Query 033887
Match_columns 109
No_of_seqs 133 out of 1021
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 07:25:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033887.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033887hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07876 Dabb: Stress responsi 100.0 4.3E-33 9.3E-38 173.4 13.9 97 8-104 1-97 (97)
2 PF03992 ABM: Antibiotic biosy 98.8 2E-07 4.4E-12 54.6 10.7 77 7-88 1-77 (78)
3 TIGR02118 conserved hypothetic 98.1 0.00015 3.2E-09 45.2 10.5 85 11-96 3-88 (100)
4 PF11639 HapK: REDY-like prote 98.0 0.00016 3.5E-09 45.3 9.1 84 10-95 4-88 (104)
5 PF07045 DUF1330: Protein of u 97.7 0.00047 1E-08 39.7 7.6 64 23-87 2-65 (65)
6 PRK10486 autoinducer-2 (AI-2) 97.6 0.0052 1.1E-07 37.9 11.7 88 7-100 1-88 (96)
7 COG1359 Uncharacterized conser 97.6 0.004 8.8E-08 38.7 11.0 82 8-96 2-86 (100)
8 COG3224 Uncharacterized protei 97.5 0.0022 4.8E-08 44.2 9.6 91 4-99 7-97 (195)
9 COG2329 Uncharacterized enzyme 97.4 0.0067 1.5E-07 38.3 10.4 82 7-92 2-83 (105)
10 PRK13314 heme-degrading monoox 97.0 0.021 4.6E-07 36.3 9.5 96 7-108 1-100 (107)
11 PF07110 EthD: EthD domain; I 96.9 0.022 4.7E-07 34.2 9.0 76 18-93 1-91 (95)
12 PRK13312 heme-degrading monoox 96.8 0.0099 2.1E-07 37.8 7.0 70 13-88 8-78 (107)
13 PRK13313 heme-degrading monoox 96.8 0.021 4.5E-07 36.4 8.2 76 7-88 1-77 (108)
14 COG5470 Uncharacterized conser 96.7 0.027 5.9E-07 34.9 8.3 85 11-101 7-94 (96)
15 PRK13315 heme-degrading monoox 96.7 0.027 5.7E-07 35.8 8.3 76 7-88 1-77 (107)
16 PRK13316 heme-degrading monoox 96.2 0.17 3.8E-06 32.8 9.9 79 7-88 1-85 (121)
17 PF01037 AsnC_trans_reg: AsnC 95.0 0.16 3.5E-06 29.0 5.9 54 12-79 1-54 (74)
18 PF02700 PurS: Phosphoribosylf 92.8 0.53 1.1E-05 28.3 5.4 39 11-51 4-42 (80)
19 PRK09565 hypothetical protein; 91.9 1.3 2.8E-05 35.2 7.9 80 12-97 447-526 (533)
20 PRK06423 phosphoribosylformylg 91.5 0.9 1.9E-05 26.6 5.3 42 9-52 2-43 (73)
21 PRK05783 hypothetical protein; 90.4 1.2 2.7E-05 27.0 5.2 43 7-51 2-44 (84)
22 TIGR00302 phosphoribosylformyl 89.4 1.6 3.4E-05 26.0 5.1 41 9-51 2-42 (80)
23 PF13826 DUF4188: Domain of un 88.6 1.6 3.6E-05 28.1 5.1 61 25-93 23-84 (117)
24 PF09448 MmlI: Methylmuconolac 87.5 5 0.00011 24.9 11.3 83 11-93 3-93 (112)
25 PRK12866 YciI-like protein; Re 86.3 5.9 0.00013 24.4 6.9 66 11-85 4-74 (97)
26 COG1828 PurS Phosphoribosylfor 86.0 2.9 6.2E-05 25.4 4.8 80 7-107 1-80 (83)
27 PF13816 Dehydratase_hem: Haem 84.5 12 0.00027 28.0 8.5 87 7-93 175-274 (310)
28 PRK05974 phosphoribosylformylg 84.2 3.5 7.6E-05 24.5 4.6 38 12-51 5-42 (80)
29 TIGR03792 uncharacterized cyan 83.2 8.4 0.00018 23.7 7.1 67 11-82 4-70 (90)
30 PF07978 NIPSNAP: NIPSNAP ; I 82.5 8.3 0.00018 23.1 6.6 78 11-93 3-84 (102)
31 PRK11179 DNA-binding transcrip 82.1 11 0.00025 24.8 6.9 54 11-79 72-125 (153)
32 PRK11169 leucine-responsive tr 81.3 13 0.00029 24.8 7.2 56 11-79 77-132 (164)
33 PF11695 DUF3291: Domain of un 81.1 14 0.00029 24.6 8.8 81 13-93 6-92 (140)
34 PRK12864 YciI-like protein; Re 78.6 12 0.00026 22.5 7.4 67 9-85 3-74 (89)
35 KOG0415 Predicted peptidyl pro 76.2 2.8 6E-05 32.3 2.7 54 12-76 243-296 (479)
36 PRK11370 YciI-like protein; Re 69.6 23 0.0005 21.6 8.2 73 11-85 4-83 (99)
37 PF14114 DUF4286: Domain of un 57.0 43 0.00094 20.5 9.2 46 39-85 31-78 (98)
38 PHA03169 hypothetical protein; 56.9 82 0.0018 24.5 7.2 59 3-72 317-377 (413)
39 PF01361 Tautomerase: Tautomer 55.3 31 0.00067 18.7 3.8 26 11-36 2-27 (60)
40 PF08734 GYD: GYD domain; Int 55.3 45 0.00097 20.2 6.3 20 58-77 44-63 (91)
41 cd00491 4Oxalocrotonate_Tautom 55.0 32 0.00068 18.3 3.9 25 12-36 3-27 (58)
42 PRK02289 4-oxalocrotonate taut 52.9 38 0.00081 18.6 4.1 24 12-35 4-27 (60)
43 PRK02220 4-oxalocrotonate taut 52.9 36 0.00079 18.4 3.9 26 7-35 2-27 (61)
44 COG1324 CutA Uncharacterized p 52.2 25 0.00055 22.2 3.3 37 11-47 5-43 (104)
45 COG1746 CCA1 tRNA nucleotidylt 52.2 25 0.00053 27.8 3.8 51 21-71 17-75 (443)
46 PF09290 AcetDehyd-dimer: Prok 50.3 53 0.0012 21.8 4.7 39 3-42 71-110 (137)
47 KOG2316 Predicted ATPase (PP-l 50.3 13 0.00027 27.0 1.9 32 21-52 87-118 (277)
48 PRK01964 4-oxalocrotonate taut 50.1 42 0.00091 18.5 3.8 23 14-36 6-28 (64)
49 COG3427 Carbon monoxide dehydr 49.8 18 0.00039 24.3 2.5 30 19-48 10-39 (146)
50 CHL00123 rps6 ribosomal protei 49.1 61 0.0013 19.8 5.4 38 13-50 11-50 (97)
51 TIGR00439 ftsX putative protei 48.5 45 0.00097 24.8 4.7 33 12-48 68-100 (309)
52 PRK12863 YciI-like protein; Re 47.8 61 0.0013 19.5 8.4 70 11-85 4-76 (94)
53 COG5227 SMT3 Ubiquitin-like pr 47.4 58 0.0013 20.2 4.2 56 12-76 37-93 (103)
54 COG2037 Ftr Formylmethanofuran 45.8 76 0.0017 23.4 5.3 40 6-50 242-282 (297)
55 PF08803 ydhR: Putative mono-o 44.2 78 0.0017 19.7 7.8 63 12-81 4-66 (97)
56 PF01883 DUF59: Domain of unkn 44.1 59 0.0013 18.3 4.1 36 12-47 36-72 (72)
57 PRK11702 hypothetical protein; 43.8 47 0.001 21.1 3.6 24 11-34 24-47 (108)
58 PRK07403 glyceraldehyde-3-phos 43.4 1.3E+02 0.0029 22.9 6.5 43 6-50 240-282 (337)
59 PF02741 FTR_C: FTR, proximal 43.4 84 0.0018 21.1 4.8 39 7-50 97-136 (150)
60 PF02526 GBP_repeat: Glycophor 42.8 41 0.00088 16.9 2.5 22 72-93 8-29 (38)
61 PF04320 DUF469: Protein with 42.6 58 0.0013 20.4 3.8 26 10-35 17-42 (101)
62 PRK00453 rpsF 30S ribosomal pr 42.5 81 0.0018 19.5 5.3 38 13-50 7-46 (108)
63 COG0057 GapA Glyceraldehyde-3- 41.0 1.6E+02 0.0035 22.5 7.5 41 4-46 236-276 (335)
64 TIGR01534 GAPDH-I glyceraldehy 40.6 1.2E+02 0.0027 22.8 6.0 43 9-53 241-283 (327)
65 PRK08300 acetaldehyde dehydrog 40.1 97 0.0021 23.2 5.3 40 3-42 199-239 (302)
66 PLN03134 glycine-rich RNA-bind 39.4 1.1E+02 0.0023 20.0 7.4 58 10-78 36-93 (144)
67 PF06778 Chlor_dismutase: Chlo 39.3 1.3E+02 0.0029 20.9 7.4 64 8-76 101-170 (193)
68 PRK11026 ftsX cell division AB 39.0 78 0.0017 23.5 4.7 31 14-48 70-100 (309)
69 TIGR00013 taut 4-oxalocrotonat 38.6 67 0.0015 17.4 4.0 24 12-35 3-27 (63)
70 PRK12865 YciI-like protein; Re 38.3 92 0.002 18.8 7.5 70 10-85 3-77 (97)
71 PRK00745 4-oxalocrotonate taut 38.0 69 0.0015 17.3 4.0 24 12-35 4-27 (62)
72 KOG2591 c-Mpl binding protein, 36.7 1.7E+02 0.0037 24.2 6.4 75 9-100 175-251 (684)
73 KOG0120 Splicing factor U2AF, 36.5 1.5E+02 0.0032 24.0 6.0 55 21-77 415-470 (500)
74 PF03924 CHASE: CHASE domain; 36.5 50 0.0011 22.1 3.2 35 18-53 3-37 (193)
75 PRK11118 putative monooxygenas 35.1 1.2E+02 0.0025 19.1 7.7 65 12-85 7-71 (100)
76 PF11964 SpoIIAA-like: SpoIIAA 34.9 53 0.0011 19.7 2.8 34 10-43 1-34 (109)
77 PF03795 YCII: YCII-related do 34.8 98 0.0021 18.1 6.8 73 9-85 2-83 (95)
78 PF00076 RRM_1: RNA recognitio 34.2 77 0.0017 16.8 7.9 54 13-78 3-56 (70)
79 TIGR01661 ELAV_HUD_SF ELAV/HuD 33.9 1.9E+02 0.0041 21.2 6.9 55 10-75 271-325 (352)
80 TIGR01532 E4PD_g-proteo D-eryt 33.0 1.3E+02 0.0028 22.7 5.0 41 10-52 242-282 (325)
81 PF14112 DUF4284: Domain of un 32.8 43 0.00093 21.4 2.2 18 62-79 3-20 (122)
82 PRK15031 5-carboxymethyl-2-hyd 32.5 1.2E+02 0.0026 19.7 4.3 35 7-42 60-95 (126)
83 cd01210 EPS8 Epidermal growth 31.5 1.5E+02 0.0033 19.4 4.6 65 7-79 5-69 (127)
84 PF02800 Gp_dh_C: Glyceraldehy 31.4 1.6E+02 0.0035 19.6 6.9 47 5-53 81-127 (157)
85 PHA00650 hypothetical protein 30.8 52 0.0011 19.0 2.1 28 68-95 6-33 (82)
86 PRK13535 erythrose 4-phosphate 30.7 1.4E+02 0.003 22.7 4.9 41 10-52 244-284 (336)
87 PF04673 Cyclase_polyket: Poly 30.3 75 0.0016 19.8 2.9 69 21-95 5-74 (97)
88 PF01250 Ribosomal_S6: Ribosom 30.1 1.2E+02 0.0027 17.9 4.9 38 13-50 6-45 (92)
89 PF06240 COXG: Carbon monoxide 29.6 88 0.0019 20.0 3.3 28 19-46 6-33 (140)
90 PRK15360 pathogenicity island 29.5 72 0.0016 21.2 2.8 35 11-45 49-85 (137)
91 PF02834 LigT_PEase: LigT like 29.4 1.2E+02 0.0026 17.4 4.5 33 8-41 34-66 (87)
92 KOG4208 Nucleolar RNA-binding 29.3 88 0.0019 22.3 3.4 33 40-76 75-107 (214)
93 TIGR03119 one_C_fhcD formylmet 29.2 2.4E+02 0.0053 21.0 5.9 37 7-48 234-271 (287)
94 TIGR01642 U2AF_lg U2 snRNP aux 29.1 1.5E+02 0.0033 23.0 5.1 52 21-75 425-478 (509)
95 PRK02114 formylmethanofuran--t 28.9 2.5E+02 0.0054 21.1 5.8 37 7-48 242-279 (297)
96 PRK07729 glyceraldehyde-3-phos 28.7 2.3E+02 0.0049 21.7 5.8 37 9-47 241-277 (343)
97 COG5552 Uncharacterized conser 28.5 43 0.00094 20.0 1.5 24 13-36 8-32 (88)
98 PHA02087 hypothetical protein 28.1 1.2E+02 0.0026 17.8 3.3 30 63-92 3-32 (83)
99 PF04486 SchA_CurD: SchA/CurD 28.1 80 0.0017 20.3 2.8 23 7-30 1-23 (114)
100 PTZ00023 glyceraldehyde-3-phos 27.7 2.4E+02 0.0052 21.5 5.7 38 7-46 242-279 (337)
101 PF00034 Cytochrom_C: Cytochro 27.7 70 0.0015 17.7 2.4 18 19-36 74-91 (91)
102 COG0199 RpsN Ribosomal protein 27.5 30 0.00065 19.7 0.7 14 34-47 48-61 (61)
103 PLN02358 glyceraldehyde-3-phos 27.3 1.7E+02 0.0038 22.2 4.9 35 10-46 247-281 (338)
104 PF03927 NapD: NapD protein; 26.6 92 0.002 18.3 2.8 21 26-47 51-71 (79)
105 PF14330 DUF4387: Domain of un 26.4 1.1E+02 0.0025 19.1 3.2 27 56-82 12-38 (99)
106 PF11303 DUF3105: Protein of u 26.4 1.9E+02 0.0041 18.8 4.6 63 11-79 51-115 (130)
107 KOG0113 U1 small nuclear ribon 26.2 3E+02 0.0064 21.0 6.1 80 7-104 100-179 (335)
108 PF14026 DUF4242: Protein of u 26.0 1.5E+02 0.0032 17.4 5.2 59 12-76 4-62 (77)
109 PRK09504 sufA iron-sulfur clus 26.0 35 0.00077 21.8 0.9 16 89-105 82-97 (122)
110 TIGR03215 ac_ald_DH_ac acetald 25.6 1.9E+02 0.0041 21.4 4.8 39 3-42 193-232 (285)
111 PF01904 DUF72: Protein of unk 25.3 1.6E+02 0.0034 20.8 4.2 37 9-45 86-124 (230)
112 TIGR01659 sex-lethal sex-letha 25.2 3.1E+02 0.0066 20.8 7.2 54 14-78 113-166 (346)
113 PF06569 DUF1128: Protein of u 23.8 1E+02 0.0023 18.1 2.5 20 17-36 51-70 (71)
114 PF03332 PMM: Eukaryotic phosp 23.7 1.3E+02 0.0028 21.6 3.5 42 20-61 110-162 (220)
115 PF08726 EFhand_Ca_insen: Ca2+ 23.6 22 0.00048 20.7 -0.3 28 26-53 6-33 (69)
116 PF14218 COP23: Circadian osci 23.5 1.6E+02 0.0035 19.0 3.7 24 10-33 85-109 (132)
117 PHA02697 hypothetical protein; 23.0 50 0.0011 23.8 1.3 41 6-51 74-114 (255)
118 PF14259 RRM_6: RNA recognitio 22.9 1.4E+02 0.003 16.1 4.3 56 12-79 2-57 (70)
119 KOG2792 Putative cytochrome C 22.6 2.4E+02 0.0053 20.9 4.7 58 14-85 148-207 (280)
120 COG0812 MurB UDP-N-acetylmuram 22.5 1.2E+02 0.0025 22.8 3.2 43 8-51 172-214 (291)
121 COG1522 Lrp Transcriptional re 22.4 2.2E+02 0.0047 18.1 7.3 54 11-78 71-124 (154)
122 PF07082 DUF1350: Protein of u 22.4 2.7E+02 0.006 20.3 5.0 73 7-86 162-237 (250)
123 PF10041 DUF2277: Uncharacteri 22.3 97 0.0021 18.5 2.2 17 12-28 7-23 (78)
124 COG4981 Enoyl reductase domain 22.2 1.1E+02 0.0025 25.2 3.2 35 15-51 155-189 (717)
125 PTZ00434 cytosolic glyceraldeh 22.1 2.7E+02 0.0058 21.5 5.1 38 12-51 261-298 (361)
126 TIGR03872 cytochrome_MoxG cyto 22.0 1.2E+02 0.0025 19.8 2.8 30 15-44 101-130 (133)
127 KOG0262 RNA polymerase I, larg 21.6 2.7E+02 0.0058 25.6 5.4 72 13-85 1210-1282(1640)
128 PF07867 DUF1654: Protein of u 21.6 1.9E+02 0.0041 17.1 3.8 29 6-35 22-50 (73)
129 PRK15425 gapA glyceraldehyde-3 21.1 2.8E+02 0.0061 21.0 5.0 36 9-46 240-275 (331)
130 PLN03096 glyceraldehyde-3-phos 21.0 3.4E+02 0.0073 21.2 5.5 38 10-49 302-339 (395)
131 PF13265 DUF4056: Protein of u 20.5 1.9E+02 0.0041 21.4 3.8 25 8-32 118-142 (270)
132 COG5353 Uncharacterized protei 20.4 2.9E+02 0.0063 18.8 5.2 65 10-78 89-159 (161)
133 PHA02085 hypothetical protein 20.0 1.6E+02 0.0035 17.7 2.8 27 66-92 3-30 (87)
No 1
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=100.00 E-value=4.3e-33 Score=173.39 Aligned_cols=97 Identities=32% Similarity=0.613 Sum_probs=92.2
Q ss_pred EEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHHH
Q 033887 8 VKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYA 87 (109)
Q Consensus 8 i~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~ 87 (109)
|+|||+||||+++++++++++++++++|++.||||+++++|+|.++.+.++|||++++++|+|.+++++|++||.|++++
T Consensus 1 I~Hivlfklk~~~~~~~~~~~~~~l~~l~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~~~l~~Y~~hp~H~~~~ 80 (97)
T PF07876_consen 1 IRHIVLFKLKPDATEEEIEEVLEALRALKDKIPGIVSFEVGRNFSPEDLAKGYDHALVSTFESEEDLDAYQTHPAHQAFV 80 (97)
T ss_dssp EEEEEEEEESTTTCHHHHHHHHHHHHHHHHHSTTECEEEEEEESSTSSTSTT-SEEEEEEESSHHHHHHHHTSHHHHHHH
T ss_pred CEEEEEEEECCCCCHHHHHHHHHHHHhcccCCCceEEEEEEcccCcccccCCCcEEEEEEECCHHHHHHHHcCHHHHHHH
Confidence 79999999999999999999999999999999999999999999875556899999999999999999999999999999
Q ss_pred HHHhhhhcceEEEEeec
Q 033887 88 NLFLANLEKVLVIDYKP 104 (109)
Q Consensus 88 ~~~~p~~~~~~~~D~~~ 104 (109)
+.++|++++++++||++
T Consensus 81 ~~~~p~~~~~~~~D~~V 97 (97)
T PF07876_consen 81 EFLKPILEDRIVFDFEV 97 (97)
T ss_dssp HHHHGGEEEEEEEEEEE
T ss_pred HHHHHHhCceEEEEEEC
Confidence 99999999999999985
No 2
>PF03992 ABM: Antibiotic biosynthesis monooxygenase; InterPro: IPR007138 This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species, which can carry out oxygenation without the assistance of any of the prosthetic groups, metal ions or cofactors normally associated with activation of molecular oxygen. The structure of ActVA-Orf6 monooxygenase from Streptomyces coelicolor (Q53908 from SWISSPROT), which is involved in actinorhodin biosynthesis, reveals a dimeric alpha+beta barrel topology []. There is also a conserved histidine that is likely to be an active site residue. In S. coelicolor SCO1909 (Q9X9W3 from SWISSPROT) this domain occurs as a repeat. This domain is also found in protein LsrG, involved in the degradation of quorum-sensing molecule autoinducer-2 [], and in several uncharacterised proteins.; PDB: 1X7V_A 3F44_A 4DN9_B 1N5T_B 1LQ9_A 1N5Q_B 1N5V_A 1N5S_A 2GFF_B 3BM7_A ....
Probab=98.82 E-value=2e-07 Score=54.58 Aligned_cols=77 Identities=10% Similarity=0.150 Sum_probs=63.0
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
||.-++.|++|++..++-.+.+.+....+.+..||.+++.+.++.. ++-.+.++..|+|.++++++..+|.|+++
T Consensus 1 Mi~v~~~~~v~~~~~~~f~~~~~~~~~~~~~~~~G~~~~~~~~~~~-----~~~~~~~~~~W~s~~a~~~~~~s~~~~~~ 75 (78)
T PF03992_consen 1 MITVIVKFKVKPGKEEEFLAAFQELAEATLRKEPGCLSYELYRSLD-----DPNRYVIVERWESEEAFQAHFKSPEFKAF 75 (78)
T ss_dssp EEEEEEEEEEETTGHHHHHHHHHHHHHHHHHTSTTEEEEEEEEESS-----STTEEEEEEEESSHHHHHHHHTSHHHHHH
T ss_pred CEEEEEEEEeCcchHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecC-----CCCEEEEEEEECCHHHHHHHHcCHHHHHH
Confidence 7899999999999775555555555565755799999999999654 22358999999999999999999999998
Q ss_pred HH
Q 033887 87 AN 88 (109)
Q Consensus 87 ~~ 88 (109)
.+
T Consensus 76 ~~ 77 (78)
T PF03992_consen 76 QE 77 (78)
T ss_dssp HH
T ss_pred Hh
Confidence 65
No 3
>TIGR02118 conserved hypothetical protein. This model represents a small family of proteins of unknown function, each about 105 amino acids in length. Conserved sites in the multiple alignment include a pair of aromatic residues, a histidine, and an aspartate.
Probab=98.08 E-value=0.00015 Score=45.17 Aligned_cols=85 Identities=14% Similarity=0.047 Sum_probs=62.9
Q ss_pred EEEEEeCCCCCHHHHHHHH-HHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHHHHH
Q 033887 11 VLLAKFKEGTAQDQIDQLI-KDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYANL 89 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~-~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~~~ 89 (109)
+.+.+=|| .+.++..... +.-..|..++||++++......+.......||-+..+.|+|.+++++-..+|+-+++.+.
T Consensus 3 ~~vlyr~p-~~~e~F~~yy~~~H~pL~~~~pg~~~y~~~~~~~~~~~~~~~d~i~el~Fds~e~~~~a~~sp~~~~~~~D 81 (100)
T TIGR02118 3 VSVLYEQP-EDGAAFDHHYRDTHVPLAQKLPGLRRYAVDKIVSGLPGSSPYYGMCELYFDSIEDFQAAFDSPEGKAAAAD 81 (100)
T ss_pred EEEEcCCC-CCHHHHHHHHHhccHHHHHhCcCceEEEEecccCCCCCCCCeeEEEEEEECCHHHHHHHHcCHHHHHHHHH
Confidence 34444455 7777765543 445677778999999999776542112344999999999999999999999999888877
Q ss_pred Hhhhhcc
Q 033887 90 FLANLEK 96 (109)
Q Consensus 90 ~~p~~~~ 96 (109)
...+.+.
T Consensus 82 ~~nF~d~ 88 (100)
T TIGR02118 82 VANFADG 88 (100)
T ss_pred HHhhcCC
Confidence 7776654
No 4
>PF11639 HapK: REDY-like protein HapK; InterPro: IPR021667 This family of proteins represents HapK, a protein of unknown function, with two homologues PigK and RedY. The monomer structure of the protein contains a four-stranded anti parallel beta-sheet, three alpha-helices and a short C-terminal tail which it uses for dimer formation []. The surface of HapK has a deep cavity with consists of a kinked helix and a beta-four strand. HapK could be involved in prodigiosin biosynthesis, specifically the binding of a bipyrrole intermediate such as HBM or MBM []. ; PDB: 2JDJ_B.
Probab=97.98 E-value=0.00016 Score=45.34 Aligned_cols=84 Identities=13% Similarity=0.158 Sum_probs=63.1
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHH-HhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHHHH
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDY-ANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYAN 88 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l-~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~~ 88 (109)
=|++|+||++++++..+.+.+.. ...+..+|.|++|++-+-.+. .+..|+|+=++...|.+++..=+..+.-+.+.+
T Consensus 4 IV~~i~Lk~gv~~~~fe~Wv~~tDy~tc~~L~sV~sF~V~r~s~~--~~aPy~YiEiI~V~d~~~F~~dm~t~~fq~l~~ 81 (104)
T PF11639_consen 4 IVHLIRLKDGVDPAAFERWVRETDYPTCPSLPSVRSFEVHRASSE--ADAPYHYIEIIDVSDMDAFGRDMATETFQRLVA 81 (104)
T ss_dssp EEEEEEES-GGGHHHHHHHHHHTHHHHGGG-TTEEEEEEEE------TT-S-SEEEEEEES-HHHHHHHHTSHHHHHHHH
T ss_pred EEEEEecCCCCCHHHHHHHHHhcchhcccCCCceeeEEEEEccCC--CCCCccEEEEEecCCHHHHHHHhccHHHHHHHH
Confidence 36789999999999999997543 344556999999999887542 456799999999999999999999999999998
Q ss_pred HHhhhhc
Q 033887 89 LFLANLE 95 (109)
Q Consensus 89 ~~~p~~~ 95 (109)
.+..+.+
T Consensus 82 ~F~~~A~ 88 (104)
T PF11639_consen 82 EFQQMAE 88 (104)
T ss_dssp HHCCCEE
T ss_pred HHHHHHH
Confidence 7776654
No 5
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=97.71 E-value=0.00047 Score=39.75 Aligned_cols=64 Identities=9% Similarity=0.071 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHHH
Q 033887 23 DQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYA 87 (109)
Q Consensus 23 ~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~ 87 (109)
+..++..+....+-.+..|=.=+..+.....+| +..++.+++++|+|.++..++.++|+++++.
T Consensus 2 ~~~~~Y~~~~~~~l~~~GG~~l~~~~~~~~leG-~~~~~~~viieFPs~~aa~~~~~speYq~~~ 65 (65)
T PF07045_consen 2 EAYQEYREAVPPILEKYGGRVLARGGEPEVLEG-DWDPDRVVIIEFPSMEAAKAWYNSPEYQALK 65 (65)
T ss_dssp HHHHHHHHHHHHHHHHTT-EEEEECEEEEEEES-T-SSSEEEEEEESSHHHHHHHHCSHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEECCceeEEec-CCCCCeEEEEECCCHHHHHHHHCCHhHHhhC
Confidence 345555555555555566643343444444454 5678999999999999999999999999864
No 6
>PRK10486 autoinducer-2 (AI-2) modifying protein LsrG; Provisional
Probab=97.60 E-value=0.0052 Score=37.93 Aligned_cols=88 Identities=8% Similarity=-0.051 Sum_probs=65.5
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
|+.-|+-|+.||+.- ++..++++.+..-...=||-+.+.+.++.. ++-.+.++=.|.|.+++++....|.-+++
T Consensus 1 m~~~ia~~~~kpg~~-~~~~~~l~~~~~~sr~EpGcl~y~~~~~~~-----~p~~~~~~E~w~d~~Al~~H~~tph~k~f 74 (96)
T PRK10486 1 MHVTLVEINVKEDKV-DEFIEVFRQNHLGSIQEPGNLRFDVLQDPE-----VPTRFYIYEAYKDEAAVAFHKTTPHYKTC 74 (96)
T ss_pred CEEEEEEEEECcchH-HHHHHHHHHHHHHHhCCCCceEEEEEeCCC-----CCCEEEEEEEeCCHHHHHHHhcCHHHHHH
Confidence 566778889998853 334444443333333469999999988863 23468899999999999999999999999
Q ss_pred HHHHhhhhcceEEE
Q 033887 87 ANLFLANLEKVLVI 100 (109)
Q Consensus 87 ~~~~~p~~~~~~~~ 100 (109)
.+.+.++++.-..+
T Consensus 75 ~~~~~~ll~~~~~i 88 (96)
T PRK10486 75 VEKLEPLMTGPRKK 88 (96)
T ss_pred HHHHHHHHhCCccc
Confidence 99999987754433
No 7
>COG1359 Uncharacterized conserved protein [Function unknown]
Probab=97.57 E-value=0.004 Score=38.72 Aligned_cols=82 Identities=15% Similarity=0.229 Sum_probs=58.7
Q ss_pred EEEEEEEEeCCCCCHHHHHHHHHHHHhhh---hcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHH
Q 033887 8 VKHVLLAKFKEGTAQDQIDQLIKDYANLV---NLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHV 84 (109)
Q Consensus 8 i~HiVlf~~k~~~~~~~~~~~~~~l~~L~---~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~ 84 (109)
+..++..++++. ++.++++.+.+..|. ..=||=+++.+.++.+ ..=.+.++=.|.|.++++...+.|.-+
T Consensus 2 ~~i~~~~~~~~~--~~~~~~~~~~~~~lv~~sr~EeGcl~Y~l~~d~~-----~~~~~~~~E~w~d~~A~~~H~~s~h~~ 74 (100)
T COG1359 2 LMVIVLARFKPK--PGHREEFLDLLAELVEASRAEEGCLSYELHRDPD-----NPGRFVLIEVWEDEAALDAHLQSPHFQ 74 (100)
T ss_pred cEEEEEEEEEeC--cchHHHHHHHHHHHHHHhccCCCceEEEEEEeCC-----CCCEEEEEEEECCHHHHHHHhCCHHHH
Confidence 344444455443 223444444333332 2458999999999975 223688999999999999999999999
Q ss_pred HHHHHHhhhhcc
Q 033887 85 EYANLFLANLEK 96 (109)
Q Consensus 85 ~~~~~~~p~~~~ 96 (109)
++.+.+.+++.+
T Consensus 75 ~~~~~~~~l~~~ 86 (100)
T COG1359 75 AFVAALPPLLAG 86 (100)
T ss_pred HHHHhChHhhcC
Confidence 999999999775
No 8
>COG3224 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.50 E-value=0.0022 Score=44.18 Aligned_cols=91 Identities=12% Similarity=0.064 Sum_probs=69.4
Q ss_pred CCCeEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhH
Q 033887 4 AKGVVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAH 83 (109)
Q Consensus 4 ~~~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H 83 (109)
.+..+.-++.=++||+. ++...+..+.+.+|..+.||=.+-.+ -.+..++.+.+.++.+||+.|.+.++..+|+-
T Consensus 7 ~tq~vs~~ia~rvkPg~-ea~~law~~ei~~l~~~~PG~igS~i----i~p~~G~~~e~~~ifRFD~~enl~aW~~SpeR 81 (195)
T COG3224 7 ATQPVSLLIARRVKPGH-EAIFLAWQEEIKALARKYPGYIGSGI----IRPQAGDRFEYETIFRFDNLENLAAWIHSPER 81 (195)
T ss_pred cccceEEEEEeecCCCc-HHHHHHHHHHHHHHHHhCCCccccCc----cccCCCCceeEEEEEEecCHHHHHHhhcCHHH
Confidence 34556666666888885 56678889999999999999644333 22234566899999999999999999999999
Q ss_pred HHHHHHHhhhhcceEE
Q 033887 84 VEYANLFLANLEKVLV 99 (109)
Q Consensus 84 ~~~~~~~~p~~~~~~~ 99 (109)
++..+.-....+.-..
T Consensus 82 ~~wl~~~e~~~ee~~~ 97 (195)
T COG3224 82 RAWLERGENLVEEFVG 97 (195)
T ss_pred HHHHHHhhccccccch
Confidence 9999877776655444
No 9
>COG2329 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]
Probab=97.39 E-value=0.0067 Score=38.26 Aligned_cols=82 Identities=11% Similarity=0.075 Sum_probs=57.0
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
|+.=+=.++++++..++-.+.+.+....+ +.+||.+++..=++... .++--+++++.++|+++.+++..++.|.+.
T Consensus 2 ~~v~~~~~~v~~g~~~~fe~~f~~~~~~~-~~~~Gf~~~~llr~~~~---~~~~~~~vvt~WeS~eaf~~W~~s~~~~~a 77 (105)
T COG2329 2 MAVVFNRLAVKEGAEEEFEERFANRAGLL-EEMPGFIGFELLRPKTV---EDPDEYVVVTRWESEEAFKAWRKSDEFKEA 77 (105)
T ss_pred eEEEEEEEecCCCcHHHHHHHHHHHHhhh-hcCCCceEEEEeecCcc---CCCceEEEEEEECCHHHHHhHhcCHHHHHH
Confidence 33334455667776544444444444444 57999999998888541 223348999999999999999999999998
Q ss_pred HHHHhh
Q 033887 87 ANLFLA 92 (109)
Q Consensus 87 ~~~~~p 92 (109)
-+..+.
T Consensus 78 h~~~~~ 83 (105)
T COG2329 78 HKAGRS 83 (105)
T ss_pred HHhccc
Confidence 775443
No 10
>PRK13314 heme-degrading monooxygenase IsdG; Provisional
Probab=96.99 E-value=0.021 Score=36.26 Aligned_cols=96 Identities=13% Similarity=0.108 Sum_probs=64.9
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
|+.=+=-|+++++..++-.+.+ ..-..+ +..||-.++.+-++... .+.-.+.+...++|.+++++|..+++|.+.
T Consensus 1 M~vv~Nri~V~~G~~~~~~erF-~r~~~i-e~~pGF~~~~vLr~~~~---~~~~~y~v~T~Wes~eaF~aW~~S~aFr~A 75 (107)
T PRK13314 1 MIIVTNTAKITKGNGHKLIDRF-NKVGKV-ETMPGFLGLEVLLTQNT---VDYDEVTISTRWNAKEDFQGWTKSPAFKAA 75 (107)
T ss_pred CEEEEEEEEeCCCchHHHHHHh-ccCCcc-ccCCCcEEEEEecCCCC---CCCceEEEEEEECCHHHHHHHHcCHHHHHH
Confidence 3444445788888766655655 333334 46899999999888653 223357778999999999999999988887
Q ss_pred HHH----HhhhhcceEEEEeecCeee
Q 033887 87 ANL----FLANLEKVLVIDYKPTTVR 108 (109)
Q Consensus 87 ~~~----~~p~~~~~~~~D~~~~~~~ 108 (109)
-+. =.|++. ..+.-|++.++|
T Consensus 76 H~~~~~~~~~i~~-~~i~~yeV~~~~ 100 (107)
T PRK13314 76 HSHQGGMPDYILD-NKISYYDVKVVR 100 (107)
T ss_pred HhccCCCCCcccc-CeeEEEEEEEee
Confidence 642 233333 555666665554
No 11
>PF07110 EthD: EthD domain; InterPro: IPR009799 This family consists of several bacterial sequences which are related to the EthD protein of Rhodococcus ruber (Q93EX2 from SWISSPROT). R. ruber (formerly Gordonia terrae) IFP 2001 is one of a few bacterial strains able to degrade ethyl tert-butyl ether (ETBE), which is a major pollutant from gasoline. This strain was found to undergo a spontaneous 14.3-kbp chromosomal deletion, which results in the loss of the ability to degrade ETBE. Sequence analysis of the region corresponding to the deletion revealed the presence of a gene cluster, ethABCD, encoding a ferredoxin reductase (EthA), a cytochrome P-450 (EthB), a ferredoxin (EthC), and a 10kDa protein of unknown function (EthD), respectively. Upstream of ethABCD lies ethR, which codes for a putative positive transcriptional regulator of the AraC/XylS family. Transformation of the ETBE-negative mutant by a plasmid carrying the ethRABCD genes restored the ability to degrade ETBE. Complementation was abolished if the plasmid carried ethRABC only demonstrating that EthD is essential for the ETBE degradation system [].; PDB: 3BF4_B 2FTR_A.
Probab=96.92 E-value=0.022 Score=34.23 Aligned_cols=76 Identities=14% Similarity=0.079 Sum_probs=46.1
Q ss_pred CCCCHHHHHHHH-HHHHhhhhcCCC--eeEEEe-----------eeccCccccCCCccEEEEEEECCHHhHHHhhcChhH
Q 033887 18 EGTAQDQIDQLI-KDYANLVNLIEP--MKSFQW-----------GKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAH 83 (109)
Q Consensus 18 ~~~~~~~~~~~~-~~l~~L~~~ip~--i~~~~~-----------G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H 83 (109)
|+.|.++..+.- +.-..|...+|+ |+.+.. +....+......||-+..+.|+|.+++.+...+|+.
T Consensus 1 Pgls~eeF~~~~~~~H~pl~~~~~~~~~~~Y~q~~~~~~~~~~~~~~~~~~~~~~~~Dgi~e~~f~~~e~~~~~~~~p~~ 80 (95)
T PF07110_consen 1 PGLSPEEFHDYWREVHAPLVKRLPGHGIRRYVQNATHARPPVQAVGAPPPGGDPPDYDGIAELWFDSLEALQAAFADPEY 80 (95)
T ss_dssp --S-HHHHHHHHHHTHHHHHCCCCC---------GG-SEEEEEEEEEECCTTC--SEEEEEEEEECCHHHHHHHHCSHHC
T ss_pred CCCCHHHHHHHHHHhHHHHHHHhccccccccccccccccchhccccccCCCCCCCCEeEEEEEEECCHHHHHHHHCCHHH
Confidence 466777764443 446677777888 544431 111122234578999999999999999999999999
Q ss_pred HH-HHHHHhhh
Q 033887 84 VE-YANLFLAN 93 (109)
Q Consensus 84 ~~-~~~~~~p~ 93 (109)
++ +.+.-..+
T Consensus 81 ~~~l~~De~~F 91 (95)
T PF07110_consen 81 QAALRADEANF 91 (95)
T ss_dssp HHHHHHHHHHC
T ss_pred HHHHhccHHHH
Confidence 98 55544443
No 12
>PRK13312 heme-degrading monooxygenase IsdG; Provisional
Probab=96.81 E-value=0.0099 Score=37.79 Aligned_cols=70 Identities=11% Similarity=0.231 Sum_probs=52.8
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCc-cEEEEEEECCHHhHHHhhcChhHHHHHH
Q 033887 13 LAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGF-THIFESTFESTEGVAEYVAHPAHVEYAN 88 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~-~~~~~~~F~s~e~l~~Y~~hp~H~~~~~ 88 (109)
-|+++++..++-.+.+...- .| +..||-..+++-++..+ .++ .+.+...++|++++++|..++++.+.-+
T Consensus 8 ri~V~~G~~~~~e~rF~~r~-~i-e~~pGF~~~~vLr~~~~----~~~d~y~v~T~WeseeaFeaW~~SdaFr~AH~ 78 (107)
T PRK13312 8 RLTLTKGTAKDIIERFYTRH-GI-ETLEGFDGMFVTQTLEQ----EDFDEVKILTVWKSKQAFTDWLKSDVFKAAHK 78 (107)
T ss_pred EEEeCCCcHHHHHHHHcccC-Cc-ccCCCeEEEEEeecCCC----CCceEEEEEEEECCHHHHHHHhcCHHHHHHHh
Confidence 47888887655555554442 35 46899999999888754 234 3778999999999999999998887654
No 13
>PRK13313 heme-degrading monooxygenase IsdI; Provisional
Probab=96.77 E-value=0.021 Score=36.39 Aligned_cols=76 Identities=12% Similarity=0.204 Sum_probs=55.8
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCcc-EEEEEEECCHHhHHHhhcChhHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFT-HIFESTFESTEGVAEYVAHPAHVE 85 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~-~~~~~~F~s~e~l~~Y~~hp~H~~ 85 (109)
|+.=+=-|+++++..++-.+.+...-. | ...||-.++.+-++... .+|| ++....++|++++++|..++++.+
T Consensus 1 M~v~~Nri~V~~G~~~~~~~rF~~r~~-i-e~~pGF~~~~vLr~~~~----~~~~~~~V~T~Wesee~F~~Wt~SdaF~~ 74 (108)
T PRK13313 1 MFMAENRLQLQKGSAEETIERFYNRQG-I-ETIEGFQQMFVTKTLNT----EDTDEVKILTIWESEDSFNNWLNSDVFKE 74 (108)
T ss_pred CEEEEEEEEeCCCcHHHHHHHHcccCC-c-ccCCCeEEEEEecCCCC----CCceEEEEEEEECCHHHHHHHhcCHHHHH
Confidence 344444578888876655566643333 6 46899999999887643 3454 677889999999999999998888
Q ss_pred HHH
Q 033887 86 YAN 88 (109)
Q Consensus 86 ~~~ 88 (109)
.-+
T Consensus 75 AH~ 77 (108)
T PRK13313 75 AHK 77 (108)
T ss_pred HHh
Confidence 654
No 14
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=96.74 E-value=0.027 Score=34.93 Aligned_cols=85 Identities=12% Similarity=0.150 Sum_probs=55.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCc--cEEEEEEECCHHhHHHhhcChhHHHHHH
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGF--THIFESTFESTEGVAEYVAHPAHVEYAN 88 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~--~~~~~~~F~s~e~l~~Y~~hp~H~~~~~ 88 (109)
|+..+.+ ++++.++........-.+-.|=--.+.|.....+| .| +-.++++|+|.++...+-++|+++++..
T Consensus 7 Ia~vdv~---D~e~y~~Y~~~~~~a~~~~Ggr~LvRGG~v~~lEG---~w~ptr~vviEFps~~~ar~~y~SpeYq~a~~ 80 (96)
T COG5470 7 IADVDVR---DPEQYKDYVSKAKPAIEKFGGRYLVRGGEVETLEG---EWRPTRNVVIEFPSLEAARDCYNSPEYQAAAA 80 (96)
T ss_pred EEEEeec---CHHHHHHHHHHhHHHHHHhCCeeEeeCCCeeeccC---CCCcccEEEEEcCCHHHHHHHhcCHHHHHHHH
Confidence 4444444 45777777655544444455543445555555443 23 4678999999999999999999999988
Q ss_pred HH-hhhhcceEEEE
Q 033887 89 LF-LANLEKVLVID 101 (109)
Q Consensus 89 ~~-~p~~~~~~~~D 101 (109)
.- ...-..++++|
T Consensus 81 ~Rq~~ad~~~iiVe 94 (96)
T COG5470 81 IRQAAADSEIIIVE 94 (96)
T ss_pred HHhhcccccEEEEe
Confidence 43 33344555554
No 15
>PRK13315 heme-degrading monooxygenase IsdG; Provisional
Probab=96.70 E-value=0.027 Score=35.81 Aligned_cols=76 Identities=12% Similarity=0.056 Sum_probs=54.7
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCcc-EEEEEEECCHHhHHHhhcChhHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFT-HIFESTFESTEGVAEYVAHPAHVE 85 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~-~~~~~~F~s~e~l~~Y~~hp~H~~ 85 (109)
|+.=+=-|+++++..++-.+.+ ..-..| ...||-+++++-++... .+++ +.+...++|+++++++..+++|.+
T Consensus 1 M~Vv~Nr~~V~~g~~~~fe~rf-~r~~~l-e~~pGFv~~~lLr~~~~----~~~~~~~v~T~Wes~eaF~aW~~S~aF~~ 74 (107)
T PRK13315 1 MIVVTNRITVKKGFAAKMAPRF-TKGGPL-EELEGFHKVEVWLIDND----DEYDEMYVNMWWETEEDFEAWRNSDAFKE 74 (107)
T ss_pred CEEEEEEEEeCCCcHHHHHHHH-ccCCcc-cCCCCeEEEEEeccCCC----CCCceEEEEEEECCHHHHHHHhcCHHHHH
Confidence 4555667889888655444443 322345 46899999998887643 3444 556899999999999999999888
Q ss_pred HHH
Q 033887 86 YAN 88 (109)
Q Consensus 86 ~~~ 88 (109)
.-+
T Consensus 75 AH~ 77 (107)
T PRK13315 75 AHK 77 (107)
T ss_pred Hhh
Confidence 765
No 16
>PRK13316 heme-degrading monooxygenase IsdG; Provisional
Probab=96.20 E-value=0.17 Score=32.81 Aligned_cols=79 Identities=15% Similarity=0.200 Sum_probs=53.3
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHH-----hhhhcCCCeeEEEeeeccCccccCCCc-cEEEEEEECCHHhHHHhhcC
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYA-----NLVNLIEPMKSFQWGKNVSIENLHQGF-THIFESTFESTEGVAEYVAH 80 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~-----~L~~~ip~i~~~~~G~~~~~~~~~~~~-~~~~~~~F~s~e~l~~Y~~h 80 (109)
||.=+=-|+++++..++-++.+.+.-. ..-+..||-..+.+=++... ..+| .+.....++|+++++++..+
T Consensus 1 M~Iv~Nri~V~~g~a~~~~~rF~~r~~~g~~~~~ie~~pGFv~f~lL~~~~~---~~~~~e~~V~T~WeSeeaF~aW~~S 77 (121)
T PRK13316 1 MIIVTNTIKVEKGAAEHVIRQFTGANGDGHPTKDIAEVEGFLGFELWHSKPE---DKDYEEVVVTSKWESEEAQRNWVKS 77 (121)
T ss_pred CEEEEEEEEeCCCcHHHHHHHHhccCcccccccchhcCCCceEEEEeeccCC---CCCceEEEEEEEECCHHHHHHHhcC
Confidence 344444578888765544444433221 13456899999988665422 2344 46778999999999999999
Q ss_pred hhHHHHHH
Q 033887 81 PAHVEYAN 88 (109)
Q Consensus 81 p~H~~~~~ 88 (109)
+++.+.-+
T Consensus 78 daFr~AH~ 85 (121)
T PRK13316 78 DSFKKAHG 85 (121)
T ss_pred HHHHHHHh
Confidence 98888654
No 17
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=94.96 E-value=0.16 Score=28.99 Aligned_cols=54 Identities=19% Similarity=0.324 Sum_probs=38.6
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA 79 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~ 79 (109)
|+.+++++. +..+++.+.+. .+|+|..+. . ..+.||+.+.+.++|.++|+.+..
T Consensus 1 V~V~~~~~~--~~~~~~~~~l~----~~p~V~~~~---~-----vtG~~d~~~~v~~~d~~~l~~~i~ 54 (74)
T PF01037_consen 1 VLVKVEPGH--DAYDEFAEALA----EIPEVVECY---S-----VTGEYDLILKVRARDMEELEEFIR 54 (74)
T ss_dssp EEEEESTTG--THHHHHHHHHH----TSTTEEEEE---E-----ESSSSSEEEEEEESSHHHHHHHHH
T ss_pred CEEEEcCCC--chHHHHHHHHH----cCCCEEEEE---E-----EeCCCCEEEEEEECCHHHHHHHHH
Confidence 566777665 44666655443 368887762 1 357899999999999999998754
No 18
>PF02700 PurS: Phosphoribosylformylglycinamidine (FGAM) synthase; InterPro: IPR003850 Phosphoribosylformylglycinamidine(FGAM) synthetase, 6.3.5.3 from EC, catalyses the fourth step in the de novo purine biosynthetic pathway []. 5-phosphoribosylformylglycinamide (FGAR) + glutamine + ATP = FGAM + glutamate + ADP + Pi In eukaryotes and many bacterial systems (including Escherichia coli and Salmonella typhimurium), the FGAM synthetase is encoded by the large form of PurL (lgPurL), which contains an N-terminal ATPase domain and a C-terminal glutamine-binding domain. In archaeal and other bacterial systems, however, FGAM synthetase is encoded by separate genes, making it a multisubunit (rather than multidomain) enzyme. The protein is composed of the small form of PurL (smPurL), which is homologus to the ATPase domain of lgPurL, PurQ which is homologous to the glutamine-binding domain of of lgPurL, and PurS, whose function is not known. This entry represents the PurS subunit of the multisubunit FGAM synthetase. Recent studies showed that disruption of the purS gene in Bacillus subtilis resulted in a purine auxotrophic phenotype, due to defective FGAM synthetase activity. Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known. For additional information please see [, ].; GO: 0016879 ligase activity, forming carbon-nitrogen bonds; PDB: 2ZW2_B 3D54_B 1VQ3_B 1GTD_A 2YX5_A 2CUW_A 1TWJ_B 1T4A_B 2DGB_B.
Probab=92.79 E-value=0.53 Score=28.26 Aligned_cols=39 Identities=18% Similarity=0.229 Sum_probs=31.1
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
-|..++|++..+.+-+++.++|..| ..++|.+++.|+-.
T Consensus 4 ~V~V~~K~gvlDPqG~ai~~al~~l--G~~~v~~Vr~GK~~ 42 (80)
T PF02700_consen 4 RVEVTLKPGVLDPQGEAIKRALHRL--GYDGVKDVRVGKYI 42 (80)
T ss_dssp EEEEEE-TTS--HHHHHHHHHHHHT--T-TTEEEEEEEEEE
T ss_pred EEEEEECCCCcCcHHHHHHHHHHHc--CCcccCcEEEEEEE
Confidence 4778999999999999999999988 37999999999886
No 19
>PRK09565 hypothetical protein; Reviewed
Probab=91.89 E-value=1.3 Score=35.25 Aligned_cols=80 Identities=13% Similarity=0.035 Sum_probs=65.4
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHHHHHHh
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYANLFL 91 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~~~~~ 91 (109)
.++++|++-..+-.++|-+-+.-|+ ...|.+.-..=+|+.. .-++.+.++++|.++...|..+.+..+-+++=+
T Consensus 447 m~Y~Vk~~h~~eF~~~F~~V~~~L~-~~~G~~~~~L~~~v~d-----~~~~~I~seW~~~e~~~~F~~S~~f~etv~~Gk 520 (533)
T PRK09565 447 MFYTVKPDYREDFVETFDTVGGLLA-EMDGHRETDLLVNRDD-----ENDMFIASQWDSKEDAMAFFRSDAFRETVEWGR 520 (533)
T ss_pred eEEEecCchHHHHHHHHHHHHHHHh-hcCCcccceeeeecCC-----chhcEEeeeccCHHHHHHHHhhhHHHHHHHhhh
Confidence 3678999988777777877777777 5888888888788742 347899999999999999999999999998888
Q ss_pred hhhcce
Q 033887 92 ANLEKV 97 (109)
Q Consensus 92 p~~~~~ 97 (109)
.+++++
T Consensus 521 ~il~~r 526 (533)
T PRK09565 521 DVLADR 526 (533)
T ss_pred HhhcCC
Confidence 777643
No 20
>PRK06423 phosphoribosylformylglycinamidine synthase; Provisional
Probab=91.52 E-value=0.9 Score=26.59 Aligned_cols=42 Identities=17% Similarity=0.208 Sum_probs=36.1
Q ss_pred EEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccC
Q 033887 9 KHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVS 52 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~ 52 (109)
.+.|...+||+..+.+-+++.+++..| + ++++.+++.|+-..
T Consensus 2 ~~~v~V~~k~gv~Dp~G~ti~~~l~~l-g-~~~v~~Vr~~k~~~ 43 (73)
T PRK06423 2 KFKVEVTYKPGVEDPEALTILKNLNIL-G-YNGIKGVSISKVYY 43 (73)
T ss_pred eEEEEEEECCCCcChHHHHHHHHHHHc-C-CCCcceEEEEEEEE
Confidence 578889999999999999999999998 3 88888888887764
No 21
>PRK05783 hypothetical protein; Provisional
Probab=90.41 E-value=1.2 Score=27.01 Aligned_cols=43 Identities=9% Similarity=0.017 Sum_probs=35.6
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
|+.=-|..++|+++-+.|-+++.++|..| ...+|.++++|+-+
T Consensus 2 ~~k~~V~V~lK~gVlDPqG~aI~~aL~~l--g~~~V~~VRvGK~i 44 (84)
T PRK05783 2 KYYVELIIINKDSVRDPEGETIQRYVIER--YTGNIIEVRAGKYL 44 (84)
T ss_pred cEEEEEEEEECCCCcCchHHHHHHHHHHc--CCCCcceEEeeEEE
Confidence 45566888999999888899999988888 36789999999875
No 22
>TIGR00302 phosphoribosylformylglycinamidine synthase, purS protein. In species such as Bacillus subtilis in which FGAM synthetase is split into two ORFs purL and purQ, this small protein, previously called yexA, is required for FGAM synthetase activity. Although the article does not make it clear whether this is a subunit or an accessory protein, it is encoded as part of the operon, which suggests stochiometric amounts, = subunit.
Probab=89.37 E-value=1.6 Score=26.02 Aligned_cols=41 Identities=20% Similarity=0.228 Sum_probs=34.5
Q ss_pred EEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 9 KHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
++-|...+||+..+.+-+++.+++..| .++++.+++.|+-.
T Consensus 2 ~~~I~V~~k~gV~Dp~G~ti~~~l~~l--g~~~v~~Vr~~k~~ 42 (80)
T TIGR00302 2 KVEVYIRLKKGVLDPEGAAIQRALALL--GYNEVKDVRTGKVI 42 (80)
T ss_pred EEEEEEEECCCCcChHHHHHHHHHHHc--CCCCcceEEEEEEE
Confidence 456778899999999999999999987 48888888888765
No 23
>PF13826 DUF4188: Domain of unknown function (DUF4188)
Probab=88.62 E-value=1.6 Score=28.08 Aligned_cols=61 Identities=13% Similarity=0.088 Sum_probs=40.9
Q ss_pred HHHHHHHHHhhhh-cCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHHHHHHhhh
Q 033887 25 IDQLIKDYANLVN-LIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYANLFLAN 93 (109)
Q Consensus 25 ~~~~~~~l~~L~~-~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~~~~~p~ 93 (109)
...+-..++.|.. .=.|.+..+.-.. +-+.+++.-|.|.|+|.+|..+|.|...-+.+...
T Consensus 23 ~~~m~~M~~eL~~~~e~G~Lg~~~~~~--------~~~~~~v~YwRs~e~L~~fA~~~~H~~aW~~fn~~ 84 (117)
T PF13826_consen 23 FDAMPRMLRELERNPELGLLGYESWFG--------PRTIMLVQYWRSFEDLHRFAHDPPHRPAWRWFNKR 84 (117)
T ss_pred HHHHHHHHHHHHhCCCCCeeechhccC--------CCceEEEEEECCHHHHHHHHCCChHHHHHHHHHHH
Confidence 3444455555543 1245555433322 23678999999999999999999999988855543
No 24
>PF09448 MmlI: Methylmuconolactone methyl-isomerase ; InterPro: IPR018566 4-methylmuconolactone methyl-isomerase (MmlI) is a short, approx 115 residue, protein of two alpha helices and four beta strands. It is involved in the catabolism of methyl-substituted aromatics via a modified oxo-adipate pathway in bacteria. The enzyme appears to be monomeric in some species [] and tetrameric in others []. The known structure shows two copies of the protein form a dimeric alpha beta barrel. ; PDB: 2IFX_A 3HDS_A 3HF5_A 3HFK_D.
Probab=87.49 E-value=5 Score=24.87 Aligned_cols=83 Identities=11% Similarity=0.046 Sum_probs=45.6
Q ss_pred EEEEEeCCC-CCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccC-ccccC------CCccEEEEEEECCHHhHHHhhcChh
Q 033887 11 VLLAKFKEG-TAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVS-IENLH------QGFTHIFESTFESTEGVAEYVAHPA 82 (109)
Q Consensus 11 iVlf~~k~~-~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~-~~~~~------~~~~~~~~~~F~s~e~l~~Y~~hp~ 82 (109)
+..+-.||+ .+.++..+-+=.--.|...+||+-.+++-.-.. |.+.. +.-|-+=.+-|+|+++++.|+++..
T Consensus 3 ~lyllvkpe~ms~e~fr~eclrh~ems~~vpgl~kYEVRLvA~~PtDtHVPffDvg~vdAIGECWF~~e~~y~~Ym~Sdi 82 (112)
T PF09448_consen 3 ILYLLVKPEGMSDETFRAECLRHFEMSAGVPGLHKYEVRLVAEQPTDTHVPFFDVGHVDAIGECWFENEAQYQRYMASDI 82 (112)
T ss_dssp EEEEEE--TTS-HHHHHHHHHHHHHHCTT-TT-SEEEEEEEEE-----SS-B-------EEEEEEESSHHHHHHHHH-HH
T ss_pred EEEEEeccccCCHHHHHHHHHHHHHhhcCCCcceeeeEEEecCCCCcccccccccCCcchhhhhhhcCHHHHHHHHHHHH
Confidence 333444544 466555444333345666799999888765542 11111 2234555789999999999999998
Q ss_pred HHHHHHHHhhh
Q 033887 83 HVEYANLFLAN 93 (109)
Q Consensus 83 H~~~~~~~~p~ 93 (109)
.+++-+.-+-+
T Consensus 83 RKaWFEHGKtF 93 (112)
T PF09448_consen 83 RKAWFEHGKTF 93 (112)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHhccee
Confidence 88876644433
No 25
>PRK12866 YciI-like protein; Reviewed
Probab=86.27 E-value=5.9 Score=24.44 Aligned_cols=66 Identities=6% Similarity=0.006 Sum_probs=40.6
Q ss_pred EEEEEeCCCCCHHHHHHH----HHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc-ChhHHH
Q 033887 11 VLLAKFKEGTAQDQIDQL----IKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA-HPAHVE 85 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~----~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~-hp~H~~ 85 (109)
+|.+..+++.. +.+.+. ++.|+.+.+ .|+ -+..|+-..+ .++ -.++++++|.++++++.. +|.+++
T Consensus 4 ~v~~~~~~~~~-~~r~~~r~~H~~~L~~~~~--~G~-ll~aGp~~~~--~~G---~~ii~~a~s~~e~~~~l~~DPf~~~ 74 (97)
T PRK12866 4 LLTYDLVDDYL-ERREAYRAEHLALAQAATE--RGE-LLLAGALADP--ADG---AVLVFEGDSPAAAEAFARADPYVRN 74 (97)
T ss_pred EEEEEecCChH-HHHHHHHHHHHHHHHHHHh--CCE-EEEeCCCCCC--CCc---EEEEEEeCCHHHHHHHHHcCChhhc
Confidence 56777777643 333333 455555554 355 4556765443 223 247789999999999776 687765
No 26
>COG1828 PurS Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]
Probab=86.05 E-value=2.9 Score=25.39 Aligned_cols=80 Identities=15% Similarity=0.187 Sum_probs=53.8
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
|.+=.|..++|+++-+.+-+++.++|..|. ..+|.+++.|+-+. ++++..++ -.++..+
T Consensus 1 ~~~v~V~V~lK~~VlDPqG~ti~~aL~~lg--~~~V~~vR~gK~~e-------------l~ld~~~~------e~a~~~v 59 (83)
T COG1828 1 MYKVRVYVTLKPGVLDPEGETIEKALHRLG--YNEVSDVRVGKVIE-------------LELDAESE------EKAEEEV 59 (83)
T ss_pred CeEEEEEEEeCCcccCchhHHHHHHHHHcC--CcccceeeeeeEEE-------------EEecCcch------hHHHHHH
Confidence 345568889999998888999999999994 68899999988753 23332211 1234445
Q ss_pred HHHHhhhhcceEEEEeecCee
Q 033887 87 ANLFLANLEKVLVIDYKPTTV 107 (109)
Q Consensus 87 ~~~~~p~~~~~~~~D~~~~~~ 107 (109)
.+....++..-++=||+..+.
T Consensus 60 ~~mcekLLaNpVIe~y~v~~~ 80 (83)
T COG1828 60 KEMCEKLLANPVIEDYEVEVE 80 (83)
T ss_pred HHHHHHHhCCCceeEEEEEEE
Confidence 555555666666777776554
No 27
>PF13816 Dehydratase_hem: Haem-containing dehydratase; PDB: 3A18_C 3A17_F 3A15_C 3A16_D.
Probab=84.46 E-value=12 Score=28.00 Aligned_cols=87 Identities=10% Similarity=0.121 Sum_probs=53.3
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHH--------Hhhhhc--CCCeeEEEeeeccCccccCCCcc-EEEEEEECCHHhHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDY--------ANLVNL--IEPMKSFQWGKNVSIENLHQGFT-HIFESTFESTEGVA 75 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l--------~~L~~~--ip~i~~~~~G~~~~~~~~~~~~~-~~~~~~F~s~e~l~ 75 (109)
=|.||.--+.=..+++++++..++.+ .-|.+. =-|..+.++..+.+.+......+ -+-..-|.|.++|+
T Consensus 175 Nl~~IRSGQdWs~~~~eEr~~Y~e~~eP~L~~gm~~L~d~~~e~Gc~s~R~~~~~d~~~~~~~~~~t~~l~yf~~L~~LE 254 (310)
T PF13816_consen 175 NLCHIRSGQDWSNCGPEERELYLENLEPVLREGMDFLRDNGDETGCYSLRFMRNLDPDSGNLDLDRTCGLGYFRSLSSLE 254 (310)
T ss_dssp TEEEEEEEEE-TT--HHHHHHHHHHTHHHHHHHHHHHHHSHHHHTEEEEEEEEEE-TT-S-E-EEEEEEEEEES-HHHHH
T ss_pred ceEEEecCCccccCCHHHHHHHHHhccHHHHHHHHHHHhCCcccceEEEEeEeccCccccchhhhcccchhhhhhHHHHH
Confidence 36778878888888999887665544 333321 24788999999986531111011 12356799999999
Q ss_pred Hhhc-ChhHHHHHH-HHhhh
Q 033887 76 EYVA-HPAHVEYAN-LFLAN 93 (109)
Q Consensus 76 ~Y~~-hp~H~~~~~-~~~p~ 93 (109)
.+.. ||.|+++-. +++-+
T Consensus 255 ~Wa~~H~tHl~If~~fm~~~ 274 (310)
T PF13816_consen 255 RWARSHPTHLAIFRGFMKHY 274 (310)
T ss_dssp HHHHHSHHHHHHHHHHHHHG
T ss_pred HHHhcCchHHHHHHHHHHHh
Confidence 9876 999999876 44433
No 28
>PRK05974 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed
Probab=84.19 E-value=3.5 Score=24.47 Aligned_cols=38 Identities=18% Similarity=0.225 Sum_probs=31.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
|...+||+..+.+-+++.+++..| .++++.+++.|+-.
T Consensus 5 V~V~~k~gv~Dp~G~ai~~~l~~l--g~~~v~~Vr~~k~~ 42 (80)
T PRK05974 5 VTVTLKEGVLDPQGQAIKGALGSL--GYDGVEDVRQGKYF 42 (80)
T ss_pred EEEEECCCCcChHHHHHHHHHHHc--CCCCcceEEEEEEE
Confidence 566799999999999999999987 47888888877765
No 29
>TIGR03792 uncharacterized cyanobacterial protein, TIGR03792 family. Members of this family are found, no more than one to a genome, exclusively in (but not universal to) the Cyanobacteria. These proteins are small, 100-150 amino acids. The function is unknown.
Probab=83.17 E-value=8.4 Score=23.67 Aligned_cols=67 Identities=7% Similarity=-0.087 Sum_probs=47.8
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChh
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPA 82 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~ 82 (109)
+..|+++|+...+=.++..++...+-.+.||-+..++.++... .. .+.+++..+|.++.++.-.++.
T Consensus 4 ~l~~~V~p~~~~~f~~a~~~~w~~~l~~~~GFlg~ev~~~~e~---pe--e~~llI~WeS~E~WK~i~~~~~ 70 (90)
T TIGR03792 4 WLRFKVPPEDREAFLEADEEIWTPWLAKQPGFLGKEVWWDPEK---PE--EGVLLIRWESREQWKAIPQEEL 70 (90)
T ss_pred EEEEeeChhhHHHHHHHHHHHHHHHHHhCCCccceEEEecCCC---CC--EEEEEEEEcCHHHHhcCCHHHH
Confidence 3456888775544445555554666677999999998888743 12 4789999999999988776544
No 30
>PF07978 NIPSNAP: NIPSNAP ; InterPro: IPR012577 Members of this family include many hypothetical proteins. It also includes members of the NIPSNAP family, which have putative roles in vesicular transport []. This domain is often found in duplicate.; PDB: 1VQY_D 2AP6_H.
Probab=82.52 E-value=8.3 Score=23.12 Aligned_cols=78 Identities=8% Similarity=-0.042 Sum_probs=44.6
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc----ChhHHHH
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA----HPAHVEY 86 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~----hp~H~~~ 86 (109)
+-.+++||+.-++-.+.+.+.+..+..+. |+.-+-++.... +..-.+..+..|+|.++.+++.. ||+.++.
T Consensus 3 lr~Y~l~pg~~~~~~~~~~~~~~~~~~~~-g~~lvG~~~~~~----G~~~~~~~l~~y~~~~~r~~~~~a~~~d~~w~~~ 77 (102)
T PF07978_consen 3 LRTYTLKPGKMDEFLELFEEALIPRQKKH-GGKLVGYWVTEV----GPLNQVVHLWSYDDLAAREEAREALYADPEWKAY 77 (102)
T ss_dssp EEEEEESTT-HHHHHHHHHHCCHHHHHHH-H-EEEEEEEEEE----SBSSEEEEEEEES-HHHHHHHHHHHHH-HHHHHH
T ss_pred EEEEEECCCCHHHHHHHHHHHHHHHHHHh-CCceeEEEEecc----CCCceEEEEEEcCCHHHHHHHHHHHHcCchHHHH
Confidence 45789999976665566655554443322 233333333221 11346788889999999887555 8888777
Q ss_pred HHHHhhh
Q 033887 87 ANLFLAN 93 (109)
Q Consensus 87 ~~~~~p~ 93 (109)
.....+.
T Consensus 78 ~~~~~~~ 84 (102)
T PF07978_consen 78 VAEARPL 84 (102)
T ss_dssp HHHCCTT
T ss_pred HHhcccc
Confidence 6655444
No 31
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=82.10 E-value=11 Score=24.78 Aligned_cols=54 Identities=6% Similarity=0.108 Sum_probs=36.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA 79 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~ 79 (109)
++.++++++ ...+++.+ .|. .+|+|..+.. .+++||+.+.+.++|.++++.+..
T Consensus 72 ~v~v~v~~~---~~~~~~~~---~l~-~~p~V~~~~~--------~tG~~dl~~~v~~~d~~~l~~~~~ 125 (153)
T PRK11179 72 FIGIILKSA---KDYPSALA---KLE-SLDEVVEAYY--------TTGHYSIFIKVMCRSIDALQHVLI 125 (153)
T ss_pred EEEEEEccc---ccHHHHHH---HHh-CCCCEEEEEE--------cccCCCEEEEEEECCHHHHHHHHH
Confidence 455667532 22344433 454 4899877632 246799999999999999998753
No 32
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=81.30 E-value=13 Score=24.75 Aligned_cols=56 Identities=11% Similarity=0.238 Sum_probs=38.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA 79 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~ 79 (109)
+|.+++++. .++..+++.+.+. .+|+|..+.. .+++||+.+...+.|.++++.+..
T Consensus 77 ~v~i~~~~~-~~~~~~~~~~~l~----~~p~V~~~~~--------vtG~~d~~l~v~~~~~~~l~~~l~ 132 (164)
T PRK11169 77 FVEITLNRG-APDVFEQFNAAVQ----KLEEIQECHL--------VSGDFDYLLKTRVPDMSAYRKLLG 132 (164)
T ss_pred EEEEEEcCC-ChHHHHHHHHHHh----cCcceeeeee--------ecCCCCEEEEEEECCHHHHHHHHH
Confidence 456667543 3444566655443 3677877632 246799999999999999988763
No 33
>PF11695 DUF3291: Domain of unknown function (DUF3291); InterPro: IPR021708 This bacterial family of proteins has no known function.
Probab=81.05 E-value=14 Score=24.60 Aligned_cols=81 Identities=11% Similarity=0.051 Sum_probs=52.8
Q ss_pred EEEeCCCCCHHHHHHHH---HHHHhhhhcCCCeeEEEeeecc-Ccc--ccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 13 LAKFKEGTAQDQIDQLI---KDYANLVNLIEPMKSFQWGKNV-SIE--NLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~---~~l~~L~~~ip~i~~~~~G~~~-~~~--~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
+-+++.+.+...++.|. ..+.+|.+..||..-=..+..- ... ....+-.+.-.+.++|.++|.+|.=.-.|.++
T Consensus 6 i~~~~ap~ddP~~~~F~~~l~~vn~~a~~spGFvwr~~~~~~~~t~~~~~~d~~~~~nlSvWes~eaL~~Fvy~~~H~~~ 85 (140)
T PF11695_consen 6 IGRLKAPLDDPRMADFVDNLDRVNALAERSPGFVWRLQDEGGDATSLRPFDDPRVIVNLSVWESVEALRAFVYRGPHREA 85 (140)
T ss_pred eeeeeCCCCCchHHHHHHccHHHHHHHHhCCCcEEEeccCCCCcceeccCCCCceEEEEeeeCCHHHHHHHHhcChHHHH
Confidence 34566666666777775 5567888889995432222211 111 11223357789999999999999977779999
Q ss_pred HHHHhhh
Q 033887 87 ANLFLAN 93 (109)
Q Consensus 87 ~~~~~p~ 93 (109)
.+..+.-
T Consensus 86 l~rrreW 92 (140)
T PF11695_consen 86 LRRRREW 92 (140)
T ss_pred HHHHHHH
Confidence 8765543
No 34
>PRK12864 YciI-like protein; Reviewed
Probab=78.59 E-value=12 Score=22.55 Aligned_cols=67 Identities=16% Similarity=0.167 Sum_probs=41.7
Q ss_pred EEEEEEEeCCCCCHHHHHHH----HHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc-ChhH
Q 033887 9 KHVLLAKFKEGTAQDQIDQL----IKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA-HPAH 83 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~----~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~-hp~H 83 (109)
.-+|.+.-+|+. .+.+.+. ++.++.+.+ .|..-. .|+-..+ +++ .++++++|.++.+++.. +|..
T Consensus 3 ~f~v~~~d~p~~-~~~R~~~r~~H~~~l~~~~~--~G~~~~-~Gp~~~~---~g~---~~i~~a~s~eea~~~~~~DPy~ 72 (89)
T PRK12864 3 KFVLWGTYCEDA-LEKRAPFREAHLDRLAKLKE--QGILIT-LGPTKDL---TYV---FGIFEAEDEETVRQLIEADPYW 72 (89)
T ss_pred EEEEEEEeCCCc-HHHHHHhHHHHHHHHHHHHh--CCeEEE-ecCCCCC---CCE---EEEEEeCCHHHHHHHHHcCCch
Confidence 568888888874 3444433 455555554 254333 4766543 222 24779999999999766 6877
Q ss_pred HH
Q 033887 84 VE 85 (109)
Q Consensus 84 ~~ 85 (109)
++
T Consensus 73 ~a 74 (89)
T PRK12864 73 QN 74 (89)
T ss_pred hc
Confidence 65
No 35
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=76.21 E-value=2.8 Score=32.27 Aligned_cols=54 Identities=13% Similarity=0.295 Sum_probs=35.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHH
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAE 76 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~ 76 (109)
...||+|-++.++++-+...+-.+ .+.++-++..+ ..+.+++|+ +|++.+..+.
T Consensus 243 FVCKLNPVTtDeDLeiIFSrFG~i-------~sceVIRD~kt---gdsLqyaFi-EFen~escE~ 296 (479)
T KOG0415|consen 243 FVCKLNPVTTDEDLEIIFSRFGKI-------VSCEVIRDRKT---GDSLQYAFI-EFENKESCEQ 296 (479)
T ss_pred EEEecCCcccccchhhHHhhcccc-------eeeeEEecccc---cchhheeee-eecchhhHHH
Confidence 345999999988888876655544 44444444432 234456665 9999998874
No 36
>PRK11370 YciI-like protein; Reviewed
Probab=69.61 E-value=23 Score=21.63 Aligned_cols=73 Identities=21% Similarity=0.191 Sum_probs=37.4
Q ss_pred EEEEEeCCCCCHHHHHHHH-HHHHhhhhcC-CCeeEEEeeeccCccc---cCCCc-cEEEEEEECCHHhHHHhhc-ChhH
Q 033887 11 VLLAKFKEGTAQDQIDQLI-KDYANLVNLI-EPMKSFQWGKNVSIEN---LHQGF-THIFESTFESTEGVAEYVA-HPAH 83 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~-~~l~~L~~~i-p~i~~~~~G~~~~~~~---~~~~~-~~~~~~~F~s~e~l~~Y~~-hp~H 83 (109)
+|.+.-+++ +.+.+.++. +.+.-|+... .|. -+..|...+... ...++ .-.++++|+|.++.+++.+ +|.+
T Consensus 4 ~v~~~d~p~-~~~~r~~~r~~H~~~l~~~~~~G~-~l~~G~~~~~~~~~~g~~~~~G~~ii~ea~s~~~a~~~~~~DPy~ 81 (99)
T PRK11370 4 VIYAQDVPN-SLEKRLSVRPAHLARLQLLQDEGR-LLTAGPMPAIDSNDPGEAGFTGSTVIAEFESLEAAQAWADADPYV 81 (99)
T ss_pred EEEEEeCCC-cHHHHHHHHHHHHHHHHhhhcCCE-EEEeCCCccccccCCCcCCccceEEEEEECCHHHHHHHHHCCchh
Confidence 455666665 344444443 3334443322 344 344555543211 00012 2257779999999999665 5555
Q ss_pred HH
Q 033887 84 VE 85 (109)
Q Consensus 84 ~~ 85 (109)
++
T Consensus 82 ~a 83 (99)
T PRK11370 82 AA 83 (99)
T ss_pred hc
Confidence 53
No 37
>PF14114 DUF4286: Domain of unknown function (DUF4286)
Probab=56.98 E-value=43 Score=20.50 Aligned_cols=46 Identities=24% Similarity=0.179 Sum_probs=34.1
Q ss_pred CCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcC--hhHHH
Q 033887 39 IEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAH--PAHVE 85 (109)
Q Consensus 39 ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~h--p~H~~ 85 (109)
.++..+..+-+-++.+ -.+|-++++-..++|.++|+.|... |..++
T Consensus 31 ~~~f~~~~~~kvl~~~-~~~g~tysvQy~~~s~e~l~~y~~~~~~~l~~ 78 (98)
T PF14114_consen 31 TGKFSKARICKVLSEE-EEGGKTYSVQYEVESMEDLERYYEEHAPKLRE 78 (98)
T ss_pred cCCCceeEEEEEeecC-CCCCeEEEEEEEECCHHHHHHHHHHHHHHHHH
Confidence 4666677777766532 2448999999999999999999884 44444
No 38
>PHA03169 hypothetical protein; Provisional
Probab=56.92 E-value=82 Score=24.51 Aligned_cols=59 Identities=12% Similarity=-0.105 Sum_probs=33.7
Q ss_pred CCCCeEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCc--cccCCCccEEEEEEECCHH
Q 033887 3 EAKGVVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSI--ENLHQGFTHIFESTFESTE 72 (109)
Q Consensus 3 ~~~~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~--~~~~~~~~~~~~~~F~s~e 72 (109)
.....-+|+|+||=.+ ..+.+.-++| .+|||++- |...-| .+....|.|+|.+--.|..
T Consensus 317 ~~p~~W~~~v~fWgdP-------~~LyrLsraL--qfpG~~ss--gvq~lP~~p~~p~~~~y~ItVyCqsk~ 377 (413)
T PHA03169 317 PRPGPWCWVVFCWGDP-------YSLYRLSRCL--QFPGAVSS--GVQTFPDAPGSPVIWAYCITVFCQSRG 377 (413)
T ss_pred CCCCceeEEEEecCCc-------HHHHHHHHHh--ccCCeecc--ceeecCCCCCCCCCceeEEEEEecCcc
Confidence 3456789999999832 2233444566 58999543 322211 1223457777766655544
No 39
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=55.31 E-value=31 Score=18.69 Aligned_cols=26 Identities=23% Similarity=0.359 Sum_probs=18.3
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhh
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLV 36 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~ 36 (109)
+|-+++.++.++++.+++.+.+..+-
T Consensus 2 ~I~i~~~~g~~~e~K~~l~~~it~~~ 27 (60)
T PF01361_consen 2 FITIKIPEGRTAEQKRELAEAITDAV 27 (60)
T ss_dssp EEEEEEESTS-HHHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHH
Confidence 35567778889999988887765543
No 40
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=55.29 E-value=45 Score=20.16 Aligned_cols=20 Identities=10% Similarity=0.054 Sum_probs=16.8
Q ss_pred CCccEEEEEEECCHHhHHHh
Q 033887 58 QGFTHIFESTFESTEGVAEY 77 (109)
Q Consensus 58 ~~~~~~~~~~F~s~e~l~~Y 77 (109)
+.||++.+.+++|.++..+.
T Consensus 44 G~yD~v~i~eaPD~~~a~~~ 63 (91)
T PF08734_consen 44 GEYDFVVIVEAPDDETAAAA 63 (91)
T ss_pred CCCCEEEEEEcCCHHHHHHH
Confidence 45999999999999977654
No 41
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=54.95 E-value=32 Score=18.31 Aligned_cols=25 Identities=24% Similarity=0.320 Sum_probs=17.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhh
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLV 36 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~ 36 (109)
|-+++-++.++++.+++.+++....
T Consensus 3 i~i~~~~grt~eqk~~l~~~i~~~l 27 (58)
T cd00491 3 VQIYILEGRTDEQKRELIERVTEAV 27 (58)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHH
Confidence 4556667788999988887765443
No 42
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=52.90 E-value=38 Score=18.57 Aligned_cols=24 Identities=21% Similarity=0.389 Sum_probs=17.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhh
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANL 35 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L 35 (109)
|.+++.++.++|+++++.+.+...
T Consensus 4 i~i~~~~Grs~EqK~~L~~~it~a 27 (60)
T PRK02289 4 VRIDLFEGRSQEQKNALAREVTEV 27 (60)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHH
Confidence 456777788999998887666433
No 43
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=52.89 E-value=36 Score=18.39 Aligned_cols=26 Identities=31% Similarity=0.531 Sum_probs=18.1
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhh
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANL 35 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L 35 (109)
++.|| ++.++.++++.+++.+++...
T Consensus 2 P~i~i---~~~~Grs~eqk~~l~~~it~~ 27 (61)
T PRK02220 2 PYVHI---KLIEGRTEEQLKALVKDVTAA 27 (61)
T ss_pred CEEEE---EEcCCCCHHHHHHHHHHHHHH
Confidence 35555 555678999999988766543
No 44
>COG1324 CutA Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]
Probab=52.19 E-value=25 Score=22.20 Aligned_cols=37 Identities=24% Similarity=0.429 Sum_probs=25.4
Q ss_pred EEEEEeCCCCCHHHHHHH--HHHHHhhhhcCCCeeEEEe
Q 033887 11 VLLAKFKEGTAQDQIDQL--IKDYANLVNLIEPMKSFQW 47 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~--~~~l~~L~~~ip~i~~~~~ 47 (109)
+|+-++.+..+++.+... .+.|.+-.+.+|||+|+-+
T Consensus 5 ~Vl~T~pd~e~Ae~iar~lleerLaACvni~p~i~S~Y~ 43 (104)
T COG1324 5 LVLTTAPDEESAERIARKLLEERLAACVNIIPGIKSIYW 43 (104)
T ss_pred EEEEeCCChHHHHHHHHHHHHHHhhhheecccCccEEEE
Confidence 567777666556655433 3777777788999999644
No 45
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=52.17 E-value=25 Score=27.75 Aligned_cols=51 Identities=12% Similarity=0.016 Sum_probs=29.9
Q ss_pred CHHHHHHHHHHHHhhhhcCCCee--------EEEeeeccCccccCCCccEEEEEEECCH
Q 033887 21 AQDQIDQLIKDYANLVNLIEPMK--------SFQWGKNVSIENLHQGFTHIFESTFEST 71 (109)
Q Consensus 21 ~~~~~~~~~~~l~~L~~~ip~i~--------~~~~G~~~~~~~~~~~~~~~~~~~F~s~ 71 (109)
++++.+.+.+....|...++++. -.-+|--....-..+.+|.=+.+.|+..
T Consensus 17 ~~eE~~~~~~~~e~l~~~~~~~~~e~~~~aev~lVGS~AkgTwL~gd~DIDvFi~Fp~d 75 (443)
T COG1746 17 TEEERKKLKEVAEELRERINEIIEELGIDAEVVLVGSYAKGTWLRGDHDIDVFIAFPKD 75 (443)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhcCCcceEEEEeecccCcccCCCcceeEEEECCCC
Confidence 45666666555555554444433 4445554422224577899899999875
No 46
>PF09290 AcetDehyd-dimer: Prokaryotic acetaldehyde dehydrogenase, dimerisation; InterPro: IPR015426 This C-terminal domain is found in prokaryotic acetaldehyde dehydrogenases, it adopts a structure consisting of an alpha-beta-alpha-beta(3) core, which mediates dimerisation of the protein []. The acetaldehyde dehydrogenase family of bacterial enzymes catalyses the formation of acetyl-CoA from acetaldehyde in the 3-hydroxyphenylpropinoate degradation pathway. It occurs as a late step in the meta-cleavage pathways of a variety of compounds, including catechol, biphenyl, toluene, salicylate [].; GO: 0008774 acetaldehyde dehydrogenase (acetylating) activity, 0019439 aromatic compound catabolic process, 0055114 oxidation-reduction process; PDB: 1NVM_F.
Probab=50.31 E-value=53 Score=21.79 Aligned_cols=39 Identities=13% Similarity=0.123 Sum_probs=22.8
Q ss_pred CCCCeEEEEEEEEeCCCCCHHHHHHH-HHHHHhhhhcCCCe
Q 033887 3 EAKGVVKHVLLAKFKEGTAQDQIDQL-IKDYANLVNLIEPM 42 (109)
Q Consensus 3 ~~~~mi~HiVlf~~k~~~~~~~~~~~-~~~l~~L~~~ip~i 42 (109)
+++.+++-.|+...+ +.+.+.+.+. .+....+...+||=
T Consensus 71 ~Pp~~Mr~Tv~~~~~-~~d~~~i~~sv~~mv~~Vq~YVPGY 110 (137)
T PF09290_consen 71 EPPIIMRDTVYALVD-DPDEDAIRASVHAMVAEVQAYVPGY 110 (137)
T ss_dssp SS---EEEEEEEEES-S--HHHHHHHHHHHHHHHHTT-TTE
T ss_pred CCCCccEeEEEEEcC-CCCHHHHHHHHHHHHHHHHhcCCCE
Confidence 456777888888887 6666666444 35567777778884
No 47
>KOG2316 consensus Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=50.25 E-value=13 Score=27.04 Aligned_cols=32 Identities=16% Similarity=0.245 Sum_probs=27.8
Q ss_pred CHHHHHHHHHHHHhhhhcCCCeeEEEeeeccC
Q 033887 21 AQDQIDQLIKDYANLVNLIEPMKSFQWGKNVS 52 (109)
Q Consensus 21 ~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~ 52 (109)
..++++++.+.++..+.++|.+..+++|--+|
T Consensus 87 ~~DEvEDLy~ll~~VK~~~p~~eaVS~GAIlS 118 (277)
T KOG2316|consen 87 EGDEVEDLYELLKTVKEKIPDVEAVSVGAILS 118 (277)
T ss_pred CCchHHHHHHHHHHHHhhCCCceeeehhhhHh
Confidence 34568889999999999999999999998875
No 48
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=50.09 E-value=42 Score=18.47 Aligned_cols=23 Identities=22% Similarity=0.547 Sum_probs=16.2
Q ss_pred EEeCCCCCHHHHHHHHHHHHhhh
Q 033887 14 AKFKEGTAQDQIDQLIKDYANLV 36 (109)
Q Consensus 14 f~~k~~~~~~~~~~~~~~l~~L~ 36 (109)
+++.++.+.++.+++.+++....
T Consensus 6 i~l~~grt~eqk~~l~~~it~~l 28 (64)
T PRK01964 6 IQLLEGRPEEKIKNLIREVTEAI 28 (64)
T ss_pred EEEeCCCCHHHHHHHHHHHHHHH
Confidence 44445779999999987775543
No 49
>COG3427 Carbon monoxide dehydrogenase subunit G, CoxG [Energy production and conversion]
Probab=49.84 E-value=18 Score=24.26 Aligned_cols=30 Identities=10% Similarity=0.193 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHHHHHhhhhcCCCeeEEEee
Q 033887 19 GTAQDQIDQLIKDYANLVNLIEPMKSFQWG 48 (109)
Q Consensus 19 ~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G 48 (109)
+++++++-+++.....+..-|||+.+++.-
T Consensus 10 ~~p~e~Vw~~L~dpe~~a~ciPG~qs~e~~ 39 (146)
T COG3427 10 AAPPEAVWEFLNDPEQVAACIPGVQSVETN 39 (146)
T ss_pred cCCHHHHHHHhcCHHHHHhhcCCcceeeec
Confidence 467899999998889999889999998643
No 50
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=49.05 E-value=61 Score=19.85 Aligned_cols=38 Identities=18% Similarity=0.253 Sum_probs=27.6
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhhhhcCCC-eeE-EEeeec
Q 033887 13 LAKFKEGTAQDQIDQLIKDYANLVNLIEP-MKS-FQWGKN 50 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~~~l~~L~~~ip~-i~~-~~~G~~ 50 (109)
+|=++|+.++++++++++.+..+-..-.| |.. -.||+-
T Consensus 11 ~~Il~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r 50 (97)
T CHL00123 11 MYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKR 50 (97)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCe
Confidence 44578999999999999888887666665 333 447744
No 51
>TIGR00439 ftsX putative protein insertion permease FtsX. FtsX is an integral membrane protein encoded in the same operon as signal recognition particle docking protein FtsY and FtsE. It belongs to a family of predicted permeases and may play a role in the insertion of proteins required for potassium transport, cell division, and other activities. FtsE is a hydrophilic nucleotide-binding protein that associates with the inner membrane by means of association with FtsX.
Probab=48.48 E-value=45 Score=24.81 Aligned_cols=33 Identities=9% Similarity=0.166 Sum_probs=24.3
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEee
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWG 48 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G 48 (109)
+..-+|+++++++.+++.+.+++ .|||.++++-
T Consensus 68 i~vyl~~~~~~~~~~~l~~~l~~----~~~V~~v~~i 100 (309)
T TIGR00439 68 ITVYLEKALAQSDADTVVSLLTR----DKGVENINYI 100 (309)
T ss_pred EEEEeCCCCCHHHHHHHHHHHhC----CCCccEEEEE
Confidence 33456899999999988886665 5677777664
No 52
>PRK12863 YciI-like protein; Reviewed
Probab=47.77 E-value=61 Score=19.47 Aligned_cols=70 Identities=17% Similarity=0.122 Sum_probs=41.8
Q ss_pred EEEEEeCCCCCHHHHHHHH-HHHHhhhhcCCCeeEEEeeeccCccccCCCc-cEEEEEEECCHHhHHHhhc-ChhHHH
Q 033887 11 VLLAKFKEGTAQDQIDQLI-KDYANLVNLIEPMKSFQWGKNVSIENLHQGF-THIFESTFESTEGVAEYVA-HPAHVE 85 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~-~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~-~~~~~~~F~s~e~l~~Y~~-hp~H~~ 85 (109)
+|.+..+|+.. +.+.++. +.+.-|+.. .|. -+..|+-...++ +.. --.++++.+|.++.+++.. +|..++
T Consensus 4 ~v~~~~~p~~~-~~r~~~r~~H~~~l~~~-~g~-~l~~Gp~~~~~g--~~~~G~~~i~~a~~~eea~~~~~~DP~~~~ 76 (94)
T PRK12863 4 AILCTDKPGHL-EVRLATRPAHLAYLETL-EGR-LLAAGPLLDDDG--KPMVGSLVVVEAESRAAAEAFAAADPFAKA 76 (94)
T ss_pred EEEEEeCCCCH-HHHHHHHHHHHHHHHHh-CCe-EEEeCCCcCCCC--CCccceEEEEEeCCHHHHHHHHHcCChhhc
Confidence 67778888754 3444443 444444433 663 455777665422 112 2346678899999988766 687664
No 53
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=47.37 E-value=58 Score=20.22 Aligned_cols=56 Identities=14% Similarity=0.325 Sum_probs=35.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhh-hcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHH
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLV-NLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAE 76 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~-~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~ 76 (109)
++|+.|..++ ...+++++.+=. .....++-+-=|.++.++..++.+ +|++-+.+++
T Consensus 37 lfFkiKktT~---f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dl------dmEdnd~iEa 93 (103)
T COG5227 37 LFFKIKKTTT---FKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDL------DMEDNDEIEA 93 (103)
T ss_pred EEEEEeccch---HHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhc------CCccchHHHH
Confidence 6899998765 566666554433 345668888888888764444443 3555555554
No 54
>COG2037 Ftr Formylmethanofuran:tetrahydromethanopterin formyltransferase [Energy production and conversion]
Probab=45.82 E-value=76 Score=23.35 Aligned_cols=40 Identities=5% Similarity=0.197 Sum_probs=27.6
Q ss_pred CeEEEEEEEEeCCCCCHHHHHHHH-HHHHhhhhcCCCeeEEEeeec
Q 033887 6 GVVKHVLLAKFKEGTAQDQIDQLI-KDYANLVNLIEPMKSFQWGKN 50 (109)
Q Consensus 6 ~mi~HiVlf~~k~~~~~~~~~~~~-~~l~~L~~~ip~i~~~~~G~~ 50 (109)
.-|.-||. ++.+.+.+++.. .++.+-. ++|||+.++.|-=
T Consensus 242 ~~iyEIVI----nGl~~eavkeAm~~gIeAa~-~v~GVvkISAGNy 282 (297)
T COG2037 242 KAIYEIVI----NGLDEEAVKEAMRVGIEAAC-RVPGVVKISAGNY 282 (297)
T ss_pred CceeEEEe----cCcCHHHHHHHHHHHHHhhh-ccCCeEEEecCCc
Confidence 34666666 667777775554 5555555 6999999998854
No 55
>PF08803 ydhR: Putative mono-oxygenase ydhR; InterPro: IPR014910 YdhR is a homodimeric protein that comprises of a central four-stranded beta sheet and four surrounding alpha helices []. It shows structural homology to the ActVA-Orf6 and YgiN proteins which indicates it could be a mono-oxygenase. ; PDB: 1WD6_B 2HIQ_B 2ASY_B.
Probab=44.21 E-value=78 Score=19.73 Aligned_cols=63 Identities=8% Similarity=-0.039 Sum_probs=39.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcCh
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHP 81 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp 81 (109)
|=|.+..+-.++-.+.+.+...++. +-||+..=-|..|... -+.+=+=-|+|+++.++|.+-+
T Consensus 4 vdF~~~gPfg~em~~~~~~LA~sI~-~ePGliwKiWten~~t------~eaGGiYLFe~e~~A~aY~~~h 66 (97)
T PF08803_consen 4 VDFPYNGPFGEEMSKAFNDLAESIN-QEPGLIWKIWTENEET------GEAGGIYLFEDEASAEAYLEMH 66 (97)
T ss_dssp EEEESSSS-HHHHHHHHHHHHHHHT-TSTTEEEEEEEEETTT------TEEEEEEEESSHHHHHHHHHHH
T ss_pred EEecCCCCcHHHHHHHHHHHHHHHh-hCCCeEEEEEEecCCC------CccceEEEECCHHHHHHHHHHH
Confidence 4466655544443344444444554 4799888778887643 1334455799999999999854
No 56
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=44.08 E-value=59 Score=18.26 Aligned_cols=36 Identities=14% Similarity=0.132 Sum_probs=18.8
Q ss_pred EEEEeCCCC-CHHHHHHHHHHHHhhhhcCCCeeEEEe
Q 033887 12 LLAKFKEGT-AQDQIDQLIKDYANLVNLIEPMKSFQW 47 (109)
Q Consensus 12 Vlf~~k~~~-~~~~~~~~~~~l~~L~~~ip~i~~~~~ 47 (109)
|.+.+.-+. .....+.+.+.++.--..+||+.++++
T Consensus 36 V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 36 VSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp EEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred EEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 445555553 333456666555444447899888764
No 57
>PRK11702 hypothetical protein; Provisional
Probab=43.84 E-value=47 Score=21.14 Aligned_cols=24 Identities=29% Similarity=0.573 Sum_probs=20.5
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHh
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYAN 34 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~ 34 (109)
-|-++|+++++.++++++++.+..
T Consensus 24 ~v~~~~~~~~~~e~~D~~vD~fId 47 (108)
T PRK11702 24 SVNWRFPEGTSEEQIDATVDAFID 47 (108)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHH
Confidence 477899999999999999887764
No 58
>PRK07403 glyceraldehyde-3-phosphate dehydrogenase; Reviewed
Probab=43.40 E-value=1.3e+02 Score=22.88 Aligned_cols=43 Identities=14% Similarity=0.193 Sum_probs=28.5
Q ss_pred CeEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeec
Q 033887 6 GVVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKN 50 (109)
Q Consensus 6 ~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~ 50 (109)
.+=.|-+.+.++.+++.+++.++++.... +...||+.++-.+-
T Consensus 240 ~vs~~dl~v~l~k~~t~eeI~~~~~~as~--~~l~gil~~~~~~~ 282 (337)
T PRK07403 240 NVSVVDLVVQVEKRTITEQVNEVLKDASE--GPLKGILEYSDLPL 282 (337)
T ss_pred CcEEEEEEEEECCCCCHHHHHHHHHHHhh--CccccccCeecCCE
Confidence 34456677889999999999887765442 34556666654433
No 59
>PF02741 FTR_C: FTR, proximal lobe; InterPro: IPR002770 Formylmethanofuran:tetrahyromethanopterin formyltransferase (Ftr) is involved in C1 metabolism in methanogenic archaea, sulphate-reducing archaea and methylotrophic bacteria. It catalyses the following reversible reaction: N-formylmethanofuran + 5,6,7,8-tetrahydromethanopterin = methanofuran + 5-formyl-5,6,7,8-tetrahydromethanopterin Ftr from the thermophilic methanogen Methanopyrus kandleri (optimum growth temperature 98 degrees C) is a hyperthermophilic enzyme that is absolutely dependent on the presence of lyotropic salts for activity and thermostability. The crystal structure of Ftr, determined to a reveals a homotetramer composed essentially of two dimers. Each subunit is subdivided into two tightly associated lobes both consisting of a predominantly antiparallel beta sheet flanked by alpha helices forming an alpha/beta sandwich structure. The approximate location of the active site was detected in a region close to the dimer interface []. Ftr from the mesophilic methanogen Methanosarcina barkeri and the sulphate-reducing archaeon Archaeoglobus fulgidus have a similar structure []. In the methylotrophic bacterium Methylobacterium extorquens, Ftr interacts with three other polypeptides to form an Ftr/cyclohydrolase complex which catalyses the hydrolysis of formyl-tetrahydromethanopterin to formate during growth on C1 substrates [].; GO: 0016740 transferase activity, 0006730 one-carbon metabolic process; PDB: 1M5S_B 1M5H_E 1FTR_C 2FHJ_B 2FHK_D.
Probab=43.36 E-value=84 Score=21.15 Aligned_cols=39 Identities=8% Similarity=0.244 Sum_probs=25.9
Q ss_pred eEEEEEEEEeCCCCCHHHHHH-HHHHHHhhhhcCCCeeEEEeeec
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQ-LIKDYANLVNLIEPMKSFQWGKN 50 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~-~~~~l~~L~~~ip~i~~~~~G~~ 50 (109)
-+.-||. ++.+.+.+++ +..++++.. ..|||+.++.|-=
T Consensus 97 ~V~EIVI----dGl~~~av~~Amr~Gi~Aa~-~~~Gv~~IsAGNY 136 (150)
T PF02741_consen 97 AVYEIVI----DGLSEEAVAEAMRAGIEAAC-AVPGVVRISAGNY 136 (150)
T ss_dssp EEEEEEE----EESSHHHHHHHHHHHHHHHT-TSTTEEEEE---S
T ss_pred eEEEEEE----cCCCHHHHHHHHHHHHHHHh-cCCCeEEEecCCc
Confidence 4555555 6777887744 457778877 5999999998843
No 60
>PF02526 GBP_repeat: Glycophorin-binding protein; InterPro: IPR003681 The glycophorin-binding protein contains a tandem repeat. The repeated sequence determines the binding domain for an erythrocyte receptor binding protein of Plasmodium falciparum, the malarial parasite []. Erythrocyte invasion by the malarial merozoite is a receptor-mediated process, an obligatory step in the development of the parasite. The P. falciparum protein binds to the erythrocyte receptor glycophorin.
Probab=42.84 E-value=41 Score=16.91 Aligned_cols=22 Identities=18% Similarity=0.227 Sum_probs=16.5
Q ss_pred HhHHHhhcChhHHHHHHHHhhh
Q 033887 72 EGVAEYVAHPAHVEYANLFLAN 93 (109)
Q Consensus 72 e~l~~Y~~hp~H~~~~~~~~p~ 93 (109)
+-+++|..+|++++-.+.+-.+
T Consensus 8 qimk~yaadpeyrkh~~v~yqi 29 (38)
T PF02526_consen 8 QIMKAYAADPEYRKHLNVLYQI 29 (38)
T ss_pred HHHHHHhcCHHHHHHHHHHHHH
Confidence 4578999999998877754443
No 61
>PF04320 DUF469: Protein with unknown function (DUF469); InterPro: IPR007416 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.
Probab=42.64 E-value=58 Score=20.43 Aligned_cols=26 Identities=27% Similarity=0.648 Sum_probs=22.2
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhh
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANL 35 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L 35 (109)
--|-++|+++++.++++++++.+...
T Consensus 17 F~v~~~~~~~~~~e~~D~~~D~fId~ 42 (101)
T PF04320_consen 17 FEVSCRFAEGTSEEQIDAFVDAFIDV 42 (101)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 45788999999999999999888774
No 62
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=42.55 E-value=81 Score=19.46 Aligned_cols=38 Identities=11% Similarity=0.444 Sum_probs=27.0
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhhhhcCCC-eeEE-Eeeec
Q 033887 13 LAKFKEGTAQDQIDQLIKDYANLVNLIEP-MKSF-QWGKN 50 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~~~l~~L~~~ip~-i~~~-~~G~~ 50 (109)
+|=++++.++++++++++.+..+-..-.| |.++ .+|+-
T Consensus 7 ~~il~~~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~G~r 46 (108)
T PRK00453 7 VFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRR 46 (108)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEeccccc
Confidence 34578999999999999988877655555 4443 36643
No 63
>COG0057 GapA Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]
Probab=41.03 E-value=1.6e+02 Score=22.49 Aligned_cols=41 Identities=10% Similarity=0.199 Sum_probs=28.8
Q ss_pred CCCeEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEE
Q 033887 4 AKGVVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQ 46 (109)
Q Consensus 4 ~~~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~ 46 (109)
++.|=.|-+.+.++.+++.+++.+.++....- .+.|+..+.
T Consensus 236 t~~vs~~dl~v~l~k~~t~eeIn~alk~as~~--~lkg~~~y~ 276 (335)
T COG0057 236 TPNVSVVDLTVELEKEVTVEEINAALKAASEI--GLKGILGYT 276 (335)
T ss_pred CCCcEEEEEEEEeCCCCCHHHHHHHHHHhhcc--cccceeeeE
Confidence 35566788899999999999998877665542 233454444
No 64
>TIGR01534 GAPDH-I glyceraldehyde-3-phosphate dehydrogenase, type I. The noise level is set relative not to E4PD, but the next closest outliers, the class II GAPDH's (found in archaea, TIGR01546) and aspartate semialdehyde dehydrogenase (ASADH, TIGR01296) both of which have highest-scoring hits around -225 to the prior model.
Probab=40.55 E-value=1.2e+02 Score=22.85 Aligned_cols=43 Identities=14% Similarity=0.227 Sum_probs=29.6
Q ss_pred EEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCc
Q 033887 9 KHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSI 53 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~ 53 (109)
.+-+.+.++.+++.+++.+.++.... +...||+.++-.+-+|.
T Consensus 241 ~~dl~v~~~~~~t~eev~~al~~a~~--~~l~gil~~~~~~~VS~ 283 (327)
T TIGR01534 241 LVDLVLNLEKDTTKEEVNAALKEAAE--GSLKGVLGYTEDELVSS 283 (327)
T ss_pred EEEEEEEECCCCCHHHHHHHHHhhhh--cccCceeeeeCCCeeee
Confidence 45567788999998888777765442 35678888775555543
No 65
>PRK08300 acetaldehyde dehydrogenase; Validated
Probab=40.13 E-value=97 Score=23.22 Aligned_cols=40 Identities=15% Similarity=0.173 Sum_probs=28.7
Q ss_pred CCCCeEEEEEEEEeCCCCCHHHHHHH-HHHHHhhhhcCCCe
Q 033887 3 EAKGVVKHVLLAKFKEGTAQDQIDQL-IKDYANLVNLIEPM 42 (109)
Q Consensus 3 ~~~~mi~HiVlf~~k~~~~~~~~~~~-~~~l~~L~~~ip~i 42 (109)
+++.+.+-.|+...+++.+.+.+.+- .+........+||=
T Consensus 199 ~p~~~m~~tv~~~~~~~~~~~~i~~~~~~~~~~v~~yvpgy 239 (302)
T PRK08300 199 EPPLIMRDTVYCLVDEDADQDAIEASVHAMVAEVQAYVPGY 239 (302)
T ss_pred CCCccceeeEEEeeCCCCCHHHHHHHHHHHHHHHHhhCCCE
Confidence 45667788888888887777776444 45567777788985
No 66
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=39.45 E-value=1.1e+02 Score=20.01 Aligned_cols=58 Identities=9% Similarity=0.106 Sum_probs=39.2
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhh
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYV 78 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~ 78 (109)
-+..=.|...++++++.++.+ .+..|.++.+-++..+ +..++| -+++|.+.++.+.-.
T Consensus 36 ~lfVgnL~~~~te~~L~~~F~-------~~G~I~~v~i~~d~~t-g~~kGf---aFV~F~~~e~A~~Al 93 (144)
T PLN03134 36 KLFIGGLSWGTDDASLRDAFA-------HFGDVVDAKVIVDRET-GRSRGF---GFVNFNDEGAATAAI 93 (144)
T ss_pred EEEEeCCCCCCCHHHHHHHHh-------cCCCeEEEEEEecCCC-CCcceE---EEEEECCHHHHHHHH
Confidence 355567888888888776654 3556888887776542 245555 447899888877643
No 67
>PF06778 Chlor_dismutase: Chlorite dismutase; InterPro: IPR010644 This family contains chlorite dismutase enzymes of bacterial and archaeal origin. This enzyme catalyses the disproportionation of chlorite into chloride and oxygen [, ]. Note that many family members are hypothetical proteins.; PDB: 2VXH_B 3NN4_A 3NN2_A 3NN3_D 3NN1_E 3QPI_A 3Q08_Q 3Q09_B 1T0T_V 1VDH_E ....
Probab=39.33 E-value=1.3e+02 Score=20.95 Aligned_cols=64 Identities=3% Similarity=0.098 Sum_probs=44.5
Q ss_pred EEEEEEEEeCCCC-----CHHHHHHHHHHHHhhhhcCCC-eeEEEeeeccCccccCCCccEEEEEEECCHHhHHH
Q 033887 8 VKHVLLAKFKEGT-----AQDQIDQLIKDYANLVNLIEP-MKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAE 76 (109)
Q Consensus 8 i~HiVlf~~k~~~-----~~~~~~~~~~~l~~L~~~ip~-i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~ 76 (109)
-++++++=++... +++++.++++.-..+..+-|+ |++...|-- . . ++|++++..+.+|..++..
T Consensus 101 ~~~~~~YPm~K~~~Wy~Lp~~eR~~mm~eHg~ig~~y~~~V~~~t~~sf-G---L-dD~Ew~v~le~dd~~~~~d 170 (193)
T PF06778_consen 101 ARYACFYPMVKSREWYLLPFEERRRMMEEHGRIGRKYPGKVRQNTTGSF-G---L-DDYEWVVTLEADDLHDFVD 170 (193)
T ss_dssp SSEEEEEEEEE-HHHHHS-HHHHHHHHHHHHHHHGGGTTTEEEEEEE-C-T---T-CSSSEEEEEEESCHHHHHH
T ss_pred cceEEEEEcccCchhhcCCHHHHHHHHHHHHHHHHhchHhhHhheeccc-c---C-CCceEEEEEecCCHHHHHH
Confidence 4566666666553 678899998877777777888 888766532 2 2 3599999999988776654
No 68
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=39.04 E-value=78 Score=23.55 Aligned_cols=31 Identities=3% Similarity=0.149 Sum_probs=22.6
Q ss_pred EEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEee
Q 033887 14 AKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWG 48 (109)
Q Consensus 14 f~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G 48 (109)
.-+|++.++++.+++.+.+++ .|||.++++-
T Consensus 70 vyl~~~~~~~~~~~l~~~L~~----~~~V~~v~~v 100 (309)
T PRK11026 70 VYLDKTLDDDAANAVVEQLKA----EDGVEKVNYL 100 (309)
T ss_pred EEECCCCCHHHHHHHHHHHhC----CCCcceEEEE
Confidence 346899999999888776655 4667666553
No 69
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=38.63 E-value=67 Score=17.36 Aligned_cols=24 Identities=25% Similarity=0.286 Sum_probs=16.8
Q ss_pred EEEEeC-CCCCHHHHHHHHHHHHhh
Q 033887 12 LLAKFK-EGTAQDQIDQLIKDYANL 35 (109)
Q Consensus 12 Vlf~~k-~~~~~~~~~~~~~~l~~L 35 (109)
+-+++- ++.++++.+++.+.+...
T Consensus 3 i~i~i~~~grt~eqK~~l~~~it~~ 27 (63)
T TIGR00013 3 VNIYILKEGRTDEQKRQLIEGVTEA 27 (63)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH
Confidence 334555 788999998888766444
No 70
>PRK12865 YciI-like protein; Reviewed
Probab=38.35 E-value=92 Score=18.84 Aligned_cols=70 Identities=16% Similarity=0.041 Sum_probs=42.6
Q ss_pred EEEEEEeCCCCCHH---HHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCcc-EEEEEEECCHHhHHHhhc-ChhHH
Q 033887 10 HVLLAKFKEGTAQD---QIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFT-HIFESTFESTEGVAEYVA-HPAHV 84 (109)
Q Consensus 10 HiVlf~~k~~~~~~---~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~-~~~~~~F~s~e~l~~Y~~-hp~H~ 84 (109)
-+|.+..+|+..+. .+.+-++.+..+.+ .|+ -+..|+-..++ +.+. -.++++.+|.++.+++.. +|.++
T Consensus 3 f~v~~~d~p~~~~~R~~~r~~H~~~l~~~~~--~G~-l~~~Gp~~~~~---g~~~G~~~i~~a~s~e~a~~~~~~DP~~~ 76 (97)
T PRK12865 3 FALLCKDKPGHLNVRMDTRPTHLEYLNKLNA--EGT-LKIAGPFLDDD---GKPCGSLVIVKAETKEAAKALADADPYAK 76 (97)
T ss_pred EEEEEEeCCCCHHHHHHHHHHHHHHHHHHHh--CCe-EEEecCCcCCC---CCceeEEEEEEcCCHHHHHHHHHcCCchh
Confidence 35677777775433 12344555565554 355 34567666542 2232 246679999999999766 78887
Q ss_pred H
Q 033887 85 E 85 (109)
Q Consensus 85 ~ 85 (109)
+
T Consensus 77 ~ 77 (97)
T PRK12865 77 A 77 (97)
T ss_pred c
Confidence 6
No 71
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=37.97 E-value=69 Score=17.29 Aligned_cols=24 Identities=17% Similarity=0.360 Sum_probs=16.7
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhh
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANL 35 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L 35 (109)
|-+++-++.++++.+++.+.+...
T Consensus 4 i~I~~~~grs~eqk~~l~~~it~~ 27 (62)
T PRK00745 4 FHIELFEGRTVEQKRKLVEEITRV 27 (62)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHH
Confidence 334555677999998888766553
No 72
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=36.69 E-value=1.7e+02 Score=24.23 Aligned_cols=75 Identities=15% Similarity=0.131 Sum_probs=44.4
Q ss_pred EEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHH-HhhcChhHHHHH
Q 033887 9 KHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVA-EYVAHPAHVEYA 87 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~-~Y~~hp~H~~~~ 87 (109)
|-||+++=-+++++.+. +++|-.= +.||-+.+++++.|-+ |+++|+|..|-+ +|.-= -.++.
T Consensus 175 RcIvilREIpettp~e~---Vk~lf~~-encPk~iscefa~N~n-----------WyITfesd~DAQqAykyl--reevk 237 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEV---VKALFKG-ENCPKVISCEFAHNDN-----------WYITFESDTDAQQAYKYL--REEVK 237 (684)
T ss_pred eeEEEEeecCCCChHHH---HHHHhcc-CCCCCceeeeeeecCc-----------eEEEeecchhHHHHHHHH--HHHHH
Confidence 55778887777776543 2222222 3589999999988843 788998876654 34321 11122
Q ss_pred H-HHhhhhcceEEE
Q 033887 88 N-LFLANLEKVLVI 100 (109)
Q Consensus 88 ~-~~~p~~~~~~~~ 100 (109)
+ .-+|+++++..+
T Consensus 238 ~fqgKpImARIKai 251 (684)
T KOG2591|consen 238 TFQGKPIMARIKAI 251 (684)
T ss_pred hhcCcchhhhhhhh
Confidence 3 236676666554
No 73
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=36.55 E-value=1.5e+02 Score=24.01 Aligned_cols=55 Identities=11% Similarity=0.087 Sum_probs=37.0
Q ss_pred CHHHHHHHHHHHHhhhhcCCCeeEEEeeecc-CccccCCCccEEEEEEECCHHhHHHh
Q 033887 21 AQDQIDQLIKDYANLVNLIEPMKSFQWGKNV-SIENLHQGFTHIFESTFESTEGVAEY 77 (109)
Q Consensus 21 ~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~-~~~~~~~~~~~~~~~~F~s~e~l~~Y 77 (109)
++++.+++++.++.=+.+-..|+++.++++. ... ...=.=.+.++|+|.++-+.-
T Consensus 415 dd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~--~~~G~GkVFVefas~ed~qrA 470 (500)
T KOG0120|consen 415 DDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDEN--PVPGTGKVFVEFADTEDSQRA 470 (500)
T ss_pred chHHHHHHHHHHHHHhcccCceeEEecCCCCCCCC--cCCCcccEEEEecChHHHHHH
Confidence 4455677777776666677789999999983 211 111122388999999998753
No 74
>PF03924 CHASE: CHASE domain; InterPro: IPR006189 The CHASE domain is an extracellular domain of 200-230 amino acids, which is found in transmembrane receptors from bacteria, lower eukaryotes and plants. It has been named CHASE (Cyclases/Histidine kinases Associated Sensory Extracellular) because of its presence in diverse receptor-like proteins with histidine kinase and nucleotide cyclase domains. The CHASE domain always occurs N-terminally in extracellular or periplasmic locations, followed by an intracellular tail housing diverse enzymatic signalling domains such as histidine kinase (IPR005467 from INTERPRO), adenyl cyclase, GGDEF-type nucleotide cyclase and EAL-type phosphodiesterase domains, as well as non-enzymatic domains such PAS (IPR000014 from INTERPRO), GAF (IPR003018 from INTERPRO), phosphohistidine and response regulatory domains. The CHASE domain is predicted to bind diverse low molecular weight ligands, such as the cytokinin-like adenine derivatives or peptides, and mediate signal transduction through the respective receptors [, ]. The CHASE domain has a predicted alpha+beta fold, with two extended alpha helices on both boundaries and two central alpha helices separated by beta sheets. The termini are less conserved compared with the central part of the domain, which shows strongly conserved motifs.; PDB: 3T4L_B 3T4K_B 3T4S_B 3T4Q_A 3T4J_B 3T4T_B 3T4O_A.
Probab=36.55 E-value=50 Score=22.08 Aligned_cols=35 Identities=11% Similarity=0.384 Sum_probs=20.6
Q ss_pred CCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCc
Q 033887 18 EGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSI 53 (109)
Q Consensus 18 ~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~ 53 (109)
++++.++.+.+.+.+. +....|++.++.|-+.+.+
T Consensus 3 ~~v~~~eF~~f~~~~~-~~~~~~~i~~l~w~~~V~~ 37 (193)
T PF03924_consen 3 EEVTREEFERFSRSLQ-LLQRHPGIQALAWAPRVPP 37 (193)
T ss_dssp ----HHHHHHHHHH---TGGGSTTEEEEEEEE-EEG
T ss_pred CccCHHHHHHHHHHHh-HhhhCchheEEEEeccCCH
Confidence 4556667777766655 5566899999888877743
No 75
>PRK11118 putative monooxygenase; Provisional
Probab=35.12 E-value=1.2e+02 Score=19.09 Aligned_cols=65 Identities=14% Similarity=0.112 Sum_probs=38.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHH
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVE 85 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~ 85 (109)
|=|.+..+-.+|-.+++..-..++. +-||+.-=-|-.|.... ..+| +=.|+|+++.++|.+ -|.+
T Consensus 7 vdF~~~GP~g~em~~~~~~LA~sI~-~EpGliWKIWTen~~t~-eaGG-----iYlF~~e~~a~aYl~--mH~a 71 (100)
T PRK11118 7 VDFPFNGPFGEEMAKALKPLAESIN-EEPGFIWKIWTENEKTQ-EAGG-----IYLFEDEASAEAYLE--MHTA 71 (100)
T ss_pred EeccCCCCcHHHHHHHHHHHHHHHh-cCCCceEEEeecCCCCc-ccce-----EEEECCHHHHHHHHH--HHHH
Confidence 4466665544443344433334444 46998776666666431 1222 346999999999998 3555
No 76
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=34.92 E-value=53 Score=19.68 Aligned_cols=34 Identities=9% Similarity=0.252 Sum_probs=24.5
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCee
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMK 43 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~ 43 (109)
+|+.+++....+.++.+++...+..+....+.+.
T Consensus 1 ~il~v~~~g~~t~ed~~~~~~~~~~~~~~~~~~~ 34 (109)
T PF11964_consen 1 NILAVRVSGKLTEEDYKELLPALEELIADHGKIR 34 (109)
T ss_dssp S-EEEEEEEEE-HHHHHHHHHHHHHHHTTSSSEE
T ss_pred CEEEEEEeeeeCHHHHHHHHHHHHHHHhcCCceE
Confidence 3678888888899999999888888865444343
No 77
>PF03795 YCII: YCII-related domain; InterPro: IPR005545 The majority of proteins in this group contain a single copy of this domain, though it is also found as a repeat (e.g. in Q9AJZ7 from SWISSPROT). A strongly conserved histidine and a aspartate suggest that the domain has an enzymatic function. This entry also covers what was previously known as the DGPF domain (COG3795). Although its function is unknown it is found fused to a sigma-70 factor family domain in Q9A8M4 from SWISSPROT, suggesting that this domain may plays a role in transcription initiation. This domain is named after the most conserved motif in the alignment.; PDB: 1S7I_A 1MWQ_A.
Probab=34.77 E-value=98 Score=18.12 Aligned_cols=73 Identities=14% Similarity=0.063 Sum_probs=39.9
Q ss_pred EEEEEEEeCCCCCHHHH----HHHHHHHHhhhhcCCCeeEEEeeeccCccccCC---Cc-cEEEEEEECCHHhHHHhhc-
Q 033887 9 KHVLLAKFKEGTAQDQI----DQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQ---GF-THIFESTFESTEGVAEYVA- 79 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~----~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~---~~-~~~~~~~F~s~e~l~~Y~~- 79 (109)
+.+++....++.. ++. .+..+.+..|.. -|+.-. .|+....++... .. --.++++.+|.++......
T Consensus 2 ~y~~~~~~~~~~~-~~~~~~~~~H~~~~~~l~~--~G~~~~-~G~~~~~~g~~~~~~~~~gg~~i~~a~s~e~A~~~~~~ 77 (95)
T PF03795_consen 2 KYLVLIYDDPDSL-EERQELRPAHLAYLKELKE--AGVLVA-SGPFLDTDGPFAETKEFIGGFIIVEAESREEAEEIAKE 77 (95)
T ss_dssp EEEEEEEE-CCGC-HHHHHCHHHHHHHHHHHHH--TT-EEE-ECEEECCCSSSSGGCSEEEEEEEEEESSHHHHHHHHCT
T ss_pred EEEEEEEcCCCch-hHHHHHHHHHHHHHHHHHH--CCCEEe-ccCccCCCCCCcccccceeEEEEEEeCCHHHHHHHHHh
Confidence 4567777777765 333 344455566654 344333 366664422110 00 2347889999999988766
Q ss_pred ChhHHH
Q 033887 80 HPAHVE 85 (109)
Q Consensus 80 hp~H~~ 85 (109)
+|..++
T Consensus 78 dP~~~~ 83 (95)
T PF03795_consen 78 DPFVKA 83 (95)
T ss_dssp -HHHHC
T ss_pred CCcccc
Confidence 676654
No 78
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=34.24 E-value=77 Score=16.79 Aligned_cols=54 Identities=13% Similarity=0.177 Sum_probs=34.5
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhh
Q 033887 13 LAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYV 78 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~ 78 (109)
.-.+.++++++++.++.+ ....|..+.+-++.+ +...-.-.++|++.++.+.-.
T Consensus 3 v~nlp~~~t~~~l~~~f~-------~~g~i~~~~~~~~~~-----~~~~~~a~V~F~~~~~a~~a~ 56 (70)
T PF00076_consen 3 VGNLPPDVTEEELRDFFS-------QFGKIESIKVMRNSS-----GKSKGYAFVEFESEEDAEKAL 56 (70)
T ss_dssp EESETTTSSHHHHHHHHH-------TTSTEEEEEEEEETT-----SSEEEEEEEEESSHHHHHHHH
T ss_pred EcCCCCcCCHHHHHHHHH-------Hhhhccccccccccc-----ccccceEEEEEcCHHHHHHHH
Confidence 345778888777755533 356677888877721 222333588999998876543
No 79
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=33.88 E-value=1.9e+02 Score=21.16 Aligned_cols=55 Identities=11% Similarity=0.181 Sum_probs=38.0
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHH
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVA 75 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~ 75 (109)
.+....|...++++++.++. ...+.|.++.+-++... +.++|| -++.|+|.++-.
T Consensus 271 ~lfV~NL~~~~~e~~L~~~F-------~~fG~v~~v~i~~d~~t-~~skG~---aFV~F~~~~~A~ 325 (352)
T TIGR01661 271 CIFVYNLSPDTDETVLWQLF-------GPFGAVQNVKIIRDLTT-NQCKGY---GFVSMTNYDEAA 325 (352)
T ss_pred EEEEeCCCCCCCHHHHHHHH-------HhCCCeEEEEEeEcCCC-CCccce---EEEEECCHHHHH
Confidence 47788898888877765553 34677888888877632 356777 456788876543
No 80
>TIGR01532 E4PD_g-proteo D-erythrose-4-phosphate dehydrogenase. Accordingly, this model is very close to the corresponding models for GAPDH, and those sequences which hit above trusted here invariably hit between trusted and noise to the GAPDH model (TIGR01534). Similarly, it may be found that there are species outside of the gamma proteobacteria which synthesize pyridoxine and have more than one aparrent GAPDH gene of which one may have E4PD activity - this may necessitate a readjustment of these models. Alternatively, some of the GAPDH enzymes may prove to be bifunctional in certain species.
Probab=33.00 E-value=1.3e+02 Score=22.71 Aligned_cols=41 Identities=12% Similarity=0.158 Sum_probs=27.9
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccC
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVS 52 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~ 52 (109)
.-+.+.++.+++.+++.++++.... +...||+.++-.+-+|
T Consensus 242 ~dl~v~~~~~~~~eev~~~l~~a~~--~~l~gil~~~~~~~vS 282 (325)
T TIGR01532 242 LDLSVTTKRDVKANEVNRVLREAAQ--GPLRGIVDYTELPLVS 282 (325)
T ss_pred EEEEEEECCCCCHHHHHHHHHHhhc--cccccccccccCCccc
Confidence 4566788899999998887765442 3467777776554444
No 81
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=32.82 E-value=43 Score=21.44 Aligned_cols=18 Identities=28% Similarity=0.577 Sum_probs=16.1
Q ss_pred EEEEEEECCHHhHHHhhc
Q 033887 62 HIFESTFESTEGVAEYVA 79 (109)
Q Consensus 62 ~~~~~~F~s~e~l~~Y~~ 79 (109)
..|+..|+|.++++.|.+
T Consensus 3 siWiG~f~s~~el~~Y~e 20 (122)
T PF14112_consen 3 SIWIGNFKSEDELEEYFE 20 (122)
T ss_pred EEEEecCCCHHHHHHHhC
Confidence 468999999999999985
No 82
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=32.50 E-value=1.2e+02 Score=19.68 Aligned_cols=35 Identities=14% Similarity=0.181 Sum_probs=25.7
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHH-HhhhhcCCCe
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDY-ANLVNLIEPM 42 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l-~~L~~~ip~i 42 (109)
.+.|+-+ ++-+|-++++.+++.+.+ ..|+...|.+
T Consensus 60 ~Fihv~l-~i~~GRs~e~k~~l~~~l~~~l~~~~~~~ 95 (126)
T PRK15031 60 AFVHMTL-KIGAGRSLESRQEVGEMLFALIKAHFAAL 95 (126)
T ss_pred cEEEEEe-eecCCCCHHHHHHHHHHHHHHHHHHhhhh
Confidence 6788765 888999999998886443 5566656666
No 83
>cd01210 EPS8 Epidermal growth factor receptor kinase substrate (EPS8) Phosphotyrosine-binding (PTB) domain. Epidermal growth factor receptor kinase substrate (EPS8) Phosphotyrosine-binding (PTB) domain. EPS8 is a regulator of Rac signaling. It consists of a PTB and an SH3 domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=31.49 E-value=1.5e+02 Score=19.40 Aligned_cols=65 Identities=9% Similarity=0.238 Sum_probs=36.8
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA 79 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~ 79 (109)
.+.|.+.|.++........++-++.|..|-. -.+| |+.+..- .-+..+....+-++.+.++.|--
T Consensus 5 ~veHL~Tf~l~~~~~~~~~~D~i~kL~~le~-~G~i----W~Q~m~l---qv~~~~v~LlD~etk~elE~fpl 69 (127)
T cd01210 5 LVEHLATFTVGKQSGVVYPEDAMRKLLQMDK-QGRV----WSQKMIL---RVRYQWVTLLDYETKEELESYPL 69 (127)
T ss_pred eeeeeEEEEEcCccCcCCHHHHHHHHHHHHh-cCCc----cccceEE---EEcCCeEEEEcCCCcChhhcCCH
Confidence 4789999999987544444444444444422 2333 3333321 11234567777777777777643
No 84
>PF02800 Gp_dh_C: Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; InterPro: IPR020829 Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) plays an important role in glycolysis and gluconeogenesis [] by reversibly catalysing the oxidation and phosphorylation of D-glyceraldehyde-3-phosphate to 1,3-diphospho-glycerate. The enzyme exists as a tetramer of identical subunits, each containing 2 conserved functional domains: an NAD-binding domain, and a highly conserved catalytic domain []. The enzyme has been found to bind to actin and tropomyosin, and may thus have a role in cytoskeleton assembly. Alternatively, the cytoskeleton may provide a framework for precise positioning of the glycolytic enzymes, thus permitting efficient passage of metabolites from enzyme to enzyme []. GAPDH displays diverse non-glycolytic functions as well, its role depending upon its subcellular location. For instance, the translocation of GAPDH to the nucleus acts as a signalling mechanism for programmed cell death, or apoptosis []. The accumulation of GAPDH within the nucleus is involved in the induction of apoptosis, where GAPDH functions in the activation of transcription. The presence of GAPDH is associated with the synthesis of pro-apoptotic proteins like BAX, c-JUN and GAPDH itself. GAPDH has been implicated in certain neurological diseases: GAPDH is able to bind to the gene products from neurodegenerative disorders such as Huntington's disease, Alzheimer's disease, Parkinson's disease and Machado-Joseph disease through stretches encoded by their CAG repeats. Abnormal neuronal apoptosis is associated with these diseases. Propargylamines such as deprenyl increase neuronal survival by interfering with apoptosis signalling pathways via their binding to GAPDH, which decreases the synthesis of pro-apoptotic proteins []. This entry represents the C-terminal domain which is a mixed alpha/antiparallel beta fold.; GO: 0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1DSS_R 1IHY_C 1CRW_R 1IHX_B 1SZJ_R 3HJA_D 2YYY_B 1OBF_O 3PYM_A 2VYN_D ....
Probab=31.39 E-value=1.6e+02 Score=19.58 Aligned_cols=47 Identities=15% Similarity=0.230 Sum_probs=32.2
Q ss_pred CCeEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCc
Q 033887 5 KGVVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSI 53 (109)
Q Consensus 5 ~~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~ 53 (109)
..+=.|-+.+.++.+++.+++.+.++.-.. +...|++++.--+-.+.
T Consensus 81 ~~~s~~dl~~~l~k~~t~eeV~~~~~~aa~--~~~~gil~~~~~~~vS~ 127 (157)
T PF02800_consen 81 PNVSLHDLTVELEKPVTKEEVNEALKQAAR--GPLKGILGYTEDPLVSS 127 (157)
T ss_dssp SSEEEEEEEEEESSSS-HHHHHHHHHHHHH--TTTTTTEEEEHSHHHGG
T ss_pred cccCceEEEEecccchhhhhhhhhhhhhhH--hhhhhhheecccceEEe
Confidence 345567778899999999998777655544 56788888865444443
No 85
>PHA00650 hypothetical protein
Probab=30.84 E-value=52 Score=19.00 Aligned_cols=28 Identities=18% Similarity=0.418 Sum_probs=23.1
Q ss_pred ECCHHhHHHhhcChhHHHHHHHHhhhhc
Q 033887 68 FESTEGVAEYVAHPAHVEYANLFLANLE 95 (109)
Q Consensus 68 F~s~e~l~~Y~~hp~H~~~~~~~~p~~~ 95 (109)
..+.++|++...-|+|-+|..+++....
T Consensus 6 intredldalagtpahgefldylrgsit 33 (82)
T PHA00650 6 INTREDLDALAGTPAHGEFLDYLRGSIT 33 (82)
T ss_pred cccHHHHHHhcCCCcchhHHHHHhhhcc
Confidence 4568999999999999999998766543
No 86
>PRK13535 erythrose 4-phosphate dehydrogenase; Provisional
Probab=30.67 E-value=1.4e+02 Score=22.71 Aligned_cols=41 Identities=17% Similarity=0.151 Sum_probs=26.8
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccC
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVS 52 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~ 52 (109)
.-+.+.++.+++.+++.++++.... +...||+.++--+-+|
T Consensus 244 ~dl~v~~~~~~t~eei~~~l~~a~~--~~l~gil~~~~~~~VS 284 (336)
T PRK13535 244 IDLSVTVKKPVKVNEVNQLLQKAAQ--GAFHGIVDYTELPLVS 284 (336)
T ss_pred EEEEEEECCCCCHHHHHHHHHHhhh--ccccccccccCCCccc
Confidence 3466788999999998887765432 3456677665444333
No 87
>PF04673 Cyclase_polyket: Polyketide synthesis cyclase; InterPro: IPR006765 Aromatic polyketides are assembled by a type II (iterative) polyketide synthase in bacteria. Iterative type II polyketide synthases produce polyketide chains of variable but defined length from a specific starter unit and a number of extender units. They also specify the initial regiospecific folding and cyclization pattern of nascent polyketides either through the action of a cyclase (CYC) subunit or through the combined action of site-specific ketoreductase and CYC subunits. Additional CYCs and other modifications may be necessary to produce linear aromatic polyketides. This family represents a number of cyclases involved in polyketide synthesis in a number of actinobacterial species. TcmI (P39890 from SWISSPROT) catalyses an aromatic rearrangement in the biosynthetic pathaway of tetracenomycin C from Streptomyces coelicolor. The protein is a homodimer where each subunit forms a beta-alpha-beta fold belonging to the ferrodoxin fold superfamily []. Four strands of antiparallel sheets and a layer of alpha helices create a cavity which was proposed to be the active site. This structure shows strong topological similarity to a polyketide monoxygenase (Q53908 from SWISSPROT) from S. coelicolor which functions in the actinorhodin biosynthesic pathway []. It was suggested, therefore, that this fold is well suited to serve as a framework for rearrangements and chemical modification of polyaromatic substrates.; GO: 0030639 polyketide biosynthetic process; PDB: 1TUW_A.
Probab=30.31 E-value=75 Score=19.83 Aligned_cols=69 Identities=14% Similarity=0.323 Sum_probs=41.3
Q ss_pred CHHHHHHHHHHHHhhhhcCCCeeEEEeeecc-CccccCCCccEEEEEEECCHHhHHHhhcChhHHHHHHHHhhhhc
Q 033887 21 AQDQIDQLIKDYANLVNLIEPMKSFQWGKNV-SIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEYANLFLANLE 95 (109)
Q Consensus 21 ~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~-~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~~~~~~p~~~ 95 (109)
+++++..+.+..- .+.+|++..++ ++.+ +. .+=|-|.+..+=+..+++.....||.-+++.+.+.|++.
T Consensus 5 ~~~~VA~~FaesD--ateLP~~~Gv~-rR~Lf~~---~dLY~HLiE~~~d~~~~i~~ar~~P~F~~is~~L~~yi~ 74 (97)
T PF04673_consen 5 SAEDVARLFAESD--ATELPHLMGVR-RRSLFSF---HDLYFHLIEADDDPGEAIAKARGHPEFVRISERLSPYIS 74 (97)
T ss_dssp GHHHHHHHHHHHT--TSSHHHHHT---EEEEEEE---TTEEEEEEEESS--HHHHHHTTS-GGGHHHHHHHHTTEE
T ss_pred cHHHHHHHHHhcc--CccCchhhCcc-ceeEeee---CCEEEEEEeccCCchHHHHHHhcCcHHHHHHHHHHhhCC
Confidence 4556666655443 23455554432 2333 22 233667777666667778889999999999999999865
No 88
>PF01250 Ribosomal_S6: Ribosomal protein S6; InterPro: IPR000529 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S6 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S6 is known to bind together with S18 to 16S ribosomal RNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups bacterial, red algal chloroplast and cyanelle S6 ribosomal proteins.; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 3BBN_F 3R3T_B 3F1E_F 2QNH_g 2OW8_g 3PYQ_F 3PYS_F 3PYU_F 3MR8_F 3PYN_F ....
Probab=30.07 E-value=1.2e+02 Score=17.86 Aligned_cols=38 Identities=18% Similarity=0.439 Sum_probs=25.3
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhhhhcCCC-eeE-EEeeec
Q 033887 13 LAKFKEGTAQDQIDQLIKDYANLVNLIEP-MKS-FQWGKN 50 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~~~l~~L~~~ip~-i~~-~~~G~~ 50 (109)
++=+++..++++++++++.+..+-....| |.+ -.+|.-
T Consensus 6 ~~il~~~~~~~~~~~~~~~~~~~i~~~gg~v~~~~~~G~r 45 (92)
T PF01250_consen 6 MFILRPDLSEEEIKKLIERVKKIIEKNGGVVRSVENWGKR 45 (92)
T ss_dssp EEEE-TTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEE
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEeec
Confidence 45577888999999998888777666655 333 345643
No 89
>PF06240 COXG: Carbon monoxide dehydrogenase subunit G (CoxG); InterPro: IPR010419 The CO dehydrogenase structural genes coxMSL are flanked by nine accessory genes arranged as the cox gene cluster. The cox genes are specifically and coordinately transcribed under chemolithoautotrophic conditions in the presence of CO as carbon and energy source [].; PDB: 2NS9_A 2PCS_A.
Probab=29.61 E-value=88 Score=20.00 Aligned_cols=28 Identities=18% Similarity=0.285 Sum_probs=22.1
Q ss_pred CCCHHHHHHHHHHHHhhhhcCCCeeEEE
Q 033887 19 GTAQDQIDQLIKDYANLVNLIEPMKSFQ 46 (109)
Q Consensus 19 ~~~~~~~~~~~~~l~~L~~~ip~i~~~~ 46 (109)
+.+++++-+++.....|..-|||+.+++
T Consensus 6 ~a~~~~vw~~l~D~~~l~~ciPG~~~~e 33 (140)
T PF06240_consen 6 PAPPEKVWAFLSDPENLARCIPGVESIE 33 (140)
T ss_dssp CS-HHHHHHHHT-HHHHHHHSTTEEEEE
T ss_pred cCCHHHHHHHhcCHHHHHhhCCCcEEee
Confidence 4578888888888999999899999884
No 90
>PRK15360 pathogenicity island 2 effector protein SseE; Provisional
Probab=29.48 E-value=72 Score=21.16 Aligned_cols=35 Identities=6% Similarity=-0.034 Sum_probs=28.2
Q ss_pred EEEEEeCCCCC--HHHHHHHHHHHHhhhhcCCCeeEE
Q 033887 11 VLLAKFKEGTA--QDQIDQLIKDYANLVNLIEPMKSF 45 (109)
Q Consensus 11 iVlf~~k~~~~--~~~~~~~~~~l~~L~~~ip~i~~~ 45 (109)
||+|+-+.+.. +.+.-.+..-|+.|-..+|.+.++
T Consensus 49 Ic~lrR~~~~~~~p~~~~~L~~~L~~l~~~~p~l~~v 85 (137)
T PRK15360 49 ICEFRRLTPGQPRPQQLFHLLGLLRGIFVHHPQLTCL 85 (137)
T ss_pred EEEEEeccCCCCCHHHHHHHHHHHHHHHccChHHHhh
Confidence 68888877665 778888889899998888887665
No 91
>PF02834 LigT_PEase: LigT like Phosphoesterase; InterPro: IPR014051 This entry represents a domain found in a number of known and predicted phosphoesterases. These include bacterial and archaeal 2',5' RNA ligases, and a family of predicted phosphoesterases known as the YjcG family. The 2',5' RNA ligases perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA []. The physiological substrate(s) in prokaryotes may include small 2',5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles. This domain contains a conserved HXTX motif which is thought to be important for catalytic activity, as it is in the related enzyme cyclic nucleotide phosphodiesterase (CPDase) []. In 2',5' RNA ligase this domain is duplicated, with the two conserved motifs forming the proposed active site, which is analogous to that of CPDase [].; PDB: 1VGJ_A 1VDX_A 2FYH_A 2D4G_A.
Probab=29.39 E-value=1.2e+02 Score=17.41 Aligned_cols=33 Identities=30% Similarity=0.448 Sum_probs=24.1
Q ss_pred EEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCC
Q 033887 8 VKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEP 41 (109)
Q Consensus 8 i~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~ 41 (109)
--||.+-.+. +.+++++.++++.+..+....+.
T Consensus 34 ~~HiTL~flg-~~~~~~~~~l~~~l~~~~~~~~~ 66 (87)
T PF02834_consen 34 NPHITLAFLG-EVPPDQLPELIEALANIASRFPP 66 (87)
T ss_dssp GSEEEEEEEE-EESHHHHHHHHHHHHHHHCCCB-
T ss_pred CCeEEEEeCC-CCCHHHHHHHHHHHHhhhccCCC
Confidence 3588886665 56688899999999888654444
No 92
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=29.35 E-value=88 Score=22.32 Aligned_cols=33 Identities=21% Similarity=0.265 Sum_probs=24.5
Q ss_pred CCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHH
Q 033887 40 EPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAE 76 (109)
Q Consensus 40 p~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~ 76 (109)
.-|+.+...||..+ |.++|| -+++|+|.+.-..
T Consensus 75 g~v~r~rlsRnkrT-GNSKgY---AFVEFEs~eVA~I 107 (214)
T KOG4208|consen 75 GTVTRFRLSRNKRT-GNSKGY---AFVEFESEEVAKI 107 (214)
T ss_pred CeeEEEEeeccccc-CCcCce---EEEEeccHHHHHH
Confidence 34888999999864 677888 5579999875443
No 93
>TIGR03119 one_C_fhcD formylmethanofuran--tetrahydromethanopterin N-formyltransferase. Members of this protein family are the FhcD protein of tetrahydromethanopterin (H4MPT)-dependent C-1 carrier metabolism. In the archaea, FhcD is designated formylmethanofuran--tetrahydromethanopterin N-formyltransferase, while in bacteria it is commonly designated as formyltransferase/hydrolase complex subunit D. FhcD is essential for one-carbon metabolism in at least three groups of prokaryotes: methanogenic archaea, sulfate-reducing archaea, and methylotrophic bacteria.
Probab=29.24 E-value=2.4e+02 Score=21.02 Aligned_cols=37 Identities=14% Similarity=0.236 Sum_probs=27.0
Q ss_pred eEEEEEEEEeCCCCCHHHHHH-HHHHHHhhhhcCCCeeEEEee
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQ-LIKDYANLVNLIEPMKSFQWG 48 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~-~~~~l~~L~~~ip~i~~~~~G 48 (109)
.+.-||. ++.+.+.+++ +..++++... +|||+.++.|
T Consensus 234 ~V~EIVI----dGl~~~aV~~Amr~Gi~Aa~~-~~Gv~~IsAG 271 (287)
T TIGR03119 234 AVYEIVI----DGLNEAAIAEAMRVGILAATE-IPGVVKITAG 271 (287)
T ss_pred eEEEEEE----cCCCHHHHHHHHHHHHHHHhc-CCCeEEEecC
Confidence 4455555 7888887744 4567777764 7999999998
No 94
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=29.10 E-value=1.5e+02 Score=22.98 Aligned_cols=52 Identities=6% Similarity=0.073 Sum_probs=35.1
Q ss_pred CHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCc--cccCCCccEEEEEEECCHHhHH
Q 033887 21 AQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSI--ENLHQGFTHIFESTFESTEGVA 75 (109)
Q Consensus 21 ~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~--~~~~~~~~~~~~~~F~s~e~l~ 75 (109)
++++.+.+++.|+.+......|.++.+-++... .+.+.|+ .+++|.+.++-+
T Consensus 425 ~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~---~fV~F~~~e~A~ 478 (509)
T TIGR01642 425 DDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGK---VFLEYADVRSAE 478 (509)
T ss_pred CcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcce---EEEEECCHHHHH
Confidence 344567788888888888889999988765321 1122232 568899987654
No 95
>PRK02114 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional
Probab=28.87 E-value=2.5e+02 Score=21.09 Aligned_cols=37 Identities=8% Similarity=0.260 Sum_probs=27.4
Q ss_pred eEEEEEEEEeCCCCCHHHHHH-HHHHHHhhhhcCCCeeEEEee
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQ-LIKDYANLVNLIEPMKSFQWG 48 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~-~~~~l~~L~~~ip~i~~~~~G 48 (109)
.+.-||. ++.+.+.+++ +..++++... +|||+.++.|
T Consensus 242 ~V~EIVI----dGl~~~aV~~Amr~Gi~Aa~~-~~Gv~~IsAG 279 (297)
T PRK02114 242 AVYEIVI----DGLDEEAVAEAMRAGIEAACA-VPGVVKISAG 279 (297)
T ss_pred eEEEEEE----cCCCHHHHHHHHHHHHHHHhc-CCCeEEEecC
Confidence 4555555 7888888754 4577777764 8999999998
No 96
>PRK07729 glyceraldehyde-3-phosphate dehydrogenase; Validated
Probab=28.68 E-value=2.3e+02 Score=21.70 Aligned_cols=37 Identities=19% Similarity=0.242 Sum_probs=24.8
Q ss_pred EEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEe
Q 033887 9 KHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQW 47 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~ 47 (109)
-+-+.+.++.+++.+++.++++.... +...||+.++-
T Consensus 241 ~~dltv~l~k~~t~eev~~~l~~a~~--~~l~gil~~~~ 277 (343)
T PRK07729 241 LVDLVVDVKRDVTVEEINEAFKTAAN--GALKGILEFSE 277 (343)
T ss_pred EEEEEEEECCCCCHHHHHHHHHHHhh--CchhhccCccC
Confidence 34467788999999999888765442 34555665543
No 97
>COG5552 Uncharacterized conserved protein [Function unknown]
Probab=28.52 E-value=43 Score=19.98 Aligned_cols=24 Identities=17% Similarity=0.224 Sum_probs=15.9
Q ss_pred EEEeCCCCCHHHH-HHHHHHHHhhh
Q 033887 13 LAKFKEGTAQDQI-DQLIKDYANLV 36 (109)
Q Consensus 13 lf~~k~~~~~~~~-~~~~~~l~~L~ 36 (109)
+|.|.|++++.++ ++.++-++.|.
T Consensus 8 LfnfdPPAT~~EvrdAAlQfVRKlS 32 (88)
T COG5552 8 LFNFDPPATPVEVRDAALQFVRKLS 32 (88)
T ss_pred HhCCCCCCCcHHHHHHHHHHHHHhc
Confidence 6889999988776 33345555553
No 98
>PHA02087 hypothetical protein
Probab=28.09 E-value=1.2e+02 Score=17.79 Aligned_cols=30 Identities=20% Similarity=0.201 Sum_probs=22.3
Q ss_pred EEEEEECCHHhHHHhhcChhHHHHHHHHhh
Q 033887 63 IFESTFESTEGVAEYVAHPAHVEYANLFLA 92 (109)
Q Consensus 63 ~~~~~F~s~e~l~~Y~~hp~H~~~~~~~~p 92 (109)
+..+.|.|.+..++|..+.-+.+--++..|
T Consensus 3 i~rvkfks~ehrk~fa~s~~yn~~f~k~mp 32 (83)
T PHA02087 3 IVRVKFKSPEHRKAFAESEWYNEEFEKFMP 32 (83)
T ss_pred eEEEEcCCHHHHHHHHhhhHHHHHHHhhCc
Confidence 356789999999999998777764443333
No 99
>PF04486 SchA_CurD: SchA/CurD like domain; InterPro: IPR007575 Proteins having this domain have been identified mainly in species of the Streptomyces genus. Two of them are known to be part of gene clusters involved in the synthesis of polyketide-based spore pigments, homologous to clusters involved in the synthesis of polyketide antibiotics. Their function is unknown, but they has been speculated to contain a NAD(P) binding site []. Many of these proteins contain two copies of the domain.
Probab=28.08 E-value=80 Score=20.26 Aligned_cols=23 Identities=30% Similarity=0.535 Sum_probs=17.3
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIK 30 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~ 30 (109)
|.+|.++|..|||.. +++.+++.
T Consensus 1 v~RhALtypvkpG~g-~~vA~llA 23 (114)
T PF04486_consen 1 VPRHALTYPVKPGSG-DAVARLLA 23 (114)
T ss_pred CceEEEEeecCCCcH-HHHHHHHc
Confidence 579999999999965 44555554
No 100
>PTZ00023 glyceraldehyde-3-phosphate dehydrogenase; Provisional
Probab=27.73 E-value=2.4e+02 Score=21.48 Aligned_cols=38 Identities=16% Similarity=0.180 Sum_probs=25.6
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEE
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQ 46 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~ 46 (109)
+=-+-+.+.++.+++.+++.+.++.... +...||+.++
T Consensus 242 ~s~~dltv~l~k~vt~eev~~al~~aa~--~~l~gil~~~ 279 (337)
T PTZ00023 242 VSVVDLTCKLAKPAKYEEIVAAVKKAAE--GPLKGILGYT 279 (337)
T ss_pred eEEEEEEEEECCCCCHHHHHHHHHHHhc--ccccCCcCcc
Confidence 3356677889999999998887765442 2345565554
No 101
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=27.67 E-value=70 Score=17.72 Aligned_cols=18 Identities=17% Similarity=0.147 Sum_probs=14.7
Q ss_pred CCCHHHHHHHHHHHHhhh
Q 033887 19 GTAQDQIDQLIKDYANLV 36 (109)
Q Consensus 19 ~~~~~~~~~~~~~l~~L~ 36 (109)
..++++++++.+.|++|+
T Consensus 74 ~ls~~e~~~l~ayl~slk 91 (91)
T PF00034_consen 74 ILSDEEIADLAAYLRSLK 91 (91)
T ss_dssp TSSHHHHHHHHHHHHHTS
T ss_pred CCCHHHHHHHHHHHHHhC
Confidence 467889999999888874
No 102
>COG0199 RpsN Ribosomal protein S14 [Translation, ribosomal structure and biogenesis]
Probab=27.54 E-value=30 Score=19.72 Aligned_cols=14 Identities=21% Similarity=0.302 Sum_probs=10.1
Q ss_pred hhhhcCCCeeEEEe
Q 033887 34 NLVNLIEPMKSFQW 47 (109)
Q Consensus 34 ~L~~~ip~i~~~~~ 47 (109)
+..++|||++..+|
T Consensus 48 A~~g~ipGv~K~sW 61 (61)
T COG0199 48 AHKGEIPGVKKASW 61 (61)
T ss_pred hhccCCCCeEeccC
Confidence 34567999988764
No 103
>PLN02358 glyceraldehyde-3-phosphate dehydrogenase
Probab=27.28 E-value=1.7e+02 Score=22.18 Aligned_cols=35 Identities=14% Similarity=0.306 Sum_probs=24.3
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEE
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQ 46 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~ 46 (109)
.-+.+.++.+++.+++.+.++.... +...||+.++
T Consensus 247 ~dl~v~~~~~~t~eev~~~l~~a~~--~~l~gil~~~ 281 (338)
T PLN02358 247 VDLTVRLEKAATYDEIKKAIKEESE--GKLKGILGYT 281 (338)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHhh--ccccCccccc
Confidence 3466788899999998888765542 3456666655
No 104
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=26.60 E-value=92 Score=18.29 Aligned_cols=21 Identities=5% Similarity=-0.015 Sum_probs=14.3
Q ss_pred HHHHHHHHhhhhcCCCeeEEEe
Q 033887 26 DQLIKDYANLVNLIEPMKSFQW 47 (109)
Q Consensus 26 ~~~~~~l~~L~~~ip~i~~~~~ 47 (109)
.+..+.+.++. .+|||.+...
T Consensus 51 ~~~~~~~~~i~-~l~GVlsa~l 71 (79)
T PF03927_consen 51 EEEVDLIDAIN-ALPGVLSASL 71 (79)
T ss_dssp HHHHHHHHHHC-CSTTEEEEEE
T ss_pred HHHHHHHHHHH-cCCCceEEEE
Confidence 44556666776 4899988754
No 105
>PF14330 DUF4387: Domain of unknown function (DUF4387)
Probab=26.44 E-value=1.1e+02 Score=19.07 Aligned_cols=27 Identities=19% Similarity=0.192 Sum_probs=23.2
Q ss_pred cCCCccEEEEEEECCHHhHHHhhcChh
Q 033887 56 LHQGFTHIFESTFESTEGVAEYVAHPA 82 (109)
Q Consensus 56 ~~~~~~~~~~~~F~s~e~l~~Y~~hp~ 82 (109)
+++.|-.-+-+-|+|.+.++.+..++.
T Consensus 12 NAGPf~lT~DI~F~~~e~Y~~vk~s~~ 38 (99)
T PF14330_consen 12 NAGPFELTFDIIFKDKEAYERVKASGV 38 (99)
T ss_pred CCCCcEEEEEEEECCHHHHHHHHHcCc
Confidence 456788999999999999999998754
No 106
>PF11303 DUF3105: Protein of unknown function (DUF3105); InterPro: IPR021454 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Probab=26.36 E-value=1.9e+02 Score=18.81 Aligned_cols=63 Identities=5% Similarity=0.048 Sum_probs=36.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCc--cccCCCccEEEEEEECCHHhHHHhhc
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSI--ENLHQGFTHIFESTFESTEGVAEYVA 79 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~--~~~~~~~~~~~~~~F~s~e~l~~Y~~ 79 (109)
-|.+..++.+++++++++.+....... .+-+.+..+. ...-..|..-+.++-.|.+.++.|..
T Consensus 51 aV~i~Y~p~~~~~~v~~L~~l~~~~~~------~~visP~~~~~~pialtaWg~~l~~~~~d~~~i~~Fi~ 115 (130)
T PF11303_consen 51 AVWITYDPCLPPDQVAKLKALAKSCLP------YVVISPYPGLDRPIALTAWGRQLKLDSADDPRIKQFIR 115 (130)
T ss_pred cEEEEECCCCCHHHHHHHHHHHhccCC------cEEEecCCCCCCCEEEeecCCEeecCcCCHHHHHHHHH
Confidence 367788888999888777666555322 1112222221 11123566677777777777666543
No 107
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=26.22 E-value=3e+02 Score=20.97 Aligned_cols=80 Identities=10% Similarity=0.199 Sum_probs=48.9
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhHHHH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAHVEY 86 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H~~~ 86 (109)
.++-+..-+|.=++++..+....+ ...-|+.+.+-++.-+ +.++|| .+++|.++-++..-..|..++
T Consensus 100 Py~TLFv~RLnydT~EskLrreF~-------~YG~IkrirlV~d~vT-gkskGY---AFIeye~erdm~~AYK~adG~-- 166 (335)
T KOG0113|consen 100 PYKTLFVARLNYDTSESKLRREFE-------KYGPIKRIRLVRDKVT-GKSKGY---AFIEYEHERDMKAAYKDADGI-- 166 (335)
T ss_pred ccceeeeeeccccccHHHHHHHHH-------hcCcceeEEEeeeccc-CCccce---EEEEeccHHHHHHHHHhccCc--
Confidence 344455567777777766544433 2344777888788642 357888 456888888876533333332
Q ss_pred HHHHhhhhcceEEEEeec
Q 033887 87 ANLFLANLEKVLVIDYKP 104 (109)
Q Consensus 87 ~~~~~p~~~~~~~~D~~~ 104 (109)
.+-...+++|++-
T Consensus 167 -----~Idgrri~VDvER 179 (335)
T KOG0113|consen 167 -----KIDGRRILVDVER 179 (335)
T ss_pred -----eecCcEEEEEecc
Confidence 2334678888875
No 108
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=26.02 E-value=1.5e+02 Score=17.36 Aligned_cols=59 Identities=10% Similarity=0.076 Sum_probs=33.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHH
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAE 76 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~ 76 (109)
+-..+.++.+.+++.+.-+......++.|+|+-++.=-+. +.+-.||++. =+|+|+.+.
T Consensus 4 ver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~-----d~~k~~Cly~-Ap~~eaV~~ 62 (77)
T PF14026_consen 4 VERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSE-----DDGKIFCLYE-APDEEAVRE 62 (77)
T ss_pred EEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEec-----CCCeEEEEEE-CCCHHHHHH
Confidence 3345777799999988876665555556887655433332 2333455543 355555543
No 109
>PRK09504 sufA iron-sulfur cluster assembly scaffold protein; Provisional
Probab=25.99 E-value=35 Score=21.79 Aligned_cols=16 Identities=13% Similarity=0.214 Sum_probs=11.0
Q ss_pred HHhhhhcceEEEEeecC
Q 033887 89 LFLANLEKVLVIDYKPT 105 (109)
Q Consensus 89 ~~~p~~~~~~~~D~~~~ 105 (109)
...+++++ ..+||..+
T Consensus 82 ~s~~~L~g-~~IDy~~~ 97 (122)
T PRK09504 82 QAMPFIDG-TEVDYVRE 97 (122)
T ss_pred HHHHhhCC-cEEEeecC
Confidence 55667766 68888754
No 110
>TIGR03215 ac_ald_DH_ac acetaldehyde dehydrogenase (acetylating). Members of this protein family are acetaldehyde dehydrogenase (acetylating), EC 1.2.1.10. This enzyme oxidizes acetaldehyde, using NAD(+), and attaches coenzyme A (CoA), yielding acetyl-CoA. It occurs as a late step in the meta-cleavage pathways of a variety of compounds, including catechol, biphenyl, toluene, salicylate, etc.
Probab=25.59 E-value=1.9e+02 Score=21.38 Aligned_cols=39 Identities=10% Similarity=0.191 Sum_probs=24.9
Q ss_pred CCCCeEEEEEEEEeCCCCCHHHHH-HHHHHHHhhhhcCCCe
Q 033887 3 EAKGVVKHVLLAKFKEGTAQDQID-QLIKDYANLVNLIEPM 42 (109)
Q Consensus 3 ~~~~mi~HiVlf~~k~~~~~~~~~-~~~~~l~~L~~~ip~i 42 (109)
+++.+++-.|+.... +.+.+.+. .+.+........+||=
T Consensus 193 ~p~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~vpgy 232 (285)
T TIGR03215 193 EPPLMMRDTIYCLVE-DPDEDAIEASVEEMVAEVQKYVPGY 232 (285)
T ss_pred CCCccceeeEEEecC-CCCHHHHHHHHHHHHHHHHhhCCCE
Confidence 445666777766664 46666653 3445567777778885
No 111
>PF01904 DUF72: Protein of unknown function DUF72; InterPro: IPR002763 The function of this family is unknown. Aquifex aeolicus has two copies of this protein. A probable aspartyl-tRNA synthetase from Escherichia coli [] belongs to this group.; PDB: 1VPY_A 1ZTV_A 1VPQ_A.
Probab=25.26 E-value=1.6e+02 Score=20.79 Aligned_cols=37 Identities=14% Similarity=0.111 Sum_probs=21.1
Q ss_pred EEEEEEEeCCC--CCHHHHHHHHHHHHhhhhcCCCeeEE
Q 033887 9 KHVLLAKFKEG--TAQDQIDQLIKDYANLVNLIEPMKSF 45 (109)
Q Consensus 9 ~HiVlf~~k~~--~~~~~~~~~~~~l~~L~~~ip~i~~~ 45 (109)
.-.++|+|.+. .+++.++.+.+-+..++..+|-...+
T Consensus 86 lg~iL~Q~Ppsf~~~~~~~~~l~~~l~~~~~~~~~avE~ 124 (230)
T PF01904_consen 86 LGPILFQFPPSFRFTPENLERLDAFLDRLPRGFRYAVEF 124 (230)
T ss_dssp EEEEEEE--TT--S-HHHHHHHHHHHHHTT-TS-EEEE-
T ss_pred ceEEEEEcCCCcCCCHHHHHHHHHHHhhcccccceEEec
Confidence 35789999887 67777777777777776434443333
No 112
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=25.22 E-value=3.1e+02 Score=20.82 Aligned_cols=54 Identities=11% Similarity=0.222 Sum_probs=34.9
Q ss_pred EEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhh
Q 033887 14 AKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYV 78 (109)
Q Consensus 14 f~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~ 78 (109)
-.|..+++++++.++.+ .+..|+++.+-++..+ +++++| + .++|.+.++-+.-.
T Consensus 113 gnLp~~~te~~L~~lF~-------~~G~V~~v~i~~d~~t-g~srGy--a-FVeF~~~e~A~~Ai 166 (346)
T TIGR01659 113 NYLPQDMTDRELYALFR-------TIGPINTCRIMRDYKT-GYSFGY--A-FVDFGSEADSQRAI 166 (346)
T ss_pred eCCCCCCCHHHHHHHHH-------hcCCEEEEEEEecCCC-CccCcE--E-EEEEccHHHHHHHH
Confidence 35888888888777655 2455888877666432 345565 3 44688887666543
No 113
>PF06569 DUF1128: Protein of unknown function (DUF1128); InterPro: IPR009507 This family consists of several short, hypothetical bacterial proteins of unknown function.
Probab=23.76 E-value=1e+02 Score=18.05 Aligned_cols=20 Identities=10% Similarity=0.327 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHHHHhhh
Q 033887 17 KEGTAQDQIDQLIKDYANLV 36 (109)
Q Consensus 17 k~~~~~~~~~~~~~~l~~L~ 36 (109)
|+..++.+.+++.+.|..|+
T Consensus 51 K~~fS~sEm~aI~~ELG~LR 70 (71)
T PF06569_consen 51 KDSFSPSEMQAIAEELGQLR 70 (71)
T ss_pred ccCCCHHHHHHHHHHHHhhc
Confidence 67778899999998888775
No 114
>PF03332 PMM: Eukaryotic phosphomannomutase; InterPro: IPR005002 This enzyme (5.4.2.8 from EC) is involved in the synthesis of the GDP-mannose and dolichol-phosphate-mannose required for a number of critical mannosyl transfer reactions.; GO: 0004615 phosphomannomutase activity, 0019307 mannose biosynthetic process, 0005737 cytoplasm; PDB: 2I55_B 2I54_C 3F9R_A 2FUE_A 2FUC_A 2AMY_A 2Q4R_A.
Probab=23.72 E-value=1.3e+02 Score=21.57 Aligned_cols=42 Identities=21% Similarity=0.350 Sum_probs=24.6
Q ss_pred CCHHHHHHHH----------HHHHhhhhcCCCe-eEEEeeeccCccccCCCcc
Q 033887 20 TAQDQIDQLI----------KDYANLVNLIEPM-KSFQWGKNVSIENLHQGFT 61 (109)
Q Consensus 20 ~~~~~~~~~~----------~~l~~L~~~ip~i-~~~~~G~~~~~~~~~~~~~ 61 (109)
++.++++++. +-..+|+.+.|.. +.+++|=..|-+.-.+|||
T Consensus 110 a~~eer~~f~~~D~~~~iR~~~v~~L~~~f~d~~L~~siGGqiSiDvfp~GwD 162 (220)
T PF03332_consen 110 ASQEERDEFDEYDKKHKIREKLVEALKKEFPDFGLTFSIGGQISIDVFPKGWD 162 (220)
T ss_dssp S-HHHHHHHHHHHHHHTHHHHHHHHHHHHTCCCSEEEEEETTTEEEEEETT-S
T ss_pred CCHHHHHhhhhcChhhhHHHHHHHHHHHHCCCCceEEecCCceEEccccCCcc
Confidence 4566666552 2346778888974 5788887776433344444
No 115
>PF08726 EFhand_Ca_insen: Ca2+ insensitive EF hand; InterPro: IPR014837 EF hands are helix-loop-helix binding motifs involved in the regulation of many cellular processes. EF hands usually bind to Ca2+ ions, which cause a major conformational change that allows the protein to interact with its designated targets. This protein corresponds to an EF hand which has partially or entirely lost its calcium-binding properties. The calcium insensitive EF hand is still able to mediate protein-protein recognition []. ; PDB: 1H8B_A 1SJJ_B.
Probab=23.62 E-value=22 Score=20.68 Aligned_cols=28 Identities=7% Similarity=0.068 Sum_probs=21.3
Q ss_pred HHHHHHHHhhhhcCCCeeEEEeeeccCc
Q 033887 26 DQLIKDYANLVNLIEPMKSFQWGKNVSI 53 (109)
Q Consensus 26 ~~~~~~l~~L~~~ip~i~~~~~G~~~~~ 53 (109)
++++++++.|++.-|.|......+++++
T Consensus 6 eqv~~aFr~lA~~KpyVT~~dLr~~l~p 33 (69)
T PF08726_consen 6 EQVEEAFRALAGGKPYVTEEDLRRSLTP 33 (69)
T ss_dssp HHHHHHHHHHCTSSSCEEHHHHHHHS-C
T ss_pred HHHHHHHHHHHcCCCcccHHHHHHHcCc
Confidence 4557778888888899988887777765
No 116
>PF14218 COP23: Circadian oscillating protein COP23
Probab=23.53 E-value=1.6e+02 Score=19.03 Aligned_cols=24 Identities=25% Similarity=0.371 Sum_probs=16.0
Q ss_pred EEEEEEeCCCCCHHHH-HHHHHHHH
Q 033887 10 HVLLAKFKEGTAQDQI-DQLIKDYA 33 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~-~~~~~~l~ 33 (109)
.-|+|+||++.++.+. ..+.+.+.
T Consensus 85 ~~vLfTL~p~~~p~~~l~~l~~~~~ 109 (132)
T PF14218_consen 85 NNVLFTLKPGNNPNQVLQQLFDILR 109 (132)
T ss_pred ccEEEEeCCCCCHHHHHHHHHHHHh
Confidence 3589999999987664 33333333
No 117
>PHA02697 hypothetical protein; Provisional
Probab=22.96 E-value=50 Score=23.77 Aligned_cols=41 Identities=15% Similarity=0.223 Sum_probs=24.8
Q ss_pred CeEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 6 GVVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 6 ~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
.-|.|+|||+.|-=.-. ++++...+. ++.++.-++.+-++.
T Consensus 74 ~~I~hVVFFqakQv~is--VeeLY~~~~---enl~~~~~LYFVrD~ 114 (255)
T PHA02697 74 HDVRHVVLFKASVVDWR--VEELFLGFG---EKLGGLDALYFVADG 114 (255)
T ss_pred CCcCEEEEEEeeeecee--HHHHHHHHH---hcCCCceEEEEEecc
Confidence 45899999999854321 344444443 356666666665554
No 118
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=22.93 E-value=1.4e+02 Score=16.05 Aligned_cols=56 Identities=13% Similarity=0.240 Sum_probs=30.9
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA 79 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~ 79 (109)
.+-.+.++++.+++.++ +... --|..+...++-. +...-...++|.|.++.+.-..
T Consensus 2 ~i~nlp~~~~~~~l~~~---f~~~----g~v~~v~~~~~~~-----~~~~~~a~v~f~~~~~a~~al~ 57 (70)
T PF14259_consen 2 YISNLPPSTTEEDLRNF---FSRF----GPVEKVRLIKNKD-----GQSRGFAFVEFSSEEDAKRALE 57 (70)
T ss_dssp EEESSTTT--HHHHHHH---CTTS----SBEEEEEEEESTT-----SSEEEEEEEEESSHHHHHHHHH
T ss_pred EEeCCCCCCCHHHHHHH---HHhc----CCcceEEEEeeec-----cccCCEEEEEeCCHHHHHHHHH
Confidence 44566777777665444 2233 1266777666532 1223346789999988776443
No 119
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=22.59 E-value=2.4e+02 Score=20.95 Aligned_cols=58 Identities=21% Similarity=0.223 Sum_probs=40.0
Q ss_pred EEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhc--ChhHHH
Q 033887 14 AKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVA--HPAHVE 85 (109)
Q Consensus 14 f~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~--hp~H~~ 85 (109)
|+.=|++-+++++.+.+.+..+.+ .||+.-+=+-..++|+ | ++.+.+..|.. ||.=.-
T Consensus 148 FThCPDICPdELeKm~~~Vd~i~~-~~~~~~~PlFIsvDPe-R------------D~~~~~~eY~~eF~pkllG 207 (280)
T KOG2792|consen 148 FTHCPDICPDELEKMSAVVDEIEA-KPGLPPVPLFISVDPE-R------------DSVEVVAEYVSEFHPKLLG 207 (280)
T ss_pred ccCCCCcChHHHHHHHHHHHHHhc-cCCCCccceEEEeCcc-c------------CCHHHHHHHHHhcChhhhc
Confidence 566789999999999999999865 7887644233333332 2 47788888877 665443
No 120
>COG0812 MurB UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=22.52 E-value=1.2e+02 Score=22.75 Aligned_cols=43 Identities=16% Similarity=0.111 Sum_probs=26.7
Q ss_pred EEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 8 VKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 8 i~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
+.=-|.|+|+++ +++++.+-...++..+..-.-...-++|--+
T Consensus 172 vvl~v~f~L~~~-~~~~I~~~~~~ir~~R~~~qP~~~ps~GS~F 214 (291)
T COG0812 172 VVLSVEFKLTKG-DPEDILAAMCAIRRRRELKQPIDLPSAGSFF 214 (291)
T ss_pred EEEEEEEEeCCC-CHHHHHHHHHHHHHhhccCCCCcCCCCCccc
Confidence 344577899999 7888877777777665311224444555444
No 121
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=22.44 E-value=2.2e+02 Score=18.11 Aligned_cols=54 Identities=6% Similarity=0.256 Sum_probs=34.4
Q ss_pred EEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHHhh
Q 033887 11 VLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYV 78 (109)
Q Consensus 11 iVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~ 78 (109)
++.++.++ ..+..+++.+.+.. +|+|.+.. . ..+.||+.+.....|.++++.+.
T Consensus 71 ~v~v~~~~--~~~~~~~~~~~~~~----~~~V~~~~---~-----~~G~~d~~~~~~~~~~~~~~~~~ 124 (154)
T COG1522 71 FVEVKLER--SLEDLEEFAEALAK----LPEVVECY---R-----VTGDYDYLLKVRVRDLEELERFL 124 (154)
T ss_pred EEEEEecC--ChhHHHHHHHHHhC----CCCEEEEE---E-----ecCCCcEEEEEEECCHHHHHHHH
Confidence 33444444 34455555554443 46665541 1 23479999999999999999877
No 122
>PF07082 DUF1350: Protein of unknown function (DUF1350); InterPro: IPR010765 This family consists of several hypothetical proteins from both cyanobacteria and plants. Members of this family are typically around 250 residues in length. The function of this family is unknown but the species distribution indicates that the family may be involved in photosynthesis.
Probab=22.36 E-value=2.7e+02 Score=20.35 Aligned_cols=73 Identities=19% Similarity=0.299 Sum_probs=43.6
Q ss_pred eEEEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCe---eEEEeeeccCccccCCCccEEEEEEECCHHhHHHhhcChhH
Q 033887 7 VVKHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPM---KSFQWGKNVSIENLHQGFTHIFESTFESTEGVAEYVAHPAH 83 (109)
Q Consensus 7 mi~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i---~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~Y~~hp~H 83 (109)
.+++..++||+++.-+ +-..+.+. |+.+.|.+ +.+. |..++|-+.+-.|..+ ..|.-.+++.........
T Consensus 162 ~~~rnLLIkF~~D~iD-qt~~L~~~---L~~r~~~~~~~~~L~-G~HLTPl~q~~~~~~g--~~ftP~da~~q~~k~~~~ 234 (250)
T PF07082_consen 162 QVRRNLLIKFNDDDID-QTDELEQI---LQQRFPDMVSIQTLP-GNHLTPLGQDLKWQVG--SSFTPLDAVGQWLKQEVL 234 (250)
T ss_pred CCccceEEEecCCCcc-chHHHHHH---HhhhccccceEEeCC-CCCCCcCcCCcCCccC--CccCchHHHHHHHHHHHH
Confidence 5788999999988753 34444443 33344443 3332 5555664444567766 458888888777665444
Q ss_pred HHH
Q 033887 84 VEY 86 (109)
Q Consensus 84 ~~~ 86 (109)
...
T Consensus 235 ~d~ 237 (250)
T PF07082_consen 235 RDL 237 (250)
T ss_pred HHH
Confidence 443
No 123
>PF10041 DUF2277: Uncharacterized conserved protein (DUF2277); InterPro: IPR018735 Members of this family of hypothetical bacterial proteins have no known function.
Probab=22.29 E-value=97 Score=18.50 Aligned_cols=17 Identities=18% Similarity=0.350 Sum_probs=12.7
Q ss_pred EEEEeCCCCCHHHHHHH
Q 033887 12 LLAKFKEGTAQDQIDQL 28 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~ 28 (109)
.|+.|.|+++++++.+.
T Consensus 7 ~L~~fePpaT~~EI~aA 23 (78)
T PF10041_consen 7 TLRNFEPPATDEEIRAA 23 (78)
T ss_pred hhcCCCCCCCHHHHHHH
Confidence 36778899998887543
No 124
>COG4981 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]
Probab=22.23 E-value=1.1e+02 Score=25.24 Aligned_cols=35 Identities=20% Similarity=0.258 Sum_probs=28.9
Q ss_pred EeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 15 KFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 15 ~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
-|||+ +-+++.++++...+.+. .|-|.+++.|+.=
T Consensus 155 ~fKPG-tIeqI~svi~IAka~P~-~pIilq~egGraG 189 (717)
T COG4981 155 AFKPG-TIEQIRSVIRIAKANPT-FPIILQWEGGRAG 189 (717)
T ss_pred EecCC-cHHHHHHHHHHHhcCCC-CceEEEEecCccC
Confidence 46777 56789999999899985 8999999999864
No 125
>PTZ00434 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional
Probab=22.12 E-value=2.7e+02 Score=21.54 Aligned_cols=38 Identities=21% Similarity=0.233 Sum_probs=24.8
Q ss_pred EEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeecc
Q 033887 12 LLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNV 51 (109)
Q Consensus 12 Vlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~ 51 (109)
+.+.++.+++-+++.++++.... +...||+.++-.+-+
T Consensus 261 Lt~~l~k~~t~eein~a~k~aa~--~~lkgIl~y~~~plV 298 (361)
T PTZ00434 261 LTFRATRDTSIQEIDAAIKRASQ--TYMKGILGFTDDELV 298 (361)
T ss_pred EEEEeCCCCCHHHHHHHHHHhhh--ccccCcccccCCCcc
Confidence 45678899999999888765442 345666666543333
No 126
>TIGR03872 cytochrome_MoxG cytochrome c(L), periplasmic. This model describes a periplasmic c-type cytochrome that serves as the primary electron acceptor for the quinoprotein methanol dehydrogenase, a PQQ enzyme. The member from Paracoccus denitrificans is also characterized as an electron acceptor for methylamine dehydrogenase, a tryptophan tryptophylquinone enzyme. This protein is called cytochrome c(L) in methylotrophic bacteria such Methylobacterium extorquens, but c551i in Paracoccus denitrificans.
Probab=22.03 E-value=1.2e+02 Score=19.79 Aligned_cols=30 Identities=10% Similarity=-0.086 Sum_probs=23.8
Q ss_pred EeCCCCCHHHHHHHHHHHHhhhhcCCCeeE
Q 033887 15 KFKEGTAQDQIDQLIKDYANLVNLIEPMKS 44 (109)
Q Consensus 15 ~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~ 44 (109)
.+....+++++.++...+++|...-|+.-.
T Consensus 101 ~~~~~LsdeeI~aLaaYI~sl~~~~~~~~~ 130 (133)
T TIGR03872 101 PQYGNLTLDEMLQIMAWIRHLYTGDPKKAD 130 (133)
T ss_pred ccccCCCHHHHHHHHHHHHHhCCCCCCccc
Confidence 345567899999999999999888887433
No 127
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=21.60 E-value=2.7e+02 Score=25.59 Aligned_cols=72 Identities=15% Similarity=0.234 Sum_probs=50.4
Q ss_pred EEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccCccccCCCccEEEEEEECCHHhHHH-hhcChhHHH
Q 033887 13 LAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVSIENLHQGFTHIFESTFESTEGVAE-YVAHPAHVE 85 (109)
Q Consensus 13 lf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~e~l~~-Y~~hp~H~~ 85 (109)
..-++++.+.++++.+.+.|+.+.- -.-|+.+.+....+.........|.+.++|-+.+.++. |-.-|++..
T Consensus 1210 t~pi~~g~s~~ra~~i~~~l~rV~L-~evlk~v~vte~~t~~~~~~~~~y~lr~~~~~~~~y~~e~~v~~e~i~ 1282 (1640)
T KOG0262|consen 1210 TVPIKNGVSDERADDITKELRRVTL-KEVLKKVGVTEKITMVENQSCKKYKLRFDLLPREEYQEEYDVRPEDIE 1282 (1640)
T ss_pred eeeccCCccHHHHHHHHHHHHHHHH-HHHHhheeeeEEEEeeccccceEEEEEEeecCHHHhhhhcCCCHHHHH
Confidence 4567899999999999998877632 12255555555553222333588999999999998877 766777654
No 128
>PF07867 DUF1654: Protein of unknown function (DUF1654); InterPro: IPR012449 This entry is represented by Bacteriophage F116 (Pseudomonas phage F116), Orf28. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of proteins from the Pseudomonadaceae.
Probab=21.58 E-value=1.9e+02 Score=17.06 Aligned_cols=29 Identities=10% Similarity=0.330 Sum_probs=19.6
Q ss_pred CeEEEEEEEEeCCCCCHHHHHHHHHHHHhh
Q 033887 6 GVVKHVLLAKFKEGTAQDQIDQLIKDYANL 35 (109)
Q Consensus 6 ~mi~HiVlf~~k~~~~~~~~~~~~~~l~~L 35 (109)
...+|++.+++.. -++++-+.+++.+..-
T Consensus 22 Q~~r~v~I~R~~~-e~~~~W~~vl~~i~Et 50 (73)
T PF07867_consen 22 QKQRWVTIHRLDD-ESDEDWEQVLEEIAET 50 (73)
T ss_pred hheeEEEEEECCC-CCHHHHHHHHHHHhcC
Confidence 3468888888854 4667777777655443
No 129
>PRK15425 gapA glyceraldehyde-3-phosphate dehydrogenase A; Provisional
Probab=21.14 E-value=2.8e+02 Score=21.05 Aligned_cols=36 Identities=14% Similarity=0.220 Sum_probs=24.1
Q ss_pred EEEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEE
Q 033887 9 KHVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQ 46 (109)
Q Consensus 9 ~HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~ 46 (109)
-+-+.+.++.+++.+++.++++.... +...||+.++
T Consensus 240 ~~dltv~l~~~~t~eev~~al~~aa~--~~l~gil~~~ 275 (331)
T PRK15425 240 VVDLTVRLEKAATYEQIKAAVKAAAE--GEMKGVLGYT 275 (331)
T ss_pred EEEEEEEECCCCCHHHHHHHHHHHhh--cccccccccc
Confidence 34567788999999998888765432 3345565554
No 130
>PLN03096 glyceraldehyde-3-phosphate dehydrogenase A; Provisional
Probab=21.05 E-value=3.4e+02 Score=21.25 Aligned_cols=38 Identities=11% Similarity=0.131 Sum_probs=25.7
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeee
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGK 49 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~ 49 (109)
.-+.+.++.+++.+++.++++.-.. +...||+.++-.+
T Consensus 302 ~dltv~~~~~~t~eev~~al~~aa~--~~l~gil~~~~~p 339 (395)
T PLN03096 302 VDLVVQVEKKTFAEEVNAAFRDAAE--KELKGILAVCDEP 339 (395)
T ss_pred EEEEEEECCCCCHHHHHHHHHhhhh--ccccceEEEeCCC
Confidence 3456678899999998888765442 3456777776443
No 131
>PF13265 DUF4056: Protein of unknown function (DUF4056)
Probab=20.46 E-value=1.9e+02 Score=21.42 Aligned_cols=25 Identities=8% Similarity=0.056 Sum_probs=19.8
Q ss_pred EEEEEEEEeCCCCCHHHHHHHHHHH
Q 033887 8 VKHVLLAKFKEGTAQDQIDQLIKDY 32 (109)
Q Consensus 8 i~HiVlf~~k~~~~~~~~~~~~~~l 32 (109)
.++|.++.+.++.+++++-++...+
T Consensus 118 ~R~I~~~~~tp~~s~~eR~~lsa~l 142 (270)
T PF13265_consen 118 ERRIQFNAFTPPLSPAERYTLSAYL 142 (270)
T ss_pred cceEEEeccCCCCCHHHHHHHHHHH
Confidence 5899999999999999965554433
No 132
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.42 E-value=2.9e+02 Score=18.77 Aligned_cols=65 Identities=17% Similarity=0.318 Sum_probs=40.0
Q ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhhhcCCCeeEEEeeeccC-c--ccc--C-CCccEEEEEEECCHHhHHHhh
Q 033887 10 HVLLAKFKEGTAQDQIDQLIKDYANLVNLIEPMKSFQWGKNVS-I--ENL--H-QGFTHIFESTFESTEGVAEYV 78 (109)
Q Consensus 10 HiVlf~~k~~~~~~~~~~~~~~l~~L~~~ip~i~~~~~G~~~~-~--~~~--~-~~~~~~~~~~F~s~e~l~~Y~ 78 (109)
.|.-.+++++.++++..+.+..=. ....+++++.|+... | ++. + .|-.-....+|.+-.-+..|.
T Consensus 89 KI~~k~asqGISe~~a~~~i~kE~----~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~~lk~~~ 159 (161)
T COG5353 89 KIYSKKASQGISEEDARAIISKEK----AVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGKELKRYS 159 (161)
T ss_pred eEEEEehhcCCCHHHHHHHHhhhc----cccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccchhhhhcc
Confidence 455668889999997766654211 234588888887663 1 111 1 111224678899888877764
No 133
>PHA02085 hypothetical protein
Probab=20.03 E-value=1.6e+02 Score=17.71 Aligned_cols=27 Identities=22% Similarity=0.182 Sum_probs=21.4
Q ss_pred EEECCHHhHHHhhc-ChhHHHHHHHHhh
Q 033887 66 STFESTEGVAEYVA-HPAHVEYANLFLA 92 (109)
Q Consensus 66 ~~F~s~e~l~~Y~~-hp~H~~~~~~~~p 92 (109)
++|.|++....|.. ||.-+.+.+++.-
T Consensus 3 IrFKS~e~R~~Fa~~~~~N~~IAe~mGm 30 (87)
T PHA02085 3 IRFKSEEHKAMFARRHDCNQWIADKMGT 30 (87)
T ss_pred eeecCHhHHHHHHhhchhhHHHHHHhcC
Confidence 68999999999877 6777777776643
Done!