Query 047667
Match_columns 160
No_of_seqs 147 out of 1369
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 13:27:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047667.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047667hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 6.3E-41 1.4E-45 248.5 14.3 138 5-158 18-156 (187)
2 PLN03210 Resistant to P. syrin 100.0 1.8E-37 3.8E-42 284.6 16.0 154 1-158 1-155 (1153)
3 PF01582 TIR: TIR domain; Int 99.9 2.7E-28 5.8E-33 175.8 2.9 132 16-148 1-141 (141)
4 smart00255 TIR Toll - interleu 99.9 1E-25 2.2E-30 161.1 12.9 136 13-151 1-139 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 1.9E-21 4.1E-26 132.4 2.3 87 16-108 1-87 (102)
6 KOG3678 SARM protein (with ste 99.1 6.3E-10 1.4E-14 93.2 8.6 93 10-107 609-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 99.0 7.7E-10 1.7E-14 78.6 5.1 91 14-108 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 98.3 1.7E-06 3.7E-11 62.5 5.6 65 15-79 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.7 0.00022 4.8E-09 50.4 7.7 88 15-106 1-101 (125)
10 PF05014 Nuc_deoxyrib_tr: Nucl 94.7 0.3 6.5E-06 33.3 7.9 78 27-108 13-98 (113)
11 COG4916 Uncharacterized protei 93.9 0.073 1.6E-06 42.0 3.7 94 10-107 174-273 (329)
12 PF13271 DUF4062: Domain of un 93.5 0.43 9.4E-06 30.9 6.3 65 16-82 2-67 (83)
13 COG4271 Predicted nucleotide-b 93.2 0.94 2E-05 34.6 8.4 87 15-107 84-186 (233)
14 cd00860 ThrRS_anticodon ThrRS 87.6 3.9 8.6E-05 26.0 6.7 60 14-78 2-61 (91)
15 PF14359 DUF4406: Domain of un 84.8 9.2 0.0002 25.4 7.9 63 30-94 18-84 (92)
16 COG4916 Uncharacterized protei 83.2 1.4 3E-05 35.0 3.2 97 11-111 4-107 (329)
17 cd00738 HGTP_anticodon HGTP an 81.0 8.7 0.00019 24.4 6.1 61 14-78 2-64 (94)
18 PF03129 HGTP_anticodon: Antic 80.0 6.1 0.00013 25.5 5.1 47 27-77 15-61 (94)
19 cd07373 2A5CPDO_A The alpha su 78.9 15 0.00032 29.2 7.8 77 27-106 90-173 (271)
20 COG0400 Predicted esterase [Ge 77.5 12 0.00025 28.7 6.6 58 7-66 140-199 (207)
21 PF14258 DUF4350: Domain of un 76.2 15 0.00033 22.5 5.9 43 30-83 7-49 (70)
22 cd00858 GlyRS_anticodon GlyRS 75.2 17 0.00036 24.9 6.4 63 12-79 25-88 (121)
23 cd02426 Pol_gamma_b_Cterm C-te 73.9 4 8.6E-05 28.7 3.0 64 13-80 27-95 (128)
24 PF10087 DUF2325: Uncharacteri 72.2 19 0.00041 23.7 5.9 56 29-86 11-67 (97)
25 cd02042 ParA ParA and ParB of 69.3 28 0.00061 22.6 7.1 63 16-78 3-72 (104)
26 PRK09194 prolyl-tRNA synthetas 68.9 7.5 0.00016 34.2 4.2 66 11-80 466-533 (565)
27 TIGR02298 HpaD_Fe 3,4-dihydrox 63.8 34 0.00074 27.3 6.7 77 27-105 96-178 (282)
28 cd00861 ProRS_anticodon_short 62.8 18 0.00038 23.1 4.2 48 28-79 18-65 (94)
29 PRK12325 prolyl-tRNA synthetas 62.6 13 0.00027 31.7 4.3 65 13-81 345-411 (439)
30 cd07371 2A5CPDO_AB The alpha a 62.6 75 0.0016 25.1 8.7 86 18-106 79-170 (268)
31 cd00862 ProRS_anticodon_zinc P 60.1 19 0.00042 27.2 4.5 63 12-78 9-77 (202)
32 TIGR00418 thrS threonyl-tRNA s 59.2 38 0.00083 29.6 6.8 62 12-78 469-530 (563)
33 cd07363 45_DOPA_Dioxygenase Th 57.7 57 0.0012 25.5 6.9 75 27-105 80-156 (253)
34 PF02310 B12-binding: B12 bind 57.7 54 0.0012 21.8 6.4 75 30-111 17-91 (121)
35 COG3613 Nucleoside 2-deoxyribo 57.3 56 0.0012 24.4 6.3 78 28-108 20-107 (172)
36 PF03358 FMN_red: NADPH-depend 57.2 64 0.0014 22.5 7.3 79 27-108 17-115 (152)
37 cd00859 HisRS_anticodon HisRS 56.4 45 0.00097 20.5 5.6 58 15-77 3-60 (91)
38 TIGR00409 proS_fam_II prolyl-t 55.2 12 0.00026 33.1 2.9 65 13-81 473-539 (568)
39 cd01424 MGS_CPS_II Methylglyox 53.8 48 0.001 22.1 5.3 62 15-78 2-76 (110)
40 cd01423 MGS_CPS_I_III Methylgl 52.3 70 0.0015 21.5 6.5 29 16-46 3-31 (116)
41 PRK08661 prolyl-tRNA synthetas 50.9 17 0.00037 31.3 3.2 62 13-78 287-354 (477)
42 PRK10569 NAD(P)H-dependent FMN 50.2 1.1E+02 0.0023 22.9 7.1 82 28-112 18-112 (191)
43 CHL00201 syh histidine-tRNA sy 49.4 53 0.0012 27.8 5.9 60 13-77 325-384 (430)
44 PRK03991 threonyl-tRNA synthet 48.4 17 0.00038 32.4 2.9 61 13-78 499-559 (613)
45 PRK14938 Ser-tRNA(Thr) hydrola 48.1 64 0.0014 27.2 6.0 61 12-77 273-333 (387)
46 COG4088 Predicted nucleotide k 47.1 51 0.0011 25.9 4.9 113 28-148 16-153 (261)
47 cd03364 TOPRIM_DnaG_primases T 46.4 31 0.00068 21.5 3.2 31 40-72 44-74 (79)
48 TIGR01753 flav_short flavodoxi 46.3 88 0.0019 21.2 5.8 46 27-82 13-59 (140)
49 cd07362 HPCD_like Class III ex 45.0 1.5E+02 0.0034 23.4 7.8 78 27-106 92-175 (272)
50 COG0529 CysC Adenylylsulfate k 44.2 1.3E+02 0.0028 22.9 6.5 102 20-130 31-152 (197)
51 KOG3062 RNA polymerase II elon 43.7 18 0.0004 28.5 2.0 113 29-146 17-155 (281)
52 PLN02530 histidine-tRNA ligase 43.5 81 0.0018 27.2 6.2 61 12-77 400-460 (487)
53 PLN03194 putative disease resi 43.2 1.1E+02 0.0023 23.2 6.0 64 40-106 25-88 (187)
54 cd00532 MGS-like MGS-like doma 43.2 74 0.0016 21.4 4.9 61 16-78 2-77 (112)
55 PF03720 UDPG_MGDP_dh_C: UDP-g 42.4 19 0.0004 24.1 1.8 54 23-76 12-75 (106)
56 PRK05569 flavodoxin; Provision 42.3 1.1E+02 0.0023 21.1 5.8 47 27-82 16-62 (141)
57 COG1658 Small primase-like pro 41.8 55 0.0012 23.1 4.1 54 14-69 30-83 (127)
58 COG3286 Uncharacterized protei 40.8 83 0.0018 24.0 5.1 51 99-153 145-197 (204)
59 cd07372 2A5CPDO_B The beta sub 40.6 1.8E+02 0.004 23.4 7.5 78 27-106 98-187 (294)
60 KOG2792 Putative cytochrome C 40.3 46 0.001 26.6 3.8 30 83-112 153-187 (280)
61 PRK14799 thrS threonyl-tRNA sy 39.9 1.1E+02 0.0024 27.0 6.5 60 13-77 438-497 (545)
62 PRK00413 thrS threonyl-tRNA sy 39.5 89 0.0019 27.7 6.0 61 13-78 539-599 (638)
63 cd07370 HPCD The Class III ext 39.5 1.9E+02 0.0041 22.9 7.4 76 27-105 94-175 (280)
64 PF02900 LigB: Catalytic LigB 39.1 46 0.001 26.1 3.8 78 27-106 96-180 (272)
65 PRK05568 flavodoxin; Provision 38.9 1.2E+02 0.0026 20.9 5.6 46 27-82 16-62 (142)
66 PRK13364 protocatechuate 4,5-d 38.2 2.1E+02 0.0045 22.9 9.5 78 27-106 98-186 (278)
67 PF06856 DUF1251: Protein of u 35.1 36 0.00078 23.8 2.3 61 8-84 55-119 (120)
68 PRK12305 thrS threonyl-tRNA sy 34.8 1.5E+02 0.0031 26.1 6.5 61 13-78 476-536 (575)
69 COG1058 CinA Predicted nucleot 34.7 54 0.0012 26.0 3.5 43 30-76 23-67 (255)
70 PRK12444 threonyl-tRNA synthet 34.2 1.5E+02 0.0032 26.5 6.5 63 12-78 540-602 (639)
71 KOG1610 Corticosteroid 11-beta 34.2 52 0.0011 27.0 3.3 31 14-48 30-60 (322)
72 PRK10628 LigB family dioxygena 34.2 1.7E+02 0.0036 23.1 6.2 75 18-95 62-136 (246)
73 TIGR03567 FMN_reduc_SsuE FMN r 34.1 1.5E+02 0.0033 21.4 5.7 77 28-107 17-106 (171)
74 PF01990 ATP-synt_F: ATP synth 33.9 1.3E+02 0.0029 19.5 4.9 66 33-108 9-74 (95)
75 PRK09271 flavodoxin; Provision 33.7 1.3E+02 0.0027 21.6 5.1 21 27-47 15-35 (160)
76 PRK15057 UDP-glucose 6-dehydro 33.7 92 0.002 26.1 4.9 51 23-73 311-365 (388)
77 KOG1014 17 beta-hydroxysteroid 33.5 83 0.0018 25.8 4.4 59 13-75 73-132 (312)
78 PF12163 HobA: DNA replication 33.2 32 0.0007 25.8 1.9 73 28-107 3-79 (180)
79 PF03446 NAD_binding_2: NAD bi 32.8 43 0.00093 24.0 2.5 49 29-77 12-67 (163)
80 cd06340 PBP1_ABC_ligand_bindin 32.8 2.4E+02 0.0053 22.4 7.2 63 15-78 146-208 (347)
81 cd00138 PLDc Phospholipase D. 31.9 1.5E+02 0.0032 21.0 5.3 28 53-80 18-45 (176)
82 KOG0117 Heterogeneous nuclear 31.6 25 0.00054 30.2 1.2 76 16-113 128-203 (506)
83 PF01915 Glyco_hydro_3_C: Glyc 30.9 2.3E+02 0.005 21.3 9.2 84 28-114 47-146 (227)
84 PF12146 Hydrolase_4: Putative 30.5 1.4E+02 0.003 18.8 4.3 36 12-48 15-50 (79)
85 TIGR00334 5S_RNA_mat_M5 ribonu 30.5 1.2E+02 0.0026 22.7 4.5 50 27-80 35-84 (174)
86 TIGR00408 proS_fam_I prolyl-tR 30.2 1.4E+02 0.003 25.7 5.5 63 12-78 281-348 (472)
87 COG0683 LivK ABC-type branched 30.1 3E+02 0.0066 22.4 8.0 71 15-86 150-220 (366)
88 PF09419 PGP_phosphatase: Mito 29.8 1.9E+02 0.0041 21.4 5.5 68 36-107 35-111 (168)
89 TIGR02742 TrbC_Ftype type-F co 29.5 1.9E+02 0.004 20.5 5.2 35 16-55 3-37 (130)
90 PF09673 TrbC_Ftype: Type-F co 29.5 1.9E+02 0.004 19.7 5.4 71 16-107 2-76 (113)
91 cd06386 PBP1_NPR_C_like Ligand 29.5 2.1E+02 0.0046 23.4 6.4 45 30-75 157-201 (387)
92 KOG0409 Predicted dehydrogenas 29.2 1.9E+02 0.0042 23.8 5.8 61 12-78 35-102 (327)
93 PRK07933 thymidylate kinase; V 29.1 1.9E+02 0.0042 21.8 5.7 31 17-47 2-34 (213)
94 cd07367 CarBb CarBb is the B s 29.0 2.9E+02 0.0063 21.8 10.0 78 27-106 90-177 (268)
95 PRK02551 flavoprotein NrdI; Pr 28.9 2.3E+02 0.005 20.6 6.9 119 15-149 6-149 (154)
96 PF02230 Abhydrolase_2: Phosph 28.6 1.7E+02 0.0036 21.8 5.2 50 13-63 155-206 (216)
97 cd07366 3MGA_Dioxygenase Subun 28.5 3.3E+02 0.0073 22.3 7.7 77 28-106 152-242 (328)
98 COG0431 Predicted flavoprotein 28.3 2.4E+02 0.0053 20.7 6.5 55 28-83 18-82 (184)
99 PRK08155 acetolactate synthase 28.0 2.1E+02 0.0046 25.0 6.4 49 1-68 1-49 (564)
100 PF13662 Toprim_4: Toprim doma 27.9 42 0.00092 21.0 1.6 31 35-67 40-72 (81)
101 cd04886 ACT_ThrD-II-like C-ter 27.8 1.2E+02 0.0025 17.6 3.5 33 11-45 40-72 (73)
102 cd01241 PH_Akt Akt pleckstrin 27.6 58 0.0012 21.6 2.3 17 134-150 86-102 (102)
103 COG0415 PhrB Deoxyribodipyrimi 27.4 3.1E+02 0.0067 23.8 7.1 88 30-126 57-148 (461)
104 PF01113 DapB_N: Dihydrodipico 27.2 2E+02 0.0044 19.6 5.1 11 69-79 91-101 (124)
105 COG2130 Putative NADP-dependen 27.1 1.7E+02 0.0037 24.2 5.1 61 13-82 196-257 (340)
106 PRK13883 conjugal transfer pro 26.0 1.3E+02 0.0029 21.9 4.0 21 28-48 64-84 (151)
107 PRK05339 PEP synthetase regula 25.9 2.5E+02 0.0054 22.5 5.9 68 33-103 159-244 (269)
108 COG1168 MalY Bifunctional PLP- 25.4 1.5E+02 0.0034 25.0 4.7 45 59-103 148-195 (388)
109 PLN02908 threonyl-tRNA synthet 25.3 2.1E+02 0.0045 26.0 5.9 60 13-77 589-648 (686)
110 PF07283 TrbH: Conjugal transf 25.2 1.4E+02 0.003 20.9 3.9 21 28-48 36-56 (121)
111 cd08584 PI-PLCc_GDPD_SF_unchar 25.2 2.2E+02 0.0048 21.6 5.3 46 42-91 125-170 (192)
112 cd06342 PBP1_ABC_LIVBP_like Ty 25.1 3.3E+02 0.0072 21.2 7.8 54 16-70 138-191 (334)
113 PLN02924 thymidylate kinase 24.9 2.6E+02 0.0056 21.3 5.7 30 16-45 17-48 (220)
114 KOG0095 GTPase Rab30, small G 24.6 3E+02 0.0064 20.4 7.2 68 59-127 70-140 (213)
115 cd01266 PH_Gab Gab (Grb2-assoc 24.3 72 0.0016 21.2 2.3 17 134-150 92-108 (108)
116 COG1180 PflA Pyruvate-formate 24.3 1.4E+02 0.003 23.6 4.2 39 16-54 87-125 (260)
117 PF08477 Miro: Miro-like prote 24.2 1.7E+02 0.0038 18.9 4.2 44 63-107 69-113 (119)
118 cd01857 HSR1_MMR1 HSR1/MMR1. 24.1 2.5E+02 0.0053 19.3 5.3 18 60-77 4-21 (141)
119 cd01861 Rab6 Rab6 subfamily. 24.0 2.4E+02 0.0051 19.3 5.1 29 53-81 57-86 (161)
120 PF09413 DUF2007: Domain of un 24.0 87 0.0019 18.7 2.4 22 30-51 12-33 (67)
121 PF03709 OKR_DC_1_N: Orn/Lys/A 24.0 2.3E+02 0.0051 19.1 7.9 70 29-110 5-75 (115)
122 PRK09004 FMN-binding protein M 23.9 2.5E+02 0.0053 19.9 5.1 55 16-81 4-59 (146)
123 cd06366 PBP1_GABAb_receptor Li 23.8 3E+02 0.0066 21.8 6.2 38 16-54 138-175 (350)
124 KOG1016 Predicted DNA helicase 23.7 2.2E+02 0.0049 26.9 5.7 75 14-89 407-486 (1387)
125 COG3340 PepE Peptidase E [Amin 23.6 3.4E+02 0.0075 21.1 6.0 70 15-89 35-105 (224)
126 cd01251 PH_centaurin_alpha Cen 23.6 87 0.0019 20.8 2.6 18 135-152 85-102 (103)
127 COG2077 Tpx Peroxiredoxin [Pos 23.6 63 0.0014 23.7 1.9 22 67-88 74-97 (158)
128 cd06335 PBP1_ABC_ligand_bindin 23.5 3.8E+02 0.0083 21.3 7.2 32 15-46 140-171 (347)
129 PRK11921 metallo-beta-lactamas 23.1 4.4E+02 0.0095 21.9 8.1 73 27-106 262-339 (394)
130 COG2084 MmsB 3-hydroxyisobutyr 23.0 1.3E+02 0.0028 24.3 3.8 49 30-78 12-68 (286)
131 cd05008 SIS_GlmS_GlmD_1 SIS (S 22.9 1.4E+02 0.0031 19.9 3.6 29 14-45 49-77 (126)
132 PF09152 DUF1937: Domain of un 22.8 2.4E+02 0.0052 19.6 4.6 65 30-94 29-106 (116)
133 PF07429 Glyco_transf_56: 4-al 22.7 1.3E+02 0.0028 25.2 3.8 49 33-84 300-349 (360)
134 PF02878 PGM_PMM_I: Phosphoglu 22.6 1.5E+02 0.0032 20.6 3.7 33 14-46 41-73 (137)
135 cd03027 GRX_DEP Glutaredoxin ( 22.4 1.9E+02 0.0041 17.4 4.4 53 28-82 12-64 (73)
136 cd00154 Rab Rab family. Rab G 22.4 2.5E+02 0.0053 18.7 5.3 27 53-79 57-84 (159)
137 PF09441 Abp2: ARS binding pro 22.3 42 0.00092 24.8 0.8 56 82-146 54-110 (175)
138 PLN02734 glycyl-tRNA synthetas 22.3 90 0.0019 28.4 3.0 61 11-76 570-630 (684)
139 TIGR02690 resist_ArsH arsenica 22.2 3.7E+02 0.008 20.7 8.6 72 11-83 24-105 (219)
140 TIGR03026 NDP-sugDHase nucleot 22.1 1.7E+02 0.0036 24.5 4.5 53 23-75 328-384 (411)
141 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 22.0 2.8E+02 0.006 19.1 5.4 29 53-81 59-88 (166)
142 cd05017 SIS_PGI_PMI_1 The memb 21.8 1.5E+02 0.0032 19.9 3.5 28 15-45 47-74 (119)
143 PF00350 Dynamin_N: Dynamin fa 21.8 2.6E+02 0.0057 19.4 5.0 45 59-106 120-165 (168)
144 PRK06893 DNA replication initi 21.7 1.9E+02 0.0042 21.9 4.5 18 67-84 122-139 (229)
145 cd01867 Rab8_Rab10_Rab13_like 21.7 2.9E+02 0.0062 19.2 6.4 25 55-79 63-87 (167)
146 cd07369 PydA_Rs_like PydA is a 21.6 4.6E+02 0.01 21.6 8.9 76 27-105 100-185 (329)
147 COG0576 GrpE Molecular chapero 21.6 2.2E+02 0.0047 21.5 4.6 48 29-81 123-177 (193)
148 COG0124 HisS Histidyl-tRNA syn 21.4 4.1E+02 0.0089 22.8 6.7 62 11-77 333-394 (429)
149 cd01864 Rab19 Rab19 subfamily. 21.3 2.9E+02 0.0062 19.1 5.9 22 61-82 69-90 (165)
150 cd01786 STE50_RA Ubiquitin-lik 21.3 60 0.0013 21.7 1.3 29 12-42 21-50 (98)
151 PF08433 KTI12: Chromatin asso 21.2 2.9E+02 0.0062 21.9 5.4 101 28-133 16-138 (270)
152 PRK10638 glutaredoxin 3; Provi 21.0 2.2E+02 0.0048 17.6 4.0 24 20-45 7-30 (83)
153 PF03618 Kinase-PPPase: Kinase 21.0 3.6E+02 0.0077 21.4 5.8 68 33-103 153-240 (255)
154 COG3980 spsG Spore coat polysa 20.8 4.8E+02 0.01 21.4 6.6 57 12-72 157-213 (318)
155 cd04885 ACT_ThrD-I Tandem C-te 20.8 1.2E+02 0.0025 18.3 2.5 30 13-44 37-66 (68)
156 TIGR00177 molyb_syn molybdenum 20.8 1.3E+02 0.0028 21.2 3.1 19 29-47 28-46 (144)
157 TIGR00389 glyS_dimeric glycyl- 20.8 3.7E+02 0.0081 23.9 6.5 63 12-79 456-519 (551)
158 cd05710 SIS_1 A subgroup of th 20.7 1.6E+02 0.0034 19.9 3.4 29 14-45 50-78 (120)
159 PF09875 DUF2102: Uncharacteri 20.4 1.5E+02 0.0033 20.2 3.1 29 28-56 42-71 (104)
160 COG0125 Tmk Thymidylate kinase 20.3 2.8E+02 0.006 21.2 5.0 97 16-114 4-141 (208)
161 cd06350 PBP1_GPCR_family_C_lik 20.2 2.8E+02 0.006 21.9 5.3 18 28-45 175-192 (348)
162 cd04795 SIS SIS domain. SIS (S 20.1 1.8E+02 0.0039 17.7 3.4 10 39-48 47-56 (87)
163 cd01238 PH_Tec Tec pleckstrin 20.1 93 0.002 20.7 2.1 15 135-149 92-106 (106)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=6.3e-41 Score=248.54 Aligned_cols=138 Identities=29% Similarity=0.514 Sum_probs=125.8
Q ss_pred CCCCCCCCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHH
Q 047667 5 SIQKVSHGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTW 84 (160)
Q Consensus 5 ss~~~~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~w 84 (160)
+++++..+.|||||||++.|.|..|+.+|+.+|+++||++|+|+.++.+|+.+.+.|.+||++|++.|+|+|++|+.|.|
T Consensus 18 ~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~W 97 (187)
T PLN03194 18 PSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYF 97 (187)
T ss_pred ccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchh
Confidence 34445567799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCccccEEeecCchhhhcc-cchhHHHHHHHHHhccCChHHHHHHHHHHHHhhcccceeec
Q 047667 85 CLDELAKIVECKNRKDQILPIFYDVEPTVVRKQ-TASFGEAFAKHEEAFRNNVEKVQTWRDALKTVANKSGWELK 158 (160)
Q Consensus 85 c~~El~~~~~~~~~~~~iiPI~~~~~p~~v~~~-~~~~~~~~~~~~~~~~~~~~~~~~W~~al~~i~~~~g~~~~ 158 (160)
|++||..++++ +..||||||+++|++|+.| .|. .+++++++||+||++|++++|+.++
T Consensus 98 CLdEL~~I~e~---~~~ViPIFY~VdPsdVr~q~~~~-------------~~~e~v~~Wr~AL~~va~l~G~~~~ 156 (187)
T PLN03194 98 CLHELALIMES---KKRVIPIFCDVKPSQLRVVDNGT-------------CPDEEIRRFNWALEEAKYTVGLTFD 156 (187)
T ss_pred HHHHHHHHHHc---CCEEEEEEecCCHHHhhccccCC-------------CCHHHHHHHHHHHHHHhccccccCC
Confidence 99999999984 5689999999999999996 332 2368999999999999999999875
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=1.8e-37 Score=284.57 Aligned_cols=154 Identities=45% Similarity=0.786 Sum_probs=143.8
Q ss_pred CCCCCCCCCCCCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCc
Q 047667 1 MASTSIQKVSHGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYA 80 (160)
Q Consensus 1 m~s~ss~~~~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~ 80 (160)
||+|||++ +.++|||||||+++|.|..|+.||+.+|.++||.+|.|+ ++..|+.+..++.+||++|++.|||+|++|+
T Consensus 1 ~~~~~~~~-~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~-~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya 78 (1153)
T PLN03210 1 MASSSSSS-RNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVFSKNYA 78 (1153)
T ss_pred CCCCCCCC-CCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEecCCcc
Confidence 66666544 567899999999999999999999999999999999987 6999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHH-hhcCCccccEEeecCchhhhcccchhHHHHHHHHHhccCChHHHHHHHHHHHHhhcccceeec
Q 047667 81 SSTWCLDELAKIVEC-KNRKDQILPIFYDVEPTVVRKQTASFGEAFAKHEEAFRNNVEKVQTWRDALKTVANKSGWELK 158 (160)
Q Consensus 81 ~S~wc~~El~~~~~~-~~~~~~iiPI~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~al~~i~~~~g~~~~ 158 (160)
.|.||++||..+++| ++.+..|+||||+|+|++|++|+|.||++|.++++... ++++++||+||++|++++|+++.
T Consensus 79 ~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~--~~~~~~w~~al~~~~~~~g~~~~ 155 (1153)
T PLN03210 79 SSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKT--EDEKIQWKQALTDVANILGYHSQ 155 (1153)
T ss_pred cchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccc--hhHHHHHHHHHHHHhCcCceecC
Confidence 999999999999999 88899999999999999999999999999999887644 68999999999999999999874
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.94 E-value=2.7e-28 Score=175.82 Aligned_cols=132 Identities=36% Similarity=0.609 Sum_probs=116.6
Q ss_pred EEEeccc-CCCchhHHHHHHHHHhcC--CceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHH
Q 047667 16 VFLSFRG-EDTRKSFTGHLYAALKNK--GIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKI 92 (160)
Q Consensus 16 VFISy~~-~D~~~~fv~~L~~~L~~~--g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~ 92 (160)
|||||++ +| +..|+++|..+|++. |+++|++++|+.+|..+.++|.++|++|+++|+|+|++|+.|.||+.|+..|
T Consensus 1 vfisy~~~~d-~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a 79 (141)
T PF01582_consen 1 VFISYSGKDD-REWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEA 79 (141)
T ss_dssp EEEEE-GHHG-HHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHH
T ss_pred cEEEeCCCCc-HHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhh
Confidence 8999999 45 468899999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred HHH-hhc--CCccccEEeecCchhhh-cccchhHHHHHHHHHhccCC--hHHHHHHHHHHHH
Q 047667 93 VEC-KNR--KDQILPIFYDVEPTVVR-KQTASFGEAFAKHEEAFRNN--VEKVQTWRDALKT 148 (160)
Q Consensus 93 ~~~-~~~--~~~iiPI~~~~~p~~v~-~~~~~~~~~~~~~~~~~~~~--~~~~~~W~~al~~ 148 (160)
+++ ... ...|+|+|+++.+.+++ .+.+.|+..+..+......+ .+....|++++.+
T Consensus 80 ~~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~~ 141 (141)
T PF01582_consen 80 LERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRYH 141 (141)
T ss_dssp HHHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHHH
T ss_pred hhhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhcC
Confidence 998 443 48999999999999999 69999999998888876654 5788999998763
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.94 E-value=1e-25 Score=161.14 Aligned_cols=136 Identities=43% Similarity=0.745 Sum_probs=114.8
Q ss_pred ceeEEEecccC-CCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHH
Q 047667 13 KYDVFLSFRGE-DTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAK 91 (160)
Q Consensus 13 ~ydVFISy~~~-D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~ 91 (160)
.|||||||+++ +....||.+|...|...|+.+|.|+.. +|.....+|.++|++|+++|+|+||+|+.|.||..|+..
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~--~~~~~~~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~ 78 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFE--PGGGDLEEIDEAIEKSRIAIVVLSPNYAESEWCLDELVA 78 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcc--cccchHHHHHHHHHHCcEEEEEECcccccChhHHHHHHH
Confidence 49999999983 334589999999999999999999753 343334499999999999999999999999999999999
Q ss_pred HHHH--hhcCCccccEEeecCchhhhcccchhHHHHHHHHHhccCChHHHHHHHHHHHHhhc
Q 047667 92 IVEC--KNRKDQILPIFYDVEPTVVRKQTASFGEAFAKHEEAFRNNVEKVQTWRDALKTVAN 151 (160)
Q Consensus 92 ~~~~--~~~~~~iiPI~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~al~~i~~ 151 (160)
++++ .....+||||+++..|+.+..+.+.++..+...+..+..+..+ +.|+.++..+.+
T Consensus 79 a~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 79 ALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 9987 3367899999999889889999999999998886666644333 799999988764
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.83 E-value=1.9e-21 Score=132.39 Aligned_cols=87 Identities=38% Similarity=0.629 Sum_probs=76.8
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC 95 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~ 95 (160)
|||||+++|. .+|..|...|++.|+++|+|. ++.+|+.+.+.|.++|++|+++|+++|++|.+|.||..|+..|.+
T Consensus 1 VFIS~~~~D~--~~a~~l~~~L~~~g~~v~~d~-~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~- 76 (102)
T PF13676_consen 1 VFISYSSEDR--EFAERLAERLESAGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK- 76 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC-
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH-
Confidence 8999999996 789999999999999999997 999999999999999999999999999999999999999999954
Q ss_pred hhcCCccccEEee
Q 047667 96 KNRKDQILPIFYD 108 (160)
Q Consensus 96 ~~~~~~iiPI~~~ 108 (160)
.+++||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 56699999965
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.07 E-value=6.3e-10 Score=93.18 Aligned_cols=93 Identities=30% Similarity=0.469 Sum_probs=77.1
Q ss_pred CCCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcC--------
Q 047667 10 SHGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYAS-------- 81 (160)
Q Consensus 10 ~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~-------- 81 (160)
..+..||||||++.-. ...+..|.-.|+-+||+||+|...+..|.. ...+.+.|..++.+|+|+||+.+.
T Consensus 609 ~skq~DVFISYRRstG-nQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRSTG-NQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeecccc-HHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 3567999999987654 467888888899999999999988888864 578999999999999999999763
Q ss_pred CHHHHHHHHHHHHHhhcCCccccEEe
Q 047667 82 STWCLDELAKIVECKNRKDQILPIFY 107 (160)
Q Consensus 82 S~wc~~El~~~~~~~~~~~~iiPI~~ 107 (160)
-.|+..|+..+++ .++.|||||-
T Consensus 687 eDWVHKEl~~Afe---~~KNIiPI~D 709 (832)
T KOG3678|consen 687 EDWVHKELKCAFE---HQKNIIPIFD 709 (832)
T ss_pred HHHHHHHHHHHHH---hcCCeeeeec
Confidence 3477777777776 5889999984
No 7
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=98.98 E-value=7.7e-10 Score=78.63 Aligned_cols=91 Identities=21% Similarity=0.398 Sum_probs=50.1
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcC-------CceE----------EeeCCCccCCCCchHHHHHHHHhcceEEEEee
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNK-------GIYV----------FRDDKELEKGGSISPELLKAIEESRISIIVLS 76 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~-------g~~v----------~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS 76 (160)
|.|||||++.|.. ..+..|..-+... .+.. .-+..+......+.+.|.+.|.+|+++||++|
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5799999999862 2677777777763 2211 11222223345778899999999999999999
Q ss_pred cCCcCCHHHHHHHHHHHHHhhcCCccccEEee
Q 047667 77 KNYASSTWCLDELAKIVECKNRKDQILPIFYD 108 (160)
Q Consensus 77 ~~~~~S~wc~~El~~~~~~~~~~~~iiPI~~~ 108 (160)
++...|.|+.+|+..++. .++.||.|.+.
T Consensus 80 ~~T~~s~wV~~EI~~A~~---~~~~Ii~V~~~ 108 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK---KGKPIIGVYLP 108 (130)
T ss_dssp TT----HHHHHHHHHHTT---T---EEEEETT
T ss_pred CCcccCcHHHHHHHHHHH---CCCCEEEEECC
Confidence 999999999999999987 67888888763
No 8
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=98.28 E-value=1.7e-06 Score=62.48 Aligned_cols=65 Identities=28% Similarity=0.370 Sum_probs=54.8
Q ss_pred eEEEecccCCCc-hhHHHHHHHHHhcC-CceEEeeCCCccC--CCCchHHHHHHHHhcceEEEEeecCC
Q 047667 15 DVFLSFRGEDTR-KSFTGHLYAALKNK-GIYVFRDDKELEK--GGSISPELLKAIEESRISIIVLSKNY 79 (160)
Q Consensus 15 dVFISy~~~D~~-~~fv~~L~~~L~~~-g~~v~~d~~dl~~--G~~~~~~i~~~i~~S~~~v~vlS~~~ 79 (160)
-|||||++.... ...|..|+..|++. |+.|.+|..+... +..+..=+.+.+++++.+|+|+||.+
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~ 70 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 499999985543 35699999999999 9999999988844 66777788889999999999999654
No 9
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=97.73 E-value=0.00022 Score=50.42 Aligned_cols=88 Identities=14% Similarity=0.191 Sum_probs=68.6
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC-------------CcC
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN-------------YAS 81 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~-------------~~~ 81 (160)
.|||.|+ .|. ..+..+...|+..|+.+.+-......|..+.+.+.+.+.+++..|+++||+ ...
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 3899998 554 678889999998888777766667999999999999999999999999985 223
Q ss_pred CHHHHHHHHHHHHHhhcCCccccEE
Q 047667 82 STWCLDELAKIVECKNRKDQILPIF 106 (160)
Q Consensus 82 S~wc~~El~~~~~~~~~~~~iiPI~ 106 (160)
...+..|+..++.+ ....+++.+.
T Consensus 78 R~NVifE~G~f~g~-LGr~rv~~l~ 101 (125)
T PF10137_consen 78 RQNVIFELGLFIGK-LGRERVFILV 101 (125)
T ss_pred ccceeehhhHHHhh-cCcceEEEEE
Confidence 44678899888874 2334555554
No 10
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=94.73 E-value=0.3 Score=33.33 Aligned_cols=78 Identities=19% Similarity=0.162 Sum_probs=54.3
Q ss_pred hhHHHHHHHHHhcCCceEEeeCC-Ccc---CCCCchH----HHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHHhhc
Q 047667 27 KSFTGHLYAALKNKGIYVFRDDK-ELE---KGGSISP----ELLKAIEESRISIIVLSKNYASSTWCLDELAKIVECKNR 98 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~~-dl~---~G~~~~~----~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~~~~ 98 (160)
..+...+.+.|++.|+.++...+ +.. ....+.. .-.++|++|+++|+++...- .+.-+..|+..|.. .
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~a---l 88 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYA---L 88 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHH---T
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHH---C
Confidence 36788999999999998887652 221 1233333 34568999999999998755 56779999999987 4
Q ss_pred CCccccEEee
Q 047667 99 KDQILPIFYD 108 (160)
Q Consensus 99 ~~~iiPI~~~ 108 (160)
+++|+-+.-+
T Consensus 89 gkpv~~~~~d 98 (113)
T PF05014_consen 89 GKPVILLTED 98 (113)
T ss_dssp TSEEEEEECC
T ss_pred CCEEEEEEcC
Confidence 5655554433
No 11
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=93.94 E-value=0.073 Score=42.03 Aligned_cols=94 Identities=18% Similarity=0.121 Sum_probs=64.7
Q ss_pred CCCceeEEEecccCCCchhHHHHHHHHHhcC--CceEEeeCC---CccCCCCchHHHHHHH-HhcceEEEEeecCCcCCH
Q 047667 10 SHGKYDVFLSFRGEDTRKSFTGHLYAALKNK--GIYVFRDDK---ELEKGGSISPELLKAI-EESRISIIVLSKNYASST 83 (160)
Q Consensus 10 ~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~--g~~v~~d~~---dl~~G~~~~~~i~~~i-~~S~~~v~vlS~~~~~S~ 83 (160)
..+.||+=+||.++-. ..|++...+++.. .+..|+|-. -+.+|+ +..-+...- ..|++.+|++..+|....
T Consensus 174 ~~~~~DiG~SFaGEAR--~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~~~L~~~Y~~rC~~~~VF~~~~Y~~K~ 250 (329)
T COG4916 174 SEKPVDSGISFAGEAR--NLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LVSTLDPGYDIRCVVTTVFNTGSYICKS 250 (329)
T ss_pred cccccceeeEeehhhh--hHHHHHHHhhhcccCCceeeeechhhccccCcc-HHHhcccccCceEEEEEEEeCCceEEee
Confidence 4678999999998864 7899999999955 567777642 223332 222222222 278889999999999999
Q ss_pred HHHHHHHHHHHHhhcCCccccEEe
Q 047667 84 WCLDELAKIVECKNRKDQILPIFY 107 (160)
Q Consensus 84 wc~~El~~~~~~~~~~~~iiPI~~ 107 (160)
||..|...+-. ...-+.++||.+
T Consensus 251 ~c~~E~~~~r~-~~~~d~~~rI~~ 273 (329)
T COG4916 251 TCHIEGLEGRL-NPILDTGFRIKY 273 (329)
T ss_pred eeccchhhccc-cccccccceEEE
Confidence 99999876533 112246677766
No 12
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=93.50 E-value=0.43 Score=30.89 Aligned_cols=65 Identities=26% Similarity=0.268 Sum_probs=45.4
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCc-cCCCCchHHHHHHHHhcceEEEEeecCCcCC
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKEL-EKGGSISPELLKAIEESRISIIVLSKNYASS 82 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl-~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S 82 (160)
||||=.-.|- ..-=+.|.+.|.+.|+.+..-+. + ..+....+.+.+.|++|++.|.++...|-..
T Consensus 2 VFiSSt~~Dl-~~eR~~l~~~i~~~~~~~~~~e~-~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 2 VFISSTFRDL-KEERDALIEAIRRLGCEPVGMEF-FPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred EEEecChhhH-HHHHHHHHHHHHHCCCeeeeeee-ecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 8999766664 23355677777777765544332 3 2345556778899999999999999988653
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=93.23 E-value=0.94 Score=34.57 Aligned_cols=87 Identities=17% Similarity=0.185 Sum_probs=64.9
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcC--CceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCc------------
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNK--GIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYA------------ 80 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~--g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~------------ 80 (160)
-|||-|++. ..+.....+|++. -..+|+|. -+..|..+.+.+.+-|.+++..|++++|+=.
T Consensus 84 kvFvv~ghd----~iArael~allrd~~l~~vi~d~-~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~ 158 (233)
T COG4271 84 KVFVVSGHD----AIARAELEALLRDWKLEPVILDG-LFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAF 158 (233)
T ss_pred eEEEEeccH----HHHHHHHHHHhhccccceEEecC-cccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhcc
Confidence 899999654 3677777888765 34677776 5788999999999999999999999999843
Q ss_pred --CCHHHHHHHHHHHHHhhcCCccccEEe
Q 047667 81 --SSTWCLDELAKIVECKNRKDQILPIFY 107 (160)
Q Consensus 81 --~S~wc~~El~~~~~~~~~~~~iiPI~~ 107 (160)
....+..||...+.+ ..+++|+.+..
T Consensus 159 praRqNVifELGm~mgr-LgRkrv~Il~k 186 (233)
T COG4271 159 PRARQNVIFELGMFMGR-LGRKRVMILMK 186 (233)
T ss_pred ccccccchhhHhhHHhh-cccceEEEEec
Confidence 223467788888773 34456655544
No 14
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=87.64 E-value=3.9 Score=25.98 Aligned_cols=60 Identities=15% Similarity=0.176 Sum_probs=39.8
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
++|+|...+.+. ...+..+...|++.|+++-+|.+. ..+...+..+-..--..++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~~----~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLRN----EKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECCC----CCHHHHHHHHHHcCCCEEEEECcc
Confidence 687777655433 356888999999999999998753 344455666544443455555554
No 15
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=84.79 E-value=9.2 Score=25.36 Aligned_cols=63 Identities=13% Similarity=0.043 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCceEEeeCCC-ccCCCCchHHHH---HHHHhcceEEEEeecCCcCCHHHHHHHHHHHH
Q 047667 30 TGHLYAALKNKGIYVFRDDKE-LEKGGSISPELL---KAIEESRISIIVLSKNYASSTWCLDELAKIVE 94 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~d-l~~G~~~~~~i~---~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~ 94 (160)
.......|+..|+.|.--... ...|.++.+-+. ..|..|+.+++ =|+.-+|.-|+.|+..|..
T Consensus 18 f~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~ 84 (92)
T PF14359_consen 18 FNAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKK 84 (92)
T ss_pred HHHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHH
Confidence 555888899999776543322 356666554443 44557775444 3999999999999999976
No 16
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=83.17 E-value=1.4 Score=35.01 Aligned_cols=97 Identities=24% Similarity=0.460 Sum_probs=69.6
Q ss_pred CCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHH---H--hcceEEEEeecCCcCCHHH
Q 047667 11 HGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAI---E--ESRISIIVLSKNYASSTWC 85 (160)
Q Consensus 11 ~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i---~--~S~~~v~vlS~~~~~S~wc 85 (160)
+..+.+=+||.+.|. .+|+...+-|.++|+.+++|-.+ -..-|.-+|.+-+ - ..-.++.++|.+|-...|.
T Consensus 4 ~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~--~a~~~~~~~~~~~~e~~q~~~~~~~~f~~~~~~r~~~~ 79 (329)
T COG4916 4 NVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFE--EANLWGKNLYDYLSEIYQDKALFTIMFISEHYSRKMWT 79 (329)
T ss_pred chheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehh--hhhhhhhHHHHHHHHHHhhhhHHHhhhhhccccCcCCC
Confidence 345777899999986 78999999999999999998632 2222333333322 2 3445778889999999999
Q ss_pred HHHHHHHHHH--hhcCCccccEEeecCc
Q 047667 86 LDELAKIVEC--KNRKDQILPIFYDVEP 111 (160)
Q Consensus 86 ~~El~~~~~~--~~~~~~iiPI~~~~~p 111 (160)
..|++..+.. .+..-.++|-.++..|
T Consensus 80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 80 NHERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred cHHHHHHHHHHhhhccEEehhhhhccCC
Confidence 9999887765 4555678888776544
No 17
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=81.05 E-value=8.7 Score=24.43 Aligned_cols=61 Identities=21% Similarity=0.259 Sum_probs=39.6
Q ss_pred eeEEEecccCC--CchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 14 YDVFLSFRGED--TRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 14 ydVFISy~~~D--~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
++|+|...+.+ .....+..+...|+..|+.+-+|.. +..+...+..+-...-..++++.++
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~~----~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR----ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecCC----CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 57777654430 1235688899999999999998774 3455555555544444567777764
No 18
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=79.96 E-value=6.1 Score=25.50 Aligned_cols=47 Identities=23% Similarity=0.277 Sum_probs=33.2
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 27 KSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
..++.+|...|.+.|+++.+|..+ ..+...+..+-..---.++++.+
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~~----~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDSD----KSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESSS----STHHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHHHHHHHCCCEEEEECCC----CchhHHHHHHhhcCCeEEEEECc
Confidence 367899999999999999999854 44445666665543345555554
No 19
>cd07373 2A5CPDO_A The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO) catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the alpha subunit, which does not contain a potential metal binding site and may not possess catalytic activity.
Probab=78.95 E-value=15 Score=29.16 Aligned_cols=77 Identities=14% Similarity=0.181 Sum_probs=55.4
Q ss_pred hhHHHHHHHHHhcCCceEE-eeCC--CccCCCCchHHHHHHH--HhcceEEEEeecCCcCCHHHHHHHHHHHHH--hhcC
Q 047667 27 KSFTGHLYAALKNKGIYVF-RDDK--ELEKGGSISPELLKAI--EESRISIIVLSKNYASSTWCLDELAKIVEC--KNRK 99 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~-~d~~--dl~~G~~~~~~i~~~i--~~S~~~v~vlS~~~~~S~wc~~El~~~~~~--~~~~ 99 (160)
.+++..|.+.|.+.|+.+- ++.. .+..|.-+. + .-+ ...++-||.+|.+...+....++|..++.. +..+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vP--L-~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~ 166 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITA--C-TLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQN 166 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHH--H-HHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 4789999999999999986 6663 356664432 2 223 246777888998887778888899999985 5555
Q ss_pred CccccEE
Q 047667 100 DQILPIF 106 (160)
Q Consensus 100 ~~iiPI~ 106 (160)
++|+.|-
T Consensus 167 ~rV~iIg 173 (271)
T cd07373 167 KRVAVVG 173 (271)
T ss_pred CeEEEEE
Confidence 6777553
No 20
>COG0400 Predicted esterase [General function prediction only]
Probab=77.48 E-value=12 Score=28.70 Aligned_cols=58 Identities=26% Similarity=0.188 Sum_probs=44.7
Q ss_pred CCCCCCceeEEEecccCCCc--hhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHH
Q 047667 7 QKVSHGKYDVFLSFRGEDTR--KSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIE 66 (160)
Q Consensus 7 ~~~~~~~ydVFISy~~~D~~--~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~ 66 (160)
+.+.....-|||+|...|.- ...+.+|.+.|+..|..|.....+ .|..+..+-.+.+.
T Consensus 140 ~~~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~~~--~GH~i~~e~~~~~~ 199 (207)
T COG0400 140 LLPDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRWHE--GGHEIPPEELEAAR 199 (207)
T ss_pred cccccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEEec--CCCcCCHHHHHHHH
Confidence 34457788999999888862 456888999999999999988744 78888766555554
No 21
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=76.17 E-value=15 Score=22.46 Aligned_cols=43 Identities=28% Similarity=0.337 Sum_probs=29.8
Q ss_pred HHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCH
Q 047667 30 TGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASST 83 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~ 83 (160)
...++..|++.|+.+-.... ..+.+.....++++++|.+.-+.
T Consensus 7 ~~a~~~~L~~~g~~v~~~~~-----------~~~~l~~~~~tll~i~~~~~~~~ 49 (70)
T PF14258_consen 7 TYALYQLLEEQGVKVERWRK-----------PYEALEADDGTLLVIGPDLRLSE 49 (70)
T ss_pred HHHHHHHHHHCCCeeEEecc-----------cHHHhCCCCCEEEEEeCCCCCCc
Confidence 45678888889998854432 12244558889999999966553
No 22
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=75.23 E-value=17 Score=24.93 Aligned_cols=63 Identities=17% Similarity=0.115 Sum_probs=41.7
Q ss_pred CceeEEEecccC-CCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCC
Q 047667 12 GKYDVFLSFRGE-DTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNY 79 (160)
Q Consensus 12 ~~ydVFISy~~~-D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~ 79 (160)
..++|||...++ +.....+..|...|++.|+++-+|.+ ..+...+..+-+.--..++++.++-
T Consensus 25 ap~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~~-----~sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 25 APIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDDS-----GSIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred CCcEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeCC-----CCHHHHHHHhHhcCCCEEEEECcCc
Confidence 357888887652 11234678899999999999999873 2444566666554444666666653
No 23
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=73.92 E-value=4 Score=28.72 Aligned_cols=64 Identities=13% Similarity=0.125 Sum_probs=38.2
Q ss_pred ceeEEEeccc-CC-CchhHHHHHHHHHhcCCceEEeeCCCc---cCCCCchHHHHHHHHhcceEEEEeecCCc
Q 047667 13 KYDVFLSFRG-ED-TRKSFTGHLYAALKNKGIYVFRDDKEL---EKGGSISPELLKAIEESRISIIVLSKNYA 80 (160)
Q Consensus 13 ~ydVFISy~~-~D-~~~~fv~~L~~~L~~~g~~v~~d~~dl---~~G~~~~~~i~~~i~~S~~~v~vlS~~~~ 80 (160)
.|+|-|.--. .+ .-.+.+..|++.|++.|+.+++|.++- .+|..+.+.-..|+- ..+++.++.+
T Consensus 27 P~qV~Iipi~~~~~~~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~~dliGiP----~~I~IG~~~l 95 (128)
T cd02426 27 PYKVAIDCGKGDTAELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDKYDEMGVL----FTLLISEQTL 95 (128)
T ss_pred CeEEEEEeccCChHHHHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHhhhhcCCC----EEEEECCCcc
Confidence 3666544322 22 124568899999999999999999764 566655443333322 4444555443
No 24
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=72.18 E-value=19 Score=23.67 Aligned_cols=56 Identities=13% Similarity=0.187 Sum_probs=36.9
Q ss_pred HHHHHHHHHhcCCceEEeeCCCccCCCCc-hHHHHHHHHhcceEEEEeecCCcCCHHHH
Q 047667 29 FTGHLYAALKNKGIYVFRDDKELEKGGSI-SPELLKAIEESRISIIVLSKNYASSTWCL 86 (160)
Q Consensus 29 fv~~L~~~L~~~g~~v~~d~~dl~~G~~~-~~~i~~~i~~S~~~v~vlS~~~~~S~wc~ 86 (160)
....+.+.+++.|...-.+. -..|..- ...|...|.+++.+|++..--..+..|..
T Consensus 11 ~~~~~~~~~~~~G~~~~~hg--~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~v 67 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHHG--RDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKV 67 (97)
T ss_pred cHHHHHHHHHHcCCEEEEEe--cCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHH
Confidence 47788999999998877771 1122221 22588899999988887766544444433
No 25
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=69.30 E-value=28 Score=22.59 Aligned_cols=63 Identities=17% Similarity=0.171 Sum_probs=37.7
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCcc-------CCCCchHHHHHHHHhcceEEEEeecC
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELE-------KGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~-------~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
+|.+..+.-.+-.++.+|...|.++|.++.+-+-|.. -+..+......++..|+.+|+++.++
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~ 72 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPS 72 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCC
Confidence 3555554443445688899999989988887654433 11112233445666666666666654
No 26
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=68.94 E-value=7.5 Score=34.18 Aligned_cols=66 Identities=26% Similarity=0.300 Sum_probs=42.9
Q ss_pred CCceeEEEeccc-CC-CchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCc
Q 047667 11 HGKYDVFLSFRG-ED-TRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYA 80 (160)
Q Consensus 11 ~~~ydVFISy~~-~D-~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~ 80 (160)
-..|+|+|.--. ++ .....+..|++.|++.|+++.+|+++-.+|..+.+.-.. +.. .++++.++.+
T Consensus 466 iaP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad~~---GiP-~~iiiG~~e~ 533 (565)
T PRK09194 466 IAPFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADADLI---GIP-HRIVVGDRGL 533 (565)
T ss_pred cCCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHHhc---CCC-EEEEEcCccc
Confidence 455899887654 22 223568889999999999999999876666544332222 222 5666666544
No 27
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=63.81 E-value=34 Score=27.35 Aligned_cols=77 Identities=8% Similarity=0.121 Sum_probs=52.7
Q ss_pred hhHHHHHHHHHhcCCceEEe---eCCCccCCCCchHHHHHHHHhcceEEEEeecC-CcCCHHHHHHHHHHHHH--hhcCC
Q 047667 27 KSFTGHLYAALKNKGIYVFR---DDKELEKGGSISPELLKAIEESRISIIVLSKN-YASSTWCLDELAKIVEC--KNRKD 100 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~---d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~-~~~S~wc~~El~~~~~~--~~~~~ 100 (160)
.+++..|.+.+++.|+.+.. ..+.+..|.-+.=.. .-.+.++-||-+|.+ ...+..-..+|..++.. +..++
T Consensus 96 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~--l~p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~i~~~~~ 173 (282)
T TIGR02298 96 PALGQLIADEAQEHGVKTLAHQVPSLGLEYGTLVPMRY--MNEDGHFKVVSIAAWCTVHDIEESRALGEAIRKAIEQSDG 173 (282)
T ss_pred HHHHHHHHHHHHHCCCceeeccCCCCCCCeehHhHHHH--hCCCCCCcEEEEeecCCCCCHHHHHHHHHHHHHHHHhcCC
Confidence 37899999999999998752 344566665443222 113466788888877 44567777899999887 44566
Q ss_pred ccccE
Q 047667 101 QILPI 105 (160)
Q Consensus 101 ~iiPI 105 (160)
+|+.|
T Consensus 174 rV~iI 178 (282)
T TIGR02298 174 RVAVL 178 (282)
T ss_pred CEEEE
Confidence 76655
No 28
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=62.78 E-value=18 Score=23.12 Aligned_cols=48 Identities=27% Similarity=0.313 Sum_probs=31.8
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCC
Q 047667 28 SFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNY 79 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~ 79 (160)
..+..|...|++.|+++.+|.+.-..| ..+..+-..--..++++.++-
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~~~~l~----k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDRNERPG----VKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCcc----cchhHHHhcCCCEEEEECCch
Confidence 568889999999999999987543334 445555443333566666543
No 29
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=62.60 E-value=13 Score=31.71 Aligned_cols=65 Identities=20% Similarity=0.185 Sum_probs=42.0
Q ss_pred ceeEEEeccc--CCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcC
Q 047667 13 KYDVFLSFRG--EDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYAS 81 (160)
Q Consensus 13 ~ydVFISy~~--~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~ 81 (160)
.++|+|---. .+...+.+..|...|++.|++|.+|.++-.+|. .+..+-..---.++|+.++-+.
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~----ki~~a~~~giP~~iiVG~~e~~ 411 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGA----KFATMDLIGLPWQIIVGPKGLA 411 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhH----HHHHHHHcCCCEEEEECCcccc
Confidence 4789887542 122245788999999999999999997655554 4444433223366666665443
No 30
>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=62.57 E-value=75 Score=25.07 Aligned_cols=86 Identities=10% Similarity=0.041 Sum_probs=53.8
Q ss_pred EecccCCCchhHHHHHHHHHhcCCceEEe---eCCCccCCCCchHHHHHHHHhcceEEEEeecCC-cCCHHHHHHHHHHH
Q 047667 18 LSFRGEDTRKSFTGHLYAALKNKGIYVFR---DDKELEKGGSISPELLKAIEESRISIIVLSKNY-ASSTWCLDELAKIV 93 (160)
Q Consensus 18 ISy~~~D~~~~fv~~L~~~L~~~g~~v~~---d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~-~~S~wc~~El~~~~ 93 (160)
+.|.-... .+++..|.+.|++.|+.+-. ..+.+..|.-+.=.. .-.+.++.++.+|=+. .-+..-..+|..++
T Consensus 79 ~~y~~~g~-~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~--l~p~~~ipvV~vs~~~~~~~~~~~~~lG~al 155 (268)
T cd07371 79 LDYSINVD-VELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTL--MRPGTDIPPVVISANNLYLSGEETEGEMDLA 155 (268)
T ss_pred eeecCCCC-HHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHH--hcCCCCCCeEEEEecCcCCCHHHHHHHHHHH
Confidence 44543332 47999999999999998875 233445664432222 1123566677777333 35677778999999
Q ss_pred HH--hhcCCccccEE
Q 047667 94 EC--KNRKDQILPIF 106 (160)
Q Consensus 94 ~~--~~~~~~iiPI~ 106 (160)
.. +..+++|+.|-
T Consensus 156 ~~~l~~~~~rv~iIg 170 (268)
T cd07371 156 GKATRDAGKRVAVLG 170 (268)
T ss_pred HHHHHHcCCcEEEEE
Confidence 74 55556776554
No 31
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=60.15 E-value=19 Score=27.20 Aligned_cols=63 Identities=22% Similarity=0.176 Sum_probs=40.7
Q ss_pred CceeEEEecccCCC-----chhHHHHHHHHHhcCCceEEeeCCCc-cCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 12 GKYDVFLSFRGEDT-----RKSFTGHLYAALKNKGIYVFRDDKEL-EKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 12 ~~ydVFISy~~~D~-----~~~fv~~L~~~L~~~g~~v~~d~~dl-~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
..++|+|---+... -...+..|...|...|+++.+|.++- .+|..+...-..++ -+++++.++
T Consensus 9 AP~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ae~~Gv----P~~I~IG~~ 77 (202)
T cd00862 9 APIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDWELKGV----PLRIEIGPR 77 (202)
T ss_pred cCceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHHHhCCC----CEEEEECcc
Confidence 34778777543321 13568889999999999999999765 77765543322222 255556655
No 32
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=59.21 E-value=38 Score=29.57 Aligned_cols=62 Identities=18% Similarity=0.231 Sum_probs=43.5
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
...+|+|..-+++. ...+..|+..|++.|++|-+|.+ +..+...+..|-..--..++|+.++
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~----~~sl~~q~k~A~~~g~~~~iiiG~~ 530 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR----NERLGKKIREAQKQKIPYMLVVGDK 530 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHHHhcCCCEEEEEchh
Confidence 45788887765443 46789999999999999999874 4455566666655444456666653
No 33
>cd07363 45_DOPA_Dioxygenase The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine. This subfamily is composed of plant 4,5-DOPA Dioxygenase, the uncharacterized Escherichia coli protein Jw3007, and similar proteins. 4,5-DOPA Dioxygenase catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine (4,5-DOPA). The reaction results in the opening of the cyclic ring between carbons 4 and 5 and producing an unstable seco-DOPA that rearranges to betalamic acid. 4,5-DOPA Dioxygenase is a key enzyme in the biosynthetic pathway of the plant pigment betalain. Homologs of DODA are present not only in betalain-producing plants but also in bacteria and archaea. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated ca
Probab=57.66 E-value=57 Score=25.50 Aligned_cols=75 Identities=19% Similarity=0.222 Sum_probs=53.4
Q ss_pred hhHHHHHHHHHhcCCceEEeeC-CCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH-hhcCCcccc
Q 047667 27 KSFTGHLYAALKNKGIYVFRDD-KELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC-KNRKDQILP 104 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~-~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~-~~~~~~iiP 104 (160)
.+++.+|.+.|++.|+.+-.+. +.+..|.-+. +.-...+.++-||.+|-+...+..-..+|..++.. +. .+|+.
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~~--~~v~i 155 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLRD--EGVLI 155 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhhh--CCEEE
Confidence 3789999999999999887654 4555664332 22233346888999999888778888899999986 32 35554
Q ss_pred E
Q 047667 105 I 105 (160)
Q Consensus 105 I 105 (160)
|
T Consensus 156 i 156 (253)
T cd07363 156 I 156 (253)
T ss_pred E
Confidence 4
No 34
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=57.65 E-value=54 Score=21.83 Aligned_cols=75 Identities=21% Similarity=0.168 Sum_probs=44.9
Q ss_pred HHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHHhhcCCccccEEeec
Q 047667 30 TGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVECKNRKDQILPIFYDV 109 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~iiPI~~~~ 109 (160)
...|...|++.|+.+-+-+-+..+ +++.+.+.+.+.-++.+|-.+..+..-..++.... +.....+.-|+-..
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~--k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTPNLPEAKRLARAI--KERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHH--HTTCTTSEEEEEES
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHH--HhcCCCCEEEEECC
Confidence 667899999999988544323222 78888888888888888875554433333333333 33333444444343
Q ss_pred Cc
Q 047667 110 EP 111 (160)
Q Consensus 110 ~p 111 (160)
.+
T Consensus 90 ~~ 91 (121)
T PF02310_consen 90 HA 91 (121)
T ss_dssp SS
T ss_pred ch
Confidence 33
No 35
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=57.30 E-value=56 Score=24.38 Aligned_cols=78 Identities=18% Similarity=0.115 Sum_probs=53.2
Q ss_pred hHHHHHHHHHhcCCceEEee------CCCccCC---CCchHHHHHHHHhcceEEEEeecCC-cCCHHHHHHHHHHHHHhh
Q 047667 28 SFTGHLYAALKNKGIYVFRD------DKELEKG---GSISPELLKAIEESRISIIVLSKNY-ASSTWCLDELAKIVECKN 97 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d------~~dl~~G---~~~~~~i~~~i~~S~~~v~vlS~~~-~~S~wc~~El~~~~~~~~ 97 (160)
...+.|...|.+.|+.++.- ..+..|+ ..|.+.-...|.+|+++|+++.+-= ....-..+|+..+..
T Consensus 20 ~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~A--- 96 (172)
T COG3613 20 ELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAIA--- 96 (172)
T ss_pred HHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHHH---
Confidence 45777888889999988875 2222332 2233444567999999999998743 112346789999987
Q ss_pred cCCccccEEee
Q 047667 98 RKDQILPIFYD 108 (160)
Q Consensus 98 ~~~~iiPI~~~ 108 (160)
.++.+++.+-+
T Consensus 97 lgKPv~~~~~d 107 (172)
T COG3613 97 LGKPVYAYRKD 107 (172)
T ss_pred cCCceEEEeec
Confidence 57888887743
No 36
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=57.16 E-value=64 Score=22.50 Aligned_cols=79 Identities=19% Similarity=0.168 Sum_probs=48.1
Q ss_pred hhHHHHHHHHHhcCCceEEe-eCCCc-cC-----------CCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHH
Q 047667 27 KSFTGHLYAALKNKGIYVFR-DDKEL-EK-----------GGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIV 93 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~-d~~dl-~~-----------G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~ 93 (160)
..+++.+.+.|++.|+.+-+ +-.+. .| -.+-.+++.+.+.+++ .|++.||.|..+. --.+..++
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD-~iI~~sP~y~~~~--s~~lK~~l 93 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEAD-GIIFASPVYNGSV--SGQLKNFL 93 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSS-EEEEEEEEBTTBE---HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCC-eEEEeecEEcCcC--ChhhhHHH
Confidence 45788889999888876543 44443 11 1222356778888898 7788999998864 22344444
Q ss_pred HH-------hhcCCccccEEee
Q 047667 94 EC-------KNRKDQILPIFYD 108 (160)
Q Consensus 94 ~~-------~~~~~~iiPI~~~ 108 (160)
++ .-.++.+.+|-..
T Consensus 94 D~~~~~~~~~~~~K~~~~i~~~ 115 (152)
T PF03358_consen 94 DRLSCWFRRALRGKPVAIIAVG 115 (152)
T ss_dssp HTHHHTHTTTTTTSEEEEEEEE
T ss_pred HHhccccccccCCCEEEEEEEe
Confidence 43 1234556555443
No 37
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=56.37 E-value=45 Score=20.48 Aligned_cols=58 Identities=21% Similarity=0.173 Sum_probs=34.2
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
+|||...+... ..-+-.+...|++.|+++.++... ..+...+..+-...-..++++.+
T Consensus 3 ~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~~----~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 3 DVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYGG----RKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred cEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecCC----CCHHHHHHHHHHcCCCEEEEEcH
Confidence 67776544432 234778999999999999887642 23334444443332234455554
No 38
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=55.23 E-value=12 Score=33.09 Aligned_cols=65 Identities=25% Similarity=0.400 Sum_probs=42.0
Q ss_pred ceeEEEeccc-CC-CchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcC
Q 047667 13 KYDVFLSFRG-ED-TRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYAS 81 (160)
Q Consensus 13 ~ydVFISy~~-~D-~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~ 81 (160)
.|+|-|.--. .| .....+.+|++.|+..|+.|.+|+++-.+|..+.+.-..|+- ..+++.++.+.
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~dadliGiP----~~i~vG~~~l~ 539 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFADSELIGIP----LRVVVGKKNLD 539 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHhhhhcCCC----EEEEECCCccc
Confidence 4777655322 22 224578899999999999999999987788666543332322 44556665443
No 39
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=53.81 E-value=48 Score=22.07 Aligned_cols=62 Identities=16% Similarity=0.292 Sum_probs=36.8
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEEeeC--------CCcc-----CCCCchHHHHHHHHhcceEEEEeecC
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDD--------KELE-----KGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~--------~dl~-----~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
.||+|.+..|. .-...+...|.+.|++++--. ..+. ....-..++.+.|++-++-++|-.|+
T Consensus 2 ~vl~s~~~~~k--~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDK--PEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcH--hHHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 37899987775 335577777777788876421 0110 00001246777777777777766554
No 40
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=52.28 E-value=70 Score=21.52 Aligned_cols=29 Identities=10% Similarity=0.082 Sum_probs=22.3
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEe
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFR 46 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~ 46 (160)
||||.+..|. .-...+...|.+.|++++-
T Consensus 3 vlisv~~~dk--~~~~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSK--PELLPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCcccc--hhHHHHHHHHHHCCCEEEE
Confidence 7999988775 3456788888888888854
No 41
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=50.93 E-value=17 Score=31.29 Aligned_cols=62 Identities=18% Similarity=0.090 Sum_probs=39.7
Q ss_pred ceeEEEecccC-----CCchhHHHHHHHHHhcCCceEEeeC-CCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 13 KYDVFLSFRGE-----DTRKSFTGHLYAALKNKGIYVFRDD-KELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 13 ~ydVFISy~~~-----D~~~~fv~~L~~~L~~~g~~v~~d~-~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
.++|+|---.. +.....+..|.+.|++.|++|.+|. ++..+|. .+..+-..---.++++.++
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gk----K~~~ae~~GvP~~IiIG~~ 354 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGW----KFNEWELKGVPLRIEIGPR 354 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHH----HHHHHHHCCCCEEEEECcc
Confidence 58888775421 1123568889999999999999998 5455554 4444433333356666665
No 42
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=50.19 E-value=1.1e+02 Score=22.94 Aligned_cols=82 Identities=12% Similarity=0.164 Sum_probs=49.0
Q ss_pred hHHHHHHHHHhcCCceEE-eeCCCccCC--------CCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH---
Q 047667 28 SFTGHLYAALKNKGIYVF-RDDKELEKG--------GSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC--- 95 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~-~d~~dl~~G--------~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~--- 95 (160)
..++.+.+.|++.|..+. +|-.++.+. .+-...+.+.|.+++ .|++.||-|..|.--. |..+++.
T Consensus 18 ~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD-~iIi~tP~Y~~s~pg~--LKn~iD~l~~ 94 (191)
T PRK10569 18 ALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQAD-GLIVATPVYKASFSGA--LKTLLDLLPE 94 (191)
T ss_pred HHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCC-EEEEECCccCCCCCHH--HHHHHHhCCh
Confidence 456677778887887764 455555442 122346677888888 7788999998875222 2223322
Q ss_pred -hhcCCccccEEeecCch
Q 047667 96 -KNRKDQILPIFYDVEPT 112 (160)
Q Consensus 96 -~~~~~~iiPI~~~~~p~ 112 (160)
.-.++.+++|-....+.
T Consensus 95 ~~l~~K~v~iiat~G~~~ 112 (191)
T PRK10569 95 RALEHKVVLPLATGGSVA 112 (191)
T ss_pred hhhCCCEEEEEEecCCch
Confidence 12356677666544443
No 43
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=49.38 E-value=53 Score=27.79 Aligned_cols=60 Identities=15% Similarity=0.189 Sum_probs=40.8
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
..||+|.+-+.+. ...+-.+...|+++|+++-++.. +..+...+..+-+..-..++|+.+
T Consensus 325 ~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~~----~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 325 SIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDLS----SSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEeeC----CCCHHHHHHHHHHcCCCEEEEEec
Confidence 4689998754432 35688899999999999988763 344556666665544445666665
No 44
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=48.36 E-value=17 Score=32.41 Aligned_cols=61 Identities=20% Similarity=0.193 Sum_probs=39.7
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
.++|+|.--+.+ ....+..|.+.|+..|++|.+|.++-..| ..+..+-..---.++|+.++
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slg----kKir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLG----KKIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHH----HHHHHHHHcCCCEEEEECcc
Confidence 478877765433 24679999999999999999998754444 44555433222345555543
No 45
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=48.14 E-value=64 Score=27.24 Aligned_cols=61 Identities=21% Similarity=0.207 Sum_probs=41.1
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
..++|+|..-+++. ...+..|...|++.|+++.+|.. +..+...+..+-+.--..++++.+
T Consensus 273 AP~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~----srSLgKQiK~AdK~GaPfvIIIGe 333 (387)
T PRK14938 273 NPIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL----DDSLGNKIRRAGTEWIPFVIIIGE 333 (387)
T ss_pred CcceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECc
Confidence 35788777655542 35688899999999999999874 345556666665544445555554
No 46
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=47.08 E-value=51 Score=25.85 Aligned_cols=113 Identities=21% Similarity=0.249 Sum_probs=58.7
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCccCCCC------ch-------------HHHHHHHHhcceEEEEeecCCcCCHHHHHH
Q 047667 28 SFTGHLYAALKNKGIYVFRDDKELEKGGS------IS-------------PELLKAIEESRISIIVLSKNYASSTWCLDE 88 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~~dl~~G~~------~~-------------~~i~~~i~~S~~~v~vlS~~~~~S~wc~~E 88 (160)
.|+.+|+++|++++..+---..|-..|-. +. ..|..|++ ...|++=+-||-+| .+.+
T Consensus 16 tfakeLak~L~~~i~~vi~l~kdy~~~i~~DEslpi~ke~yres~~ks~~rlldSalk--n~~VIvDdtNYyks--mRrq 91 (261)
T COG4088 16 TFAKELAKELRQEIWRVIHLEKDYLRGILWDESLPILKEVYRESFLKSVERLLDSALK--NYLVIVDDTNYYKS--MRRQ 91 (261)
T ss_pred HHHHHHHHHHHHhhhhccccchhhhhheecccccchHHHHHHHHHHHHHHHHHHHHhc--ceEEEEecccHHHH--HHHH
Confidence 79999999999987544332222222211 11 23334444 56888889999987 3444
Q ss_pred HHHHHHHhhcCCccccEEe-ecCchhhhccc----chh-HHHHHHHHHhccCChHHHHHHHHHHHH
Q 047667 89 LAKIVECKNRKDQILPIFY-DVEPTVVRKQT----ASF-GEAFAKHEEAFRNNVEKVQTWRDALKT 148 (160)
Q Consensus 89 l~~~~~~~~~~~~iiPI~~-~~~p~~v~~~~----~~~-~~~~~~~~~~~~~~~~~~~~W~~al~~ 148 (160)
|.-.. +.. ..-.-|.| ...++.....+ ..+ .+.+.+++.++.+ ++...+|-.+|-.
T Consensus 92 L~cea--k~~-~tt~ciIyl~~plDtc~rrN~ergepip~Evl~qly~RfEe-Pn~~~rWDspll~ 153 (261)
T COG4088 92 LACEA--KER-KTTWCIIYLRTPLDTCLRRNRERGEPIPEEVLRQLYDRFEE-PNPDRRWDSPLLV 153 (261)
T ss_pred HHHHH--Hhc-CCceEEEEEccCHHHHHHhhccCCCCCCHHHHHHHHHhhcC-CCCCccccCceEE
Confidence 43322 222 22233333 43333322111 112 4455666776653 6667778666543
No 47
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=46.38 E-value=31 Score=21.55 Aligned_cols=31 Identities=16% Similarity=0.232 Sum_probs=15.5
Q ss_pred CCceEEeeCCCccCCCCchHHHHHHHHhcceEE
Q 047667 40 KGIYVFRDDKELEKGGSISPELLKAIEESRISI 72 (160)
Q Consensus 40 ~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v 72 (160)
+.+-+|+|.. .+|.....++.+.+..-...+
T Consensus 44 ~~vii~~D~D--~aG~~a~~~~~~~l~~~g~~~ 74 (79)
T cd03364 44 KEVILAFDGD--EAGQKAALRALELLLKLGLNV 74 (79)
T ss_pred CeEEEEECCC--HHHHHHHHHHHHHHHHCCCeE
Confidence 4555666553 355555555555554444333
No 48
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=46.28 E-value=88 Score=21.25 Aligned_cols=46 Identities=9% Similarity=0.171 Sum_probs=29.5
Q ss_pred hhHHHHHHHHHhcCCceEEeeC-CCccCCCCchHHHHHHHHhcceEEEEeecCCcCC
Q 047667 27 KSFTGHLYAALKNKGIYVFRDD-KELEKGGSISPELLKAIEESRISIIVLSKNYASS 82 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~-~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S 82 (160)
+.+++.|.+.|...|+.+-+.+ .+.. . .-+..++ .|++.||.|...
T Consensus 13 ~~~A~~i~~~~~~~g~~v~~~~~~~~~-----~----~~l~~~d-~iilgspty~~g 59 (140)
T TIGR01753 13 EEMANIIAEGLKEAGAEVDLLEVADAD-----A----EDLLSYD-AVLLGCSTWGDE 59 (140)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEcccCC-----H----HHHhcCC-EEEEEcCCCCCC
Confidence 4789999999998888765433 1111 1 1233444 678888888753
No 49
>cd07362 HPCD_like Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. This subfamily of class III extradiol dioxygenases consists of two types of proteins with known enzymatic activities; 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase (HPCD) and 2-amino-5-chlorophenol 1,6-dioxygenase. HPCD catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate (hpca), a central intermediate in the bacterial degradation of aromatic compounds. The enzyme incorporates both atoms of molecular oxygen into hpca, resulting in aromatic ring-opening to yield the product alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. 2-amino-5-chlorophenol 1,6-dioxygenase catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. The enzyme is probably a heterotetrame
Probab=45.02 E-value=1.5e+02 Score=23.38 Aligned_cols=78 Identities=10% Similarity=0.086 Sum_probs=53.3
Q ss_pred hhHHHHHHHHHhcCCceEEe-e--CCCccCCCCchHHHHHHHHhcceEEEEeecCC-cCCHHHHHHHHHHHHH--hhcCC
Q 047667 27 KSFTGHLYAALKNKGIYVFR-D--DKELEKGGSISPELLKAIEESRISIIVLSKNY-ASSTWCLDELAKIVEC--KNRKD 100 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~-d--~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~-~~S~wc~~El~~~~~~--~~~~~ 100 (160)
.+++.+|.+.|.+.|+.+.. . .+.+..|.-+.=.. .-.+.++-||-+|-+. .-+.....+|..++.+ ...+.
T Consensus 92 ~~LA~~i~~~l~~~Gi~~~~~~~~~~~lDHG~~vPL~~--l~p~~~iPVV~vs~~~~~~~~~~~~~lG~ai~~al~~~~~ 169 (272)
T cd07362 92 PELGRLLVEEGQEAGLRVKAVNDPTYIWDYGTVVPLRY--LNPNKDIPVVSISACWTAASLEESYTWGEVIGKALLESDK 169 (272)
T ss_pred HHHHHHHHHHHHHcCCceeeccCCCCCCCcchHHHHHH--hCCCCCCcEEEEeccCCCCCHHHHHHHHHHHHHHHHhhCC
Confidence 47899999999999998863 2 34566665442222 1234788899999876 5677777889877765 33456
Q ss_pred ccccEE
Q 047667 101 QILPIF 106 (160)
Q Consensus 101 ~iiPI~ 106 (160)
+|+.|-
T Consensus 170 rv~ii~ 175 (272)
T cd07362 170 RVVFLA 175 (272)
T ss_pred CEEEEE
Confidence 666554
No 50
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=44.21 E-value=1.3e+02 Score=22.92 Aligned_cols=102 Identities=16% Similarity=0.246 Sum_probs=54.1
Q ss_pred cccCCCchhHHHHHHHHHhcCCceEEe-eCCCccCCCC----ch-----HHHHHH------HHhcce--EEEEeecCCcC
Q 047667 20 FRGEDTRKSFTGHLYAALKNKGIYVFR-DDKELEKGGS----IS-----PELLKA------IEESRI--SIIVLSKNYAS 81 (160)
Q Consensus 20 y~~~D~~~~fv~~L~~~L~~~g~~v~~-d~~dl~~G~~----~~-----~~i~~~------i~~S~~--~v~vlS~~~~~ 81 (160)
-|+.-+ ...+..|...|.+.|+++.+ |...+..|=. +. ++|.+- +..+-. ++.++||-
T Consensus 31 LSGsGK-STiA~ale~~L~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~iviva~ISP~--- 106 (197)
T COG0529 31 LSGSGK-STIANALEEKLFAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVIVAFISPY--- 106 (197)
T ss_pred CCCCCH-HHHHHHHHHHHHHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEEEEeeCcc---
Confidence 344443 36799999999999998887 5444443311 11 222222 222222 33445552
Q ss_pred CHHHHHHHHHHHHHhhcCCccccEEeec--CchhhhcccchhHHHHHHHHH
Q 047667 82 STWCLDELAKIVECKNRKDQILPIFYDV--EPTVVRKQTASFGEAFAKHEE 130 (160)
Q Consensus 82 S~wc~~El~~~~~~~~~~~~iiPI~~~~--~p~~v~~~~~~~~~~~~~~~~ 130 (160)
..+-+.+-+ .-.....|=||.+. ..++-|...|-|.++..--.+
T Consensus 107 ----r~~R~~aR~-~~~~~~FiEVyV~~pl~vce~RDpKGLYkKAr~GeI~ 152 (197)
T COG0529 107 ----REDRQMARE-LLGEGEFIEVYVDTPLEVCERRDPKGLYKKARAGEIK 152 (197)
T ss_pred ----HHHHHHHHH-HhCcCceEEEEeCCCHHHHHhcCchHHHHHHHcCCCC
Confidence 222222211 11234788888863 334456788888887764433
No 51
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=43.72 E-value=18 Score=28.53 Aligned_cols=113 Identities=23% Similarity=0.200 Sum_probs=55.9
Q ss_pred HHHHHHHHHhcCCc--eEEe-eCCCccCCC------Cch-----HHHHHHHHh--c-ceEEEEeecCCcCCHHHHHHHHH
Q 047667 29 FTGHLYAALKNKGI--YVFR-DDKELEKGG------SIS-----PELLKAIEE--S-RISIIVLSKNYASSTWCLDELAK 91 (160)
Q Consensus 29 fv~~L~~~L~~~g~--~v~~-d~~dl~~G~------~~~-----~~i~~~i~~--S-~~~v~vlS~~~~~S~wc~~El~~ 91 (160)
-+.+|+++|+++|- .+.+ |+..+..+. .-. ..+..+++. | .-+|++=|-||.+.. ++||.=
T Consensus 17 rA~~L~~~l~~~~~K~~v~ii~deslg~~~ns~y~~s~~EK~lRg~L~S~v~R~Lsk~~iVI~DslNyIKGf--RYeLyC 94 (281)
T KOG3062|consen 17 RAVELREALKERGTKQSVRIIDDESLGIEKNSNYGDSQAEKALRGKLRSAVDRSLSKGDIVIVDSLNYIKGF--RYELYC 94 (281)
T ss_pred HHHHHHHHHHhhcccceEEEechhhcCCCCcccccccHHHHHHHHHHHHHHHhhcccCcEEEEecccccccc--eeeeee
Confidence 48999999999873 3333 444444333 211 223333321 1 226777888998863 333221
Q ss_pred HHHHhhcCCccccEEeecCchhhhcc---------cchhHHHHHHHHHhccCChHHHHHHHHHH
Q 047667 92 IVECKNRKDQILPIFYDVEPTVVRKQ---------TASFGEAFAKHEEAFRNNVEKVQTWRDAL 146 (160)
Q Consensus 92 ~~~~~~~~~~iiPI~~~~~p~~v~~~---------~~~~~~~~~~~~~~~~~~~~~~~~W~~al 146 (160)
.. +..+.+-=.|+..+.++.-+.. .|.=.+.|+.+.+++.+ ++...+|-.-|
T Consensus 95 ~a--k~~~tt~Cvv~t~vp~e~~r~~Ns~~~~p~e~gy~~e~le~L~~RyEe-P~s~NRWDsPL 155 (281)
T KOG3062|consen 95 EA--KAARTTYCVVHTAVPQELCREWNSEREDPGEDGYDDELLEALVQRYEE-PNSRNRWDSPL 155 (281)
T ss_pred eh--hccceeEEEEEecCCHHHHHHhcccCCCCCCCCCCHHHHHHHHHHhhC-CCccccccCcc
Confidence 11 1111111123334444444332 23225567778877754 56666674433
No 52
>PLN02530 histidine-tRNA ligase
Probab=43.48 E-value=81 Score=27.22 Aligned_cols=61 Identities=13% Similarity=0.032 Sum_probs=41.8
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
...||+|.+-.++. ...+-.+...|+++|+++-++..+ ..+...+..+-+.--..++++..
T Consensus 400 ~~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~~~----~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 400 HQVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVLEP----KKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEecCC----CCHHHHHHHHHHCCCCEEEEEch
Confidence 44689998855543 356888999999999999887643 34555666665544445666654
No 53
>PLN03194 putative disease resistance protein; Provisional
Probab=43.20 E-value=1.1e+02 Score=23.21 Aligned_cols=64 Identities=14% Similarity=0.222 Sum_probs=46.3
Q ss_pred CCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHHhhcCCccccEE
Q 047667 40 KGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVECKNRKDQILPIF 106 (160)
Q Consensus 40 ~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~iiPI~ 106 (160)
..+.||+.-+.-.....+...+..+++...+.+.+-........--..++..+++ ..+..|.||
T Consensus 25 ~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIe---eSri~IvVf 88 (187)
T PLN03194 25 KPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIR---NCKVGVAVF 88 (187)
T ss_pred CCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHH---hCeEEEEEE
Confidence 4799999886554455678889999999988877765555555555567777776 466777777
No 54
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=43.16 E-value=74 Score=21.39 Aligned_cols=61 Identities=21% Similarity=0.323 Sum_probs=36.8
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeC--------CC-----ccCCCC-chHHHHHHHHh-cceEEEEeecC
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDD--------KE-----LEKGGS-ISPELLKAIEE-SRISIIVLSKN 78 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~--------~d-----l~~G~~-~~~~i~~~i~~-S~~~v~vlS~~ 78 (160)
||||-+..|+ .-...+...|.+.|++++--. .. +..+.. -.+++.+.|.+ .++-++|..|+
T Consensus 2 i~isv~d~~K--~~~~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHVK--AMLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccH--HHHHHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 6888877765 334467777777777775321 01 111100 12568888888 88888888775
No 55
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=42.38 E-value=19 Score=24.15 Aligned_cols=54 Identities=22% Similarity=0.302 Sum_probs=32.6
Q ss_pred CCCchhHHHHHHHHHhcCCceEEeeCCCccC----------CCCchHHHHHHHHhcceEEEEee
Q 047667 23 EDTRKSFTGHLYAALKNKGIYVFRDDKELEK----------GGSISPELLKAIEESRISIIVLS 76 (160)
Q Consensus 23 ~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~----------G~~~~~~i~~~i~~S~~~v~vlS 76 (160)
.|.|.+-+-.|.+.|.+.|+.|.+.+--+.. +-.+.+.+.++++.++.+|+...
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~ 75 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATD 75 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS-
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEec
Confidence 4667777999999999999999887633321 11222345777888886666544
No 56
>PRK05569 flavodoxin; Provisional
Probab=42.33 E-value=1.1e+02 Score=21.13 Aligned_cols=47 Identities=11% Similarity=0.151 Sum_probs=29.7
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCC
Q 047667 27 KSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASS 82 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S 82 (160)
+..++.+.+.|++.|..+-+.. +..-+ ..-+.+++ .|++-||.|...
T Consensus 16 ~~iA~~i~~~~~~~g~~v~~~~--~~~~~------~~~~~~~d-~iilgsPty~~~ 62 (141)
T PRK05569 16 EVLANTIADGAKEAGAEVTIKH--VADAK------VEDVLEAD-AVAFGSPSMDNN 62 (141)
T ss_pred HHHHHHHHHHHHhCCCeEEEEE--CCcCC------HHHHhhCC-EEEEECCCcCCC
Confidence 3678889999988887664432 21111 12344555 678889988775
No 57
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=41.77 E-value=55 Score=23.13 Aligned_cols=54 Identities=19% Similarity=0.226 Sum_probs=35.2
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcc
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESR 69 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~ 69 (160)
.++|+-..+.-....+...|..+++.+|+-++.|.. .+|+.+...|.+.+.++.
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D--~~Ge~Irk~l~~~l~~~~ 83 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD--RKGERIRKKLKEYLPGAK 83 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC--cchHHHHHHHHHHhcccc
Confidence 345555544321135677788888888888888773 378777777777776643
No 58
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=40.85 E-value=83 Score=24.00 Aligned_cols=51 Identities=14% Similarity=0.292 Sum_probs=27.0
Q ss_pred CCccccE--EeecCchhhhcccchhHHHHHHHHHhccCChHHHHHHHHHHHHhhccc
Q 047667 99 KDQILPI--FYDVEPTVVRKQTASFGEAFAKHEEAFRNNVEKVQTWRDALKTVANKS 153 (160)
Q Consensus 99 ~~~iiPI--~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~al~~i~~~~ 153 (160)
++.|+|+ .++.+|+++-...-.-|-+=..-.. . -+.+..|+++|..+++--
T Consensus 145 rklVv~~S~~~~~~~dd~~eeave~Gll~e~E~~-~---~~~~~~~e~~L~~l~~~l 197 (204)
T COG3286 145 RKLVVAVSIVYGLDPDDAAEEAVELGLLEEGEDG-L---RELIKNKERALETLLKAL 197 (204)
T ss_pred hhhhhhhhhHhCCCHHHHHHHHHHhhhhhccchh-H---HHhhhhHHHHHHHHHHHh
Confidence 3455554 4589999875432221111000000 0 144778999999887755
No 59
>cd07372 2A5CPDO_B The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, which is an intermediate during p-chloronitrobenzene degradation. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active 2A5CPDO enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. The alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication. This model describes the beta subunit, which contains a putative metal binding site with two conserved histidines; these residues are equivalent to two out of three Fe(II) bindin
Probab=40.57 E-value=1.8e+02 Score=23.38 Aligned_cols=78 Identities=12% Similarity=0.077 Sum_probs=49.1
Q ss_pred hhHHHHHHHHHhcCCceEEe---eCCCccCCCCchHHHHHHHHhcceEEEEeecCCcC-------CHHHHHHHHHHHHH-
Q 047667 27 KSFTGHLYAALKNKGIYVFR---DDKELEKGGSISPELLKAIEESRISIIVLSKNYAS-------STWCLDELAKIVEC- 95 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~---d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~-------S~wc~~El~~~~~~- 95 (160)
.+++..|.+.+.+.|+.+-. ....+..|.-+. +.---.+.++-||.+|.+.+. +..-.++|..++..
T Consensus 98 ~eLA~~i~~~~~~~Gi~~~~~~~~~~~LDHGt~vP--L~fl~p~~~~pvV~is~~~l~~~~~~~~~~~~~~~lG~ai~~a 175 (294)
T cd07372 98 VELAEACCEEGRKAGLVTKMMRNPRFRVDYGTITT--LHMIRPQWDIPVVGISANNTPYYLNTKEGLGEMDVLGKATREA 175 (294)
T ss_pred HHHHHHHHHHHHHCCCCeeeccCCCCCCCchHHHH--HHHhCCCCCCcEEEEecCcccccccccCCHHHHHHHHHHHHHH
Confidence 38999999999999998863 223344554332 222122366778888876432 24555568787776
Q ss_pred -hhcCCccccEE
Q 047667 96 -KNRKDQILPIF 106 (160)
Q Consensus 96 -~~~~~~iiPI~ 106 (160)
+..+++|+.|-
T Consensus 176 l~~~~~RV~vIa 187 (294)
T cd07372 176 IRKTGRRAVLLA 187 (294)
T ss_pred HHhcCCeEEEEE
Confidence 55667766654
No 60
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=40.29 E-value=46 Score=26.61 Aligned_cols=30 Identities=30% Similarity=0.541 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHH-----hhcCCccccEEeecCch
Q 047667 83 TWCLDELAKIVEC-----KNRKDQILPIFYDVEPT 112 (160)
Q Consensus 83 ~wc~~El~~~~~~-----~~~~~~iiPI~~~~~p~ 112 (160)
.-|-+||...... ...+..++|||.-++|+
T Consensus 153 DICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 153 DICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred CcChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 4688999865543 34556777999998883
No 61
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=39.89 E-value=1.1e+02 Score=26.98 Aligned_cols=60 Identities=13% Similarity=0.224 Sum_probs=40.3
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
..+|+|..-+.+. ...+..+...|++.|+++-+|.+ +..+...+..|-..--..++|+.+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~----~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA----GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECh
Confidence 4688887654432 35788999999999999999875 344555666654433335555554
No 62
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=39.54 E-value=89 Score=27.75 Aligned_cols=61 Identities=16% Similarity=0.151 Sum_probs=42.0
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
..+|+|..-+... ...+..|...|++.|++|-+|.+ +..+...+..|-..--..++|+.++
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~----~~~l~kki~~A~~~g~~~~iiiG~~ 599 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDLR----NEKIGYKIREAQLQKVPYMLVVGDK 599 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEECC----CCCHhHHHHHhhccCCCEEEEEcch
Confidence 4688887755432 35789999999999999999875 3445556666654444466666653
No 63
>cd07370 HPCD The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate. 3,4-dihydroxyphenylacetate (homoprotocatechuate) 2,3-dioxygenase (HPCD) catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate (hpca), a central intermediate in the bacterial degradation of aromatic compounds. The enzyme incorporates both atoms of molecular oxygen into hpca, resulting in aromatic ring-opening to yield alpha-hydroxy-delta-carboxymethyl cis-muconic semialdehyde. HPCD is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon.
Probab=39.50 E-value=1.9e+02 Score=22.87 Aligned_cols=76 Identities=7% Similarity=0.150 Sum_probs=49.1
Q ss_pred hhHHHHHHHHHhcCCceEEee---CCCccCCCCchHHHHHHHH-hcceEEEEeecCCcCCHHHHHHHHHHHHH--hhcCC
Q 047667 27 KSFTGHLYAALKNKGIYVFRD---DKELEKGGSISPELLKAIE-ESRISIIVLSKNYASSTWCLDELAKIVEC--KNRKD 100 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d---~~dl~~G~~~~~~i~~~i~-~S~~~v~vlS~~~~~S~wc~~El~~~~~~--~~~~~ 100 (160)
.+++..|...+...|+.+-.. .+.+..|.-+. + .-+. +.++-||.+|-+...+.-...+|..++.. +..++
T Consensus 94 ~ela~~i~~~~~~~g~~~~~~~~~~~~lDhg~~vP--L-~~l~p~~~~pvV~is~~~~~~~~~~~~lG~al~~~~~~~~~ 170 (280)
T cd07370 94 PELAHLIAEEATEHGVKTLAHEDPSLPLEYGTLVP--M-RFMNEDDHFKVVSVAVWCTHDIEESRRLGEAIRRAIAASDR 170 (280)
T ss_pred HHHHHHHHHHHHHCCCCeeeecCCCCCCCeeHhhH--H-HHhCCCCCceEEEEeecCCCCHHHHHHHHHHHHHHHHhcCC
Confidence 378999999999999976532 22344443211 1 2232 24677888888765667777789988886 43556
Q ss_pred ccccE
Q 047667 101 QILPI 105 (160)
Q Consensus 101 ~iiPI 105 (160)
+|+.|
T Consensus 171 ~v~iI 175 (280)
T cd07370 171 RVALL 175 (280)
T ss_pred CEEEE
Confidence 66654
No 64
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=39.10 E-value=46 Score=26.06 Aligned_cols=78 Identities=15% Similarity=0.227 Sum_probs=48.0
Q ss_pred hhHHHHHHHHHhcCCceE-EeeCCCccCCCCchHHHHHHHHhcceEEEEeecCC----cCCHHHHHHHHHHHHH--hhcC
Q 047667 27 KSFTGHLYAALKNKGIYV-FRDDKELEKGGSISPELLKAIEESRISIIVLSKNY----ASSTWCLDELAKIVEC--KNRK 99 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v-~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~----~~S~wc~~El~~~~~~--~~~~ 99 (160)
.+++.+|.+.|.+.|+.+ ....+.+..|.-+ -+.-.-.+.++-|+-+|-+. ..+.--..+|..++.. +..+
T Consensus 96 ~~la~~i~~~l~~~g~~~~~~~~~~lDHG~~v--PL~~l~p~~~~Pvv~is~~~~~~p~~~~~~~~~lG~aL~~~~~~~~ 173 (272)
T PF02900_consen 96 PELAERIAEHLRKAGFDVAASPERGLDHGVWV--PLYFLFPDADIPVVPISINSFAPPSPSPERHYRLGRALRKARESSD 173 (272)
T ss_dssp HHHHHHHHHHHHHTTS-EEECSS--B-HHHHH--HHHHHCTT-SSEEEEEEEETSSS-TS-HHHHHHHHHHHHHHHHTSG
T ss_pred HHHHHHHHHHHHhcCCCEEeccCcCCccccce--eeeecccccCcceeeeEeecccccCCCHHHHHHHHHHHHHHHHhcC
Confidence 378999999999999986 4444455555322 12222224577777777776 6677777789999887 4445
Q ss_pred CccccEE
Q 047667 100 DQILPIF 106 (160)
Q Consensus 100 ~~iiPI~ 106 (160)
.+|+.|-
T Consensus 174 ~rv~vi~ 180 (272)
T PF02900_consen 174 ERVAVIA 180 (272)
T ss_dssp GCEEEEE
T ss_pred CCEEEEE
Confidence 6666664
No 65
>PRK05568 flavodoxin; Provisional
Probab=38.93 E-value=1.2e+02 Score=20.85 Aligned_cols=46 Identities=11% Similarity=0.100 Sum_probs=29.8
Q ss_pred hhHHHHHHHHHhcCCceEEeeC-CCccCCCCchHHHHHHHHhcceEEEEeecCCcCC
Q 047667 27 KSFTGHLYAALKNKGIYVFRDD-KELEKGGSISPELLKAIEESRISIIVLSKNYASS 82 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~-~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S 82 (160)
+..++.|.+.|+..|+.+-+.+ .+... ..+.+++ .|++-||.|...
T Consensus 16 ~~~a~~i~~~~~~~g~~v~~~~~~~~~~---------~~~~~~d-~iilgsp~y~~~ 62 (142)
T PRK05568 16 EAMANLIAEGAKENGAEVKLLNVSEASV---------DDVKGAD-VVALGSPAMGDE 62 (142)
T ss_pred HHHHHHHHHHHHHCCCeEEEEECCCCCH---------HHHHhCC-EEEEECCccCcc
Confidence 3678889999988888665432 22111 1356667 677788888654
No 66
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=38.24 E-value=2.1e+02 Score=22.91 Aligned_cols=78 Identities=10% Similarity=0.142 Sum_probs=48.3
Q ss_pred hhHHHHHHHHHhcCCceEEee-CCCccCCCCchHHHHHHHHhc--ceEEEEeecCCcC----CHHHHHHHHHHHHH--hh
Q 047667 27 KSFTGHLYAALKNKGIYVFRD-DKELEKGGSISPELLKAIEES--RISIIVLSKNYAS----STWCLDELAKIVEC--KN 97 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d-~~dl~~G~~~~~~i~~~i~~S--~~~v~vlS~~~~~----S~wc~~El~~~~~~--~~ 97 (160)
.+++.+|.+.|.+.|+.+... .+.+..|--+.=... ..+. .+-||-+|-|... +..-.++|..++.. +.
T Consensus 98 ~~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vPL~~l--~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~~ 175 (278)
T PRK13364 98 TELSWHIIESLVEEEFDITTCQEMLVDHAFTLPLELF--WPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRAIAS 175 (278)
T ss_pred HHHHHHHHHHHHHcCCCeecccCCCCCcchhhhHHHh--CcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHHHHh
Confidence 378999999999999988764 445666654432221 1122 2335555544443 67777899999887 32
Q ss_pred --cCCccccEE
Q 047667 98 --RKDQILPIF 106 (160)
Q Consensus 98 --~~~~iiPI~ 106 (160)
.+++|+.|-
T Consensus 176 ~~~d~rV~iIa 186 (278)
T PRK13364 176 WPSDERVVVIG 186 (278)
T ss_pred cCCCCCEEEEE
Confidence 346666553
No 67
>PF06856 DUF1251: Protein of unknown function (DUF1251); InterPro: IPR009661 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf17; it is a family of uncharacterised viral proteins.
Probab=35.14 E-value=36 Score=23.85 Aligned_cols=61 Identities=25% Similarity=0.393 Sum_probs=39.8
Q ss_pred CCCCCceeEEEecccCCCc--hhH-HHHHHHHHhcC-CceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCH
Q 047667 8 KVSHGKYDVFLSFRGEDTR--KSF-TGHLYAALKNK-GIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASST 83 (160)
Q Consensus 8 ~~~~~~ydVFISy~~~D~~--~~f-v~~L~~~L~~~-g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~ 83 (160)
...+-.||-|+++ .|+. -.| +..|....+.. |.+| .++.++|++..++=+.+-..++.+.
T Consensus 55 ~~~~i~FDGF~d~--~DE~~T~PFvv~~L~~l~~~~~~l~V--------------r~ma~ame~~tvLkifINEAi~~~~ 118 (120)
T PF06856_consen 55 KQRPIVFDGFPDE--DDEGKTVPFVVGPLNSLRENHAGLKV--------------RDMAKAMESQTVLKIFINEAIIPRR 118 (120)
T ss_pred CCCceEECCCCCc--cccccccccEeehhhhhhhhhcCccH--------------HHHHHHhcCCcEEEEEEeeeEcccc
Confidence 3456679999988 3322 345 44444433332 3333 4688999998888888888888776
Q ss_pred H
Q 047667 84 W 84 (160)
Q Consensus 84 w 84 (160)
|
T Consensus 119 ~ 119 (120)
T PF06856_consen 119 W 119 (120)
T ss_pred C
Confidence 6
No 68
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=34.76 E-value=1.5e+02 Score=26.10 Aligned_cols=61 Identities=13% Similarity=0.205 Sum_probs=40.8
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
.++|+|.--+++. ...+..|.+.|.+.|+++-+|.++ ..+...+..|-..---.++|+.++
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~~----~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTSN----ERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECCC----CCHHHHHHHHHhcCCCEEEEEech
Confidence 4688887654432 356889999999999999998853 345556666655433455666553
No 69
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=34.68 E-value=54 Score=26.02 Aligned_cols=43 Identities=16% Similarity=0.322 Sum_probs=27.0
Q ss_pred HHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHH--hcceEEEEee
Q 047667 30 TGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIE--ESRISIIVLS 76 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~--~S~~~v~vlS 76 (160)
+.+|.+.|.+.|+.+.... ..||+. +.|.++++ .++.-++|+|
T Consensus 23 a~~la~~L~~~G~~v~~~~---~VgD~~-~~I~~~l~~a~~r~D~vI~t 67 (255)
T COG1058 23 AAFLADELTELGVDLARIT---TVGDNP-DRIVEALREASERADVVITT 67 (255)
T ss_pred HHHHHHHHHhcCceEEEEE---ecCCCH-HHHHHHHHHHHhCCCEEEEC
Confidence 7789999999999998655 356554 34444433 2223445555
No 70
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=34.23 E-value=1.5e+02 Score=26.53 Aligned_cols=63 Identities=14% Similarity=0.192 Sum_probs=42.8
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
...+|+|..-+.+.....+..|...|++.|++|-+|.+ +..+...+..|-..--..++++.++
T Consensus 540 ap~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~~----~~sl~kq~k~A~k~g~~~~iiiG~~ 602 (639)
T PRK12444 540 APVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDER----DEKLGYKIREAQMQKIPYVLVIGDK 602 (639)
T ss_pred CCceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEEcch
Confidence 45788877655411236788999999999999999874 3455566666655444456666653
No 71
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=34.21 E-value=52 Score=27.03 Aligned_cols=31 Identities=32% Similarity=0.440 Sum_probs=26.6
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEEeeC
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDD 48 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~ 48 (160)
-=||| .+.|. .|...|+..|-++|++||.--
T Consensus 30 k~VlI--TGCDS--GfG~~LA~~L~~~Gf~V~Agc 60 (322)
T KOG1610|consen 30 KAVLI--TGCDS--GFGRLLAKKLDKKGFRVFAGC 60 (322)
T ss_pred cEEEE--ecCCc--HHHHHHHHHHHhcCCEEEEEe
Confidence 45888 47887 899999999999999998765
No 72
>PRK10628 LigB family dioxygenase; Provisional
Probab=34.18 E-value=1.7e+02 Score=23.08 Aligned_cols=75 Identities=12% Similarity=0.157 Sum_probs=53.9
Q ss_pred EecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH
Q 047667 18 LSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC 95 (160)
Q Consensus 18 ISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~ 95 (160)
|.|--... .+.+..+.+.|++.|+.+--..+.+..|.-. -+...--+.++-|+-+|=+.-.+.-...++..++..
T Consensus 62 ~~Ypa~G~-p~LA~~i~~ll~~~~~~~~~~~rGlDHG~Wv--pL~~m~P~adIPVvqlSl~~~~~~~~h~~lG~aL~~ 136 (246)
T PRK10628 62 THYPAPGS-PALAQRLVELLAPVPVTLDKEAWGFDHGSWG--VLIKMYPDADIPMVQLSIDSTKPAAWHFEMGRKLAA 136 (246)
T ss_pred ecCCCCCC-HHHHHHHHHHhhhcCcccCCcccCcccchhh--hhhhhCCCCCCCeEEeecCCCCCHHHHHHHHHHHHh
Confidence 77755543 3789999999999888322123777777543 233344478999999998887788788899999886
No 73
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=34.12 E-value=1.5e+02 Score=21.36 Aligned_cols=77 Identities=18% Similarity=0.272 Sum_probs=43.4
Q ss_pred hHHHHHHHHHhcCCceE-EeeCCCccCC--------CCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH---
Q 047667 28 SFTGHLYAALKNKGIYV-FRDDKELEKG--------GSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC--- 95 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v-~~d~~dl~~G--------~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~--- 95 (160)
..++.+.+.|++.|..+ .+|-.++... .+-.+.+.+.|.+++ .|++.||.|..|.-- -|..+++.
T Consensus 17 ~l~~~~~~~l~~~~~~~~~idl~~l~~~~~~~~~~~~~~~~~l~~~i~~AD-~iI~~sP~Y~~sip~--~LK~~iD~~~~ 93 (171)
T TIGR03567 17 ALLRHVREALQEQGVEVDHLSVRDLPAEDLLFARFDSPAIKAATAQVAQAD-GVVVATPVYKASYSG--VLKALLDLLPQ 93 (171)
T ss_pred HHHHHHHHHHHHCCCeEEEEEecCCChHHhhhcCCCCHHHHHHHHHHHHCC-EEEEECCcccCCCCH--HHHHHHHhCCh
Confidence 45677777787777643 3343343221 112356677788888 677889999887522 23333332
Q ss_pred -hhcCCccccEEe
Q 047667 96 -KNRKDQILPIFY 107 (160)
Q Consensus 96 -~~~~~~iiPI~~ 107 (160)
.-.++.+.++..
T Consensus 94 ~~l~~K~v~~~~~ 106 (171)
T TIGR03567 94 RALRGKVVLPIAT 106 (171)
T ss_pred hhhCCCEEEEEEc
Confidence 223455665543
No 74
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=33.88 E-value=1.3e+02 Score=19.49 Aligned_cols=66 Identities=17% Similarity=0.300 Sum_probs=42.0
Q ss_pred HHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHHhhcCCccccEEee
Q 047667 33 LYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVECKNRKDQILPIFYD 108 (160)
Q Consensus 33 L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~iiPI~~~ 108 (160)
+...++-.|+..+... ...+...+.+.+.+++.++.|++++.+.... ...++..... ....|++..
T Consensus 9 ~v~gFrLaGv~~~~~~---~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~~~~-----~~~~P~iv~ 74 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVN---TDPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDEYRE-----ESSLPLIVE 74 (95)
T ss_dssp HHHHHHHTTSEEEEES---HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHHHHH-----TSSSSEEEE
T ss_pred HHHHHHHcCCCCccCC---CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHHHHh-----ccCCceEEE
Confidence 4556677788888775 1233445566677778999999999988775 3444444432 235555554
No 75
>PRK09271 flavodoxin; Provisional
Probab=33.69 E-value=1.3e+02 Score=21.57 Aligned_cols=21 Identities=10% Similarity=-0.016 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHhcCCceEEee
Q 047667 27 KSFTGHLYAALKNKGIYVFRD 47 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d 47 (160)
+.++..|.+.|+..|+.+-+.
T Consensus 15 e~~A~~ia~~l~~~g~~v~~~ 35 (160)
T PRK09271 15 REVAREIEERCEEAGHEVDWV 35 (160)
T ss_pred HHHHHHHHHHHHhCCCeeEEE
Confidence 478999999999999877543
No 76
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=33.67 E-value=92 Score=26.09 Aligned_cols=51 Identities=16% Similarity=0.244 Sum_probs=37.0
Q ss_pred CCCchhHHHHHHHHHhcCCceEEeeCCCccC----CCCchHHHHHHHHhcceEEE
Q 047667 23 EDTRKSFTGHLYAALKNKGIYVFRDDKELEK----GGSISPELLKAIEESRISII 73 (160)
Q Consensus 23 ~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~----G~~~~~~i~~~i~~S~~~v~ 73 (160)
.|.|+.-+..|.+.|..+|..|..++--+.. +-.+.+++..+++.++.+|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 4667777888999999999988877643322 34456677888888886665
No 77
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=33.54 E-value=83 Score=25.77 Aligned_cols=59 Identities=19% Similarity=0.274 Sum_probs=40.8
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcC-CceEEeeCCCccCCCCchHHHHHHHHhcceEEEEe
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNK-GIYVFRDDKELEKGGSISPELLKAIEESRISIIVL 75 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~-g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vl 75 (160)
.+.|+|-=+.+++ .+.+.++++++ ++.|.+..-|+..|+...+.|.+.+.+-++.|+|=
T Consensus 73 G~nvvLIsRt~~K----L~~v~kEI~~~~~vev~~i~~Dft~~~~~ye~i~~~l~~~~VgILVN 132 (312)
T KOG1014|consen 73 GFNVVLISRTQEK----LEAVAKEIEEKYKVEVRIIAIDFTKGDEVYEKLLEKLAGLDVGILVN 132 (312)
T ss_pred CCEEEEEeCCHHH----HHHHHHHHHHHhCcEEEEEEEecCCCchhHHHHHHHhcCCceEEEEe
Confidence 4556665444432 66677777655 67777777778888777778888888888887774
No 78
>PF12163 HobA: DNA replication regulator; InterPro: IPR021011 This family of proteins is found exclusively in epsilon-proteobacteria. Proteins in this family are approximately 180 amino acids in length. The crystal structure of HobA from Helicobacter pylori has been reported at 1.7A resolution; HobA represents a modified Rossmann fold consisting of a five-stranded parallel beta-sheet (beta1-5) flanked on one side by alpha-2, alpha-3 and alpha-6 helices and alpha-4 and alpha-5 on the other. The alpha-1 helix is extended away from and has minimal interaction with the globular part of the protein. Four monomers interact to form a tetrameric molecule. Four calcium atoms bind to the tetramer and these binding sites may have functional relevance. The closest structural homologue of HobA is a sugar isomerase (SIS) domain containing protein, the phosphoheptose isomerase from Pseudomonas aeruginosa. The SIS proteins share strong sequence homology with DiaA from Escherichia coli; yet, HobA and DiaA share no sequence homology []. HobA is a novel protein essential for initiation of H. pylori chromosome replication. It interacts specifically via DnaA with the oriC-DnaA complex. It is possible that HobA is essential for the correct formation and stabilisation of the orisome by facilitating the spatial positioning of DnaA at oriC [].; PDB: 2UVP_D 2WP0_A.
Probab=33.16 E-value=32 Score=25.81 Aligned_cols=73 Identities=15% Similarity=0.409 Sum_probs=37.0
Q ss_pred hHHHHHHHHHhcCC-ceEEeeCCCccCCCCchHHHHHHHH---hcceEEEEeecCCcCCHHHHHHHHHHHHHhhcCCccc
Q 047667 28 SFTGHLYAALKNKG-IYVFRDDKELEKGGSISPELLKAIE---ESRISIIVLSKNYASSTWCLDELAKIVECKNRKDQIL 103 (160)
Q Consensus 28 ~fv~~L~~~L~~~g-~~v~~d~~dl~~G~~~~~~i~~~i~---~S~~~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~ii 103 (160)
.|..+..+.+++.| .-.|+.++.+ .|.+-+.++|+ + -.+++|++. -...|..+=+..-+......++++
T Consensus 3 df~~Wtl~~iR~~~~~~sWlEe~R~----eW~pl~a~~l~~il~-G~s~iliTD--~~R~WF~~Yil~~IN~~~~~RP~l 75 (180)
T PF12163_consen 3 DFLQWTLETIREDGSFMSWLEERRF----EWTPLIASALSHILN-GGSFILITD--EEREWFEEYILSNINNSHKNRPLL 75 (180)
T ss_dssp EHHHHHHHHHHHHHHHHHCCCCT-S----THHHHHHHHHHHHHT-T-EEEEEE---GGGHHHHHHHHHHHS-SSTTS---
T ss_pred hHHHHHHHHHHccCCCccHHHHHhh----hhHHHHHHHHHHHhC-CCeEEEEeC--chhHHHHHHHHHhcCcccCCCCcc
Confidence 56777777777664 3338887543 35554544443 3 345666665 356776653333333244667999
Q ss_pred cEEe
Q 047667 104 PIFY 107 (160)
Q Consensus 104 PI~~ 107 (160)
||+-
T Consensus 76 Pi~~ 79 (180)
T PF12163_consen 76 PIFS 79 (180)
T ss_dssp -EEE
T ss_pred eEEe
Confidence 9984
No 79
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=32.82 E-value=43 Score=24.05 Aligned_cols=49 Identities=18% Similarity=0.273 Sum_probs=34.5
Q ss_pred HHHHHHHHHhcCCceEEeeCCCcc-------CCCCchHHHHHHHHhcceEEEEeec
Q 047667 29 FTGHLYAALKNKGIYVFRDDKELE-------KGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 29 fv~~L~~~L~~~g~~v~~d~~dl~-------~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
.-..+...|.+.|++++..+++-. .|-...+...+.++++++++.+++.
T Consensus 12 mG~~~a~~L~~~g~~v~~~d~~~~~~~~~~~~g~~~~~s~~e~~~~~dvvi~~v~~ 67 (163)
T PF03446_consen 12 MGSAMARNLAKAGYEVTVYDRSPEKAEALAEAGAEVADSPAEAAEQADVVILCVPD 67 (163)
T ss_dssp HHHHHHHHHHHTTTEEEEEESSHHHHHHHHHTTEEEESSHHHHHHHBSEEEE-SSS
T ss_pred HHHHHHHHHHhcCCeEEeeccchhhhhhhHHhhhhhhhhhhhHhhcccceEeeccc
Confidence 456677888888998877665421 3444556678888999988888776
No 80
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=32.75 E-value=2.4e+02 Score=22.44 Aligned_cols=63 Identities=11% Similarity=0.082 Sum_probs=34.6
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
.|.+.|...+--...+..+...+++.|+.|-... .+.++..-.......|.+++.-++++.-.
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~-~~~~~~~d~~~~i~~l~~~~~d~v~~~~~ 208 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDI-SYPANARDLTSEVLKLKAANPDAILPASY 208 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEee-ccCCCCcchHHHHHHHHhcCCCEEEEccc
Confidence 3555554322123456777778888898876443 45555433344455566555555555443
No 81
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=31.91 E-value=1.5e+02 Score=21.01 Aligned_cols=28 Identities=32% Similarity=0.293 Sum_probs=16.1
Q ss_pred CCCCchHHHHHHHHhcceEEEEeecCCc
Q 047667 53 KGGSISPELLKAIEESRISIIVLSKNYA 80 (160)
Q Consensus 53 ~G~~~~~~i~~~i~~S~~~v~vlS~~~~ 80 (160)
.++.+.+.+.+.|.+++..|.+.++.|.
T Consensus 18 ~~~~~~~~i~~~I~~A~~~I~i~~~~~~ 45 (176)
T cd00138 18 GGRSDLDALLEAISNAKKSIYIASFYLS 45 (176)
T ss_pred CcchHHHHHHHHHHhhheEEEEEEeEec
Confidence 4455555666666666666666666443
No 82
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=31.57 E-value=25 Score=30.20 Aligned_cols=76 Identities=17% Similarity=0.244 Sum_probs=36.9
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC 95 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~ 95 (160)
+|+-|++++. +..-.+.|.+. +|.+|..|. +.-.+.++|.+|-=+- ..|..+|+...+..
T Consensus 128 AFVtf~~Ke~----Aq~Aik~lnn~---------Eir~GK~ig--vc~Svan~RLFiG~IP-----K~k~keeIlee~~k 187 (506)
T KOG0117|consen 128 AFVTFCTKEE----AQEAIKELNNY---------EIRPGKLLG--VCVSVANCRLFIGNIP-----KTKKKEEILEEMKK 187 (506)
T ss_pred EEEEeecHHH----HHHHHHHhhCc---------cccCCCEeE--EEEeeecceeEeccCC-----ccccHHHHHHHHHh
Confidence 7999999875 34444444332 333444431 1122234444443222 24777777777663
Q ss_pred hhcCCccccEEeecCchh
Q 047667 96 KNRKDQILPIFYDVEPTV 113 (160)
Q Consensus 96 ~~~~~~iiPI~~~~~p~~ 113 (160)
-.-.++..|+|. +|.+
T Consensus 188 -VteGVvdVivy~-~p~d 203 (506)
T KOG0117|consen 188 -VTEGVVDVIVYP-SPDD 203 (506)
T ss_pred -hCCCeeEEEEec-Cccc
Confidence 122344444443 3544
No 83
>PF01915 Glyco_hydro_3_C: Glycosyl hydrolase family 3 C-terminal domain; InterPro: IPR002772 Glycoside hydrolase family 3 GH3 from CAZY comprises enzymes with a number of known activities; beta-glucosidase (3.2.1.21 from EC); beta-xylosidase (3.2.1.37 from EC); N-acetyl beta-glucosaminidase (3.2.1.52 from EC); glucan beta-1,3-glucosidase (3.2.1.58 from EC); cellodextrinase(3.2.1.74 from EC); exo-1,3-1,4-glucanase (3.2.1 from EC). These enzymes are two-domain globular proteins that are N-glycosylated at three sites []. This domain is often C-terminal to the glycoside hydrolase family 3, N-terminal domain IPR001764 from INTERPRO.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3LK6_D 3NVD_B 3BMX_B 3ABZ_D 3AC0_D 2X40_A 2X41_A 2X42_A 1J8V_A 1IEX_A ....
Probab=30.93 E-value=2.3e+02 Score=21.29 Aligned_cols=84 Identities=15% Similarity=0.180 Sum_probs=51.5
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCC----------------cCCHHHHHHHHH
Q 047667 28 SFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNY----------------ASSTWCLDELAK 91 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~----------------~~S~wc~~El~~ 91 (160)
.+...|.+.+...++.+.......... ....+......+++.+|+++.+.+ +.-.++..|+..
T Consensus 47 t~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~aD~vIv~~~~~~~e~~~~~~~~~~~~~~~~l~~~q~~li~ 125 (227)
T PF01915_consen 47 TPLDALKQRFGNAGVVVPEGGDAVDDD-EGIDEAVAAAKEADVVIVFVGRPSGEGNDNNTEGESDRSDLALPANQQELIK 125 (227)
T ss_dssp HHHHHHHHHHHTTSEEEECCCCCCCCC-SCHHHHHHHHHCSSEEEEEEETTSBCCCSS-EETTGSCSSTBCCCHHHHHHH
T ss_pred cHHhhhccccCCCceEEeeeccccccc-cchHHHHHHhhcCCEEEEeccccccccccccccccCCcccccchhhHHHHHH
Confidence 566777777777777765433222223 334677888899999999988433 233467777776
Q ss_pred HHHHhhcCCccccEEeecCchhh
Q 047667 92 IVECKNRKDQILPIFYDVEPTVV 114 (160)
Q Consensus 92 ~~~~~~~~~~iiPI~~~~~p~~v 114 (160)
.+.. .+..+|-|+.-..|-++
T Consensus 126 ~v~~--~~~~~Ivvv~~~~P~~l 146 (227)
T PF01915_consen 126 AVAA--AGKKVIVVVNSGNPYDL 146 (227)
T ss_dssp HHHH--HHSCEEEEEE-SSGGCG
T ss_pred HHHH--hcCCeEEEEecCCcccc
Confidence 6653 22555555554456555
No 84
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=30.52 E-value=1.4e+02 Score=18.83 Aligned_cols=36 Identities=25% Similarity=0.183 Sum_probs=28.1
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeC
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDD 48 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~ 48 (160)
.+--|+|+|.-.+-. ..-.++...|.++|+.|+.-+
T Consensus 15 ~k~~v~i~HG~~eh~-~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEHS-GRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHHH-HHHHHHHHHHHhCCCEEEEEC
Confidence 467889998665542 456779999999999999865
No 85
>TIGR00334 5S_RNA_mat_M5 ribonuclease M5. This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.
Probab=30.51 E-value=1.2e+02 Score=22.66 Aligned_cols=50 Identities=16% Similarity=0.237 Sum_probs=37.3
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCc
Q 047667 27 KSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYA 80 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~ 80 (160)
......|..+.+.+|+-+|.|.. .+|+.|+..|.+.+-++... .++..+.
T Consensus 35 ~~~i~~i~~~~~~rgVIIfTDpD--~~GekIRk~i~~~vp~~kha--fi~~~~a 84 (174)
T TIGR00334 35 DETINLIKKAQKKQGVIILTDPD--FPGEKIRKKIEQHLPGYENC--FIPKHLA 84 (174)
T ss_pred HHHHHHHHHHhhcCCEEEEeCCC--CchHHHHHHHHHHCCCCeEE--eeeHHhc
Confidence 35577788888899999999984 48999988888888766643 3444443
No 86
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=30.18 E-value=1.4e+02 Score=25.75 Aligned_cols=63 Identities=16% Similarity=0.125 Sum_probs=40.9
Q ss_pred CceeEEEecc--cC---CCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecC
Q 047667 12 GKYDVFLSFR--GE---DTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 12 ~~ydVFISy~--~~---D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
..++|+|--- .. +.....+..|...|++.|+++.+|.++-.+| ..+..+-..---.++++.++
T Consensus 281 aP~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~g----kk~k~Ae~~GvP~~IiIG~~ 348 (472)
T TIGR00408 281 APIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPG----RKFYQWEIKGIPLRIEVGPN 348 (472)
T ss_pred CcceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHH----HHHHHHHHCCCCEEEEECcc
Confidence 3488888742 22 1124568899999999999999998754444 44555444333366666665
No 87
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=30.14 E-value=3e+02 Score=22.36 Aligned_cols=71 Identities=15% Similarity=0.100 Sum_probs=42.9
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHH
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCL 86 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~ 86 (160)
-|+|-|....=.+.+.+.+.+.|+..|..+-. .....|++.-...+...|..+..-++++...+....-..
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~-~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~ 220 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVV-EEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFL 220 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEE-EEeeCCCCCChHHHHHHHHhcCCCEEEECCCCccchHHH
Confidence 45555544333356788888888889887433 335666664455666667666666666665555444333
No 88
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=29.76 E-value=1.9e+02 Score=21.38 Aligned_cols=68 Identities=28% Similarity=0.315 Sum_probs=41.0
Q ss_pred HHhcCCceEEeeCCC--cc-CC-CCchHHHHHHHHhcce-----EEEEeecCCcCCHHHHHHHHHHHHHhhcCCccccEE
Q 047667 36 ALKNKGIYVFRDDKE--LE-KG-GSISPELLKAIEESRI-----SIIVLSKNYASSTWCLDELAKIVECKNRKDQILPIF 106 (160)
Q Consensus 36 ~L~~~g~~v~~d~~d--l~-~G-~~~~~~i~~~i~~S~~-----~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~iiPI~ 106 (160)
.|.+.||+..+-+.| +. |. +.+.+++.+.+++++. -|+|+|.+--.+.-...+-...++. ..+ |||+
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~-~lg---Ipvl 110 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEK-ALG---IPVL 110 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHH-hhC---CcEE
Confidence 488899987774433 32 33 5566788888887774 3899998865554322333333332 122 8877
Q ss_pred e
Q 047667 107 Y 107 (160)
Q Consensus 107 ~ 107 (160)
.
T Consensus 111 ~ 111 (168)
T PF09419_consen 111 R 111 (168)
T ss_pred E
Confidence 4
No 89
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=29.52 E-value=1.9e+02 Score=20.46 Aligned_cols=35 Identities=23% Similarity=0.315 Sum_probs=25.8
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCC
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGG 55 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~ 55 (160)
||+|+|-.+ .-...+....++.|..+-+.. +..|+
T Consensus 3 vFvS~SMP~---~~Lk~l~~~a~~~g~~~VlRG--~~~~~ 37 (130)
T TIGR02742 3 VFVSFSMPE---PLLKQLLDQAEALGAPLVIRG--LLDNG 37 (130)
T ss_pred EEEEcCCCH---HHHHHHHHHHHHhCCeEEEeC--CCCCC
Confidence 799999877 347778888888888776654 55553
No 90
>PF09673 TrbC_Ftype: Type-F conjugative transfer system pilin assembly protein; InterPro: IPR019106 This entry represents TrbC, a protein that is an essential component of the F-type conjugative pilus assembly system (aka type 4 secretion system) for the transfer of plasmid DNA [, ]. The N-terminal portion of these proteins is heterogeneous.
Probab=29.49 E-value=1.9e+02 Score=19.70 Aligned_cols=71 Identities=17% Similarity=0.298 Sum_probs=41.7
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHH---HHHHHHhcceE-EEEeecCCcCCHHHHHHHHH
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPE---LLKAIEESRIS-IIVLSKNYASSTWCLDELAK 91 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~---i~~~i~~S~~~-v~vlS~~~~~S~wc~~El~~ 91 (160)
+|+|+|-.+. -...+....++.|..+-+.. +.+| .+.+. +.+-+.+.... =+.+.|.-.
T Consensus 2 iFvS~SMP~~---~L~~l~~~a~~~~~~~V~RG--~~~g-~~~~t~~~~~~l~~~~~~~~~v~IdP~~F----------- 64 (113)
T PF09673_consen 2 IFVSFSMPDA---SLRNLLKQAERAGVVVVFRG--FPDG-SFKPTAKAIQELLRKDDPCPGVQIDPRLF----------- 64 (113)
T ss_pred EEEECCCCHH---HHHHHHHHHHhCCcEEEEEC--CCCC-CHHHHHHHHHHHhhccCCCcceeEChhHH-----------
Confidence 7999998773 36667777777787776655 6666 55442 23333333322 344444321
Q ss_pred HHHHhhcCCccccEEe
Q 047667 92 IVECKNRKDQILPIFY 107 (160)
Q Consensus 92 ~~~~~~~~~~iiPI~~ 107 (160)
++.+-..+|.+.
T Consensus 65 ----~~y~I~~VPa~V 76 (113)
T PF09673_consen 65 ----RQYNITAVPAFV 76 (113)
T ss_pred ----hhCCceEcCEEE
Confidence 225667788776
No 91
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=29.46 E-value=2.1e+02 Score=23.44 Aligned_cols=45 Identities=16% Similarity=0.081 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEe
Q 047667 30 TGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVL 75 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vl 75 (160)
...|.+.|+..|+.+-.... ...++.-...+.+.++++.++|+++
T Consensus 157 ~~~l~~~~~~~gi~v~~~~~-~~~~~~d~~~~l~~ik~~~rvii~~ 201 (387)
T cd06386 157 LEGVHHVFQEEGYHMSIYPF-DETKDLDLDEIIRAIQASERVVIMC 201 (387)
T ss_pred HHHHHHHHHhcCceEEEEec-CCCCcccHHHHHHHHHhcCcEEEEe
Confidence 66788888888887765432 2233333345555555444444433
No 92
>KOG0409 consensus Predicted dehydrogenase [General function prediction only]
Probab=29.22 E-value=1.9e+02 Score=23.75 Aligned_cols=61 Identities=15% Similarity=0.218 Sum_probs=44.0
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCcc-------CCCCchHHHHHHHHhcceEEEEeecC
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELE-------KGGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~-------~G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
.+-=-||.-. ..-..+...|-+.|++|...++++. .|....+.-.+-.+.|++++.+++..
T Consensus 35 ~~~iGFIGLG------~MG~~M~~nLik~G~kVtV~dr~~~k~~~f~~~Ga~v~~sPaeVae~sDvvitmv~~~ 102 (327)
T KOG0409|consen 35 KTRIGFIGLG------NMGSAMVSNLIKAGYKVTVYDRTKDKCKEFQEAGARVANSPAEVAEDSDVVITMVPNP 102 (327)
T ss_pred cceeeEEeec------cchHHHHHHHHHcCCEEEEEeCcHHHHHHHHHhchhhhCCHHHHHhhcCEEEEEcCCh
Confidence 3444477542 2355577777888999999887765 36666677778889999999998854
No 93
>PRK07933 thymidylate kinase; Validated
Probab=29.13 E-value=1.9e+02 Score=21.76 Aligned_cols=31 Identities=29% Similarity=0.387 Sum_probs=23.4
Q ss_pred EEecccCCCc--hhHHHHHHHHHhcCCceEEee
Q 047667 17 FLSFRGEDTR--KSFTGHLYAALKNKGIYVFRD 47 (160)
Q Consensus 17 FISy~~~D~~--~~fv~~L~~~L~~~g~~v~~d 47 (160)
||.+-+-|.. ...+..|.+.|+.+|++|.+-
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~ 34 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVATL 34 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 6777776643 356888999999999888754
No 94
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=28.97 E-value=2.9e+02 Score=21.77 Aligned_cols=78 Identities=13% Similarity=0.174 Sum_probs=51.8
Q ss_pred hhHHHHHHHHHhcCCceEEeeC-CCccCCCCchHHHHHHHHhcceEEEEeecCCcC----CHHHHHHHHHHHHH--hh--
Q 047667 27 KSFTGHLYAALKNKGIYVFRDD-KELEKGGSISPELLKAIEESRISIIVLSKNYAS----STWCLDELAKIVEC--KN-- 97 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d~-~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~----S~wc~~El~~~~~~--~~-- 97 (160)
.+++.+|.+.|.+.|+.+-.+. +.+..|.-+.=.... ...++-||-+|-+... +..-..+|..++.. +.
T Consensus 90 ~~LA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~--p~~~iPvV~isin~~~~p~~~~~~~~~lG~al~~~i~~~~ 167 (268)
T cd07367 90 REFARAFVRQAAEDGFDLAQAEELRPDHGVMVPLLFMG--PKLDIPVVPLIVNINTDPAPSPRRCWALGKVLAQYVEKRR 167 (268)
T ss_pred HHHHHHHHHHHHHcCCCeeeecCccCCcchhchHHHhC--CCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 3789999999999999776553 445566544322222 2356667777765443 46777899999987 44
Q ss_pred -cCCccccEE
Q 047667 98 -RKDQILPIF 106 (160)
Q Consensus 98 -~~~~iiPI~ 106 (160)
.+++|+.|-
T Consensus 168 ~~d~rV~iia 177 (268)
T cd07367 168 PAGERVAVIA 177 (268)
T ss_pred CCCCcEEEEE
Confidence 567776553
No 95
>PRK02551 flavoprotein NrdI; Provisional
Probab=28.86 E-value=2.3e+02 Score=20.60 Aligned_cols=119 Identities=13% Similarity=0.205 Sum_probs=60.3
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcC--CceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCC-cCC--------H
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNK--GIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNY-ASS--------T 83 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~--g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~-~~S--------~ 83 (160)
=+|+|-++.- +.||+.|...++++ +..... +...+.+.++-.. + ...-..+++.|.| -.. +
T Consensus 6 I~Y~S~TGNt--~rFv~kL~~~~~~~~~~~~~~~----i~~~~~i~~~~~~-~-~~~~p~vli~pTY~~gG~~~~~~~~~ 77 (154)
T PRK02551 6 LVYISLSGNT--RSFVKRLSDYLATQHKDIEVNP----INIKDLIHETTDF-F-PETEPFVAFLPTYLEGGNGIDNGDVE 77 (154)
T ss_pred EEEEeCChhH--HHHHHHHhcHHhhcccccccee----cccccccCccccc-c-ccCCCEEEEEeeecCCCCCcccCccc
Confidence 3577765543 37999988766542 333211 1111111110000 1 1233556677777 333 5
Q ss_pred HHHHHHHHHHHHhhcCCccccEEeecCchhhhcccchhHHHHHHHHHhccC--------------ChHHHHHHHHHHHHh
Q 047667 84 WCLDELAKIVECKNRKDQILPIFYDVEPTVVRKQTASFGEAFAKHEEAFRN--------------NVEKVQTWRDALKTV 149 (160)
Q Consensus 84 wc~~El~~~~~~~~~~~~iiPI~~~~~p~~v~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~W~~al~~i 149 (160)
|....+...+......+.+.-|+- .-+..||+.|....+.++. +++++++.++.|.+.
T Consensus 78 ~vp~~v~dFL~~~~N~~~~~gVig--------sGNrNfg~~F~~aa~~ia~~~~vP~L~~fEl~GT~~Dv~~v~~~~~~~ 149 (154)
T PRK02551 78 ILTTPLGDFIAYHDNAKRCLGIIG--------SGNRNFNNQYCLTAKQYAKRFGFPMLADFELRGTPSDIERIAAIIAEL 149 (154)
T ss_pred cchHHHHHHHcchhhhhheEEEEe--------ecccHHHHHHHHHHHHHHHHcCCCEEEEeeccCCHHHHHHHHHHHHHH
Confidence 667777776643223455566652 2244677777765555432 356666666666544
No 96
>PF02230 Abhydrolase_2: Phospholipase/Carboxylesterase; InterPro: IPR003140 This entry represents the alpha/beta hydrolase domain found in phospholipases [], carboxylesterases [] and thioesterases.; GO: 0016787 hydrolase activity; PDB: 3U0V_A 1AUR_A 1AUO_B 1FJ2_B 3CN9_A 3CN7_A.
Probab=28.59 E-value=1.7e+02 Score=21.76 Aligned_cols=50 Identities=26% Similarity=0.266 Sum_probs=30.1
Q ss_pred ceeEEEecccCCCc--hhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHH
Q 047667 13 KYDVFLSFRGEDTR--KSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLK 63 (160)
Q Consensus 13 ~ydVFISy~~~D~~--~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~ 63 (160)
.-.||++|...|.- ...+....+.|++.|.++-+.... ..|..+..+..+
T Consensus 155 ~~pi~~~hG~~D~vvp~~~~~~~~~~L~~~~~~v~~~~~~-g~gH~i~~~~~~ 206 (216)
T PF02230_consen 155 KTPILIIHGDEDPVVPFEWAEKTAEFLKAAGANVEFHEYP-GGGHEISPEELR 206 (216)
T ss_dssp TS-EEEEEETT-SSSTHHHHHHHHHHHHCTT-GEEEEEET-T-SSS--HHHHH
T ss_pred CCcEEEEecCCCCcccHHHHHHHHHHHHhcCCCEEEEEcC-CCCCCCCHHHHH
Confidence 45699999999864 345888999999999866655422 145555444333
No 97
>cd07366 3MGA_Dioxygenase Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate. 3-O-Methylgallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate (3MGA) between carbons 2 and 3. 3-O-Methylgallate Dioxygenase is a key enzyme in the syringate degradation pathway, in which the syringate is first converted to 3-O-Methylgallate by O-demethylase. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which uses a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=28.51 E-value=3.3e+02 Score=22.35 Aligned_cols=77 Identities=14% Similarity=0.094 Sum_probs=48.5
Q ss_pred hHHHHHHHHHhcCCceEEeeCC-----CccCCCCchHHHHHHHHhcceEEEEeecCCc-----CCHHHHHHHHHHHHH--
Q 047667 28 SFTGHLYAALKNKGIYVFRDDK-----ELEKGGSISPELLKAIEESRISIIVLSKNYA-----SSTWCLDELAKIVEC-- 95 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~~-----dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~-----~S~wc~~El~~~~~~-- 95 (160)
+++.+|.+.|.+.|+.+....+ .+..|--+ -......+.++-||-+|-+.. -+....++|..++..
T Consensus 152 eLA~~I~~~l~~~G~dv~~~~~~~~~~~lDHG~~~--~l~~~~p~~~iPVVpisin~~~~p~~ps~~r~y~lG~aL~~ai 229 (328)
T cd07366 152 ELARHLIKHTVADGFDVAALDHLPDTVGIPHAFGF--IYRRIMGDLVIPVVPVLINTFYPPNQPSARRCFEFGRAVARAI 229 (328)
T ss_pred HHHHHHHHHHHHcCCCeeeecccCcccCCCcchhh--HHHHhcCCCCCcEEEEeecCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 7899999999999998875321 23344222 122233345777888876652 356677789998887
Q ss_pred hh--cCCccccEE
Q 047667 96 KN--RKDQILPIF 106 (160)
Q Consensus 96 ~~--~~~~iiPI~ 106 (160)
+. .+.+|+.|-
T Consensus 230 ~~~~~d~rV~IIa 242 (328)
T cd07366 230 RSWPGDARVGVIA 242 (328)
T ss_pred HhcCCCCCEEEEE
Confidence 32 245666543
No 98
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=28.28 E-value=2.4e+02 Score=20.70 Aligned_cols=55 Identities=22% Similarity=0.278 Sum_probs=34.4
Q ss_pred hHHHHHHHHHhcCC-ceEEeeCCCcc-CC-----CCc---hHHHHHHHHhcceEEEEeecCCcCCH
Q 047667 28 SFTGHLYAALKNKG-IYVFRDDKELE-KG-----GSI---SPELLKAIEESRISIIVLSKNYASST 83 (160)
Q Consensus 28 ~fv~~L~~~L~~~g-~~v~~d~~dl~-~G-----~~~---~~~i~~~i~~S~~~v~vlS~~~~~S~ 83 (160)
.++..+.+.|+..+ +.+..+..++. .. +.. ...+.+.|..++ .+++.||.|..|.
T Consensus 18 ~la~~~~~~l~~~~~~~~~~~~~~lP~~~~d~~~~~~p~~v~~~~~~i~~aD-~li~~tPeYn~s~ 82 (184)
T COG0431 18 ALAEAAAKLLPAGGEVEVEFDDLDLPLYNEDLEADGLPPAVQALREAIAAAD-GLIIATPEYNGSY 82 (184)
T ss_pred HHHHHHHHhhcccCceEEEecccccCCCCcchhhccCCHHHHHHHHHHHhCC-EEEEECCccCCCC
Confidence 56777888888876 44444332221 11 122 245667788888 6778899998875
No 99
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=27.99 E-value=2.1e+02 Score=24.96 Aligned_cols=49 Identities=24% Similarity=0.304 Sum_probs=26.7
Q ss_pred CCCCCCCCCCCCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhc
Q 047667 1 MASTSIQKVSHGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEES 68 (160)
Q Consensus 1 m~s~ss~~~~~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S 68 (160)
|||+.++++..+ ..-++.|.+.|++.|++..+-- ||..+. .+.+++.++
T Consensus 1 ~~~~~~~~~~~~--------------~~~~~~l~~~L~~~GV~~vFgv----pG~~~~-~l~dal~~~ 49 (564)
T PRK08155 1 MASSGTTSTRKR--------------FTGAELIVRLLERQGIRIVTGI----PGGAIL-PLYDALSQS 49 (564)
T ss_pred CCCCCCCccCCc--------------ccHHHHHHHHHHHcCCCEEEeC----CCcccH-HHHHHHhcc
Confidence 777766555333 0236667777777776555543 555543 244455433
No 100
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=27.93 E-value=42 Score=21.05 Aligned_cols=31 Identities=16% Similarity=0.295 Sum_probs=18.4
Q ss_pred HHHhc--CCceEEeeCCCccCCCCchHHHHHHHHh
Q 047667 35 AALKN--KGIYVFRDDKELEKGGSISPELLKAIEE 67 (160)
Q Consensus 35 ~~L~~--~g~~v~~d~~dl~~G~~~~~~i~~~i~~ 67 (160)
..+.. +.+-+|+|... +|......+.+.+..
T Consensus 40 ~~~~~~~~~Vii~~D~D~--~G~~~a~~i~~~l~~ 72 (81)
T PF13662_consen 40 EKLEKKVKEVIIAFDNDK--AGEKAAQKIAKKLLP 72 (81)
T ss_dssp HHHH---SEEEEEEESSH--HHHHHHHHHHHHHG-
T ss_pred HhhhccCceEEEEeCcCH--HHHHHHHHHHHHHHh
Confidence 44444 56777777743 777666666665543
No 101
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=27.81 E-value=1.2e+02 Score=17.59 Aligned_cols=33 Identities=24% Similarity=0.319 Sum_probs=23.5
Q ss_pred CCceeEEEecccCCCchhHHHHHHHHHhcCCceEE
Q 047667 11 HGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 11 ~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~ 45 (160)
...+.+++.....+. .=...+...|++.|+.++
T Consensus 40 ~~~~~~~i~v~~~~~--~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 40 LGEVEVELTLETRGA--EHIEEIIAALREAGYDVR 72 (73)
T ss_pred CceEEEEEEEEeCCH--HHHHHHHHHHHHcCCEEe
Confidence 345667777765553 236789999999999875
No 102
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=27.61 E-value=58 Score=21.59 Aligned_cols=17 Identities=35% Similarity=0.620 Sum_probs=13.8
Q ss_pred CChHHHHHHHHHHHHhh
Q 047667 134 NNVEKVQTWRDALKTVA 150 (160)
Q Consensus 134 ~~~~~~~~W~~al~~i~ 150 (160)
++++..+.|..||..|.
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 34788999999998874
No 103
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=27.41 E-value=3.1e+02 Score=23.79 Aligned_cols=88 Identities=16% Similarity=0.227 Sum_probs=53.5
Q ss_pred HHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH-hhcCCccccEEe-
Q 047667 30 TGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC-KNRKDQILPIFY- 107 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~-~~~~~~iiPI~~- 107 (160)
+..|.+.|.+.|+.+++.. |+.. +.+.+-+++.....|+....|. .| ..+-..+++. ......+.-.|.
T Consensus 57 L~~L~~~L~~~gi~L~v~~-----~~~~-~~l~~~~~~~~~~~v~~n~~~~--~~-~~~rD~al~~~l~~~gi~~~~~~d 127 (461)
T COG0415 57 LQALQQSLAELGIPLLVRE-----GDPE-QVLPELAKQLAATTVFWNRDYE--EW-ERQRDAALAQPLTEVGIAVHSFWD 127 (461)
T ss_pred HHHHHHHHHHcCCceEEEe-----CCHH-HHHHHHHHHhCcceEEeeeeec--hh-HHHHHHHHHHHHHhcCceEEEecc
Confidence 4458889999999999876 4432 4566777777777788888883 22 3334444443 222223333343
Q ss_pred --ecCchhhhcccchhHHHHH
Q 047667 108 --DVEPTVVRKQTASFGEAFA 126 (160)
Q Consensus 108 --~~~p~~v~~~~~~~~~~~~ 126 (160)
-..|.+++...|..-+.|.
T Consensus 128 ~~l~~p~~~~t~~~~~y~vfT 148 (461)
T COG0415 128 ALLHEPGEVRTGSGEPYKVFT 148 (461)
T ss_pred ccccCHhhccCCCCCCccccc
Confidence 2578888887775544443
No 104
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=27.18 E-value=2e+02 Score=19.58 Aligned_cols=11 Identities=0% Similarity=0.431 Sum_probs=4.5
Q ss_pred ceEEEEeecCC
Q 047667 69 RISIIVLSKNY 79 (160)
Q Consensus 69 ~~~v~vlS~~~ 79 (160)
.+.+++-+..|
T Consensus 91 g~~~ViGTTG~ 101 (124)
T PF01113_consen 91 GVPLVIGTTGF 101 (124)
T ss_dssp T-EEEEE-SSS
T ss_pred CCCEEEECCCC
Confidence 55555545443
No 105
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=27.08 E-value=1.7e+02 Score=24.17 Aligned_cols=61 Identities=25% Similarity=0.444 Sum_probs=38.2
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHh-cceEEEEeecCCcCC
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEE-SRISIIVLSKNYASS 82 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~-S~~~v~vlS~~~~~S 82 (160)
.||+-|.|..+ +|...|.++-= +||.++++. .|..+.+.....+.. .|+.++=.=..|-+.
T Consensus 196 GfD~~idyk~~----d~~~~L~~a~P-~GIDvyfeN----VGg~v~DAv~~~ln~~aRi~~CG~IS~YN~~ 257 (340)
T COG2130 196 GFDAGIDYKAE----DFAQALKEACP-KGIDVYFEN----VGGEVLDAVLPLLNLFARIPVCGAISQYNAP 257 (340)
T ss_pred CCceeeecCcc----cHHHHHHHHCC-CCeEEEEEc----CCchHHHHHHHhhccccceeeeeehhhcCCC
Confidence 58999999654 34554444322 699999998 577777777766664 444444343445443
No 106
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=26.02 E-value=1.3e+02 Score=21.88 Aligned_cols=21 Identities=29% Similarity=0.469 Sum_probs=14.8
Q ss_pred hHHHHHHHHHhcCCceEEeeC
Q 047667 28 SFTGHLYAALKNKGIYVFRDD 48 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~ 48 (160)
.|...|..+|++.||-|--+.
T Consensus 64 ~Fg~aL~~aLR~~GYaV~e~~ 84 (151)
T PRK13883 64 AFGQALVKALRDKGYALLEYN 84 (151)
T ss_pred HHHHHHHHHHHHcCeEEEecC
Confidence 677777777777777776544
No 107
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=25.87 E-value=2.5e+02 Score=22.49 Aligned_cols=68 Identities=25% Similarity=0.295 Sum_probs=41.8
Q ss_pred HHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEee-----------------cCCcCCHHHHHHHHHHHHH
Q 047667 33 LYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLS-----------------KNYASSTWCLDELAKIVEC 95 (160)
Q Consensus 33 L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS-----------------~~~~~S~wc~~El~~~~~~ 95 (160)
+.-.|..+|+++.=-. +.|+..+.+++.+ +...+++-+.++ .+|++-.-|..|+..|-+.
T Consensus 159 lS~YLA~~G~KvAN~P--Lvpe~~lP~~L~~-~~~~kivGLtIdp~rL~~IR~~Rl~~lg~s~Ya~~~~i~~El~~A~~l 235 (269)
T PRK05339 159 TSLYLANKGIKAANYP--LVPEVPLPEELFP-IDPKKIFGLTIDPERLIEIRKERLPNLGLSRYASLEQCREELAEAERL 235 (269)
T ss_pred HHHHHHccCCceEeeC--CCCCCCCCHHHHh-CCCCcEEEEeCCHHHHHHHHHHHhcccCcCcCCCHHHHHHHHHHHHHH
Confidence 4444555788775443 6666666655543 333444444444 4588888999999988776
Q ss_pred -hhcCCccc
Q 047667 96 -KNRKDQIL 103 (160)
Q Consensus 96 -~~~~~~ii 103 (160)
++.+.++|
T Consensus 236 ~~k~~~pvI 244 (269)
T PRK05339 236 FRREGIPVI 244 (269)
T ss_pred HHHcCCCEE
Confidence 54454444
No 108
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=25.40 E-value=1.5e+02 Score=24.97 Aligned_cols=45 Identities=24% Similarity=0.352 Sum_probs=33.5
Q ss_pred HHHHHHHHhcc-eEEEEeecCCc-CCHHHHHHHHHHHHH-hhcCCccc
Q 047667 59 PELLKAIEESR-ISIIVLSKNYA-SSTWCLDELAKIVEC-KNRKDQIL 103 (160)
Q Consensus 59 ~~i~~~i~~S~-~~v~vlS~~~~-~S~wc~~El~~~~~~-~~~~~~ii 103 (160)
+.+.+++...+ .+.++++|+=. ++-|..+||..+.+. .+.+-+||
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VI 195 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVI 195 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEE
Confidence 57888888887 67788888644 567999999998876 54454444
No 109
>PLN02908 threonyl-tRNA synthetase
Probab=25.26 E-value=2.1e+02 Score=25.99 Aligned_cols=60 Identities=18% Similarity=0.211 Sum_probs=40.9
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
..+|+|..-+.+. ...+..+.+.|++.|++|-+|.. +..+...+..|-..--..++|+.+
T Consensus 589 p~qv~Vipv~~~~-~~~A~~va~~LR~~Gi~vevd~~----~~~l~kkir~A~~~g~~~viivG~ 648 (686)
T PLN02908 589 PRQAIVVPISEKS-QDYAEEVRAQLHAAGFYVDVDVT----DRKIQKKVREAQLAQYNYILVVGE 648 (686)
T ss_pred CceEEEEEECHHH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEECc
Confidence 3578777655432 35788999999999999998863 455666676665443345555554
No 110
>PF07283 TrbH: Conjugal transfer protein TrbH; InterPro: IPR010837 This entry represents TrbH, a bacterial conjugal transfer protein approximately 150 residues long. TrbH contains a putative membrane lipoprotein lipid attachment site [].
Probab=25.25 E-value=1.4e+02 Score=20.90 Aligned_cols=21 Identities=43% Similarity=0.563 Sum_probs=19.2
Q ss_pred hHHHHHHHHHhcCCceEEeeC
Q 047667 28 SFTGHLYAALKNKGIYVFRDD 48 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~ 48 (160)
.|...|.+.|+.+||-|--+.
T Consensus 36 ~Fg~aL~~~LR~~GYaV~e~~ 56 (121)
T PF07283_consen 36 PFGQALENALRAKGYAVIEDD 56 (121)
T ss_pred hHHHHHHHHHHhcCcEEEecC
Confidence 799999999999999998766
No 111
>cd08584 PI-PLCc_GDPD_SF_unchar2 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=25.24 E-value=2.2e+02 Score=21.55 Aligned_cols=46 Identities=15% Similarity=0.157 Sum_probs=33.0
Q ss_pred ceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHH
Q 047667 42 IYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAK 91 (160)
Q Consensus 42 ~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~ 91 (160)
--||+|.-. +..+..++...+.+..+-|+++||.-.+.. ...+.+.
T Consensus 125 ~~VW~D~f~---~~~~~~~~~~~~~~~~~~~c~VSpELh~~~-~~~~~~~ 170 (192)
T cd08584 125 DWVWIDSFT---SLWLDNDLILKLLKAGKKICLVSPELHGRD-HLAEWEA 170 (192)
T ss_pred cEEEEeccc---ccCCCHHHHHHHHHCCcEEEEECHHHcCCC-hHHHHHH
Confidence 348999843 466777888888888999999999855533 4444443
No 112
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=25.11 E-value=3.3e+02 Score=21.17 Aligned_cols=54 Identities=17% Similarity=0.143 Sum_probs=30.3
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcce
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRI 70 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~ 70 (160)
|.+-|...+-....+..+...|++.|+++-... .+.+|..-...+...|.++..
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~d~~~~l~~i~~~~~ 191 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVARE-GTTDGATDFSAILTKIKAANP 191 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEe-cCCCCCccHHHHHHHHHhcCC
Confidence 445454433223567778888888898876544 455553323344455555433
No 113
>PLN02924 thymidylate kinase
Probab=24.88 E-value=2.6e+02 Score=21.34 Aligned_cols=30 Identities=20% Similarity=0.278 Sum_probs=23.7
Q ss_pred EEEecccCCCc--hhHHHHHHHHHhcCCceEE
Q 047667 16 VFLSFRGEDTR--KSFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 16 VFISy~~~D~~--~~fv~~L~~~L~~~g~~v~ 45 (160)
.||.+-+-|.. ...+..|.+.|+.+|+.+-
T Consensus 17 ~~IviEGiDGsGKsTq~~~L~~~l~~~g~~v~ 48 (220)
T PLN02924 17 ALIVLEGLDRSGKSTQCAKLVSFLKGLGVAAE 48 (220)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHhcCCCce
Confidence 58888887753 3568889999999998864
No 114
>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.62 E-value=3e+02 Score=20.42 Aligned_cols=68 Identities=21% Similarity=0.314 Sum_probs=39.1
Q ss_pred HHHHHHHHhc-ceEEEEeecCCcCCHHHHHHHHHHHHHhhcCCccccEEe--ecCchhhhcccchhHHHHHH
Q 047667 59 PELLKAIEES-RISIIVLSKNYASSTWCLDELAKIVECKNRKDQILPIFY--DVEPTVVRKQTASFGEAFAK 127 (160)
Q Consensus 59 ~~i~~~i~~S-~~~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~iiPI~~--~~~p~~v~~~~~~~~~~~~~ 127 (160)
..|.+.--.| ..+|++..-..-.|--|+-|+..-++. -.+.+|+-|+. +++..+-|+.....|+.|.+
T Consensus 70 rsitqsyyrsahalilvydiscqpsfdclpewlreie~-yan~kvlkilvgnk~d~~drrevp~qigeefs~ 140 (213)
T KOG0095|consen 70 RSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQ-YANNKVLKILVGNKIDLADRREVPQQIGEEFSE 140 (213)
T ss_pred HHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHH-HhhcceEEEeeccccchhhhhhhhHHHHHHHHH
Confidence 3444443333 446666666666777788877665553 24568888887 45555544433444444444
No 115
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display str
Probab=24.30 E-value=72 Score=21.25 Aligned_cols=17 Identities=18% Similarity=0.493 Sum_probs=14.1
Q ss_pred CChHHHHHHHHHHHHhh
Q 047667 134 NNVEKVQTWRDALKTVA 150 (160)
Q Consensus 134 ~~~~~~~~W~~al~~i~ 150 (160)
++++.++.|..||.+|+
T Consensus 92 ~s~ee~~~Wi~~I~~~~ 108 (108)
T cd01266 92 KNEEEMTLWVNCICKLC 108 (108)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 35788999999998874
No 116
>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=24.27 E-value=1.4e+02 Score=23.56 Aligned_cols=39 Identities=23% Similarity=0.179 Sum_probs=26.8
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCC
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKG 54 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G 54 (160)
|-+|+...-...+|+..+..+.++.|+++.++-.-+.+.
T Consensus 87 vt~SGGEP~~q~e~~~~~~~~ake~Gl~~~l~TnG~~~~ 125 (260)
T COG1180 87 VTFSGGEPTLQAEFALDLLRAAKERGLHVALDTNGFLPP 125 (260)
T ss_pred EEEECCcchhhHHHHHHHHHHHHHCCCcEEEEcCCCCCH
Confidence 334443332346789999999999999999997654443
No 117
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=24.23 E-value=1.7e+02 Score=18.91 Aligned_cols=44 Identities=20% Similarity=0.296 Sum_probs=24.4
Q ss_pred HHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH-hhcCCccccEEe
Q 047667 63 KAIEESRISIIVLSKNYASSTWCLDELAKIVEC-KNRKDQILPIFY 107 (160)
Q Consensus 63 ~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~-~~~~~~iiPI~~ 107 (160)
..+.+++.+|+|++..-..|-.-..++...+.. ...... +||++
T Consensus 69 ~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~-~piil 113 (119)
T PF08477_consen 69 FFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKN-IPIIL 113 (119)
T ss_dssp HHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSC-SEEEE
T ss_pred chhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCC-CCEEE
Confidence 348999999999986544433333333333443 322233 67554
No 118
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=24.06 E-value=2.5e+02 Score=19.30 Aligned_cols=18 Identities=22% Similarity=0.482 Sum_probs=9.7
Q ss_pred HHHHHHHhcceEEEEeec
Q 047667 60 ELLKAIEESRISIIVLSK 77 (160)
Q Consensus 60 ~i~~~i~~S~~~v~vlS~ 77 (160)
++.+++++++.+++|+..
T Consensus 4 ~~~~~i~~aD~vl~ViD~ 21 (141)
T cd01857 4 QLWRVVERSDIVVQIVDA 21 (141)
T ss_pred HHHHHHhhCCEEEEEEEc
Confidence 445555555555555554
No 119
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=24.03 E-value=2.4e+02 Score=19.26 Aligned_cols=29 Identities=14% Similarity=0.257 Sum_probs=19.5
Q ss_pred CCCC-chHHHHHHHHhcceEEEEeecCCcC
Q 047667 53 KGGS-ISPELLKAIEESRISIIVLSKNYAS 81 (160)
Q Consensus 53 ~G~~-~~~~i~~~i~~S~~~v~vlS~~~~~ 81 (160)
||.. ....+...+..++.+|+|++.+-..
T Consensus 57 ~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~ 86 (161)
T cd01861 57 AGQERFRSLIPSYIRDSSVAVVVYDITNRQ 86 (161)
T ss_pred CCcHHHHHHHHHHhccCCEEEEEEECcCHH
Confidence 5543 3334566788999999999875433
No 120
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=24.00 E-value=87 Score=18.74 Aligned_cols=22 Identities=18% Similarity=0.372 Sum_probs=13.9
Q ss_pred HHHHHHHHhcCCceEEeeCCCc
Q 047667 30 TGHLYAALKNKGIYVFRDDKEL 51 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl 51 (160)
+..+...|++.||.+++.....
T Consensus 12 a~~i~~~L~~~gI~~~v~~~~~ 33 (67)
T PF09413_consen 12 AELIKGLLEENGIPAFVKNEHM 33 (67)
T ss_dssp HHHHHHHHHHTT--EE--S---
T ss_pred HHHHHHHHHhCCCcEEEECCcc
Confidence 8889999999999999977543
No 121
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=23.99 E-value=2.3e+02 Score=19.05 Aligned_cols=70 Identities=24% Similarity=0.331 Sum_probs=42.6
Q ss_pred HHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHH-hcceEEEEeecCCcCCHHHHHHHHHHHHHhhcCCccccEEe
Q 047667 29 FTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIE-ESRISIIVLSKNYASSTWCLDELAKIVECKNRKDQILPIFY 107 (160)
Q Consensus 29 fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~-~S~~~v~vlS~~~~~S~wc~~El~~~~~~~~~~~~iiPI~~ 107 (160)
.+..|..+|++.|+.+-.-.. .++....++ .+++.-+|+|=+ .. -..+....++.......=||||+
T Consensus 5 ~~~~l~~~L~~~~~~vv~~~~--------~dd~~~~i~~~~~i~avvi~~d-~~---~~~~~~~ll~~i~~~~~~iPVFl 72 (115)
T PF03709_consen 5 ASRELAEALEQRGREVVDADS--------TDDALAIIESFTDIAAVVISWD-GE---EEDEAQELLDKIRERNFGIPVFL 72 (115)
T ss_dssp HHHHHHHHHHHTTTEEEEESS--------HHHHHHHHHCTTTEEEEEEECH-HH---HHHHHHHHHHHHHHHSTT-EEEE
T ss_pred HHHHHHHHHHHCCCEEEEeCC--------hHHHHHHHHhCCCeeEEEEEcc-cc---cchhHHHHHHHHHHhCCCCCEEE
Confidence 477899999999998876552 345556666 589999999876 11 11122222222223456688887
Q ss_pred ecC
Q 047667 108 DVE 110 (160)
Q Consensus 108 ~~~ 110 (160)
=.+
T Consensus 73 ~~~ 75 (115)
T PF03709_consen 73 LAE 75 (115)
T ss_dssp EES
T ss_pred Eec
Confidence 433
No 122
>PRK09004 FMN-binding protein MioC; Provisional
Probab=23.87 E-value=2.5e+02 Score=19.85 Aligned_cols=55 Identities=13% Similarity=0.087 Sum_probs=33.0
Q ss_pred EEEecccCCC-chhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcC
Q 047667 16 VFLSFRGEDT-RKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYAS 81 (160)
Q Consensus 16 VFISy~~~D~-~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~ 81 (160)
|-|-|.+.-. -+.+++.|...|.+.|+.+-+... . . ...+.+.+ .++++++.|-.
T Consensus 4 i~I~ygS~tGnae~~A~~l~~~~~~~g~~~~~~~~----~-~-----~~~l~~~~-~li~~~sT~G~ 59 (146)
T PRK09004 4 ITLISGSTLGGAEYVADHLAEKLEEAGFSTETLHG----P-L-----LDDLSASG-LWLIVTSTHGA 59 (146)
T ss_pred EEEEEEcCchHHHHHHHHHHHHHHHcCCceEEecc----C-C-----HHHhccCC-eEEEEECCCCC
Confidence 4455654322 257899999999999988765331 1 1 12344554 56666666643
No 123
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=23.84 E-value=3e+02 Score=21.76 Aligned_cols=38 Identities=18% Similarity=0.169 Sum_probs=21.6
Q ss_pred EEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCC
Q 047667 16 VFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKG 54 (160)
Q Consensus 16 VFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G 54 (160)
|.+-|...+-....+..+.+.|++.|+.+-... .+.+|
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~ 175 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRA-AFPPS 175 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEe-ccCCC
Confidence 444444333223456777777887887765544 35554
No 124
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=23.74 E-value=2.2e+02 Score=26.90 Aligned_cols=75 Identities=21% Similarity=0.313 Sum_probs=45.2
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHH--hcceEEEEeec---CCcCCHHHHHH
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIE--ESRISIIVLSK---NYASSTWCLDE 88 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~--~S~~~v~vlS~---~~~~S~wc~~E 88 (160)
.-+||--.++|.+.++-+.++.+|-+-|-.+.+.++. ..=.++..+|..++. ++++-||+-.- |-+--.||+-.
T Consensus 407 ~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEG-HrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVD 485 (1387)
T KOG1016|consen 407 SSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEG-HRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVD 485 (1387)
T ss_pred CCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCC-ceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhhe
Confidence 5678888888988899999999999999877776531 111233445544443 34444443321 11223477654
Q ss_pred H
Q 047667 89 L 89 (160)
Q Consensus 89 l 89 (160)
+
T Consensus 486 F 486 (1387)
T KOG1016|consen 486 F 486 (1387)
T ss_pred e
Confidence 4
No 125
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=23.61 E-value=3.4e+02 Score=21.12 Aligned_cols=70 Identities=17% Similarity=0.122 Sum_probs=45.2
Q ss_pred eEEEecccCCCch-hHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHH
Q 047667 15 DVFLSFRGEDTRK-SFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDEL 89 (160)
Q Consensus 15 dVFISy~~~D~~~-~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El 89 (160)
=+||=+++.|... .++...+++|+..|..+- ++.....-.+.|.+-+.+.+++.| =--|...=-|+..|.
T Consensus 35 i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~----~L~l~~~~~~~Ie~~l~~~d~IyV-gGGNTF~LL~~lke~ 105 (224)
T COG3340 35 IAFIPTASVDSEDDFYVEKVRNALAKLGLEVS----ELHLSKPPLAAIENKLMKADIIYV-GGGNTFNLLQELKET 105 (224)
T ss_pred EEEEecCccccchHHHHHHHHHHHHHcCCeee----eeeccCCCHHHHHHhhhhccEEEE-CCchHHHHHHHHHHh
Confidence 4699998877642 369999999999998663 344555556677777777775443 333333333444443
No 126
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=23.57 E-value=87 Score=20.76 Aligned_cols=18 Identities=17% Similarity=0.444 Sum_probs=14.8
Q ss_pred ChHHHHHHHHHHHHhhcc
Q 047667 135 NVEKVQTWRDALKTVANK 152 (160)
Q Consensus 135 ~~~~~~~W~~al~~i~~~ 152 (160)
+++....|.+||..+-+.
T Consensus 85 s~~e~~~Wi~ai~~v~~~ 102 (103)
T cd01251 85 TEQDRREWIAAFQNVLSR 102 (103)
T ss_pred CHHHHHHHHHHHHHHhcC
Confidence 478889999999988654
No 127
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=23.55 E-value=63 Score=23.70 Aligned_cols=22 Identities=18% Similarity=0.449 Sum_probs=17.5
Q ss_pred hcceEEEEeecC--CcCCHHHHHH
Q 047667 67 ESRISIIVLSKN--YASSTWCLDE 88 (160)
Q Consensus 67 ~S~~~v~vlS~~--~~~S~wc~~E 88 (160)
-....|.++|-+ |+.+.||..|
T Consensus 74 ~~~~~Vl~IS~DLPFAq~RfC~ae 97 (158)
T COG2077 74 LGNTVVLCISMDLPFAQKRFCGAE 97 (158)
T ss_pred cCCcEEEEEeCCChhHHhhhhhhc
Confidence 344778888877 8899999976
No 128
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=23.47 E-value=3.8e+02 Score=21.30 Aligned_cols=32 Identities=25% Similarity=0.209 Sum_probs=16.9
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEEe
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVFR 46 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~ 46 (160)
.|.|-|...+-.+..+..+.+.|++.|+.+-.
T Consensus 140 ~v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~ 171 (347)
T cd06335 140 KVALLLDNTGWGRSNRKDLTAALAARGLKPVA 171 (347)
T ss_pred eEEEEeccCchhhhHHHHHHHHHHHcCCeeEE
Confidence 34444433222234566677777777776643
No 129
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=23.13 E-value=4.4e+02 Score=21.87 Aligned_cols=73 Identities=19% Similarity=0.207 Sum_probs=42.1
Q ss_pred hhHHHHHHHHHh--cCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH---hhcCCc
Q 047667 27 KSFTGHLYAALK--NKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC---KNRKDQ 101 (160)
Q Consensus 27 ~~fv~~L~~~L~--~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~---~~~~~~ 101 (160)
+..++.+.+.|+ ..|+.+-+.. + .+.-.+++...+.+++ .|++-||.|....- .++..++.. .....+
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~~--~--~~~~~~~i~~~~~~~d-~ii~GspT~~~~~~--~~~~~~l~~l~~~~~~~K 334 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLYN--S--AKSDKNDIITEVFKSK-AILVGSSTINRGIL--SSTAAILEEIKGLGFKNK 334 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEEE--C--CCCCHHHHHHHHHhCC-EEEEECCCcCcccc--HHHHHHHHHhhccCcCCC
Confidence 367888999998 6787775433 1 1222345666666766 56677888876532 234444443 112344
Q ss_pred cccEE
Q 047667 102 ILPIF 106 (160)
Q Consensus 102 iiPI~ 106 (160)
++-+|
T Consensus 335 ~~a~F 339 (394)
T PRK11921 335 KAAAF 339 (394)
T ss_pred EEEEE
Confidence 55555
No 130
>COG2084 MmsB 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]
Probab=23.01 E-value=1.3e+02 Score=24.29 Aligned_cols=49 Identities=22% Similarity=0.286 Sum_probs=38.4
Q ss_pred HHHHHHHHhcCCceEEeeCCCccC--------CCCchHHHHHHHHhcceEEEEeecC
Q 047667 30 TGHLYAALKNKGIYVFRDDKELEK--------GGSISPELLKAIEESRISIIVLSKN 78 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d~~dl~~--------G~~~~~~i~~~i~~S~~~v~vlS~~ 78 (160)
-.-+...|.++|+.+....++... |-.......+++.+++++|.+++..
T Consensus 12 G~pmA~~L~~aG~~v~v~~r~~~ka~~~~~~~Ga~~a~s~~eaa~~aDvVitmv~~~ 68 (286)
T COG2084 12 GSPMAANLLKAGHEVTVYNRTPEKAAELLAAAGATVAASPAEAAAEADVVITMLPDD 68 (286)
T ss_pred hHHHHHHHHHCCCEEEEEeCChhhhhHHHHHcCCcccCCHHHHHHhCCEEEEecCCH
Confidence 445777888899988888777554 6666667788999999999988764
No 131
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=22.89 E-value=1.4e+02 Score=19.88 Aligned_cols=29 Identities=24% Similarity=0.124 Sum_probs=16.8
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEE
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~ 45 (160)
.=++||+++... .+....+.++++|.++.
T Consensus 49 ~~I~iS~sG~t~---e~~~~~~~a~~~g~~vi 77 (126)
T cd05008 49 LVIAISQSGETA---DTLAALRLAKEKGAKTV 77 (126)
T ss_pred EEEEEeCCcCCH---HHHHHHHHHHHcCCeEE
Confidence 345666666653 25556666666666554
No 132
>PF09152 DUF1937: Domain of unknown function (DUF1937); InterPro: IPR015235 This entry is represented by Bacteriophage N15, Gp57. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a set of hypothetical bacterial and phage proteins whose exact function has not, as yet, been described. ; PDB: 1T1J_A.
Probab=22.77 E-value=2.4e+02 Score=19.60 Aligned_cols=65 Identities=11% Similarity=0.017 Sum_probs=38.5
Q ss_pred HHHHHHHHhcCCceEEee---------C----CCccCCCCchHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHH
Q 047667 30 TGHLYAALKNKGIYVFRD---------D----KELEKGGSISPELLKAIEESRISIIVLSKNYASSTWCLDELAKIVE 94 (160)
Q Consensus 30 v~~L~~~L~~~g~~v~~d---------~----~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~ 94 (160)
+.+...+|-+.|+.+|-- . .+-..+..|.+--..-++.|+-+|++-.|.+-.|.-...|+..+..
T Consensus 29 A~r~aa~l~~~G~~~fSpv~~sH~~~~~~~~~~~~~~~~~W~~~d~~~L~~c~~lvV~~i~GW~~S~Gi~~Ei~~a~~ 106 (116)
T PF09152_consen 29 ANRVAAELLKAGHAAFSPVVMSHPINFELLGDDDPLIQKLWEDWDRPFLDACDELVVLDIPGWDDSEGIWAEIEAAEE 106 (116)
T ss_dssp HHHHHHHHHHTT-EEEEHHHHHHHHHCCGTTS-HHHHHHHHHHHHHHHHHH-SEEEE---TTGGG-HHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCeeEeccccccccchhcccccCcchhHHHHHHhHHHHHhcceeEEecCCCccccccHHHHHHHHHH
Confidence 344555566689888764 1 0111222233333445778999999999999999999999999987
No 133
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=22.72 E-value=1.3e+02 Score=25.20 Aligned_cols=49 Identities=24% Similarity=0.466 Sum_probs=30.1
Q ss_pred HHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcc-eEEEEeecCCcCCHH
Q 047667 33 LYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESR-ISIIVLSKNYASSTW 84 (160)
Q Consensus 33 L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~-~~v~vlS~~~~~S~w 84 (160)
+.+.|.++|+.|++...++... .+ .+..+.+...+ ..|..++|+|.. .|
T Consensus 300 ~~~~l~~~~ipVlf~~d~L~~~-~v-~ea~rql~~~dk~~iaFf~pny~~-~w 349 (360)
T PF07429_consen 300 FWQDLKEQGIPVLFYGDELDEA-LV-REAQRQLANVDKQQIAFFAPNYLQ-GW 349 (360)
T ss_pred HHHHHHhCCCeEEeccccCCHH-HH-HHHHHHHhhCcccceeeeCCchHH-HH
Confidence 5666777888888776555433 12 23344444443 367788899887 44
No 134
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=22.58 E-value=1.5e+02 Score=20.58 Aligned_cols=33 Identities=18% Similarity=0.219 Sum_probs=17.5
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEEe
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFR 46 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~ 46 (160)
.-|.|+|........+...+...|...|++|..
T Consensus 41 ~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~ 73 (137)
T PF02878_consen 41 SRVVVGRDTRPSSPMLAKALAAGLRANGVDVID 73 (137)
T ss_dssp SEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEE
T ss_pred CeEEEEEcccCCHHHHHHHHHHHHhhccccccc
Confidence 445565544443345555566666666666653
No 135
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=22.43 E-value=1.9e+02 Score=17.35 Aligned_cols=53 Identities=13% Similarity=0.091 Sum_probs=32.2
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCCcCC
Q 047667 28 SFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNYASS 82 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~~~S 82 (160)
.+.......|++.|+..-.- ++.......+++.+......+.++++...+.++
T Consensus 12 ~~C~ka~~~L~~~gi~~~~~--di~~~~~~~~el~~~~g~~~vP~v~i~~~~iGg 64 (73)
T cd03027 12 EDCTAVRLFLREKGLPYVEI--NIDIFPERKAELEERTGSSVVPQIFFNEKLVGG 64 (73)
T ss_pred hhHHHHHHHHHHCCCceEEE--ECCCCHHHHHHHHHHhCCCCcCEEEECCEEEeC
Confidence 57888899999999875433 344443334445444445555666666665554
No 136
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=22.37 E-value=2.5e+02 Score=18.68 Aligned_cols=27 Identities=11% Similarity=0.041 Sum_probs=19.2
Q ss_pred CCCC-chHHHHHHHHhcceEEEEeecCC
Q 047667 53 KGGS-ISPELLKAIEESRISIIVLSKNY 79 (160)
Q Consensus 53 ~G~~-~~~~i~~~i~~S~~~v~vlS~~~ 79 (160)
||.. +.......+.+++.+|++++..-
T Consensus 57 ~g~~~~~~~~~~~~~~~d~ii~v~d~~~ 84 (159)
T cd00154 57 AGQERFRSITPSYYRGAHGAILVYDITN 84 (159)
T ss_pred CChHHHHHHHHHHhcCCCEEEEEEECCC
Confidence 4533 33455667889999999999864
No 137
>PF09441 Abp2: ARS binding protein 2; InterPro: IPR018562 This DNA-binding protein binds to the autonomously replicating sequence (ARS) binding element. It may play a role in regulating the cell cycle response to stress signals [].
Probab=22.30 E-value=42 Score=24.78 Aligned_cols=56 Identities=25% Similarity=0.319 Sum_probs=29.4
Q ss_pred CHHHHHHHHHHHHH-hhcCCccccEEeecCchhhhcccchhHHHHHHHHHhccCChHHHHHHHHHH
Q 047667 82 STWCLDELAKIVEC-KNRKDQILPIFYDVEPTVVRKQTASFGEAFAKHEEAFRNNVEKVQTWRDAL 146 (160)
Q Consensus 82 S~wc~~El~~~~~~-~~~~~~iiPI~~~~~p~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~al 146 (160)
|.|.++||..-++. +-+.=.=+.+.+.|.|-++.+... -++..+ ..-++++|.+|+
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS-----tQKvqQ----YaVRLKRWM~aM 110 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS-----TQKVQQ----YAVRLKRWMRAM 110 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc-----hHHHHH----HHHHHHHHHHHh
Confidence 45777777666654 111113344556777777654311 111111 135677898875
No 138
>PLN02734 glycyl-tRNA synthetase
Probab=22.27 E-value=90 Score=28.44 Aligned_cols=61 Identities=15% Similarity=0.048 Sum_probs=37.3
Q ss_pred CCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEee
Q 047667 11 HGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLS 76 (160)
Q Consensus 11 ~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS 76 (160)
+.+..|+..-.. +.....+..|...|++.|+++.+|.++-..| ..+..+-..---.++++.
T Consensus 570 P~qVaIlPL~~~-ee~~~~A~eLa~~LR~~GIrVelDd~~~SIG----KRyrrADeiGIPf~ItIG 630 (684)
T PLN02734 570 PIKCTVFPLVQN-QQLNAVAKVISKELTAAGISHKIDITGTSIG----KRYARTDELGVPFAVTVD 630 (684)
T ss_pred CcEEEEEEecCC-hHHHHHHHHHHHHHHhCCCEEEEECCCCCHh----HHHHHHHHcCCCEEEEEC
Confidence 556666655332 2224679999999999999999998644444 444444332222444444
No 139
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=22.20 E-value=3.7e+02 Score=20.69 Aligned_cols=72 Identities=14% Similarity=0.017 Sum_probs=40.4
Q ss_pred CCceeEEEecccCC-Cc--hhHHHHHHHHHhcCCceEE-eeCCCcc--CCC----CchHHHHHHHHhcceEEEEeecCCc
Q 047667 11 HGKYDVFLSFRGED-TR--KSFTGHLYAALKNKGIYVF-RDDKELE--KGG----SISPELLKAIEESRISIIVLSKNYA 80 (160)
Q Consensus 11 ~~~ydVFISy~~~D-~~--~~fv~~L~~~L~~~g~~v~-~d~~dl~--~G~----~~~~~i~~~i~~S~~~v~vlS~~~~ 80 (160)
+....|.+...+-- .+ ...+.++...|...|..+- +|-.++. ..+ .-...+.+.|+.++ .+++.||.|.
T Consensus 24 ~~~~kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~~~p~v~~l~~~v~~AD-gvii~TPEYn 102 (219)
T TIGR02690 24 PHIPRILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHADHPKVRELRQLSEWSE-GQVWCSPERH 102 (219)
T ss_pred CCCCEEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcccCHHHHHHHHHHHhCC-EEEEeCCccc
Confidence 44556655443322 11 2456667777776677663 3333332 111 11234667777776 7788999999
Q ss_pred CCH
Q 047667 81 SST 83 (160)
Q Consensus 81 ~S~ 83 (160)
.|-
T Consensus 103 ~si 105 (219)
T TIGR02690 103 GAI 105 (219)
T ss_pred cCc
Confidence 875
No 140
>TIGR03026 NDP-sugDHase nucleotide sugar dehydrogenase. All of these enzymes contain three Pfam domains, pfam03721, pfam00984, and pfam03720 for the N-terminal, central, and C-terminal regions respectively.
Probab=22.14 E-value=1.7e+02 Score=24.47 Aligned_cols=53 Identities=23% Similarity=0.245 Sum_probs=34.1
Q ss_pred CCCchhHHHHHHHHHhcCCceEEeeCCCccCCCC----chHHHHHHHHhcceEEEEe
Q 047667 23 EDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGS----ISPELLKAIEESRISIIVL 75 (160)
Q Consensus 23 ~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~----~~~~i~~~i~~S~~~v~vl 75 (160)
.|.|+.=+..|.+.|.++|..|..++--...... ..+.+.+++++++.+|+.-
T Consensus 328 ~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t 384 (411)
T TIGR03026 328 DDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILT 384 (411)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEec
Confidence 4556667888999999999988887743322111 1135556777777655543
No 141
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=21.99 E-value=2.8e+02 Score=19.14 Aligned_cols=29 Identities=14% Similarity=0.001 Sum_probs=18.7
Q ss_pred CCC-CchHHHHHHHHhcceEEEEeecCCcC
Q 047667 53 KGG-SISPELLKAIEESRISIIVLSKNYAS 81 (160)
Q Consensus 53 ~G~-~~~~~i~~~i~~S~~~v~vlS~~~~~ 81 (160)
||. .+.......+++++.+|++++.+-..
T Consensus 59 ~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~ 88 (166)
T cd01869 59 AGQERFRTITSSYYRGAHGIIIVYDVTDQE 88 (166)
T ss_pred CCcHhHHHHHHHHhCcCCEEEEEEECcCHH
Confidence 553 33333445677899999999875433
No 142
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=21.84 E-value=1.5e+02 Score=19.93 Aligned_cols=28 Identities=18% Similarity=0.267 Sum_probs=15.6
Q ss_pred eEEEecccCCCchhHHHHHHHHHhcCCceEE
Q 047667 15 DVFLSFRGEDTRKSFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 15 dVFISy~~~D~~~~fv~~L~~~L~~~g~~v~ 45 (160)
=++||+++... + +....+.++++|.++.
T Consensus 47 ~I~iS~SG~t~--e-~i~~~~~a~~~g~~iI 74 (119)
T cd05017 47 VIAVSYSGNTE--E-TLSAVEQAKERGAKIV 74 (119)
T ss_pred EEEEECCCCCH--H-HHHHHHHHHHCCCEEE
Confidence 34666666653 3 4445555666676554
No 143
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=21.79 E-value=2.6e+02 Score=19.40 Aligned_cols=45 Identities=9% Similarity=0.141 Sum_probs=28.1
Q ss_pred HHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHHHHH-hhcCCccccEE
Q 047667 59 PELLKAIEESRISIIVLSKNYASSTWCLDELAKIVEC-KNRKDQILPIF 106 (160)
Q Consensus 59 ~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~~~~-~~~~~~iiPI~ 106 (160)
+.+.+.+..++.+|+|++.+-. +...+.....+. .....+.+.|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~~---~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQD---LTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTST---GGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCcc---cchHHHHHHHHHhcCCCCeEEEEE
Confidence 4567788999999999977653 343444444444 44445555554
No 144
>PRK06893 DNA replication initiation factor; Validated
Probab=21.73 E-value=1.9e+02 Score=21.94 Aligned_cols=18 Identities=11% Similarity=0.318 Sum_probs=8.2
Q ss_pred hcceEEEEeecCCcCCHH
Q 047667 67 ESRISIIVLSKNYASSTW 84 (160)
Q Consensus 67 ~S~~~v~vlS~~~~~S~w 84 (160)
+....++|++.+...+.|
T Consensus 122 ~~~~~illits~~~p~~l 139 (229)
T PRK06893 122 EQGKTLLLISADCSPHAL 139 (229)
T ss_pred HcCCcEEEEeCCCChHHc
Confidence 333445555555444443
No 145
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=21.67 E-value=2.9e+02 Score=19.21 Aligned_cols=25 Identities=8% Similarity=-0.126 Sum_probs=17.1
Q ss_pred CCchHHHHHHHHhcceEEEEeecCC
Q 047667 55 GSISPELLKAIEESRISIIVLSKNY 79 (160)
Q Consensus 55 ~~~~~~i~~~i~~S~~~v~vlS~~~ 79 (160)
+.+.......+++++.+|++++-+-
T Consensus 63 ~~~~~~~~~~~~~ad~~i~v~d~~~ 87 (167)
T cd01867 63 ERFRTITTAYYRGAMGIILVYDITD 87 (167)
T ss_pred HHHHHHHHHHhCCCCEEEEEEECcC
Confidence 3333344456789999999998643
No 146
>cd07369 PydA_Rs_like PydA is a Class III Extradiol ring-cleavage dioxygenase required for the degradation of 3-hydroxy-4-pyridone (HP). This subfamily is composed of Rhizobium sp. PydA and similar proteins. PydA is required for the degradation of 3-hydroxy-4-pyridone (HP), an intermediate in the Leucaena toxin mimosine degradation pathway. It is a member of the class III extradiol dioxygenase family, a group of enzymes that use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=21.64 E-value=4.6e+02 Score=21.56 Aligned_cols=76 Identities=14% Similarity=0.074 Sum_probs=43.6
Q ss_pred hhHHHHHHHHHhcCCceEEee-CCCccCCCCchHHHHHHHHhcceEEEEe-----ecCCcCCHHHHHHHHHHHHH--hhc
Q 047667 27 KSFTGHLYAALKNKGIYVFRD-DKELEKGGSISPELLKAIEESRISIIVL-----SKNYASSTWCLDELAKIVEC--KNR 98 (160)
Q Consensus 27 ~~fv~~L~~~L~~~g~~v~~d-~~dl~~G~~~~~~i~~~i~~S~~~v~vl-----S~~~~~S~wc~~El~~~~~~--~~~ 98 (160)
.+++.+|.+.+.+.|+.+... +..+..|-.+.=... .....+-+|-+ ++.. -+..-..+|..++.. +..
T Consensus 100 ~eLA~~I~~~l~~~G~dva~~~~~~~DHG~~vPL~~l--~p~~~ipvVpI~in~~~~p~-~~~~r~~~lG~AI~~aie~~ 176 (329)
T cd07369 100 PEVAEQLLRALVHDSFDCARMGEIEYGNNLLVPWKLM--KPDLDVSVIPIYTNVFSPPL-MKYSRAYALGAAVRKAIEDL 176 (329)
T ss_pred HHHHHHHHHHHHHCCCCeeecCCcCCCccceeeHHHh--cCCCCCcEEEEEEeccCCCC-CCHHHHHHHHHHHHHHHHhc
Confidence 378999999999999988554 334434423321221 11224434444 3332 355667789888887 332
Q ss_pred --CCccccE
Q 047667 99 --KDQILPI 105 (160)
Q Consensus 99 --~~~iiPI 105 (160)
+++|..|
T Consensus 177 ~~d~rVaiI 185 (329)
T cd07369 177 PDDLRVAFM 185 (329)
T ss_pred CCCCCEEEE
Confidence 3565544
No 147
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=21.59 E-value=2.2e+02 Score=21.47 Aligned_cols=48 Identities=25% Similarity=0.380 Sum_probs=35.1
Q ss_pred HHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHh-------cceEEEEeecCCcC
Q 047667 29 FTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEE-------SRISIIVLSKNYAS 81 (160)
Q Consensus 29 fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~-------S~~~v~vlS~~~~~ 81 (160)
..+.|.+.|++.|+...= . .|+.+.+++.+|+.. ...++-|+.+.|.-
T Consensus 123 ~~~~l~~~L~k~Gv~~i~----~-~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l 177 (193)
T COG0576 123 TLDQLLDALEKLGVEEIG----P-EGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKL 177 (193)
T ss_pred HHHHHHHHHHHCCCEEeC----C-CCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeee
Confidence 356688889999988742 1 499999999999873 23577777777754
No 148
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=21.40 E-value=4.1e+02 Score=22.79 Aligned_cols=62 Identities=21% Similarity=0.201 Sum_probs=41.8
Q ss_pred CCceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeec
Q 047667 11 HGKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSK 77 (160)
Q Consensus 11 ~~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~ 77 (160)
....||||..-+++. ...+-.|...|++.|+++-++... ..+..++..|-+.--..++|+-.
T Consensus 333 ~~~~~v~v~~~~~~~-~~~a~~la~~LR~~g~~~~~~~~~----r~~k~q~k~A~~~g~~~~viiGe 394 (429)
T COG0124 333 ETRVDVYVVPLGEDA-EPEALKLAQKLRAAGISVEVDYSG----RKLKKQFKYADKLGARFAVILGE 394 (429)
T ss_pred CCCCCEEEEEcCchh-HHHHHHHHHHHHHcCCcEEEEecc----ccHHHHHHHHHHCCCCEEEEEcc
Confidence 456899999877765 356888999999999999887632 22555566555533344454443
No 149
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=21.32 E-value=2.9e+02 Score=19.07 Aligned_cols=22 Identities=18% Similarity=0.031 Sum_probs=15.8
Q ss_pred HHHHHHhcceEEEEeecCCcCC
Q 047667 61 LLKAIEESRISIIVLSKNYASS 82 (160)
Q Consensus 61 i~~~i~~S~~~v~vlS~~~~~S 82 (160)
....+..++.+|++++..-..|
T Consensus 69 ~~~~~~~~d~~llv~d~~~~~s 90 (165)
T cd01864 69 TQSYYRSANGAIIAYDITRRSS 90 (165)
T ss_pred HHHHhccCCEEEEEEECcCHHH
Confidence 3455678999999998864443
No 150
>cd01786 STE50_RA Ubiquitin-like domain of STE50_RA. STE50_RA The fungal adaptor protein STE50 is an essential component of three MAPK-mediated signalling pathways, which control the mating response, invasive/filamentous growth and osmotolerance (HOG pathway), respectively. STE50 functions in cell signalling between the activated G protein and STE11. The domain architecture of STE50 includes an amino-terminal SAM (sterile alpha motif) domain in addition to the carboxy-terminal ubiquitin-like RA (RAS-associated) domain. While the SAM domain interacts with STE11, the RA domain interacts with CDC42 and RAS. Modulation of signal transduction by STE50 specifically affects the pheromone-response pathway in yeast.
Probab=21.26 E-value=60 Score=21.75 Aligned_cols=29 Identities=17% Similarity=0.261 Sum_probs=14.3
Q ss_pred CceeEEEeccc-CCCchhHHHHHHHHHhcCCc
Q 047667 12 GKYDVFLSFRG-EDTRKSFTGHLYAALKNKGI 42 (160)
Q Consensus 12 ~~ydVFISy~~-~D~~~~fv~~L~~~L~~~g~ 42 (160)
..-+.|=+|+- .|. .--.-|..+|++.+|
T Consensus 21 ~~~e~~K~~rvs~dD--pC~kVL~~Alkry~I 50 (98)
T cd01786 21 SPNEPLKQLRASKED--SCEKILKNAMKRHNL 50 (98)
T ss_pred CccccchheeeeccC--cHHHHHHHHHHHcCC
Confidence 33445556533 222 234446677776544
No 151
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=21.17 E-value=2.9e+02 Score=21.92 Aligned_cols=101 Identities=19% Similarity=0.253 Sum_probs=49.1
Q ss_pred hHHHHHHHHHhcCCceEEe-eCCCcc--CCC---C---------chHHHHHHHHhcceEEEEeecCCcCCHHHHHHHHHH
Q 047667 28 SFTGHLYAALKNKGIYVFR-DDKELE--KGG---S---------ISPELLKAIEESRISIIVLSKNYASSTWCLDELAKI 92 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~~-d~~dl~--~G~---~---------~~~~i~~~i~~S~~~v~vlS~~~~~S~wc~~El~~~ 92 (160)
.++.+|.+.|++.+..+-+ ++.++. ... . +...+.+.+... .+|++=+.+|.+| .++||.-+
T Consensus 16 t~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls~~-~iVI~Dd~nYiKg--~RYelycl 92 (270)
T PF08433_consen 16 TRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALSKD-TIVILDDNNYIKG--MRYELYCL 92 (270)
T ss_dssp HHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHTT--SEEEE-S---SHH--HHHHHHHH
T ss_pred HHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhccC-eEEEEeCCchHHH--HHHHHHHH
Confidence 6799999999998876644 333332 111 1 112333444443 5777888888887 57777665
Q ss_pred HHHhhcCCccccEEeecCchhh------hcccchh-HHHHHHHHHhcc
Q 047667 93 VECKNRKDQILPIFYDVEPTVV------RKQTASF-GEAFAKHEEAFR 133 (160)
Q Consensus 93 ~~~~~~~~~iiPI~~~~~p~~v------~~~~~~~-~~~~~~~~~~~~ 133 (160)
-+ ..+....-|+++...+.- |.....| .+.|.++..++.
T Consensus 93 Ar--~~~~~~c~i~~~~~~e~~~~~N~~R~~~~~~~~e~i~~m~~RfE 138 (270)
T PF08433_consen 93 AR--AYGTTFCVIYCDCPLETCLQRNSKRPEPERYPEETIDDMIQRFE 138 (270)
T ss_dssp HH--HTT-EEEEEEEE--HHHHHHHHHHTT-S--S-HHHHHHHHHH--
T ss_pred HH--HcCCCEEEEEECCCHHHHHHhhhccCCCCCCCHHHHHHHHHHhc
Confidence 43 345566667766655443 2233234 455666666653
No 152
>PRK10638 glutaredoxin 3; Provisional
Probab=20.96 E-value=2.2e+02 Score=17.62 Aligned_cols=24 Identities=21% Similarity=0.300 Sum_probs=17.6
Q ss_pred cccCCCchhHHHHHHHHHhcCCceEE
Q 047667 20 FRGEDTRKSFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 20 y~~~D~~~~fv~~L~~~L~~~g~~v~ 45 (160)
|+...- .|.......|+++|+..-
T Consensus 7 y~~~~C--p~C~~a~~~L~~~gi~y~ 30 (83)
T PRK10638 7 YTKATC--PFCHRAKALLNSKGVSFQ 30 (83)
T ss_pred EECCCC--hhHHHHHHHHHHcCCCcE
Confidence 444443 789999999999988643
No 153
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=20.95 E-value=3.6e+02 Score=21.42 Aligned_cols=68 Identities=21% Similarity=0.206 Sum_probs=43.0
Q ss_pred HHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEee-------------------cCCcCCHHHHHHHHHHH
Q 047667 33 LYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLS-------------------KNYASSTWCLDELAKIV 93 (160)
Q Consensus 33 L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS-------------------~~~~~S~wc~~El~~~~ 93 (160)
|.-.|..+|+++-=-. +.|+..+++++.+. ...+++-+.++ .+|..-+-|..||..|-
T Consensus 153 lS~YLA~~G~KvAN~P--Lvpe~~lP~~L~~~-~~~ki~GLtidp~~L~~IR~~Rl~~lg~~~s~Ya~~~~i~~El~~A~ 229 (255)
T PF03618_consen 153 LSMYLANKGYKVANVP--LVPEVPLPEELFEV-DPKKIFGLTIDPERLIEIRRERLKSLGLDDSSYADLERIEEELEYAE 229 (255)
T ss_pred hhHHHHhcCcceeecC--cCCCCCCCHHHHhC-CCCcEEEEECCHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHH
Confidence 3344555788775333 66777776666543 44555555544 46888889999999887
Q ss_pred HH-hhcCCccc
Q 047667 94 EC-KNRKDQIL 103 (160)
Q Consensus 94 ~~-~~~~~~ii 103 (160)
+. ++.+.++|
T Consensus 230 ~l~~~~~~pvI 240 (255)
T PF03618_consen 230 RLFRKLGCPVI 240 (255)
T ss_pred HHHHHcCCCEE
Confidence 76 55555544
No 154
>COG3980 spsG Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=20.84 E-value=4.8e+02 Score=21.42 Aligned_cols=57 Identities=19% Similarity=0.212 Sum_probs=36.0
Q ss_pred CceeEEEecccCCCchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEE
Q 047667 12 GKYDVFLSFRGEDTRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISI 72 (160)
Q Consensus 12 ~~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v 72 (160)
..+||+|+..+.|.. ...-++...|.+..++.-+-. ..+++...++....+......
T Consensus 157 ~~r~ilI~lGGsDpk-~lt~kvl~~L~~~~~nl~iV~---gs~~p~l~~l~k~~~~~~~i~ 213 (318)
T COG3980 157 PKRDILITLGGSDPK-NLTLKVLAELEQKNVNLHIVV---GSSNPTLKNLRKRAEKYPNIN 213 (318)
T ss_pred chheEEEEccCCChh-hhHHHHHHHhhccCeeEEEEe---cCCCcchhHHHHHHhhCCCee
Confidence 479999999999973 568888889988764433222 134444455555554444333
No 155
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.83 E-value=1.2e+02 Score=18.27 Aligned_cols=30 Identities=17% Similarity=0.120 Sum_probs=20.7
Q ss_pred ceeEEEecccCCCchhHHHHHHHHHhcCCceE
Q 047667 13 KYDVFLSFRGEDTRKSFTGHLYAALKNKGIYV 44 (160)
Q Consensus 13 ~ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v 44 (160)
.-.|+++....+. +=...|.++|++.||.+
T Consensus 37 ~~~v~v~ie~~~~--~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 37 EARVLVGIQVPDR--EDLAELKERLEALGYPY 66 (68)
T ss_pred ceEEEEEEEeCCH--HHHHHHHHHHHHcCCCc
Confidence 3456676655553 34778888999999864
No 156
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=20.83 E-value=1.3e+02 Score=21.18 Aligned_cols=19 Identities=32% Similarity=0.151 Sum_probs=14.1
Q ss_pred HHHHHHHHHhcCCceEEee
Q 047667 29 FTGHLYAALKNKGIYVFRD 47 (160)
Q Consensus 29 fv~~L~~~L~~~g~~v~~d 47 (160)
....|...|++.|+.+...
T Consensus 28 n~~~l~~~l~~~G~~v~~~ 46 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRL 46 (144)
T ss_pred cHHHHHHHHHHCCCeEEEE
Confidence 3566888899999877643
No 157
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type. This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.
Probab=20.80 E-value=3.7e+02 Score=23.88 Aligned_cols=63 Identities=19% Similarity=0.182 Sum_probs=40.3
Q ss_pred CceeEEEecccCC-CchhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHhcceEEEEeecCC
Q 047667 12 GKYDVFLSFRGED-TRKSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEESRISIIVLSKNY 79 (160)
Q Consensus 12 ~~ydVFISy~~~D-~~~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~S~~~v~vlS~~~ 79 (160)
..++|+|-.-..+ .....+..|...|+..|+++.+|.. +. +...+..+-+.---.++++..+.
T Consensus 456 AP~kV~VIpl~~~~el~~~A~eIa~~LR~~GI~VeiD~s----~s-IGKq~rrADeiGiPf~IIIG~~E 519 (551)
T TIGR00389 456 APIKVAVLPLVNKEELKEIAKEIFQALRKTGIRIKYDDS----GT-IGKRYRRADEIGTPFCVTIDFET 519 (551)
T ss_pred CCceEEEEEecCcHHHHHHHHHHHHHHHHCCCEEEEECC----CC-HHHHHHHHHHcCCCEEEEECCch
Confidence 3578777655432 1235688899999999999999874 32 55555555443334555555543
No 158
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=20.71 E-value=1.6e+02 Score=19.90 Aligned_cols=29 Identities=24% Similarity=0.142 Sum_probs=18.2
Q ss_pred eeEEEecccCCCchhHHHHHHHHHhcCCceEE
Q 047667 14 YDVFLSFRGEDTRKSFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 14 ydVFISy~~~D~~~~fv~~L~~~L~~~g~~v~ 45 (160)
.=++||++++.. -+....+.++++|.++.
T Consensus 50 l~I~iS~SG~t~---~~~~~~~~a~~~g~~vi 78 (120)
T cd05710 50 VVILASHSGNTK---ETVAAAKFAKEKGATVI 78 (120)
T ss_pred EEEEEeCCCCCh---HHHHHHHHHHHcCCeEE
Confidence 335677777653 36667777777776543
No 159
>PF09875 DUF2102: Uncharacterized protein conserved in archaea (DUF2102); InterPro: IPR012025 The exact functionof this protein unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=20.39 E-value=1.5e+02 Score=20.19 Aligned_cols=29 Identities=10% Similarity=0.219 Sum_probs=25.6
Q ss_pred hHHHHHHHHHhcC-CceEEeeCCCccCCCC
Q 047667 28 SFTGHLYAALKNK-GIYVFRDDKELEKGGS 56 (160)
Q Consensus 28 ~fv~~L~~~L~~~-g~~v~~d~~dl~~G~~ 56 (160)
+.|..+.+++++- ..++|.-+|.+.|||.
T Consensus 42 e~V~~~i~~iR~ld~~~IF~KdRGFppgD~ 71 (104)
T PF09875_consen 42 EEVDKVIEEIRKLDPNHIFVKDRGFPPGDP 71 (104)
T ss_pred HHHHHHHHHHHhhCCCceEeecCCCCCCcc
Confidence 6799999999885 7899999999999987
No 160
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=20.27 E-value=2.8e+02 Score=21.16 Aligned_cols=97 Identities=19% Similarity=0.308 Sum_probs=55.4
Q ss_pred EEEecccCCCc--hhHHHHHHHHHhcCCceEEeeCCCccCCCCchHHHHHHHHh--------------------------
Q 047667 16 VFLSFRGEDTR--KSFTGHLYAALKNKGIYVFRDDKELEKGGSISPELLKAIEE-------------------------- 67 (160)
Q Consensus 16 VFISy~~~D~~--~~fv~~L~~~L~~~g~~v~~d~~dl~~G~~~~~~i~~~i~~-------------------------- 67 (160)
.||.+-+-|.. ...++.|.+.|+++|+.|.+-.+ ..|.++.+.|.+.+.+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~trE--P~~~~ige~iR~~ll~~~~~~~~~~e~lLfaadR~~h~~~~i 81 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTRE--PGGTPIGEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEVI 81 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC--CCCChHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 47888776653 35688899999999998877652 2222333333332221
Q ss_pred ---cceEEEEeecCCcCCHHHHH--------HHHHHHHH--hhcCCccccEEeecCchhh
Q 047667 68 ---SRISIIVLSKNYASSTWCLD--------ELAKIVEC--KNRKDQILPIFYDVEPTVV 114 (160)
Q Consensus 68 ---S~~~v~vlS~~~~~S~wc~~--------El~~~~~~--~~~~~~iiPI~~~~~p~~v 114 (160)
-...-+|++..|.-|.-+-. ++...+.. ...-.+=+-++++++|+.-
T Consensus 82 ~pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~a 141 (208)
T COG0125 82 KPALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEVA 141 (208)
T ss_pred HHhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHHH
Confidence 01124788888888775444 22222222 1112455567789988763
No 161
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=20.19 E-value=2.8e+02 Score=21.87 Aligned_cols=18 Identities=28% Similarity=0.289 Sum_probs=10.0
Q ss_pred hHHHHHHHHHhcCCceEE
Q 047667 28 SFTGHLYAALKNKGIYVF 45 (160)
Q Consensus 28 ~fv~~L~~~L~~~g~~v~ 45 (160)
..+..+.+.+++.|+.+-
T Consensus 175 ~~~~~~~~~~~~~gi~v~ 192 (348)
T cd06350 175 SGLSDLEEELEKNGICIA 192 (348)
T ss_pred HHHHHHHHHHHHCCCcEE
Confidence 345555566666665544
No 162
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=20.09 E-value=1.8e+02 Score=17.71 Aligned_cols=10 Identities=0% Similarity=-0.061 Sum_probs=4.1
Q ss_pred cCCceEEeeC
Q 047667 39 NKGIYVFRDD 48 (160)
Q Consensus 39 ~~g~~v~~d~ 48 (160)
++.+-+.+..
T Consensus 47 ~~d~~i~iS~ 56 (87)
T cd04795 47 KGDVVIALSY 56 (87)
T ss_pred CCCEEEEEEC
Confidence 3344444443
No 163
>cd01238 PH_Tec Tec pleckstrin homology (PH) domain. Tec pleckstrin homology (PH) domain. Proteins in the Tec family of cytoplasmic protein tyrosine kinases that includes Bruton's tyrosine kinase (BTK), BMX, IL2-inducible T-cell kinase (Itk) and Tec. These proteins generally have an N-terminal PH domain, followed by a Tek homology (TH) domain, a SH3 domain, a SH2 domain and a kinase domain. Tec PH domains tether these proteins to membranes following the activation of PI3K and its subsequent phosphorylation of phosphoinositides. The importance of PH domain membrane anchoring is confirmed by the discovery of a mutation of a critical arginine residue in the BTK PH domain, which causes X-linked agammaglobulinemia (XLA) in humans and a related disorder is mice. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few dis
Probab=20.08 E-value=93 Score=20.75 Aligned_cols=15 Identities=40% Similarity=0.550 Sum_probs=12.4
Q ss_pred ChHHHHHHHHHHHHh
Q 047667 135 NVEKVQTWRDALKTV 149 (160)
Q Consensus 135 ~~~~~~~W~~al~~i 149 (160)
+++..+.|.+||.+|
T Consensus 92 s~~er~~WI~ai~~~ 106 (106)
T cd01238 92 TEELRKRWIKALKQV 106 (106)
T ss_pred CHHHHHHHHHHHHhC
Confidence 467888999999875
Done!