.5 31 108-141 83-113 (127)
52 TIGR03025 EPS_sugtrans exopoly 31.0 1.2E+02 0.0025 28.2 5.6 37 107-143 189-225 (445)
53 TIGR03023 WcaJ_sugtrans Undeca 31.0 1.1E+02 0.0024 28.3 5.5 50 69-143 179-228 (451)
54 TIGR03188 histidine_hisI phosp 30.8 27 0.00058 26.3 1.1 57 55-136 14-77 (84)
55 COG0329 DapA Dihydrodipicolina 30.3 3.4E+02 0.0074 24.3 8.3 108 43-174 61-174 (299)
56 PF07905 PucR: Purine cataboli 29.1 1.8E+02 0.0038 22.4 5.6 24 120-143 86-109 (123)
57 smart00843 Ftsk_gamma This dom 28.7 46 0.00099 24.0 2.0 23 60-82 23-45 (63)
58 COG1648 CysG Siroheme synthase 28.5 1.9E+02 0.0042 24.8 6.2 73 107-182 73-151 (210)
59 COG1212 KdsB CMP-2-keto-3-deox 27.5 1.1E+02 0.0024 27.6 4.6 106 51-188 12-127 (247)
60 TIGR00853 pts-lac PTS system, 27.3 84 0.0018 23.5 3.3 40 107-148 51-90 (95)
61 COG4378 Uncharacterized protei 27.3 1.1E+02 0.0025 24.1 4.1 40 101-140 39-78 (103)
62 COG1363 FrvX Cellulase M and r 26.7 1.6E+02 0.0035 27.6 5.7 38 110-147 257-297 (355)
63 cd01483 E1_enzyme_family Super 26.7 1.3E+02 0.0028 23.1 4.4 34 107-142 90-123 (143)
64 PRK01045 ispH 4-hydroxy-3-meth 25.3 2.2E+02 0.0047 26.1 6.2 64 108-178 212-276 (298)
65 COG0566 SpoU rRNA methylases [ 25.3 3.5E+02 0.0075 23.8 7.3 72 65-167 22-95 (260)
66 TIGR00186 rRNA_methyl_3 rRNA m 24.4 4.6E+02 0.0099 22.5 8.6 78 65-175 2-82 (237)
67 cd01422 MGS Methylglyoxal synt 24.1 2.3E+02 0.0049 21.8 5.3 47 68-139 57-107 (115)
68 TIGR03596 GTPase_YlqF ribosome 24.1 66 0.0014 28.0 2.6 21 61-81 3-23 (276)
69 PF07894 DUF1669: Protein of u 23.5 2.6E+02 0.0056 25.7 6.3 48 107-155 149-198 (284)
70 PRK09590 celB cellobiose phosp 23.3 1.5E+02 0.0034 22.7 4.2 37 107-145 51-87 (104)
71 cd01485 E1-1_like Ubiquitin ac 23.2 1.3E+02 0.0029 25.1 4.1 34 108-143 115-148 (198)
72 PF08534 Redoxin: Redoxin; In 22.9 3.3E+02 0.0072 20.4 6.9 42 107-156 63-104 (146)
73 PF02401 LYTB: LytB protein; 22.5 4.8E+02 0.01 23.6 7.8 65 108-179 211-276 (281)
74 COG1105 FruK Fructose-1-phosph 22.2 78 0.0017 29.2 2.7 105 9-156 91-196 (310)
75 TIGR00287 cas1 CRISPR-associat 22.2 1.1E+02 0.0023 27.4 3.6 33 107-142 35-67 (323)
76 PF02946 GTF2I: GTF2I-like rep 22.0 1.2E+02 0.0025 22.8 3.1 29 54-82 40-68 (76)
77 cd03029 GRX_hybridPRX5 Glutare 21.8 2.6E+02 0.0056 18.8 5.0 23 129-151 46-69 (72)
78 COG1184 GCD2 Translation initi 21.4 4.6E+02 0.01 24.2 7.5 73 60-162 122-194 (301)
79 cd00757 ThiF_MoeB_HesA_family 21.2 1.6E+02 0.0035 24.9 4.3 33 107-141 112-144 (228)
80 PF13241 NAD_binding_7: Putati 21.0 1.7E+02 0.0036 21.7 3.9 35 107-143 61-95 (103)
81 PF00899 ThiF: ThiF family; I 20.7 1.8E+02 0.0038 22.2 4.1 33 108-142 94-126 (135)
82 PF07997 DUF1694: Protein of u 20.2 2.3E+02 0.005 22.4 4.7 36 107-143 63-98 (120)
83 KOG1615 Phosphoserine phosphat 20.2 2.5E+02 0.0054 25.1 5.3 61 65-157 88-150 (227)
No 1
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.89 E-value=1.5e-22 Score=177.94 Aligned_cols=141 Identities=24% Similarity=0.353 Sum_probs=117.0
Q ss_pred hhhhhhhhccCCCCCCccccccccchhHHHHHHHHHH------------HHHHhhh-hcCCC-CC--chhhhcccccccH
Q 029226 7 ASRKLVHDVSKPPNSVPQESECYEGESLVRLLKLIQR------------EIVSARS-LHGDS-LP--EKLWFKQRFSIGV 70 (197)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~ge~l~~ll~~i~~------------~ie~ak~-~~~~~-lp--~k~~~k~~l~iGV 70 (197)
.||++|++++|+||++.||+..++......|++++.+ ..+.|.. +.+.. .| +++ -.++.|+
T Consensus 61 rqk~iL~~rlKvPp~inqF~~~ldk~~a~~lfkll~KYrPEtk~~kk~Rl~~~A~~~~~g~~~~~~~kkp---~~LvsG~ 137 (263)
T PTZ00222 61 RKKRVLQRRLKVPPALNQFTKVLDRSSRNELLKLIKKYAPETRKARRDRLHKVAEEKKKDPKKTVSTKAP---LAVVTGL 137 (263)
T ss_pred HHHHHHHHhcCCCchHhhhhhhhhHhhHHHHHHHHHHcCCccHHHHHHHHHHHHHHHhcCCCCCCCCCCC---CeeccCH
Confidence 4788999999999999999999999999999988752 2222221 22322 22 233 2599999
Q ss_pred HHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhh
Q 029226 71 NEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLG 150 (197)
Q Consensus 71 NeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG 150 (197)
|+||++||++. +++||||.||+|.+++.|||.||++++|||++|.++. +||
T Consensus 138 n~VtkaIekkK-------------------------AkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVktKa----eLG 188 (263)
T PTZ00222 138 QEVTRAIEKKQ-------------------------ARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMA----RLG 188 (263)
T ss_pred HHHHHHHHcCC-------------------------ceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEECCHH----HHH
Confidence 99999999999 7999999999999999999999999999999999999 999
Q ss_pred hhhCCceeEEEEEeecCcc----hHHHHHHHhc
Q 029226 151 ELVKLKTAIAVGIKAKGNI----INQLMDKILH 179 (197)
Q Consensus 151 ~a~Gikta~Aigik~~~~~----~nk~~~~il~ 179 (197)
+++|.+++.+++|.+.+++ ++++++.|-.
T Consensus 189 ~AIGkKtravVAItD~g~ed~~~l~~lv~~~~~ 221 (263)
T PTZ00222 189 DAIGRKTATCVAITDVNAEDEAALKNLIRSVNA 221 (263)
T ss_pred HHHCCCCCeEEEEeeCCcccHHHHHHHHHHHHH
Confidence 9999999999999987763 7777766543
No 2
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.87 E-value=8.4e-22 Score=173.46 Aligned_cols=142 Identities=26% Similarity=0.382 Sum_probs=117.0
Q ss_pred hhhhhhhhccCCCCCCccccccccchhHHHHHHHHHH------------HHHHhhh-hcCCCCC-chhhhcccccccHHH
Q 029226 7 ASRKLVHDVSKPPNSVPQESECYEGESLVRLLKLIQR------------EIVSARS-LHGDSLP-EKLWFKQRFSIGVNE 72 (197)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~ge~l~~ll~~i~~------------~ie~ak~-~~~~~lp-~k~~~k~~l~iGVNe 72 (197)
.||+++++++|+||++.||+..++......|++++.+ ..+.|.. +.+...+ +++ -.+..|+|+
T Consensus 63 Rqk~iL~~RlKvPp~inqF~~~ldk~~a~~lfkll~KYrPEtk~~kk~RL~~~A~~~a~g~~~~~kkp---~~vk~Gin~ 139 (266)
T PTZ00365 63 RQRRVLLQRLKVPPALNQFTYTLDKNQASQLLRLLSKYKPETRAEKKARLLKEAEKAAAGEEVESKKP---FMLKYGLNH 139 (266)
T ss_pred HHHHHHHHhcCCCccHhhhhhhhcHhhHHHHHHHHHhcCCccHHHHHHHHHHHHHHHhcCCCCCCCCc---hHHHhhhHH
Confidence 4788999999999999999999999999999988762 2333321 2333332 222 258999999
Q ss_pred HHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhh
Q 029226 73 VTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGEL 152 (197)
Q Consensus 73 VTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a 152 (197)
||+.||++. +++||||.|++|..++.|+|.||+.++|||+++.++. +||.+
T Consensus 140 VtklIekkK-------------------------AkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv~sK~----eLG~A 190 (266)
T PTZ00365 140 VTDLVEYKK-------------------------AKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKS----RLGKL 190 (266)
T ss_pred HHHHHHhCC-------------------------ccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEECCHH----HHHHH
Confidence 999999999 7999999999999999999999999999999999999 99999
Q ss_pred hCCceeEEEEEeecCc----chHHHHHHHhcC
Q 029226 153 VKLKTAIAVGIKAKGN----IINQLMDKILHG 180 (197)
Q Consensus 153 ~Gikta~Aigik~~~~----~~nk~~~~il~~ 180 (197)
+|.+++.++||.+..+ .++++++.|-..
T Consensus 191 IGkktraVVAItdV~~EDk~~l~~lv~~~~~~ 222 (266)
T PTZ00365 191 VHQKTAAVVAIDNVRKEDQAEFDNLCKNFRAM 222 (266)
T ss_pred hCCCCceEEEecccCHHHHHHHHHHHHHHHHh
Confidence 9999999999887554 466777665433
No 3
>KOG3387 consensus 60S ribosomal protein 15.5kD/SNU13, NHP2/L7A family (includes ribonuclease P subunit p38), involved in splicing [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=8.4e-22 Score=157.73 Aligned_cols=88 Identities=32% Similarity=0.436 Sum_probs=81.4
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
.|+++|+||+||+|+|+. .++|++|+||.|..|+.|||.||++|||||+||++++
T Consensus 33 kql~kg~NEaTk~Lnrgi-------------------------~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v~Vpsk~ 87 (131)
T KOG3387|consen 33 KQLKKGANEATKTLNRGI-------------------------SEFVVMAADVKPLEITLHLPLLCEDKNVPYVFVPSKQ 87 (131)
T ss_pred HHHhcccchHhhhhccCc-------------------------eeEEEEEccCCHHHHHHHhHHHhhccCCceEEeeccH
Confidence 489999999999999999 7999999999999999999999999999999999999
Q ss_pred CCchhhhhhhC----CceeEEEEEeecCcchHHHHHHHhcC
Q 029226 144 GGSLRLGELVK----LKTAIAVGIKAKGNIINQLMDKILHG 180 (197)
Q Consensus 144 ~~Sl~LG~a~G----ikta~Aigik~~~~~~nk~~~~il~~ 180 (197)
+||.+|| .+.++|++|+...+.++....+.++.
T Consensus 88 ----alG~~cg~~~~~r~~~a~~i~~~~~~~~~~~~q~l~~ 124 (131)
T KOG3387|consen 88 ----ALGLACGELVVLRPVIACSITTNEASIPLSQIQSLKR 124 (131)
T ss_pred ----HhhhhhhhHhhcCcceeEEEEeccccchhhHHHHhHH
Confidence 9999998 46799999999999988887776653
No 4
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.82 E-value=4.7e-20 Score=145.44 Aligned_cols=98 Identities=34% Similarity=0.458 Sum_probs=85.4
Q ss_pred chhHHHHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEE
Q 029226 31 GESLVRLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVI 110 (197)
Q Consensus 31 ge~l~~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlV 110 (197)
...+..+.+++.+.+..|.. ++ ++++|+|++||+|+++. +++|
T Consensus 5 ~~~~~~~~~k~l~~l~~a~~-~~-----------ki~~G~~e~~Kai~~g~-------------------------a~LV 47 (116)
T COG1358 5 PLAPEMLEQKALSLLGKASR-AG-----------KLKKGTNEVTKAIERGK-------------------------AKLV 47 (116)
T ss_pred ccCcHHHHHHHHHHHHHHHh-cC-----------CchhhHHHHHHHHHcCC-------------------------CcEE
Confidence 34667788888888888863 22 69999999999999999 7999
Q ss_pred EEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCceeEEEEEeecCcc
Q 029226 111 LLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKGNI 169 (197)
Q Consensus 111 lIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~~~ 169 (197)
|||.|++|..++.|||.||+++||||+||++++ +||++||+++...+|+...+..
T Consensus 48 viA~Dv~P~~~~~~l~~lc~~~~vpyv~V~sk~----~LG~a~g~~~~~vv~i~~~~~~ 102 (116)
T COG1358 48 VIAEDVSPEELVKHLPALCEEKNVPYVYVGSKK----ELGKAVGKEVRKVVAIVDKGFA 102 (116)
T ss_pred EEecCCCHHHHHHHHHHHHHhcCCCEEEeCCHH----HHHHHhCCCcceeEEEeehhhh
Confidence 999999999999999999999999999999999 9999999997666666665544
No 5
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.80 E-value=9.7e-20 Score=136.65 Aligned_cols=70 Identities=26% Similarity=0.482 Sum_probs=63.8
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
.++++|+||++|+|+++. +++||||.|++|. ++.|||.||+++||||+||++++
T Consensus 12 ~~~vvG~kqt~Kai~kg~-------------------------~~~v~iA~Da~~~-vv~~l~~lceek~Ip~v~V~s~~ 65 (84)
T PRK13600 12 QHFVVGLKETLKALKKDQ-------------------------VTSLIIAEDVEVY-LMTRVLSQINQKNIPVSFFKSKH 65 (84)
T ss_pred cCceeeHHHHHHHHhcCC-------------------------ceEEEEeCCCCHH-HHHHHHHHHHHcCCCEEEECCHH
Confidence 468999999999999999 7999999999985 88999999999999999999999
Q ss_pred CCchhhhhhhCCceeEE-EEE
Q 029226 144 GGSLRLGELVKLKTAIA-VGI 163 (197)
Q Consensus 144 ~~Sl~LG~a~Gikta~A-igi 163 (197)
+||++||+++.+| +++
T Consensus 66 ----~LGkAcgi~V~aa~aai 82 (84)
T PRK13600 66 ----ALGKHVGINVNATIVAL 82 (84)
T ss_pred ----HHHHHhCCCcCeEEEEE
Confidence 9999999997444 444
No 6
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=99.76 E-value=1.1e-18 Score=142.18 Aligned_cols=116 Identities=24% Similarity=0.346 Sum_probs=97.0
Q ss_pred CCCCccccccccchhHHHHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccC
Q 029226 19 PNSVPQESECYEGESLVRLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCG 98 (197)
Q Consensus 19 ~~~~~~~~~~~~ge~l~~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~ 98 (197)
+.-.||++|..+...-..+.+.|+++.+ ++++..||+||.|.+.+++
T Consensus 29 ~~~~PIAkPLA~kkl~kk~~KlvkKa~k----------------~k~lrrGvKevqK~vrkGe----------------- 75 (153)
T KOG3167|consen 29 IAVNPIAKPLASKKLAKKVYKLVKKAAK----------------QKGLRRGVKEVQKRVRKGE----------------- 75 (153)
T ss_pred HhhcccccccccHHHHHHHHHHHHHHHh----------------hhhHHHHHHHHHHHHhcCC-----------------
Confidence 4457888888765544445555544432 2369999999999999999
Q ss_pred CCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCceeEEEEEeecCcchHHHHHHHh
Q 029226 99 NSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKGNIINQLMDKIL 178 (197)
Q Consensus 99 ~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~~~~nk~~~~il 178 (197)
-.++++|.|++|.+++.|||.||+++||||+|++++. .||.+.|+++...+.|-..+..+.+++++++
T Consensus 76 --------KGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~psk~----dlg~A~~~krpt~~v~v~p~~eyke~ydev~ 143 (153)
T KOG3167|consen 76 --------KGLCVLAGDTSPIDVITHLPALCEDRGVPYVYTPSKE----DLGAAGGTKRPTCCVFVKPGGEYKELYDEVL 143 (153)
T ss_pred --------cceEEEecCCccHHHHhccchhhhccCCCccccccHH----HHHHhcCCCCCceEEEEeeChhHHHHHHHHH
Confidence 4899999999999999999999999999999999999 9999999999888887777778888888887
Q ss_pred c
Q 029226 179 H 179 (197)
Q Consensus 179 ~ 179 (197)
.
T Consensus 144 e 144 (153)
T KOG3167|consen 144 E 144 (153)
T ss_pred H
Confidence 5
No 7
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.71 E-value=8.2e-17 Score=127.21 Aligned_cols=103 Identities=29% Similarity=0.491 Sum_probs=86.1
Q ss_pred hHHHHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEE
Q 029226 33 SLVRLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILL 112 (197)
Q Consensus 33 ~l~~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlI 112 (197)
...+|-++++..+..|+. ++ +++.|+++|+++|+++. +++|||
T Consensus 10 ~~~~l~~ki~~lL~la~r-ag-----------klv~G~~~v~kaikkgk-------------------------akLVil 52 (122)
T PRK04175 10 VPEELAEKALEAVEKARD-TG-----------KIKKGTNETTKAVERGI-------------------------AKLVVI 52 (122)
T ss_pred CCHHHHHHHHHHHHHHHH-cC-----------CEeEcHHHHHHHHHcCC-------------------------ccEEEE
Confidence 344455777777777762 33 69999999999999999 799999
Q ss_pred ccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCc-eeEEEEEeecCcchHHHHHHH
Q 029226 113 AADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLK-TAIAVGIKAKGNIINQLMDKI 177 (197)
Q Consensus 113 AaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gik-ta~Aigik~~~~~~nk~~~~i 177 (197)
|.||+|.+++.|++.+|+.+||||+++.++. +||++||.. .+.++||.+.+. ..++++++
T Consensus 53 A~D~s~~~i~~~~~~lc~~~~Vp~~~~~tk~----eLG~a~Gk~~~~svvaI~d~g~-a~~~~~~~ 113 (122)
T PRK04175 53 AEDVDPEEIVAHLPLLCEEKKIPYVYVPSKK----DLGKAAGLEVGAAAAAIVDAGK-AKELVEDI 113 (122)
T ss_pred eCCCChHHHHHHHHHHHHHcCCCEEEECCHH----HHHHHhCCCCCeEEEEEechhh-hHHHHHHH
Confidence 9999999899999999999999999999999 999999998 588899987543 33455544
No 8
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=99.70 E-value=1.4e-16 Score=124.82 Aligned_cols=103 Identities=29% Similarity=0.502 Sum_probs=87.7
Q ss_pred hHHHHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEE
Q 029226 33 SLVRLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILL 112 (197)
Q Consensus 33 ~l~~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlI 112 (197)
..++|-++++..+..|+. ++ .++.|.++|+++|+++. +++|||
T Consensus 6 ~~~~l~~ki~~lL~la~r-ag-----------kl~~G~~~v~kaikkgk-------------------------a~LVil 48 (117)
T TIGR03677 6 VPEELANKALEAVEKARE-TG-----------KIKKGTNEVTKAVERGI-------------------------AKLVVI 48 (117)
T ss_pred CcHHHHHHHHHHHHHHHH-cC-----------CEeEcHHHHHHHHHcCC-------------------------ccEEEE
Confidence 456677888888888873 33 59999999999999999 799999
Q ss_pred ccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCc-eeEEEEEeecCcchHHHHHHH
Q 029226 113 AADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLK-TAIAVGIKAKGNIINQLMDKI 177 (197)
Q Consensus 113 AaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gik-ta~Aigik~~~~~~nk~~~~i 177 (197)
|.|++|.+++.|++.+|+.+||||+++.++. +||.+||.. .+.++||.+.+ ..+++++++
T Consensus 49 A~D~s~~~~~~~i~~lc~~~~Ip~~~~~sk~----eLG~a~Gk~~~~svvaI~d~g-~a~~~~~~~ 109 (117)
T TIGR03677 49 AEDVEPPEIVAHLPALCEEKGIPYVYVKKKE----DLGAAAGLEVGAASAAIVDEG-KAEELLKEI 109 (117)
T ss_pred eCCCCcHHHHHHHHHHHHHcCCCEEEeCCHH----HHHHHhCCCCCeEEEEEEchh-hhHHHHHHH
Confidence 9999998899999999999999999999999 999999995 68889998754 333444443
No 9
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=99.69 E-value=8.6e-17 Score=119.06 Aligned_cols=76 Identities=37% Similarity=0.652 Sum_probs=70.6
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
++++.|+|+|+|+|+++. +++||+|.|++|..+..|++.+|+++||||++++++.
T Consensus 14 ~~lv~G~~~v~k~l~~~~-------------------------~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~~~~s~~ 68 (95)
T PF01248_consen 14 GRLVKGIKEVLKALKKGK-------------------------AKLVILAEDCSPDSIKKHLPALCEEKNIPYVFVPSKE 68 (95)
T ss_dssp SEEEESHHHHHHHHHTTC-------------------------ESEEEEETTSSSGHHHHHHHHHHHHTTEEEEEESHHH
T ss_pred CCEEEchHHHHHHHHcCC-------------------------CcEEEEcCCCChhhhcccchhheeccceeEEEECCHH
Confidence 369999999999999998 8999999999999999999999999999999999988
Q ss_pred CCchhhhhhhCCce-eEEEEEeecCc
Q 029226 144 GGSLRLGELVKLKT-AIAVGIKAKGN 168 (197)
Q Consensus 144 ~~Sl~LG~a~Gikt-a~Aigik~~~~ 168 (197)
+||++||.++ +.++||++.+.
T Consensus 69 ----eLG~~~g~~~~~~~~~i~d~~~ 90 (95)
T PF01248_consen 69 ----ELGRACGKKRPVSALAIKDAGD 90 (95)
T ss_dssp ----HHHHHTTSSSTSSEEEEEESTT
T ss_pred ----HHHHHHCCCCcEEEEEEECccc
Confidence 9999999995 78888887654
No 10
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.55 E-value=1.5e-14 Score=107.16 Aligned_cols=70 Identities=29% Similarity=0.488 Sum_probs=63.8
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
++++.|.++|+|+|+++. +++||||+||+| ++.+|++.+|++++|||++++++.
T Consensus 10 gkl~~G~~~v~kai~~gk-------------------------aklViiA~D~~~-~~~~~i~~~c~~~~Vp~~~~~s~~ 63 (82)
T PRK13602 10 KSIVIGTKQTVKALKRGS-------------------------VKEVVVAEDADP-RLTEKVEALANEKGVPVSKVDSMK 63 (82)
T ss_pred CCEEEcHHHHHHHHHcCC-------------------------eeEEEEECCCCH-HHHHHHHHHHHHcCCCEEEECCHH
Confidence 369999999999999999 899999999999 599999999999999999999999
Q ss_pred CCchhhhhhhCCcee-EEEEE
Q 029226 144 GGSLRLGELVKLKTA-IAVGI 163 (197)
Q Consensus 144 ~~Sl~LG~a~Gikta-~Aigi 163 (197)
+||++||+.+. ++++|
T Consensus 64 ----eLG~a~G~~~~~a~~ai 80 (82)
T PRK13602 64 ----KLGKACGIEVGAAAVAI 80 (82)
T ss_pred ----HHHHHHCCCcCEEEEEE
Confidence 99999999864 44444
No 11
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.48 E-value=9.9e-14 Score=103.49 Aligned_cols=68 Identities=13% Similarity=0.353 Sum_probs=63.2
Q ss_pred cccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCC
Q 029226 63 KQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDK 142 (197)
Q Consensus 63 k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~sk 142 (197)
..+++.|.|+|.|+|+++. +++||||.|++| .+.++|+.+|+.++|||+++.++
T Consensus 6 ~GKlv~G~~~vlkaIk~gk-------------------------akLViiA~Da~~-~~~k~i~~~c~~~~Vpv~~~~t~ 59 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCN-------------------------VLQVYIAKDAEE-HVTKKIKELCEEKSIKIVYIDTM 59 (82)
T ss_pred CccEEEchHHHHHHHHcCC-------------------------eeEEEEeCCCCH-HHHHHHHHHHHhCCCCEEEeCCH
Confidence 3579999999999999999 899999999998 79999999999999999999999
Q ss_pred CCCchhhhhhhCCceeEE
Q 029226 143 KGGSLRLGELVKLKTAIA 160 (197)
Q Consensus 143 k~~Sl~LG~a~Gikta~A 160 (197)
. +||++||+++.+|
T Consensus 60 ~----eLG~A~G~~v~aa 73 (82)
T PRK13601 60 K----ELGVMCGIDVGAA 73 (82)
T ss_pred H----HHHHHHCCccCee
Confidence 9 9999999997544
No 12
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.44 E-value=6.9e-13 Score=101.18 Aligned_cols=73 Identities=16% Similarity=0.264 Sum_probs=65.4
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEE-cCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFV-KDKK 143 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V-~skk 143 (197)
+++.|.++|+++|+++. +++||||.|+++ .+.+|++.+|+.++|||+.. .++.
T Consensus 16 kl~~G~~~v~kai~~gk-------------------------aklViiA~D~~~-~~~~~i~~~c~~~~Ip~~~~~~tk~ 69 (99)
T PRK01018 16 KVILGSKRTIKAIKLGK-------------------------AKLVIVASNCPK-DIKEDIEYYAKLSGIPVYEYEGSSV 69 (99)
T ss_pred CEEEcHHHHHHHHHcCC-------------------------ceEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEECCCHH
Confidence 69999999999999999 799999999966 79999999999999997665 7998
Q ss_pred CCchhhhhhhCCce-eEEEEEeecC
Q 029226 144 GGSLRLGELVKLKT-AIAVGIKAKG 167 (197)
Q Consensus 144 ~~Sl~LG~a~Gikt-a~Aigik~~~ 167 (197)
+||++||.+. +.++||.+.+
T Consensus 70 ----eLG~a~Gk~~~~~~vaI~D~G 90 (99)
T PRK01018 70 ----ELGTLCGKPFTVSALAIVDPG 90 (99)
T ss_pred ----HHHHHhCCCCCEEEEEEecCC
Confidence 9999999985 7889987643
No 13
>PRK06683 hypothetical protein; Provisional
Probab=99.43 E-value=4.5e-13 Score=99.63 Aligned_cols=70 Identities=20% Similarity=0.404 Sum_probs=63.5
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
++++.|.++|.|+|+++. +++||||.||+| ++.+.+..+|+..+|||++++++.
T Consensus 10 gk~v~G~~~v~kaik~gk-------------------------aklViiA~Da~~-~~~~~i~~~~~~~~Vpv~~~~t~~ 63 (82)
T PRK06683 10 ENVVVGHKRTLEAIKNGI-------------------------VKEVVIAEDADM-RLTHVIIRTALQHNIPITKVESVR 63 (82)
T ss_pred CCEEEcHHHHHHHHHcCC-------------------------eeEEEEECCCCH-HHHHHHHHHHHhcCCCEEEECCHH
Confidence 369999999999999999 899999999999 499999999999999999999999
Q ss_pred CCchhhhhhhCCceeE-EEEE
Q 029226 144 GGSLRLGELVKLKTAI-AVGI 163 (197)
Q Consensus 144 ~~Sl~LG~a~Gikta~-Aigi 163 (197)
+||++||+.+.+ +++|
T Consensus 64 ----eLG~A~G~~~~~a~~ai 80 (82)
T PRK06683 64 ----KLGKVAGIQVGASAIGI 80 (82)
T ss_pred ----HHHHHhCCcccEEEEEE
Confidence 999999999744 4444
No 14
>PRK07714 hypothetical protein; Provisional
Probab=99.35 E-value=1e-11 Score=94.48 Aligned_cols=86 Identities=19% Similarity=0.232 Sum_probs=73.5
Q ss_pred HHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChh
Q 029226 40 LIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPR 119 (197)
Q Consensus 40 ~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~ 119 (197)
+++..+-.|+. ++ +++.|.++|.++|+++. +++||+|+|++|.
T Consensus 5 ~~~~~Lgla~r-aG-----------k~v~G~~~v~~al~~g~-------------------------~~lViiA~D~s~~ 47 (100)
T PRK07714 5 DWKSFLGLANR-AR-----------KVISGEELVLKEVRSGK-------------------------AKLVLLSEDASVN 47 (100)
T ss_pred HHHHHHHHHHH-hC-----------CeeecHHHHHHHHHhCC-------------------------ceEEEEeCCCCHH
Confidence 45555666652 23 69999999999999998 7999999999995
Q ss_pred hHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCceeEEEEEeecC
Q 029226 120 WLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKG 167 (197)
Q Consensus 120 ~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~ 167 (197)
..+++..+|+.++|||+++.++. +||.+||....+++||.+.+
T Consensus 48 -~~~ki~~~~~~~~vp~~~~~sk~----eLG~a~Gk~~~~~vai~d~g 90 (100)
T PRK07714 48 -TTKKITDKCTYYNVPMRKVENRQ----QLGHAIGKDERVVVAVLDEG 90 (100)
T ss_pred -HHHHHHHHHHhcCCCEEEeCCHH----HHHHHhCCCcceEEEEeCch
Confidence 99999999999999999999998 99999999876788885543
No 15
>PF08228 RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR013241 This family of fungal proteins form a subunit of RNase P, the ribonucleoprotein enzyme that cleaves the leader sequence of precursor tRNAs to generate mature tRNAs. The structure of Pop3 has been assigned the L7Ae/L30e fold []. This RNA-binding fold is also present in human RNase P subunit Rpp38, raising the possibility that Pop3p and Rpp38 are functional homologues.
Probab=99.35 E-value=1.6e-11 Score=101.61 Aligned_cols=102 Identities=25% Similarity=0.358 Sum_probs=83.5
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEc-cCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLA-ADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIA-aDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
++.+|.|++||.||..... =.+|||| .| +|..++.|+|.||...+--+-.|.-.+
T Consensus 55 ~v~~GfNsi~~~Le~~~~~-----------------------~~~vFVcr~D-~ps~L~~h~P~Lva~as~~vrLV~Lpk 110 (158)
T PF08228_consen 55 GVTVGFNSIVRYLECQASD-----------------------NVYVFVCRSD-QPSILTSHFPQLVATASKSVRLVQLPK 110 (158)
T ss_pred cEEEehHHHHHHHhcccCC-----------------------CeEEEEECCC-CcHHHHHHHHHHHHhccCcceEEeCCh
Confidence 8999999999999943310 1399999 78 899999999999998884445555558
Q ss_pred CCchhhhhhhCCceeEEEEEeecCcchHHHHHHHhcC-CccccccccC
Q 029226 144 GGSLRLGELVKLKTAIAVGIKAKGNIINQLMDKILHG-DEVDLLKLSE 190 (197)
Q Consensus 144 ~~Sl~LG~a~Gikta~Aigik~~~~~~nk~~~~il~~-~~~~~~~l~~ 190 (197)
|++.+|++++|+.++-++|+++..+....+++-|-.- ++++.+||.+
T Consensus 111 gs~~rLs~aLgi~r~g~l~v~~~~~~~~~L~~~i~~~V~~ve~PWL~~ 158 (158)
T PF08228_consen 111 GSEARLSEALGIPRVGILAVRADAPGAKSLVDLIRSHVPPVEIPWLDE 158 (158)
T ss_pred hHHHHHHHHhCCCCccEEEEecCCcccHHHHHHHHhcCCccCCCCCCC
Confidence 8899999999999999999999888776677666553 8899999874
No 16
>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=3.2e-11 Score=97.16 Aligned_cols=75 Identities=27% Similarity=0.467 Sum_probs=67.0
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
.+++|+.|.+|+|+|.. +++|++|.|||.+.+++.+..||.+++||++.|+|.+
T Consensus 34 GlarGi~Ea~Kaldkrq-------------------------A~lcvLaencdep~yvKLVeALcaeh~iplikV~d~k- 87 (134)
T KOG3406|consen 34 GLARGIHEAAKALDKRQ-------------------------AHLCVLAENCDEPMYVKLVEALCAEHQIPLIKVGDAK- 87 (134)
T ss_pred hHHhHHHHHHHHHhhCc-------------------------eeEEEEeccCCchHHHHHHHHHHhhcCCCeEEeccch-
Confidence 59999999999999998 7999999999999999999999999999999999999
Q ss_pred CchhhhhhhCCce------------eEEEEEeecCc
Q 029226 145 GSLRLGELVKLKT------------AIAVGIKAKGN 168 (197)
Q Consensus 145 ~Sl~LG~a~Gikt------------a~Aigik~~~~ 168 (197)
.||+|+|+.. +..+++++-+.
T Consensus 88 ---~LGew~Glckid~eGnarKvvGcs~vvVkd~ge 120 (134)
T KOG3406|consen 88 ---ELGEWAGLCKIDSEGNARKVVGCSCVVVKDYGE 120 (134)
T ss_pred ---hhhhhhceeeecCCCCeeEeecceEEEEeeccc
Confidence 9999999752 44566775443
No 17
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.21 E-value=9.1e-11 Score=91.35 Aligned_cols=73 Identities=14% Similarity=0.337 Sum_probs=65.5
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEE-EEcCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVI-FVKDKK 143 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v-~V~skk 143 (197)
+++.|.++|.++|+++. +++||||.||++ +..+.+-.+|+..+||++ |+.++.
T Consensus 25 Klv~G~~~vlkalk~gk-------------------------aklViiA~D~~~-~~kkki~~~~~~~~Vpv~~~~~t~~ 78 (108)
T PTZ00106 25 KYTLGTKSTLKALRNGK-------------------------AKLVIISNNCPP-IRRSEIEYYAMLSKTGVHHYAGNNN 78 (108)
T ss_pred CeeecHHHHHHHHHcCC-------------------------eeEEEEeCCCCH-HHHHHHHHHHhhcCCCEEEeCCCHH
Confidence 69999999999999999 899999999998 689999999999999987 568888
Q ss_pred CCchhhhhhhCCce-eEEEEEeecC
Q 029226 144 GGSLRLGELVKLKT-AIAVGIKAKG 167 (197)
Q Consensus 144 ~~Sl~LG~a~Gikt-a~Aigik~~~ 167 (197)
+||.+||... +.++||.+.+
T Consensus 79 ----eLG~A~Gk~~r~svvaI~D~G 99 (108)
T PTZ00106 79 ----DLGTACGRHFRVSVMSITDAG 99 (108)
T ss_pred ----HHHHHhCCccCeEEEEEeCcc
Confidence 9999999975 5578887654
No 18
>PRK07283 hypothetical protein; Provisional
Probab=99.07 E-value=1.5e-09 Score=82.65 Aligned_cols=71 Identities=20% Similarity=0.214 Sum_probs=63.7
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
+++.|..+|.++|.++. +++||+|+|++| +..+.+-..|+.++||++.+.++.
T Consensus 18 klv~G~~~v~~aik~gk-------------------------~~lVi~A~Das~-~~~kk~~~~~~~~~Vp~~~~~t~~- 70 (98)
T PRK07283 18 RIISGEELVVKAIQSGQ-------------------------AKLVFLANDAGP-NLTKKVTDKSNYYQVEVSTVFSTL- 70 (98)
T ss_pred CeeEcHHHHHHHHHcCC-------------------------ccEEEEeCCCCH-HHHHHHHHHHHHcCCCEEEeCCHH-
Confidence 69999999999999998 799999999998 588899999999999999999998
Q ss_pred CchhhhhhhCCceeEEEEEeec
Q 029226 145 GSLRLGELVKLKTAIAVGIKAK 166 (197)
Q Consensus 145 ~Sl~LG~a~Gikta~Aigik~~ 166 (197)
+||.+||..++ ++||.+.
T Consensus 71 ---eLG~a~Gk~~~-vvai~d~ 88 (98)
T PRK07283 71 ---ELSAAVGKPRK-VLAVTDA 88 (98)
T ss_pred ---HHHHHhCCCce-EEEEeCh
Confidence 99999998754 4787443
No 19
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=98.88 E-value=2.7e-09 Score=91.97 Aligned_cols=127 Identities=25% Similarity=0.356 Sum_probs=94.4
Q ss_pred hhhhhhhhccCCCCCCccccccccchhHHHHHHHHHH------------HHHHhhhhcCCCCCchhhhcccccccHHHHH
Q 029226 7 ASRKLVHDVSKPPNSVPQESECYEGESLVRLLKLIQR------------EIVSARSLHGDSLPEKLWFKQRFSIGVNEVT 74 (197)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~ge~l~~ll~~i~~------------~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVT 74 (197)
-+|.++| ++|+||...++.--++......++++.++ ....++.+..+..|.|-.. .+..|+|-||
T Consensus 42 ~q~~~l~-~lkvpp~i~qf~~~l~~~~a~~~~kl~hkyrP~~~~~~~~r~~a~~~~~~kg~v~tkrp~--~~~~gvnTVt 118 (209)
T KOG3166|consen 42 RQKAILY-RLKVPPAINQFTQALDLQTATKLLKLAHKYRPETKKKKKQRLLAEAKAAGKGDVPTKRPP--VLRAGVNTVT 118 (209)
T ss_pred hchhhhe-eeccCcchhhhhcccchHHHHHHHHHHhhcCchhhhhhhhhHHHHHHHHhccCCCcCCCc--ccccCcceEe
Confidence 4678889 99999999999999999999999887554 2333333334444443222 4788999999
Q ss_pred HHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhC
Q 029226 75 RVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVK 154 (197)
Q Consensus 75 KaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~G 154 (197)
..+|... +|+|++|.|+||.+|+-+||.||... .|+.+ .
T Consensus 119 tLVenKK-------------------------AQLVV~ahDvDPIELVvFLPaLC~km-----ivk~~-----------~ 157 (209)
T KOG3166|consen 119 TLVENKK-------------------------AQLVVTAHDVDPIELVVFLPALCRKM-----IVKGK-----------H 157 (209)
T ss_pred ehhhccc-------------------------cceeEEecccCchhheeecHHhhhhh-----ccccc-----------c
Confidence 9999988 79999999999999999999999988 33321 4
Q ss_pred CceeEEEEE-eec-CcchHHHHHHH
Q 029226 155 LKTAIAVGI-KAK-GNIINQLMDKI 177 (197)
Q Consensus 155 ikta~Aigi-k~~-~~~~nk~~~~i 177 (197)
.+|++++++ ... ...+.++++.|
T Consensus 158 ~kT~t~~a~v~~edk~~l~kl~e~i 182 (209)
T KOG3166|consen 158 RKTCTTVAFVNSEDKGALAKLVEAI 182 (209)
T ss_pred cceeeeeeeechhhHHHHHHHHHHH
Confidence 567776665 222 23477777654
No 20
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=98.83 E-value=2.7e-08 Score=76.94 Aligned_cols=74 Identities=19% Similarity=0.274 Sum_probs=67.3
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
+++.|.++|.++|.++. +++||+|+|+.+ +..+-+-.+|+..+||++...++.
T Consensus 17 klv~G~~~v~~aik~gk-------------------------~~lVI~A~D~s~-~~kkki~~~~~~~~vp~~~~~t~~- 69 (104)
T PRK05583 17 KLLEGYNKCEEAIKKKK-------------------------VYLIIISNDISE-NSKNKFKNYCNKYNIPYIEGYSKE- 69 (104)
T ss_pred CeeecHHHHHHHHHcCC-------------------------ceEEEEeCCCCH-hHHHHHHHHHHHcCCCEEEecCHH-
Confidence 69999999999999998 799999999998 588899999999999998888887
Q ss_pred CchhhhhhhCCceeEEEEEeecCc
Q 029226 145 GSLRLGELVKLKTAIAVGIKAKGN 168 (197)
Q Consensus 145 ~Sl~LG~a~Gikta~Aigik~~~~ 168 (197)
+||.+||-....++||.+.+.
T Consensus 70 ---eLg~a~Gk~~~~~iai~d~g~ 90 (104)
T PRK05583 70 ---ELGNAIGRDEIKILGVKDKNM 90 (104)
T ss_pred ---HHHHHhCCCCeEEEEEeChHH
Confidence 999999998888899887653
No 21
>PRK09190 hypothetical protein; Provisional
Probab=98.51 E-value=8.3e-07 Score=76.99 Aligned_cols=115 Identities=19% Similarity=0.192 Sum_probs=89.8
Q ss_pred hhhhhhhccCCCCCCccccccccchhHHHHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCC
Q 029226 8 SRKLVHDVSKPPNSVPQESECYEGESLVRLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMG 87 (197)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~ge~l~~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~ 87 (197)
.||.+...+|.+-+ +..+.|+ +.-..|.++++..+-.|+. ++ +++.|...|..+|.++.
T Consensus 69 kkk~l~Ralk~~v~--v~~~l~~-~l~~~l~~ril~lLGLArR-AG-----------klVsG~~~V~~alk~gk------ 127 (220)
T PRK09190 69 AKKLFARAAKADVK--VPPDLAD-LVEALLARRALDALGLARK-AG-----------QVVSGFEKVDAALRSGE------ 127 (220)
T ss_pred HhChhHHHhCCCCC--CCHHHHH-HHHHHHHHHHHHHHHHHhh-hC-----------CEeecHHHHHHHHHcCC------
Confidence 35566666676422 2233433 3444456677788888873 23 69999999999999998
Q ss_pred CCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHh------cCCCEEEEcCCCCCchhhhhhhCCceeEEE
Q 029226 88 ISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALS------RNVPVIFVKDKKGGSLRLGELVKLKTAIAV 161 (197)
Q Consensus 88 ~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~------rnIP~v~V~skk~~Sl~LG~a~Gikta~Ai 161 (197)
+.+||+|+|+++. -.+-+-.+|.. ++|||+.+.++. +||.++|.+..+++
T Consensus 128 -------------------~~Lvi~A~DaS~~-t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~----eLg~AlGr~~~~~v 183 (220)
T PRK09190 128 -------------------AAALIHASDGAAD-GKRKLDQARRALVHETGREIPVIGLFTAA----ELGLAFGRENVIHA 183 (220)
T ss_pred -------------------ceEEEEeccCChh-HHHHHHHHHHhhcccccCCccEEEecCHH----HHHHHhCCCceeEE
Confidence 7999999999995 77788889988 999999999999 99999999989999
Q ss_pred EEeecC
Q 029226 162 GIKAKG 167 (197)
Q Consensus 162 gik~~~ 167 (197)
||.+.+
T Consensus 184 av~d~g 189 (220)
T PRK09190 184 ALLAGG 189 (220)
T ss_pred EEcChH
Confidence 988765
No 22
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=97.73 E-value=0.00042 Score=54.01 Aligned_cols=74 Identities=22% Similarity=0.372 Sum_probs=62.5
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
....|-|++.|.+..++ +++|+||++|-+ ++-+-|.-.|.=-+||+.+-+ |
T Consensus 19 kvilG~k~tiK~lk~gk-------------------------aKliiiAsN~P~-~~k~~ieyYAkLs~ipV~~y~---G 69 (100)
T COG1911 19 KVILGSKRTIKSLKLGK-------------------------AKLIIIASNCPK-ELKEDIEYYAKLSDIPVYVYE---G 69 (100)
T ss_pred CEEEehHHHHHHHHcCC-------------------------CcEEEEecCCCH-HHHHHHHHHHHHcCCcEEEec---C
Confidence 58999999999999999 799999999955 788888888888899987764 5
Q ss_pred CchhhhhhhCCc-eeEEEEEeecC
Q 029226 145 GSLRLGELVKLK-TAIAVGIKAKG 167 (197)
Q Consensus 145 ~Sl~LG~a~Gik-ta~Aigik~~~ 167 (197)
+|.+||.+||-- ++.+++|-+.+
T Consensus 70 t~~eLG~~cgkpf~v~~laIiD~G 93 (100)
T COG1911 70 TSVELGTVCGKPFRVAALAIIDEG 93 (100)
T ss_pred CceeHHhhhCCCceEEEEEEecCc
Confidence 678999999984 67777766544
No 23
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=96.72 E-value=0.0043 Score=48.41 Aligned_cols=53 Identities=34% Similarity=0.390 Sum_probs=44.7
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+.++=||-|+||+|-|..+ ..|+|-..-+| =+.||-.||++||||+..++++.
T Consensus 38 N~IKPGIgEaTRvLLRRvP-------------------------~~vLVr~~~~p--d~~Hl~~LA~ekgVpVe~~~d~~ 90 (100)
T PF15608_consen 38 NLIKPGIGEATRVLLRRVP-------------------------WKVLVRDPDDP--DLAHLLLLAEEKGVPVEVYPDLP 90 (100)
T ss_pred ccccCChhHHHHHHHhcCC-------------------------CEEEECCCCCc--cHHHHHHHHHHcCCcEEEeCCCC
Confidence 5789999999999987663 67777766666 36799999999999999999886
No 24
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=93.80 E-value=0.22 Score=34.68 Aligned_cols=61 Identities=21% Similarity=0.313 Sum_probs=47.1
Q ss_pred ccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccC-CChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 66 FSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAAD-CSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 66 l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaD-v~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
++.|.|-|..+|+.+.. +..||+..+ .++ -+..+..+|.++++++.+|+..
T Consensus 1 lieG~~~V~eaL~~~~~------------------------i~~l~~~~~~~~~--~~~~i~~~~~~~~i~v~~v~~~-- 52 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPR------------------------IKKLFVTEEKADK--RIKEILKLAKKKGIPVYEVSKK-- 52 (76)
T ss_dssp EEESHHHHHHHHHCTGG------------------------EEEEEEETT---C--CTHHHHHHHHHCT-EEEEE-HH--
T ss_pred CEEEHHHHHHHHcCCCC------------------------ccEEEEEcCccch--hHHHHHHHHHHcCCeEEEeCHH--
Confidence 46799999999999763 688999988 444 2568889999999999999755
Q ss_pred CchhhhhhhCCce
Q 029226 145 GSLRLGELVKLKT 157 (197)
Q Consensus 145 ~Sl~LG~a~Gikt 157 (197)
.|.++++..+
T Consensus 53 ---~l~~ls~~~~ 62 (76)
T PF08032_consen 53 ---VLDKLSDTEN 62 (76)
T ss_dssp ---HHHHCTTTSS
T ss_pred ---HHHHHcCCCC
Confidence 7899887654
No 25
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=90.93 E-value=1.2 Score=34.59 Aligned_cols=60 Identities=27% Similarity=0.333 Sum_probs=48.2
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhh------------------HHHhHH
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRW------------------LIKHLP 126 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~------------------Li~HLP 126 (197)
..+.|.++|.++++.+. +.-++|..|..-.. ++..+.
T Consensus 21 ~~~yG~~eV~~Al~~Ga-------------------------V~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~ 75 (113)
T PF03465_consen 21 LAVYGIEEVKKALEMGA-------------------------VETLLISDDLFRSRDVERCKCPECGGELEVVELIEELI 75 (113)
T ss_dssp SEEESHHHHHHHHHTT--------------------------EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHH
T ss_pred cEEECHHHHHHHHHhCC-------------------------CcEEEEecccccccceeccccccccchhhhHHHHHHHH
Confidence 58999999999999999 88999986543321 578999
Q ss_pred HHHHhcCCCEEEEcCCCCCchhhhhhh
Q 029226 127 GLALSRNVPVIFVKDKKGGSLRLGELV 153 (197)
Q Consensus 127 ~Lc~~rnIP~v~V~skk~~Sl~LG~a~ 153 (197)
.++.+.|.-+.+|++.. .-|+-+
T Consensus 76 ~~a~~~g~~v~iis~~~----e~G~~L 98 (113)
T PF03465_consen 76 ELAEQSGAKVEIISSEH----EEGEQL 98 (113)
T ss_dssp HHHHHTTSEEEEE-TTS----HHHHHH
T ss_pred HHHHHcCCEEEEEcCCC----ccHHHH
Confidence 99999999999999987 666655
No 26
>PRK04011 peptide chain release factor 1; Provisional
Probab=87.31 E-value=3.7 Score=38.61 Aligned_cols=26 Identities=19% Similarity=0.190 Sum_probs=22.9
Q ss_pred hhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 118 PRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 118 P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
...++..|..+|+..|.-+.+|++.-
T Consensus 365 ~~~~v~~l~e~a~~~g~~v~iis~~~ 390 (411)
T PRK04011 365 EEDIIEELSELAEQSGTKVEVISTDT 390 (411)
T ss_pred hhhHHHHHHHHHHHcCCEEEEECCCC
Confidence 34578899999999999999999887
No 27
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=85.44 E-value=4.5 Score=38.04 Aligned_cols=24 Identities=25% Similarity=0.260 Sum_probs=21.6
Q ss_pred hHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 120 WLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 120 ~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
.++..|..+|+..|.-+.+|++..
T Consensus 363 ~~ve~L~e~a~~~Ga~V~iiS~~~ 386 (409)
T TIGR00108 363 DLIEWLSELAENFGAKLEFISTES 386 (409)
T ss_pred hHHHHHHHHHHHcCCEEEEECCCC
Confidence 467889999999999999999987
No 28
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=84.31 E-value=6.1 Score=37.21 Aligned_cols=25 Identities=20% Similarity=0.218 Sum_probs=22.4
Q ss_pred hhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 119 RWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 119 ~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
..++..|..+|+..|.-+.+|++..
T Consensus 358 ~~~ve~L~e~a~~~Ga~V~~iS~~~ 382 (403)
T TIGR03676 358 EDIIEELSELAEESGAKVEIISTDT 382 (403)
T ss_pred hhHHHHHHHHHHHcCCEEEEECCCC
Confidence 3578899999999999999999987
No 29
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=73.44 E-value=5.7 Score=29.42 Aligned_cols=37 Identities=11% Similarity=0.282 Sum_probs=33.2
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+.+||+..|+-.-.+...+-..|..+++|++|+.+..
T Consensus 49 aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~ 85 (97)
T PF10087_consen 49 ADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRG 85 (97)
T ss_pred CCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCC
Confidence 4799999999998999999999999999999997543
No 30
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=73.28 E-value=21 Score=32.83 Aligned_cols=60 Identities=22% Similarity=0.266 Sum_probs=48.4
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCC-ChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADC-SPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv-~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
..+.|.++|.+++|.+. +..++|..+. ..+.=+..|-..|++.|..+..+++.-
T Consensus 277 ~~~YG~~eV~~Ale~GA-------------------------VetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~ 331 (351)
T TIGR00111 277 KAVYGEDEVVKAAEYGA-------------------------IEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEH 331 (351)
T ss_pred eEEECHHHHHHHHHcCC-------------------------ceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCC
Confidence 68999999999999998 7889998877 333335578888999999999999988
Q ss_pred CCchhhhhhh
Q 029226 144 GGSLRLGELV 153 (197)
Q Consensus 144 ~~Sl~LG~a~ 153 (197)
+-|+-+
T Consensus 332 ----e~G~qL 337 (351)
T TIGR00111 332 ----ELGKQL 337 (351)
T ss_pred ----ccHHHH
Confidence 555443
No 31
>PF00391 PEP-utilizers: PEP-utilising enzyme, mobile domain; InterPro: IPR008279 A number of enzymes that catalyze the transfer of a phosphoryl group from phosphoenolpyruvate (PEP) via a phospho-histidine intermediate have been shown to be structurally related [, , , ]. All these enzymes share the same catalytic mechanism: they bind PEP and transfer the phosphoryl group from it to a histidine residue. This domain is a "swivelling" beta/beta/alpha domain which is thought to be mobile in all proteins known to contain it []. It is often found associated with the pyruvate phosphate dikinase, PEP/pyruvate-binding domain (IPR002192 from INTERPRO) at its N terminus.; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0016310 phosphorylation; PDB: 2X0S_A 2OLS_A 2HRO_A 2E28_A 2WQD_A 3T05_D 3T0T_D 3T07_B 2DIK_A 2FM4_A ....
Probab=70.65 E-value=5 Score=28.97 Aligned_cols=34 Identities=32% Similarity=0.354 Sum_probs=25.6
Q ss_pred EEEEEccCCChhhHH-----------------HhHHHHHHhcCCCEEEEcC
Q 029226 108 QVILLAADCSPRWLI-----------------KHLPGLALSRNVPVIFVKD 141 (197)
Q Consensus 108 qlVlIAaDv~P~~Li-----------------~HLP~Lc~~rnIP~v~V~s 141 (197)
..|+||.+.+|.|+. .|.-.||++.+||+++--.
T Consensus 11 ~~IlV~~~~~p~~~~~~~~~~~Giv~~~Gg~~SH~aIlAr~~giP~ivg~~ 61 (80)
T PF00391_consen 11 GVILVAEELTPSDLALDLQRVAGIVTEEGGPTSHAAILARELGIPAIVGVG 61 (80)
T ss_dssp TEEEEESS--TTCHHSHHTTSSEEEESSSSTTSHHHHHHHHTT-EEEESTT
T ss_pred CEEEEECCCCHHHHhcchhheEEEEEEcCCccchHHHHHHHcCCCEEEeec
Confidence 578888888887776 7999999999999887553
No 32
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=69.67 E-value=7.4 Score=31.52 Aligned_cols=31 Identities=19% Similarity=0.380 Sum_probs=27.3
Q ss_pred EccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 112 LAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 112 IAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+|. ++=.+|+.-+-.+|-++|+|+.+|...+
T Consensus 30 v~~-~~i~dL~~~~~~ic~ergiPIe~I~~~k 60 (121)
T PF13611_consen 30 VAN-NEIDDLVREVTEICCERGIPIEIIDKKK 60 (121)
T ss_pred Eec-CcHHHHHHHHHHHHHHcCCCEEEecCcc
Confidence 665 5566899999999999999999999887
No 33
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=66.79 E-value=12 Score=28.68 Aligned_cols=49 Identities=14% Similarity=0.139 Sum_probs=34.8
Q ss_pred cccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEc
Q 029226 67 SIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVK 140 (197)
Q Consensus 67 ~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~ 140 (197)
.-...++.+.+++.. +..|+||-+-+....+.++-..|++.+|.+-+||
T Consensus 127 lg~~~~l~~~~~~~~-------------------------id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 127 LGDLDDLPELVREHD-------------------------IDEVIIALPWSEEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp E--GGGHHHHHHHHT---------------------------EEEE--TTS-HHHHHHHHHHHHTTT-EEEE--
T ss_pred EcCHHHHHHHHHhCC-------------------------CCEEEEEcCccCHHHHHHHHHHHHhCCCEEEEeC
Confidence 345789999999887 7999999777777889999999999999988876
No 34
>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=66.62 E-value=37 Score=27.27 Aligned_cols=72 Identities=17% Similarity=0.278 Sum_probs=50.8
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCCh--hhHHHhHHHHHHhcCCCEEEEcC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSP--RWLIKHLPGLALSRNVPVIFVKD 141 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P--~~Li~HLP~Lc~~rnIP~v~V~s 141 (197)
.+-+.|-+++.|.++.+. +++++++.+|-| +..+...-.|+. .+|.+-..
T Consensus 25 gkY~lgyK~T~k~~r~gk-------------------------akL~~is~n~p~lrks~ieyyamlak---~~v~~~sg 76 (112)
T KOG2988|consen 25 GKYILGYKQTLKSLRQGK-------------------------AKLIIISSNCPPLRKSEIEYYAMLAK---TGVHHYSG 76 (112)
T ss_pred cceeechHHHHHHHHhcc-------------------------ceEEEeecCCCCcchhHHHHHHHHhc---CceeeecC
Confidence 468899999999999988 799999999977 344556666666 44444432
Q ss_pred CCCCchhhhhhhCC-ceeEEEEEeec
Q 029226 142 KKGGSLRLGELVKL-KTAIAVGIKAK 166 (197)
Q Consensus 142 kk~~Sl~LG~a~Gi-kta~Aigik~~ 166 (197)
.-.+||++||- -+..++.|-+.
T Consensus 77 ---~n~~lgt~~g~~fRv~v~~ivd~ 99 (112)
T KOG2988|consen 77 ---NNVELGTACGKTFRVSVLSIVDL 99 (112)
T ss_pred ---CcEeHHHHhcCeeEeeEEEEEec
Confidence 23499999994 24555554443
No 35
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=62.93 E-value=6.4 Score=31.43 Aligned_cols=21 Identities=14% Similarity=0.498 Sum_probs=18.1
Q ss_pred hhcccccccHHHHHHHHHhcC
Q 029226 61 WFKQRFSIGVNEVTRVLERMA 81 (197)
Q Consensus 61 ~~k~~l~iGVNeVTKaLEr~~ 81 (197)
|+.+++...++++-++++.-.
T Consensus 1 ~~~~~~~~~~~~~~~~i~~aD 21 (171)
T cd01856 1 WFPGHMAKALRQIKEKLKLVD 21 (171)
T ss_pred CCchHHHHHHHHHHHHHhhCC
Confidence 778899999999999998844
No 36
>PRK10864 putative methyltransferase; Provisional
Probab=60.84 E-value=56 Score=30.48 Aligned_cols=81 Identities=14% Similarity=0.181 Sum_probs=53.3
Q ss_pred ccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 64 QRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 64 ~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
..++.|.|.|..+|+.... .+..+++....+|. ..-|..+++.++++|..|+..
T Consensus 108 ~~~I~G~~aV~ealk~~~~-----------------------~i~~l~~~~~~~~~--~~~il~~~~~~~~~v~~V~~~- 161 (346)
T PRK10864 108 ETRVYGENACQALFQSRPE-----------------------AIVRAWFIQSVTPR--FKEALRWMAANRKAYHVVDEA- 161 (346)
T ss_pred CcEEEEHHHHHHHHhCCCC-----------------------ceeEEEEecCccHH--HHHHHHHHHHcCCcEEEeCHH-
Confidence 4688999999999976331 05677777777763 345556667789998888544
Q ss_pred CCchhhhhhhCCce--eEEEEEeec-CcchHHHH
Q 029226 144 GGSLRLGELVKLKT--AIAVGIKAK-GNIINQLM 174 (197)
Q Consensus 144 ~~Sl~LG~a~Gikt--a~Aigik~~-~~~~nk~~ 174 (197)
.|-++++.++ .++.-++.. ...+.+++
T Consensus 162 ----~l~kls~~~~hqGV~A~v~~~~~~~l~~~l 191 (346)
T PRK10864 162 ----ELTKASGTEHHGGVCFLIKKRNGTDVQQWL 191 (346)
T ss_pred ----HHHHHhCCCCCCeEEEEEeCCCCCCHHHHh
Confidence 7999998864 343334433 23454443
No 37
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=56.67 E-value=1.2e+02 Score=26.40 Aligned_cols=64 Identities=14% Similarity=0.193 Sum_probs=45.9
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
.+..|.+-|..+|+.... .+.-+++..+.+...+ .-+-.+|.+++|++..|+..
T Consensus 3 ~~i~G~~~v~eal~~~~~-----------------------~~~~l~~~~~~~~~~~-~~~~~~~~~~~i~~~~v~~~-- 56 (244)
T PRK11181 3 EIIYGIHAVQALLERAPE-----------------------RFIEVFVLKGREDKRL-LPLINELEAQGIVIQLANRQ-- 56 (244)
T ss_pred cEEEehHHHHHHHhCCCC-----------------------ceeEEEEECCCcchHH-HHHHHHHHHcCCcEEEeCHH--
Confidence 467999999999985331 1567777766654333 45557888899999998644
Q ss_pred CchhhhhhhCCce
Q 029226 145 GSLRLGELVKLKT 157 (197)
Q Consensus 145 ~Sl~LG~a~Gikt 157 (197)
.|-++++.++
T Consensus 57 ---~l~~ls~~~~ 66 (244)
T PRK11181 57 ---TLDEKAEGAV 66 (244)
T ss_pred ---HHhhhhcCCC
Confidence 7889888754
No 38
>KOG4201 consensus Anthranilate synthase component II [Amino acid transport and metabolism]
Probab=50.71 E-value=87 Score=28.47 Aligned_cols=66 Identities=21% Similarity=0.403 Sum_probs=49.0
Q ss_pred hhHHHhHHHHHHhcCC-CEEEEcCCCCCchhhhhhhCCceeEEEEEeecC--------cchHHHHHHHhcCCcccccccc
Q 029226 119 RWLIKHLPGLALSRNV-PVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKG--------NIINQLMDKILHGDEVDLLKLS 189 (197)
Q Consensus 119 ~~Li~HLP~Lc~~rnI-P~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~--------~~~nk~~~~il~~~~~~~~~l~ 189 (197)
...++.+-..|...|. |++-|.+.. +++++++| -+-.|||..++ ++-.++++. ++ +++=+..+|
T Consensus 172 ~~~lk~l~k~~K~L~me~LVEVn~~e----Em~ralei-GakvvGvNNRnL~sFeVDlstTskL~E~-i~-kDvilva~S 244 (289)
T KOG4201|consen 172 DLLLKELYKISKDLGMEPLVEVNDEE----EMQRALEI-GAKVVGVNNRNLHSFEVDLSTTSKLLEG-IP-KDVILVALS 244 (289)
T ss_pred hHHHHHHHHHHHHcCCcceeeeccHH----HHHHHHHh-CcEEEeecCCccceeeechhhHHHHHhh-Cc-cceEEEecc
Confidence 3467788889999885 699999999 99999999 67789998875 234456655 33 566666666
Q ss_pred CC
Q 029226 190 ET 191 (197)
Q Consensus 190 ~~ 191 (197)
-+
T Consensus 245 Gi 246 (289)
T KOG4201|consen 245 GI 246 (289)
T ss_pred CC
Confidence 54
No 39
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=50.43 E-value=53 Score=30.64 Aligned_cols=84 Identities=21% Similarity=0.316 Sum_probs=58.7
Q ss_pred cccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCc
Q 029226 67 SIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGS 146 (197)
Q Consensus 67 ~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~S 146 (197)
+--+||+.+++..+... ..++++-.|-.-...+.-+-.-+.+++||++.-++.-
T Consensus 196 v~~~ndi~~a~~~l~g~-----------------------~d~i~~p~dn~i~s~~~~l~~~a~~~kiPli~sd~~~--- 249 (322)
T COG2984 196 VTSVNDIPRAVQALLGK-----------------------VDVIYIPTDNLIVSAIESLLQVANKAKIPLIASDTSS--- 249 (322)
T ss_pred cCcccccHHHHHHhcCC-----------------------CcEEEEecchHHHHHHHHHHHHHHHhCCCeecCCHHH---
Confidence 34678888888876521 4688888776555567677778889999998765432
Q ss_pred hhhhhhhCCceeEEEEEeecCcc--hHHHHHHHhcCCc
Q 029226 147 LRLGELVKLKTAIAVGIKAKGNI--INQLMDKILHGDE 182 (197)
Q Consensus 147 l~LG~a~Gikta~Aigik~~~~~--~nk~~~~il~~~~ 182 (197)
.+ --.++|+|+...+.+ ....+.+||+|.+
T Consensus 250 V~------~Ga~aA~gvdy~~~G~qtg~~v~~ILkG~~ 281 (322)
T COG2984 250 VK------EGALAALGVDYKDLGKQTGEMVVKILKGKK 281 (322)
T ss_pred Hh------cCcceeeccCHHHHHHHHHHHHHHHHcCCC
Confidence 11 113688999887755 4556899999944
No 40
>PRK00400 hisE phosphoribosyl-ATP pyrophosphatase; Validated
Probab=41.31 E-value=16 Score=28.69 Aligned_cols=75 Identities=20% Similarity=0.250 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccC
Q 029226 36 RLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAAD 115 (197)
Q Consensus 36 ~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaD 115 (197)
+.|+.+++.|+..+ ...|+..|...-|..|++.+.+.|--.. ..+|+-|.|
T Consensus 3 ~~l~~L~~~I~~Rk----~~~~~~SYT~~L~~~G~~ki~kKlgEEa-------------------------~E~i~A~~~ 53 (105)
T PRK00400 3 DTLERLAATIEERK----GADPEGSYTAKLLDKGLDKILKKVGEEA-------------------------TEVVIAAKD 53 (105)
T ss_pred cHHHHHHHHHHHHH----hCCCCCcHHHHHHHCCHHHHHHHHHHHH-------------------------HHHHHHHHc
Confidence 34666677776544 2347888888889999999987774332 244444455
Q ss_pred CCh-------hhHHHhHHHHHHhcCCCEEEE
Q 029226 116 CSP-------RWLIKHLPGLALSRNVPVIFV 139 (197)
Q Consensus 116 v~P-------~~Li~HLP~Lc~~rnIP~v~V 139 (197)
-|+ .+|+=|+-.|...+||+.--|
T Consensus 54 ~d~~~~i~E~ADLlYHllVlL~~~gv~~~dV 84 (105)
T PRK00400 54 GDREELVYEIADLLYHLLVLLAARGISLEDV 84 (105)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 555 346679999999999975443
No 41
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=38.74 E-value=1.1e+02 Score=24.39 Aligned_cols=37 Identities=14% Similarity=0.205 Sum_probs=25.0
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+-+++|.++-.+...+.-+-.+|...++|+++|=.|-
T Consensus 96 ~ailvVda~~g~~~~~~~~l~~~~~~~~p~ivvlNK~ 132 (188)
T PF00009_consen 96 IAILVVDANDGIQPQTEEHLKILRELGIPIIVVLNKM 132 (188)
T ss_dssp EEEEEEETTTBSTHHHHHHHHHHHHTT-SEEEEEETC
T ss_pred cceeeeecccccccccccccccccccccceEEeeeec
Confidence 4566666654455567777788999999977776555
No 42
>PRK00124 hypothetical protein; Validated
Probab=37.81 E-value=44 Score=27.80 Aligned_cols=30 Identities=27% Similarity=0.437 Sum_probs=27.6
Q ss_pred EEEccCCChhhHHHhHHHHHHhcCCCEEEEcC
Q 029226 110 ILLAADCSPRWLIKHLPGLALSRNVPVIFVKD 141 (197)
Q Consensus 110 VlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~s 141 (197)
|+|-+|.-| +..-+-.+|+.+++|+++|.+
T Consensus 3 I~VDADACP--Vk~~i~r~a~r~~i~v~~Vas 32 (151)
T PRK00124 3 IYVDADACP--VKDIIIRVAERHGIPVTLVAS 32 (151)
T ss_pred EEEECCCCc--HHHHHHHHHHHHCCeEEEEEe
Confidence 789999999 888899999999999999983
No 43
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=35.37 E-value=46 Score=24.64 Aligned_cols=33 Identities=24% Similarity=0.366 Sum_probs=21.3
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDK 142 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~sk 142 (197)
+..++++.+..|. ..+-.+|++++||++.++..
T Consensus 62 i~~iIltg~~~~~---~~v~~la~~~~i~vi~t~~d 94 (105)
T PF07085_consen 62 IACIILTGGLEPS---EEVLELAKELGIPVISTPYD 94 (105)
T ss_dssp ECEEEEETT-------HHHHHHHHHHT-EEEE-SS-
T ss_pred CCEEEEeCCCCCC---HHHHHHHHHCCCEEEEECCC
Confidence 5788888777764 46678999999999998854
No 44
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=35.08 E-value=93 Score=30.41 Aligned_cols=67 Identities=15% Similarity=0.463 Sum_probs=48.9
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhh------------------hhCCceeEEEEEeecCc
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGE------------------LVKLKTAIAVGIKAKGN 168 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~------------------a~Gikta~Aigik~~~~ 168 (197)
+-++||-.+-|.. =+.||-.+|+++++|--++.+.. +|+. |+- .....|||.+-.|
T Consensus 363 vDlmiVVGG~NSS-NT~~L~eIa~~~g~~sy~Ie~~~----eI~~~~~i~h~~~~~e~~~~~~wl~-~~~~~VGITAGAS 436 (460)
T PLN02821 363 LDLMLVVGGWNSS-NTSHLQEIAEHKGIPSYWIDSEE----RIGPGNTIAHKLNHGELVEKENWLP-EGPVTIGVTSGAS 436 (460)
T ss_pred CCEEEEECCCCCc-cHHHHHHHHHHhCCCEEEECCHH----HcCcccccccccccchhhhhHHHhc-cCCCEEEEecCCC
Confidence 4566666655542 47899999999999999999998 8874 551 1246788888777
Q ss_pred chHHHHHHHhc
Q 029226 169 IINQLMDKILH 179 (197)
Q Consensus 169 ~~nk~~~~il~ 179 (197)
+=+.++++++.
T Consensus 437 TPd~lIeeVi~ 447 (460)
T PLN02821 437 TPDKVVEDVLD 447 (460)
T ss_pred CCHHHHHHHHH
Confidence 76667776653
No 45
>PRK02759 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed
Probab=34.49 E-value=35 Score=29.76 Aligned_cols=74 Identities=19% Similarity=0.297 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEc
Q 029226 34 LVRLLKLIQREIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLA 113 (197)
Q Consensus 34 l~~ll~~i~~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIA 113 (197)
....|..+.+.|+..+ ...|+..|...-|..|++.+.+.+--.. ..+|+-|
T Consensus 112 ~~~~L~~L~~~I~~Rk----~~~pe~SYT~~L~~~G~~kI~kKvgEEA-------------------------~E~iiAa 162 (203)
T PRK02759 112 PWDFLSQLEQLIAERK----NAPPEGSYTAKLFASGTKRIAQKVGEEA-------------------------VEVVLAA 162 (203)
T ss_pred hhhHHHHHHHHHHHHH----hCCCCCcHHHHHHhCcHHHHHHHHHHHH-------------------------HHHHHHH
Confidence 3357888888887655 2348888988999999999887774332 2444444
Q ss_pred cCCChh-------hHHHhHHHHHHhcCCCE
Q 029226 114 ADCSPR-------WLIKHLPGLALSRNVPV 136 (197)
Q Consensus 114 aDv~P~-------~Li~HLP~Lc~~rnIP~ 136 (197)
.|-|+. +|+=|+-.|++.+||+.
T Consensus 163 k~~d~~~li~E~ADLlYHllVlL~~~gv~l 192 (203)
T PRK02759 163 KNNDKEELINEAADLLYHLLVLLADQGLSL 192 (203)
T ss_pred HcCCHHHHHHHHHHHHHHHHHHHHHcCCCH
Confidence 555553 46679999999999864
No 46
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=32.99 E-value=60 Score=22.86 Aligned_cols=52 Identities=12% Similarity=0.250 Sum_probs=36.9
Q ss_pred hHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCceeEEEEEeecCcchHHHHHHHhcCCccccc
Q 029226 124 HLPGLALSRNVPVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKGNIINQLMDKILHGDEVDLL 186 (197)
Q Consensus 124 HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~~~~nk~~~~il~~~~~~~~ 186 (197)
..-.++.++|+++..+|... +++.-||+ +++-...+. +.+.++|..+++...
T Consensus 16 ~~ek~lk~~gi~~~liP~P~----~i~~~CG~------al~~~~~d~-~~i~~~l~~~~i~~~ 67 (73)
T PF11823_consen 16 KAEKLLKKNGIPVRLIPTPR----EISAGCGL------ALRFEPEDL-EKIKEILEENGIEYE 67 (73)
T ss_pred HHHHHHHHCCCcEEEeCCCh----hccCCCCE------EEEEChhhH-HHHHHHHHHCCCCee
Confidence 55678899999999999999 87777764 344444555 355577777766544
No 47
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=32.72 E-value=2.4e+02 Score=27.28 Aligned_cols=25 Identities=24% Similarity=0.266 Sum_probs=21.3
Q ss_pred hhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 119 RWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 119 ~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
..++.++-.+|.+.+.-+.+|.+..
T Consensus 364 ~d~vd~l~e~a~~~Ga~ve~is~~~ 388 (411)
T COG1503 364 SDLVDELAELAEESGAKVEIISDDT 388 (411)
T ss_pred hhHHHHHHHHHHhcCCeEEEecCch
Confidence 4568889999999999999998876
No 48
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=32.33 E-value=2.6e+02 Score=26.51 Aligned_cols=37 Identities=14% Similarity=0.158 Sum_probs=32.0
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+..|+||.+.....-+.+|-..|+..++.+..+|+..
T Consensus 204 IdeViIAip~~~~~~l~ell~~~~~~~v~V~ivP~l~ 240 (463)
T PRK10124 204 IHNVYIAMSMCDGARVKKLVRQLADTTCSVLLIPDVF 240 (463)
T ss_pred CCEEEEeCCCcchHHHHHHHHHHHHcCCeEEEecchh
Confidence 6899999766666678899999999999999999876
No 49
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.39 E-value=70 Score=26.85 Aligned_cols=33 Identities=24% Similarity=0.321 Sum_probs=29.3
Q ss_pred EEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 109 VILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 109 lVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
-|+|-+|.=| +..-|-..++++++++.||.+..
T Consensus 3 ~I~VDADACP--Vk~~i~r~A~r~~~~v~~Van~~ 35 (150)
T COG1671 3 TIWVDADACP--VKDEIYRVAERMGLKVTFVANFP 35 (150)
T ss_pred eEEEeCCCCc--hHHHHHHHHHHhCCeEEEEeCCC
Confidence 4789999999 88899999999999999998664
No 50
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=31.38 E-value=1.4e+02 Score=26.04 Aligned_cols=58 Identities=17% Similarity=0.095 Sum_probs=37.2
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCceeEEEEEeecC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKG 167 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~ 167 (197)
..+||.|.| |+ .+-..|-..|..+++++..+++...++--....+ -+-.+.|||-..+
T Consensus 86 ~~LViaATd-D~-~vN~~I~~~a~~~~~lvn~vd~p~~~dFi~PAiv-~rg~l~IaIST~G 143 (223)
T PRK05562 86 KHLIVIATD-DE-KLNNKIRKHCDRLYKLYIDCSDYKKGLCIIPYQR-STKNFVFALNTKG 143 (223)
T ss_pred CcEEEECCC-CH-HHHHHHHHHHHHcCCeEEEcCCcccCeEEeeeEE-ecCCEEEEEECCC
Confidence 467888876 44 6889999999999999998887653222222211 1224666666533
No 51
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=31.38 E-value=66 Score=25.17 Aligned_cols=31 Identities=23% Similarity=0.297 Sum_probs=20.2
Q ss_pred EEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcC
Q 029226 108 QVILLAADCSPRWLIKHLPGLALSRNVPVIFVKD 141 (197)
Q Consensus 108 qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~s 141 (197)
=+||++.+..|. ..+..+|++.+||++.-+.
T Consensus 83 P~iIvt~~~~~p---~~l~e~a~~~~ipll~t~~ 113 (127)
T PF02603_consen 83 PCIIVTRGLEPP---PELIELAEKYNIPLLRTPL 113 (127)
T ss_dssp S-EEEETTT------HHHHHHHHHCT--EEEESS
T ss_pred CEEEEECcCCCC---HHHHHHHHHhCCcEEEcCC
Confidence 389999988754 4566789999999988764
No 52
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=31.00 E-value=1.2e+02 Score=28.15 Aligned_cols=37 Identities=22% Similarity=0.055 Sum_probs=31.4
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+..|+||.+.....-..++-..|++.+|.+..+|+..
T Consensus 189 id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~vP~~~ 225 (445)
T TIGR03025 189 VDEVIIALPLSEEARILELLLQLRDLGVDVRLVPDLF 225 (445)
T ss_pred CCEEEEecCcccHHHHHHHHHHHHhcCCEEEEeCchh
Confidence 6789999666666677899999999999999999876
No 53
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=30.96 E-value=1.1e+02 Score=28.29 Aligned_cols=50 Identities=14% Similarity=0.104 Sum_probs=40.0
Q ss_pred cHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 69 GVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 69 GVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
+.++..+.+++.. +..|+||.......-..++-..|++.++.+..+|+..
T Consensus 179 ~~~dl~~~i~~~~-------------------------vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~vvP~~~ 228 (451)
T TIGR03023 179 KLDDLEELIREGE-------------------------VDEVYIALPLAAEDRILELLDALEDLTVDVRLVPDLF 228 (451)
T ss_pred CHHHHHHHHHhcC-------------------------CCEEEEeeCcccHHHHHHHHHHHHhcCCEEEEeCchh
Confidence 3567777777766 6889999666555677899999999999999999876
No 54
>TIGR03188 histidine_hisI phosphoribosyl-ATP pyrophosphohydrolase. This enzyme, phosphoribosyl-ATP pyrophosphohydrolase, catalyses the second step in the histidine biosynthesis pathway. It often occurs as a fusion protein. This model a somewhat narrower scope than Pfam model pfam01503, as some paralogs that appear to be functionally distinct are excluded from this model.
Probab=30.82 E-value=27 Score=26.30 Aligned_cols=57 Identities=21% Similarity=0.326 Sum_probs=39.4
Q ss_pred CCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCCh-------hhHHHhHHH
Q 029226 55 SLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSP-------RWLIKHLPG 127 (197)
Q Consensus 55 ~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P-------~~Li~HLP~ 127 (197)
..|+..|...-|..|.+.+.+.+--.. ..+|+-|.|-|+ .+++=|+-.
T Consensus 14 ~~~~~SYT~~L~~~G~~ki~kKvgEEa-------------------------~E~iiAa~~~d~~~~~~E~ADLlYHllV 68 (84)
T TIGR03188 14 ADPEGSYTARLFAKGLDKILKKVGEEA-------------------------VEVVIAAKNGDKEELVYEAADLLYHLLV 68 (84)
T ss_pred CCCCCcHHHHHHhCcHHHHHHHHHHHH-------------------------HHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 347788888888999999887774332 234444455444 346679999
Q ss_pred HHHhcCCCE
Q 029226 128 LALSRNVPV 136 (197)
Q Consensus 128 Lc~~rnIP~ 136 (197)
|...+||+.
T Consensus 69 lL~~~gi~~ 77 (84)
T TIGR03188 69 LLAAQGVSL 77 (84)
T ss_pred HHHHcCCCH
Confidence 999999863
No 55
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=30.33 E-value=3.4e+02 Score=24.28 Aligned_cols=108 Identities=18% Similarity=0.287 Sum_probs=62.9
Q ss_pred HHHHHhhhhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEc---cCCChh
Q 029226 43 REIVSARSLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLA---ADCSPR 119 (197)
Q Consensus 43 ~~ie~ak~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIA---aDv~P~ 119 (197)
+.++.+++..++.+|- -.=.|-|.+-.++|--+.+.. -.+. .++++. .-.++.
T Consensus 61 ~v~~~~v~~~~grvpv------iaG~g~~~t~eai~lak~a~~-----------------~Gad-~il~v~PyY~k~~~~ 116 (299)
T COG0329 61 EVLEAVVEAVGGRVPV------IAGVGSNSTAEAIELAKHAEK-----------------LGAD-GILVVPPYYNKPSQE 116 (299)
T ss_pred HHHHHHHHHHCCCCcE------EEecCCCcHHHHHHHHHHHHh-----------------cCCC-EEEEeCCCCcCCChH
Confidence 3345555555555543 233677777777766442210 0011 233333 334568
Q ss_pred hHHHhHHHHHHhcCCCEEEEc--CCCCCchhhhhhhCCc-eeEEEEEeecCcchHHHH
Q 029226 120 WLIKHLPGLALSRNVPVIFVK--DKKGGSLRLGELVKLK-TAIAVGIKAKGNIINQLM 174 (197)
Q Consensus 120 ~Li~HLP~Lc~~rnIP~v~V~--skk~~Sl~LG~a~Gik-ta~Aigik~~~~~~nk~~ 174 (197)
.+..|.-.+|+.-++|++.-. ..-+..+.+-.+.-+. ....+|||....++..+.
T Consensus 117 gl~~hf~~ia~a~~lPvilYN~P~~tg~~l~~e~i~~la~~~nivgiKd~~gd~~~~~ 174 (299)
T COG0329 117 GLYAHFKAIAEAVDLPVILYNIPSRTGVDLSPETIARLAEHPNIVGVKDSSGDLDRLE 174 (299)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCccccCCCCCHHHHHHHhcCCCEEEEEeCCcCHHHHH
Confidence 899999999999999966544 3334444444433333 358899999988875444
No 56
>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=29.15 E-value=1.8e+02 Score=22.36 Aligned_cols=24 Identities=17% Similarity=0.083 Sum_probs=21.0
Q ss_pred hHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 120 WLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 120 ~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
.+-..+-.+|.++++|++.+|..-
T Consensus 86 ~iP~~~i~~A~~~~lPli~ip~~~ 109 (123)
T PF07905_consen 86 EIPEEIIELADELGLPLIEIPWEV 109 (123)
T ss_pred cCCHHHHHHHHHcCCCEEEeCCCC
Confidence 577788899999999999999765
No 57
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=28.66 E-value=46 Score=23.95 Aligned_cols=23 Identities=22% Similarity=0.564 Sum_probs=20.4
Q ss_pred hhhcccccccHHHHHHHHHhcCc
Q 029226 60 LWFKQRFSIGVNEVTRVLERMAP 82 (197)
Q Consensus 60 ~~~k~~l~iGVNeVTKaLEr~~~ 82 (197)
.++.++|.+|-|...|.+|.++.
T Consensus 23 S~lQR~~~IGynrAariid~lE~ 45 (63)
T smart00843 23 SLLQRRLRIGYNRAARLIDQLEE 45 (63)
T ss_pred HHHHHHHhcchhHHHHHHHHHHH
Confidence 36889999999999999999883
No 58
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=28.49 E-value=1.9e+02 Score=24.81 Aligned_cols=73 Identities=16% Similarity=0.221 Sum_probs=49.2
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCceeEEEEEeecC--cchHH----HHHHHhcC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLKTAIAVGIKAKG--NIINQ----LMDKILHG 180 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gikta~Aigik~~~--~~~nk----~~~~il~~ 180 (197)
+-+||+|.|= ..+-.-+-.+|.++++|+-.+++...++.-+...+... .+.|+|...+ +.+.+ -+++.|+.
T Consensus 73 ~~lviaAt~d--~~ln~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~-~l~iaIsT~G~sP~la~~ir~~Ie~~l~~ 149 (210)
T COG1648 73 AFLVIAATDD--EELNERIAKAARERRILVNVVDDPELCDFIFPAIVDRG-PLQIAISTGGKSPVLARLLREKIEALLPP 149 (210)
T ss_pred ceEEEEeCCC--HHHHHHHHHHHHHhCCceeccCCcccCceecceeeccC-CeEEEEECCCCChHHHHHHHHHHHHHcCC
Confidence 3567776543 35888899999999999999988875555555555544 4777777766 44444 44566655
Q ss_pred Cc
Q 029226 181 DE 182 (197)
Q Consensus 181 ~~ 182 (197)
..
T Consensus 150 ~~ 151 (210)
T COG1648 150 SL 151 (210)
T ss_pred ch
Confidence 43
No 59
>COG1212 KdsB CMP-2-keto-3-deoxyoctulosonic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=27.47 E-value=1.1e+02 Score=27.61 Aligned_cols=106 Identities=20% Similarity=0.250 Sum_probs=66.4
Q ss_pred hcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHH
Q 029226 51 LHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLAL 130 (197)
Q Consensus 51 ~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~ 130 (197)
.+..-||.|+. ...-|.--+.++.|+-..+. +.-|+||.|-. +|-.-|.
T Consensus 12 ~~STRLpgKPL---adI~GkpmI~rV~e~a~~s~----------------------~~rvvVATDde------~I~~av~ 60 (247)
T COG1212 12 LASTRLPGKPL---ADIGGKPMIVRVAERALKSG----------------------ADRVVVATDDE------RIAEAVQ 60 (247)
T ss_pred hhcccCCCCch---hhhCCchHHHHHHHHHHHcC----------------------CCeEEEEcCCH------HHHHHHH
Confidence 34445788876 46678888888888855221 67899999853 4445677
Q ss_pred hcCCCEEEEcCCC-CCchhhhhhhCCce--eEEEEEeecC--c-----chHHHHHHHhcCCccccccc
Q 029226 131 SRNVPVIFVKDKK-GGSLRLGELVKLKT--AIAVGIKAKG--N-----IINQLMDKILHGDEVDLLKL 188 (197)
Q Consensus 131 ~rnIP~v~V~skk-~~Sl~LG~a~Gikt--a~Aigik~~~--~-----~~nk~~~~il~~~~~~~~~l 188 (197)
..+.-+++-+..- .|+-||.++|..=- -..+-|.-.+ + .|.+++ +.|.-.+.|+.-|
T Consensus 61 ~~G~~avmT~~~h~SGTdR~~Ev~~~l~~~~~~iIVNvQGDeP~i~p~~I~~~~-~~L~~~~~~~aTl 127 (247)
T COG1212 61 AFGGEAVMTSKDHQSGTDRLAEVVEKLGLPDDEIIVNVQGDEPFIEPEVIRAVA-ENLENSNADMATL 127 (247)
T ss_pred HhCCEEEecCCCCCCccHHHHHHHHhcCCCcceEEEEccCCCCCCCHHHHHHHH-HHHHhCCcceeee
Confidence 8888766665443 88999999876431 2334444433 2 244444 3355556666544
No 60
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=27.26 E-value=84 Score=23.53 Aligned_cols=40 Identities=23% Similarity=0.424 Sum_probs=32.4
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchh
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLR 148 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~ 148 (197)
..+|+++.++. .....+-..|+..|+|+..++...++.+.
T Consensus 51 ~Dvill~pqi~--~~~~~i~~~~~~~~ipv~~I~~~~Y~~md 90 (95)
T TIGR00853 51 ADVVLLAPQVA--YMLPDLKKETDKKGIPVEVINGAQYGKLT 90 (95)
T ss_pred CCEEEECchHH--HHHHHHHHHhhhcCCCEEEeChhhcccCC
Confidence 36999998775 47788999999999999999877655544
No 61
>COG4378 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.25 E-value=1.1e+02 Score=24.06 Aligned_cols=40 Identities=25% Similarity=0.349 Sum_probs=33.1
Q ss_pred CCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEc
Q 029226 101 KVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVK 140 (197)
Q Consensus 101 ~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~ 140 (197)
.+.|..+.+|+|-.|---..+++-|-.-+.+++||++|-.
T Consensus 39 k~Ips~~dlilvLtdf~nHNl~~~iK~eakk~~ip~~~ak 78 (103)
T COG4378 39 KPIPSDTDLILVLTDFLNHNLMKKIKNEAKKRKIPLVCAK 78 (103)
T ss_pred ccCCCCccEEEEEhhhhcchHHHHHHHHHhhcCCCeEEee
Confidence 3445567888888887667899999999999999999976
No 62
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=26.69 E-value=1.6e+02 Score=27.63 Aligned_cols=38 Identities=26% Similarity=0.241 Sum_probs=26.9
Q ss_pred EEEccCC---ChhhHHHhHHHHHHhcCCCEEEEcCCCCCch
Q 029226 110 ILLAADC---SPRWLIKHLPGLALSRNVPVIFVKDKKGGSL 147 (197)
Q Consensus 110 VlIAaDv---~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl 147 (197)
++.+.|. .++.|.+||-.+|+++||||-+--..-++|-
T Consensus 257 ~i~~~D~~~~~~~~l~~~L~~~A~~~~Ip~Q~~v~~~ggTD 297 (355)
T COG1363 257 VIRVKDASGIYHPKLRKFLLELAEKNNIPYQVDVSPGGGTD 297 (355)
T ss_pred EEEEEcCCCCCCHHHHHHHHHHHHHcCCCeEEEecCCCCcc
Confidence 3444554 3457999999999999999766555544544
No 63
>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.
Probab=26.66 E-value=1.3e+02 Score=23.13 Aligned_cols=34 Identities=18% Similarity=0.142 Sum_probs=27.7
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDK 142 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~sk 142 (197)
..+||.|.|- + ....+|-.+|.++++|++.+...
T Consensus 90 ~diVi~~~d~-~-~~~~~l~~~~~~~~i~~i~~~~~ 123 (143)
T cd01483 90 VDLVIDAIDN-I-AVRRALNRACKELGIPVIDAGGL 123 (143)
T ss_pred CCEEEECCCC-H-HHHHHHHHHHHHcCCCEEEEcCC
Confidence 3688888887 3 46778999999999999998754
No 64
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=25.35 E-value=2.2e+02 Score=26.09 Aligned_cols=64 Identities=16% Similarity=0.290 Sum_probs=44.4
Q ss_pred EEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhh-hhhCCceeEEEEEeecCcchHHHHHHHh
Q 029226 108 QVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLG-ELVKLKTAIAVGIKAKGNIINQLMDKIL 178 (197)
Q Consensus 108 qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG-~a~Gikta~Aigik~~~~~~nk~~~~il 178 (197)
.++||..+-+. .=+.||-.+|++.+.|..++.+.. +|- .|+ +..-.|||.+-.|+=+.++++++
T Consensus 212 D~miVVGg~~S-sNT~kL~~i~~~~~~~t~~Ie~~~----el~~~~l--~~~~~VGitaGASTP~~li~eV~ 276 (298)
T PRK01045 212 DLVIVVGSKNS-SNSNRLREVAEEAGAPAYLIDDAS----EIDPEWF--KGVKTVGVTAGASAPEWLVQEVI 276 (298)
T ss_pred CEEEEECCCCC-ccHHHHHHHHHHHCCCEEEECChH----HCcHHHh--cCCCEEEEEecCCCCHHHHHHHH
Confidence 45555544443 247899999999999999999888 664 333 33457788877776666666655
No 65
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=25.34 E-value=3.5e+02 Score=23.84 Aligned_cols=72 Identities=22% Similarity=0.284 Sum_probs=54.0
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
-+..|.|-|..+|+.+.. +.-+++..+..+ -+.-+...+..++++|..|+..
T Consensus 22 ~~~~G~~~v~~al~~~~~------------------------i~~i~~~~~~~~--~~~~~~~~~~~~~~~~~~v~~~-- 73 (260)
T COG0566 22 FLIEGEHAVLEALASGPK------------------------IVRILVTEGRLP--RFEELLALAAAKGIPVYVVSEA-- 73 (260)
T ss_pred EEEeeHHHHHHHHhcCCC------------------------ceEEEEecccch--hHHHHHHHHHhcCCeEEEECHH--
Confidence 589999999999999852 788889888772 4557778888999999999765
Q ss_pred CchhhhhhhCCc--eeEEEEEeecC
Q 029226 145 GSLRLGELVKLK--TAIAVGIKAKG 167 (197)
Q Consensus 145 ~Sl~LG~a~Gik--ta~Aigik~~~ 167 (197)
.|.++.+-. ..++.-++...
T Consensus 74 ---~l~~~~~~~~hqGi~a~~~~~~ 95 (260)
T COG0566 74 ---ILDKLSGTENHQGIVAVVKKRR 95 (260)
T ss_pred ---HHHHHhCCCCCCeEEEEEeccc
Confidence 778777754 34444444443
No 66
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=24.39 E-value=4.6e+02 Score=22.52 Aligned_cols=78 Identities=27% Similarity=0.318 Sum_probs=47.8
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKG 144 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~ 144 (197)
.++.|.|.|..+|+.+. ++.+...=.++ +. .-+-.+|.+++||+..|+ .+
T Consensus 2 ~~i~G~~~v~eal~~~~--------------------------~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~v~-~~- 51 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQQ--------------------------RVFILKGLESK-RL-KKLIQLAKKQGINIQLVD-RQ- 51 (237)
T ss_pred cEEEehHHHHHHHhCCC--------------------------EEEEEecCcch-HH-HHHHHHHHHcCCcEEEeC-HH-
Confidence 46789999999999764 22222111133 22 236677888899999996 44
Q ss_pred CchhhhhhhCCce--eEEEEEeec-CcchHHHHH
Q 029226 145 GSLRLGELVKLKT--AIAVGIKAK-GNIINQLMD 175 (197)
Q Consensus 145 ~Sl~LG~a~Gikt--a~Aigik~~-~~~~nk~~~ 175 (197)
.|-++++..+ .++.-++.. ...++++.+
T Consensus 52 ---~l~~l~~~~~~qGv~a~~~~~~~~~~~~~~~ 82 (237)
T TIGR00186 52 ---KLDQLTKGGNHQGIAAKVKPILYKDLNDLYK 82 (237)
T ss_pred ---HHHHHhCCCCCCeEEEEEecCCCCCHHHHHH
Confidence 7888888653 333334433 335555554
No 67
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=24.12 E-value=2.3e+02 Score=21.80 Aligned_cols=47 Identities=17% Similarity=0.208 Sum_probs=35.6
Q ss_pred ccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCC---Ch-hhHHHhHHHHHHhcCCCEEEE
Q 029226 68 IGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADC---SP-RWLIKHLPGLALSRNVPVIFV 139 (197)
Q Consensus 68 iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv---~P-~~Li~HLP~Lc~~rnIP~v~V 139 (197)
-|-.++...|..++ +.+|+--.|- ++ ..-..-|-..|-+++|||+.-
T Consensus 57 ~g~~~i~~~i~~g~-------------------------i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~Tt 107 (115)
T cd01422 57 GGDQQIGALIAEGE-------------------------IDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLATN 107 (115)
T ss_pred CchhHHHHHHHcCc-------------------------eeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEEc
Confidence 46677888898888 7888777553 44 444668889999999999763
No 68
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=24.06 E-value=66 Score=28.01 Aligned_cols=21 Identities=19% Similarity=0.468 Sum_probs=18.4
Q ss_pred hhcccccccHHHHHHHHHhcC
Q 029226 61 WFKQRFSIGVNEVTRVLERMA 81 (197)
Q Consensus 61 ~~k~~l~iGVNeVTKaLEr~~ 81 (197)
|+-.|+.+...++.++++.-.
T Consensus 3 WfpgHm~k~~~~~~~~l~~aD 23 (276)
T TIGR03596 3 WFPGHMAKARREIKEKLKLVD 23 (276)
T ss_pred cChHHHHHHHHHHHHHHhhCC
Confidence 888899999999999999743
No 69
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=23.45 E-value=2.6e+02 Score=25.69 Aligned_cols=48 Identities=21% Similarity=0.195 Sum_probs=28.5
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC--CCchhhhhhhCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK--GGSLRLGELVKL 155 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk--~~Sl~LG~a~Gi 155 (197)
+=+|++-.=.|+ +|.+-|-..|..|+||+-.+=+.. ..-+.+.+-+++
T Consensus 149 VIAIVMD~FTD~-dIf~DLleAa~kR~VpVYiLLD~~~~~~Fl~Mc~~~~v 198 (284)
T PF07894_consen 149 VIAIVMDVFTDV-DIFCDLLEAANKRGVPVYILLDEQNLPHFLEMCEKLGV 198 (284)
T ss_pred eeEEEeeccccH-HHHHHHHHHHHhcCCcEEEEechhcChHHHHHHHHCCC
Confidence 445555544455 577778888999999944444444 222334444444
No 70
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=23.25 E-value=1.5e+02 Score=22.73 Aligned_cols=37 Identities=11% Similarity=0.166 Sum_probs=30.6
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGG 145 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~ 145 (197)
..+|+++.++ ++....+-.+|+.+|+|+..++...++
T Consensus 51 ~DvIll~PQi--~~~~~~i~~~~~~~~ipv~~I~~~~Y~ 87 (104)
T PRK09590 51 YDLYLVSPQT--KMYFKQFEEAGAKVGKPVVQIPPQAYI 87 (104)
T ss_pred CCEEEEChHH--HHHHHHHHHHhhhcCCCEEEeCHHHcC
Confidence 4699999887 467889999999999999999866433
No 71
>cd01485 E1-1_like Ubiquitin activating enzyme (E1), repeat 1-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homol
Probab=23.21 E-value=1.3e+02 Score=25.08 Aligned_cols=34 Identities=6% Similarity=0.107 Sum_probs=25.7
Q ss_pred EEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 108 QVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 108 qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
.+|+.|.|. .....++-.+|.+++||+++....-
T Consensus 115 dvVi~~~d~--~~~~~~ln~~c~~~~ip~i~~~~~G 148 (198)
T cd01485 115 TLVIATEEN--YERTAKVNDVCRKHHIPFISCATYG 148 (198)
T ss_pred CEEEECCCC--HHHHHHHHHHHHHcCCCEEEEEeec
Confidence 467766543 4466689999999999999987544
No 72
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=22.90 E-value=3.3e+02 Score=20.43 Aligned_cols=42 Identities=12% Similarity=0.188 Sum_probs=31.8
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCc
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLK 156 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gik 156 (197)
+.+|.|..|-++. +...++++++++.++.|. +..+.+.+|+.
T Consensus 63 v~~v~v~~~~~~~-----~~~~~~~~~~~~~~~~D~---~~~~~~~~~~~ 104 (146)
T PF08534_consen 63 VDVVGVSSDDDPP-----VREFLKKYGINFPVLSDP---DGALAKALGVT 104 (146)
T ss_dssp CEEEEEEESSSHH-----HHHHHHHTTTTSEEEEET---TSHHHHHTTCE
T ss_pred eEEEEecccCCHH-----HHHHHHhhCCCceEEech---HHHHHHHhCCc
Confidence 6899999888885 666777788887777653 23889999976
No 73
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=22.54 E-value=4.8e+02 Score=23.59 Aligned_cols=65 Identities=15% Similarity=0.297 Sum_probs=43.8
Q ss_pred EEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhh-hhhCCceeEEEEEeecCcchHHHHHHHhc
Q 029226 108 QVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLG-ELVKLKTAIAVGIKAKGNIINQLMDKILH 179 (197)
Q Consensus 108 qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG-~a~Gikta~Aigik~~~~~~nk~~~~il~ 179 (197)
-++||..+-+. .=+.||-.+|++.+.|..++.+.. +|- .++. ..-.|||.+-.|+=+.+++++..
T Consensus 211 D~miVIGg~~S-sNT~kL~eia~~~~~~t~~Ie~~~----el~~~~l~--~~~~VGItaGASTP~~ii~eVi~ 276 (281)
T PF02401_consen 211 DAMIVIGGKNS-SNTRKLAEIAKEHGKPTYHIETAD----ELDPEWLK--GVKKVGITAGASTPDWIIEEVID 276 (281)
T ss_dssp SEEEEES-TT--HHHHHHHHHHHHCTTCEEEESSGG----G--HHHHT--T-SEEEEEE-TTS-HHHHHHHHH
T ss_pred CEEEEecCCCC-ccHHHHHHHHHHhCCCEEEeCCcc----ccCHhHhC--CCCEEEEEccCCCCHHHHHHHHH
Confidence 46666665555 358899999999999999999888 553 3333 23378888888887777777653
No 74
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=22.24 E-value=78 Score=29.23 Aligned_cols=105 Identities=16% Similarity=0.192 Sum_probs=65.2
Q ss_pred hhhhhhccCCCCCCccccccccchhHHHHHHHHHHHHHHhh-hhcCCCCCchhhhcccccccHHHHHHHHHhcCccCCCC
Q 029226 9 RKLVHDVSKPPNSVPQESECYEGESLVRLLKLIQREIVSAR-SLHGDSLPEKLWFKQRFSIGVNEVTRVLERMAPRANMG 87 (197)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~ge~l~~ll~~i~~~ie~ak-~~~~~~lp~k~~~k~~l~iGVNeVTKaLEr~~~~~~~~ 87 (197)
=||.++..+..--+.-.-+.++-+.++.+++.+.+.++..- -.=.++||.-+. .-=-.++++.+.+.-
T Consensus 91 vki~~~~~~~~Tein~~Gp~is~~~~~~~l~~~~~~l~~~d~VvlsGSlP~g~~-----~d~y~~li~~~~~~g------ 159 (310)
T COG1105 91 VKILDEEDGEETEINFPGPEISEAELEQFLEQLKALLESDDIVVLSGSLPPGVP-----PDAYAELIRILRQQG------ 159 (310)
T ss_pred EEEEecCCCcEEEecCCCCCCCHHHHHHHHHHHHHhcccCCEEEEeCCCCCCCC-----HHHHHHHHHHHHhcC------
Confidence 35555544444445555666777788888988888664331 122446665221 001234555555433
Q ss_pred CCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCCCCchhhhhhhCCc
Q 029226 88 ISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKKGGSLRLGELVKLK 156 (197)
Q Consensus 88 ~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk~~Sl~LG~a~Gik 156 (197)
+.++-|++...|...|..- |.+.=|... +|..++|.+
T Consensus 160 ----------------------~~vilD~Sg~~L~~~L~~~------P~lIKPN~~----EL~~~~g~~ 196 (310)
T COG1105 160 ----------------------AKVILDTSGEALLAALEAK------PWLIKPNRE----ELEALFGRE 196 (310)
T ss_pred ----------------------CeEEEECChHHHHHHHccC------CcEEecCHH----HHHHHhCCC
Confidence 3445588888788777654 999999998 999999976
No 75
>TIGR00287 cas1 CRISPR-associated endonuclease Cas1. This model identifies CRISPR-associated protein Cas1, the most universal CRISPR system protein. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Cas1 is a metal-dependent DNA-specific endonuclease.
Probab=22.16 E-value=1.1e+02 Score=27.43 Aligned_cols=33 Identities=15% Similarity=0.258 Sum_probs=27.3
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDK 142 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~sk 142 (197)
+..|+|...++ |+..+..+|.++|||++|+...
T Consensus 35 i~~I~i~g~~~---lst~~l~~l~~~~I~v~f~~~~ 67 (323)
T TIGR00287 35 VDCIVLFGGVS---ISSAAIRELAKRGIDIVFLGGD 67 (323)
T ss_pred ccEEEEECCCC---cCHHHHHHHHHCCCeEEEECCC
Confidence 56777767764 8889999999999999999754
No 76
>PF02946 GTF2I: GTF2I-like repeat; InterPro: IPR004212 This region of sequence similarity is found up to six times in a variety of proteins including general transcription factor II-I (GTF2I). It has been suggested that this may be a DNA binding domain [, ].; PDB: 2E3L_A 2D99_A 2DN4_A 2D9B_A 2EJE_A 1Q60_A 2DZR_A 2DN5_A 2DZQ_A 2ED2_A.
Probab=21.99 E-value=1.2e+02 Score=22.85 Aligned_cols=29 Identities=24% Similarity=0.500 Sum_probs=20.4
Q ss_pred CCCCchhhhcccccccHHHHHHHHHhcCc
Q 029226 54 DSLPEKLWFKQRFSIGVNEVTRVLERMAP 82 (197)
Q Consensus 54 ~~lp~k~~~k~~l~iGVNeVTKaLEr~~~ 82 (197)
.+||+.+.+|+-=..|+....+.||....
T Consensus 40 ~GLPegi~fr~P~~Y~i~~L~~IL~~~~~ 68 (76)
T PF02946_consen 40 QGLPEGIPFRRPSNYGIPRLEKILEASSR 68 (76)
T ss_dssp ES--TT--SS-TTTS-HHHHHHHHHTTTT
T ss_pred EeCCCCCcCCCCCcCCHHHHHHHHHccCC
Confidence 37899999999999999999999998763
No 77
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=21.82 E-value=2.6e+02 Score=18.76 Aligned_cols=23 Identities=30% Similarity=0.494 Sum_probs=14.5
Q ss_pred HHhcCCCEEEEcCCC-CCchhhhh
Q 029226 129 ALSRNVPVIFVKDKK-GGSLRLGE 151 (197)
Q Consensus 129 c~~rnIP~v~V~skk-~~Sl~LG~ 151 (197)
--.+.||.+|+.+.. ||+.+|-+
T Consensus 46 ~g~~~vP~ifi~g~~igg~~~l~~ 69 (72)
T cd03029 46 TGAMTVPQVFIDGELIGGSDDLEK 69 (72)
T ss_pred hCCCCcCeEEECCEEEeCHHHHHH
Confidence 345678888888665 55544444
No 78
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=21.35 E-value=4.6e+02 Score=24.23 Aligned_cols=73 Identities=18% Similarity=0.262 Sum_probs=50.9
Q ss_pred hhhcccccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCEEEE
Q 029226 60 LWFKQRFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPVIFV 139 (197)
Q Consensus 60 ~~~k~~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V 139 (197)
..+...+...+.++.+.-...- -++.++..+.-|.+-=.+.-..-++.+||...+
T Consensus 122 ~IlTh~~S~~v~~~l~~A~~~~-------------------------k~~~V~VtESRP~~eG~~~ak~L~~~gI~~~~I 176 (301)
T COG1184 122 VILTHSFSKTVLEVLKTAADRG-------------------------KRFKVIVTESRPRGEGRIMAKELRQSGIPVTVI 176 (301)
T ss_pred EEEEecCcHHHHHHHHHhhhcC-------------------------CceEEEEEcCCCcchHHHHHHHHHHcCCceEEE
Confidence 3455678888888888776544 268888889999876555556666788999998
Q ss_pred cCCCCCchhhhhhhCCceeEEEE
Q 029226 140 KDKKGGSLRLGELVKLKTAIAVG 162 (197)
Q Consensus 140 ~skk~~Sl~LG~a~Gikta~Aig 162 (197)
.|. ..|-.+.--....+|
T Consensus 177 ~Ds-----a~~~~~~~vd~VivG 194 (301)
T COG1184 177 VDS-----AVGAFMSRVDKVLVG 194 (301)
T ss_pred ech-----HHHHHHHhCCEEEEC
Confidence 877 556666444444455
No 79
>cd00757 ThiF_MoeB_HesA_family ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1).
Probab=21.23 E-value=1.6e+02 Score=24.87 Aligned_cols=33 Identities=9% Similarity=0.035 Sum_probs=26.3
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKD 141 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~s 141 (197)
..+||.|.| ++. .-.+|-.+|.++++|+++...
T Consensus 112 ~DvVi~~~d-~~~-~r~~l~~~~~~~~ip~i~~g~ 144 (228)
T cd00757 112 YDLVLDCTD-NFA-TRYLINDACVKLGKPLVSGAV 144 (228)
T ss_pred CCEEEEcCC-CHH-HHHHHHHHHHHcCCCEEEEEe
Confidence 368999988 553 456888999999999999853
No 80
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=21.01 E-value=1.7e+02 Score=21.69 Aligned_cols=35 Identities=23% Similarity=0.189 Sum_probs=25.7
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
..+||+|.|- ..+-..|-..|+++++|+..+++..
T Consensus 61 ~~lV~~at~d--~~~n~~i~~~a~~~~i~vn~~D~p~ 95 (103)
T PF13241_consen 61 ADLVFAATDD--PELNEAIYADARARGILVNVVDDPE 95 (103)
T ss_dssp ESEEEE-SS---HHHHHHHHHHHHHTTSEEEETT-CC
T ss_pred heEEEecCCC--HHHHHHHHHHHhhCCEEEEECCCcC
Confidence 4577777643 3577889999999999998887765
No 81
>PF00899 ThiF: ThiF family; InterPro: IPR000594 Ubiquitin-activating enzyme (E1 enzyme) [, ] activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin- conjugating enzymes (E2). The family of ubiquitin-activating enzymes shares in its catalytic domain significant similarity with a large family of NAD/FAD-binding proteins. This domain is based on the common NAD/FAD-binding fold and finds members of several families, including UBA ubiquitin activating enzymes; the hesA/moeB/thiF family; NADH peroxidases; the LDH family; sarcosin oxidase; phytoene dehydrogenases; alanine dehydrogenases; hydroxyacyl-CoA dehydrogenases and many other NAD/FAD dependent dehydrogenases and oxidases.; GO: 0003824 catalytic activity; PDB: 1ZKM_D 1ZUD_3 1ZFN_D 1R4M_G 2NVU_A 1R4N_C 3DBR_A 3DBH_C 3DBL_G 1YOV_A ....
Probab=20.75 E-value=1.8e+02 Score=22.25 Aligned_cols=33 Identities=12% Similarity=0.077 Sum_probs=24.7
Q ss_pred EEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCC
Q 029226 108 QVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDK 142 (197)
Q Consensus 108 qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~sk 142 (197)
.+||.|.|-. ..-.+|-.+|.++++|++++...
T Consensus 94 d~vi~~~d~~--~~~~~l~~~~~~~~~p~i~~~~~ 126 (135)
T PF00899_consen 94 DIVIDCVDSL--AARLLLNEICREYGIPFIDAGVN 126 (135)
T ss_dssp SEEEEESSSH--HHHHHHHHHHHHTT-EEEEEEEE
T ss_pred CEEEEecCCH--HHHHHHHHHHHHcCCCEEEEEee
Confidence 6888887663 35557888999999999988643
No 82
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=20.24 E-value=2.3e+02 Score=22.44 Aligned_cols=36 Identities=14% Similarity=0.164 Sum_probs=26.6
Q ss_pred eEEEEEccCCChhhHHHhHHHHHHhcCCCEEEEcCCC
Q 029226 107 LQVILLAADCSPRWLIKHLPGLALSRNVPVIFVKDKK 143 (197)
Q Consensus 107 ~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~v~V~skk 143 (197)
.-.++|..+++.. ...-.-.||.+.|+|+..|.+..
T Consensus 63 ~~~l~ing~l~~~-~~~~YiklA~~~~~~fTiv~~~~ 98 (120)
T PF07997_consen 63 NYKLKINGNLDYS-FQSKYIKLANKHGIPFTIVNDPE 98 (120)
T ss_dssp SEEEEEETTS-HH-HHHHHHHHHHHTT--EEEE---S
T ss_pred CeEEEEcCCCCHH-HHHHHHHHHHHcCCCEEEeCCCC
Confidence 4789999999985 77788899999999999999887
No 83
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=20.23 E-value=2.5e+02 Score=25.10 Aligned_cols=61 Identities=18% Similarity=0.272 Sum_probs=42.0
Q ss_pred cccccHHHHHHHHHhcCccCCCCCCCCCCccccCCCCCCCCceEEEEEccCCChhhHHHhHHHHHHhcCCCE--EEEcCC
Q 029226 65 RFSIGVNEVTRVLERMAPRANMGISPQQPHILCGNSKVPSVQLQVILLAADCSPRWLIKHLPGLALSRNVPV--IFVKDK 142 (197)
Q Consensus 65 ~l~iGVNeVTKaLEr~~~~~~~~~~~~~~~~~~~~~~~p~~~~qlVlIAaDv~P~~Li~HLP~Lc~~rnIP~--v~V~sk 142 (197)
.|..||.|..+.|..+- .++.+|..--.+ .+-..++..+||+ +|....
T Consensus 88 ~lT~Gi~eLv~~L~~~~-------------------------~~v~liSGGF~~-----~i~~Va~~Lgi~~~n~yAN~l 137 (227)
T KOG1615|consen 88 TLTPGIRELVSRLHARG-------------------------TQVYLISGGFRQ-----LIEPVAEQLGIPKSNIYANEL 137 (227)
T ss_pred ccCCCHHHHHHHHHHcC-------------------------CeEEEEcCChHH-----HHHHHHHHhCCcHhhhhhhee
Confidence 69999999999998877 588888875544 4455678889998 554332
Q ss_pred CCCchhhhhhhCCce
Q 029226 143 KGGSLRLGELVKLKT 157 (197)
Q Consensus 143 k~~Sl~LG~a~Gikt 157 (197)
. --..|+..|.++
T Consensus 138 ~--fd~~Gk~~gfd~ 150 (227)
T KOG1615|consen 138 L--FDKDGKYLGFDT 150 (227)
T ss_pred e--eccCCccccccc
Confidence 2 113466666553
Done!