Query 039252
Match_columns 139
No_of_seqs 131 out of 1049
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 07:49:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039252.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039252hhsearch_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 5.6E-35 1.2E-39 215.1 9.9 109 3-119 18-127 (187)
2 PLN03210 Resistant to P. syrin 100.0 9.2E-35 2E-39 261.9 12.0 135 1-138 1-135 (1153)
3 smart00255 TIR Toll - interleu 99.9 5.3E-25 1.2E-29 154.8 11.4 122 15-137 1-124 (140)
4 PF01582 TIR: TIR domain; Int 99.9 4.2E-26 9E-31 162.0 1.4 115 18-132 1-121 (141)
5 PF13676 TIR_2: TIR domain; PD 99.8 3.8E-21 8.3E-26 129.0 2.5 87 18-110 1-87 (102)
6 KOG3678 SARM protein (with ste 99.3 1.6E-11 3.5E-16 101.8 7.5 91 13-109 610-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.9 1.9E-09 4E-14 75.6 5.0 90 16-110 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 98.3 5.7E-06 1.2E-10 58.8 8.9 64 17-80 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.6 0.00026 5.7E-09 49.6 6.3 96 18-118 2-113 (125)
10 PF13271 DUF4062: Domain of un 95.6 0.049 1.1E-06 35.0 5.7 65 18-83 2-67 (83)
11 COG4916 Uncharacterized protei 94.9 0.031 6.7E-07 43.8 3.4 94 11-109 173-273 (329)
12 PF05014 Nuc_deoxyrib_tr: Nucl 94.7 0.24 5.2E-06 33.4 7.2 77 29-110 13-98 (113)
13 COG4271 Predicted nucleotide-b 93.3 0.33 7.2E-06 36.7 6.1 96 17-118 84-199 (233)
14 cd00860 ThrRS_anticodon ThrRS 89.3 2.1 4.5E-05 26.9 6.1 61 16-80 2-62 (91)
15 cd00738 HGTP_anticodon HGTP an 84.8 4.9 0.00011 25.2 6.0 60 16-79 2-64 (94)
16 PF14359 DUF4406: Domain of un 81.4 12 0.00027 24.5 6.9 61 33-95 19-84 (92)
17 PF03129 HGTP_anticodon: Antic 80.7 3.9 8.3E-05 26.1 4.2 44 29-75 15-59 (94)
18 cd00858 GlyRS_anticodon GlyRS 77.6 9.7 0.00021 25.8 5.7 63 14-80 25-88 (121)
19 COG4916 Uncharacterized protei 76.4 3.3 7.2E-05 32.7 3.3 101 10-113 1-107 (329)
20 PF14258 DUF4350: Domain of un 71.8 19 0.00042 21.7 7.1 60 33-104 8-67 (70)
21 cd07363 45_DOPA_Dioxygenase Th 71.1 28 0.0006 26.9 7.4 68 29-98 80-149 (253)
22 cd02426 Pol_gamma_b_Cterm C-te 68.9 6.6 0.00014 27.3 3.1 32 29-60 43-78 (128)
23 cd00861 ProRS_anticodon_short 67.4 19 0.00041 22.6 5.0 48 30-80 18-65 (94)
24 TIGR00418 thrS threonyl-tRNA s 61.0 23 0.00049 30.4 5.6 61 14-78 469-529 (563)
25 cd00859 HisRS_anticodon HisRS 59.6 37 0.0008 20.5 5.2 58 17-78 3-60 (91)
26 PF03720 UDPG_MGDP_dh_C: UDP-g 58.8 10 0.00022 25.1 2.5 56 24-79 11-77 (106)
27 PRK14938 Ser-tRNA(Thr) hydrola 55.7 36 0.00077 28.4 5.6 61 15-79 274-334 (387)
28 PF09419 PGP_phosphatase: Mito 55.7 23 0.0005 25.9 4.1 47 38-84 35-91 (168)
29 COG0400 Predicted esterase [Ge 55.6 33 0.00072 25.9 5.1 56 11-67 142-199 (207)
30 cd03364 TOPRIM_DnaG_primases T 55.3 23 0.0005 21.9 3.6 32 17-48 45-76 (79)
31 COG3613 Nucleoside 2-deoxyribo 54.9 47 0.001 24.5 5.6 76 30-109 20-106 (172)
32 PRK12325 prolyl-tRNA synthetas 54.7 39 0.00085 28.3 5.9 63 15-81 345-410 (439)
33 PRK05339 PEP synthetase regula 53.2 56 0.0012 25.8 6.1 71 35-107 159-246 (269)
34 cd02042 ParA ParA and ParB of 53.1 57 0.0012 20.7 6.3 64 18-81 3-74 (104)
35 cd01423 MGS_CPS_I_III Methylgl 53.0 22 0.00048 23.7 3.5 29 18-48 3-31 (116)
36 PRK02551 flavoprotein NrdI; Pr 52.8 76 0.0016 22.9 6.4 103 17-135 6-119 (154)
37 cd00862 ProRS_anticodon_zinc P 52.4 32 0.0007 25.6 4.6 46 15-60 10-62 (202)
38 TIGR00334 5S_RNA_mat_M5 ribonu 51.4 27 0.00058 25.9 3.8 43 30-73 36-78 (174)
39 COG1658 Small primase-like pro 50.8 30 0.00066 24.2 3.9 54 16-70 30-83 (127)
40 PF09837 DUF2064: Uncharacteri 49.7 82 0.0018 21.5 7.4 85 12-106 7-94 (122)
41 PF03618 Kinase-PPPase: Kinase 48.5 67 0.0014 25.2 5.9 71 35-107 153-242 (255)
42 PRK03991 threonyl-tRNA synthet 47.7 49 0.0011 29.1 5.5 60 15-79 499-559 (613)
43 COG0276 HemH Protoheme ferro-l 47.7 1.5E+02 0.0032 24.1 7.8 91 31-132 74-174 (320)
44 COG0710 AroD 3-dehydroquinate 47.0 1E+02 0.0023 23.7 6.7 67 30-101 79-146 (231)
45 PRK14799 thrS threonyl-tRNA sy 46.5 55 0.0012 28.4 5.6 60 15-78 438-497 (545)
46 KOG0117 Heterogeneous nuclear 45.1 45 0.00097 28.4 4.6 72 18-110 128-199 (506)
47 COG1168 MalY Bifunctional PLP- 44.9 65 0.0014 26.9 5.5 46 60-105 148-195 (388)
48 PRK00413 thrS threonyl-tRNA sy 44.6 60 0.0013 28.3 5.6 61 15-79 539-599 (638)
49 cd01424 MGS_CPS_II Methylglyox 42.6 39 0.00084 22.2 3.4 61 17-79 2-76 (110)
50 PRK08661 prolyl-tRNA synthetas 42.3 51 0.0011 27.9 4.7 45 15-59 287-338 (477)
51 CHL00201 syh histidine-tRNA sy 41.6 63 0.0014 26.9 5.1 61 14-78 324-384 (430)
52 PRK09194 prolyl-tRNA synthetas 41.3 28 0.00061 30.1 3.1 64 14-81 467-533 (565)
53 PF01976 DUF116: Protein of un 40.6 1.4E+02 0.003 21.5 6.2 66 31-110 74-139 (158)
54 PLN03194 putative disease resi 40.3 1.3E+02 0.0027 22.6 6.0 64 41-108 24-88 (187)
55 COG2130 Putative NADP-dependen 39.9 69 0.0015 26.1 4.8 60 15-82 196-256 (340)
56 cd06340 PBP1_ABC_ligand_bindin 39.4 1.4E+02 0.003 23.4 6.6 60 17-77 146-206 (347)
57 PF02310 B12-binding: B12 bind 39.3 96 0.0021 20.2 4.9 71 32-110 17-88 (121)
58 PRK12305 thrS threonyl-tRNA sy 38.7 79 0.0017 27.3 5.4 61 15-79 476-536 (575)
59 COG0683 LivK ABC-type branched 38.7 1.8E+02 0.004 23.2 7.3 66 17-82 150-215 (366)
60 PRK15057 UDP-glucose 6-dehydro 38.3 71 0.0015 26.4 4.9 51 25-75 311-366 (388)
61 PF13662 Toprim_4: Toprim doma 37.8 35 0.00076 21.2 2.4 24 42-66 47-70 (81)
62 cd04168 TetM_like Tet(M)-like 37.7 1.8E+02 0.0039 22.0 7.2 75 53-136 71-146 (237)
63 cd04141 Rit_Rin_Ric Rit/Rin/Ri 37.7 1.4E+02 0.0031 20.9 7.4 54 63-118 68-121 (172)
64 PF03358 FMN_red: NADPH-depend 37.5 1.3E+02 0.0029 20.5 5.9 79 29-110 17-115 (152)
65 KOG4132 Uroporphyrinogen III s 36.8 41 0.00088 26.2 3.0 51 33-83 146-200 (260)
66 COG3845 ABC-type uncharacteriz 36.8 1.9E+02 0.0041 25.0 7.2 79 32-110 118-199 (501)
67 cd02951 SoxW SoxW family; SoxW 36.8 1.2E+02 0.0027 19.9 5.4 30 59-90 3-33 (125)
68 PF00350 Dynamin_N: Dynamin fa 36.6 1.3E+02 0.0028 20.6 5.5 46 60-108 120-165 (168)
69 cd04886 ACT_ThrD-II-like C-ter 36.5 75 0.0016 18.2 3.7 32 14-47 41-72 (73)
70 cd07373 2A5CPDO_A The alpha su 36.2 2.1E+02 0.0045 22.3 11.1 78 29-107 90-172 (271)
71 PF10087 DUF2325: Uncharacteri 36.0 1.2E+02 0.0026 19.5 7.0 54 31-85 11-65 (97)
72 PRK12435 ferrochelatase; Provi 36.0 2.3E+02 0.0049 22.7 8.0 53 30-84 61-120 (311)
73 PRK14077 pnk inorganic polypho 35.8 99 0.0021 24.5 5.2 41 11-51 5-46 (287)
74 PRK12444 threonyl-tRNA synthet 35.7 91 0.002 27.4 5.4 63 14-79 540-602 (639)
75 cd06342 PBP1_ABC_LIVBP_like Ty 35.7 2E+02 0.0043 22.0 7.2 52 17-69 137-189 (334)
76 PF05636 HIGH_NTase1: HIGH Nuc 35.6 54 0.0012 27.2 3.8 47 64-115 25-80 (388)
77 PLN02449 ferrochelatase 35.4 2.8E+02 0.0061 23.9 8.1 65 30-96 164-235 (485)
78 PF03709 OKR_DC_1_N: Orn/Lys/A 34.9 1.3E+02 0.0029 20.0 5.1 70 31-112 5-75 (115)
79 PF12435 DUF3678: Protein of u 34.1 11 0.00023 20.9 -0.4 20 4-23 17-36 (38)
80 cd00419 Ferrochelatase_C Ferro 34.0 1E+02 0.0022 21.4 4.5 65 31-95 46-117 (135)
81 cd06352 PBP1_NPR_GC_like Ligan 33.9 97 0.0021 24.6 5.0 57 18-75 140-200 (389)
82 cd06335 PBP1_ABC_ligand_bindin 32.8 1.7E+02 0.0037 22.9 6.1 47 17-63 140-187 (347)
83 KOG3062 RNA polymerase II elon 32.7 2.1E+02 0.0046 22.6 6.3 102 30-137 16-145 (281)
84 TIGR00409 proS_fam_II prolyl-t 32.6 33 0.00071 29.9 2.1 63 15-81 473-538 (568)
85 PLN02530 histidine-tRNA ligase 32.5 1.3E+02 0.0027 25.6 5.6 61 14-78 400-460 (487)
86 PF00762 Ferrochelatase: Ferro 32.3 1.9E+02 0.0041 23.2 6.3 93 30-133 73-173 (316)
87 cd06366 PBP1_GABAb_receptor Li 31.7 1.6E+02 0.0036 22.9 5.9 59 18-77 138-201 (350)
88 COG1058 CinA Predicted nucleot 31.6 55 0.0012 25.7 3.0 42 31-74 22-66 (255)
89 cd01857 HSR1_MMR1 HSR1/MMR1. 31.1 1.6E+02 0.0036 19.9 5.2 11 71-81 44-54 (141)
90 PF11004 Kdo_hydroxy: 3-deoxy- 31.0 42 0.00091 26.7 2.3 36 99-135 137-172 (281)
91 COG2719 SpoVR Uncharacterized 31.0 75 0.0016 27.1 3.8 53 82-134 7-75 (495)
92 cd06371 PBP1_sensory_GC_DEF_li 30.9 2.8E+02 0.0061 22.3 7.4 65 18-82 135-202 (382)
93 PF12146 Hydrolase_4: Putative 30.9 1.3E+02 0.0029 18.7 4.3 36 15-51 16-51 (79)
94 COG2342 Predicted extracellula 30.1 97 0.0021 24.9 4.2 44 60-109 33-79 (300)
95 PLN02908 threonyl-tRNA synthet 30.1 1.4E+02 0.0029 26.7 5.6 60 15-78 589-648 (686)
96 PF05985 EutC: Ethanolamine am 30.1 44 0.00095 26.0 2.2 45 30-79 124-173 (237)
97 cd04142 RRP22 RRP22 subfamily. 29.5 1.8E+02 0.0038 21.2 5.4 54 62-118 74-130 (198)
98 PRK14491 putative bifunctional 29.5 77 0.0017 27.8 3.9 42 8-50 2-45 (597)
99 PF01915 Glyco_hydro_3_C: Glyc 29.3 2.4E+02 0.0052 20.9 9.8 85 30-117 47-147 (227)
100 cd03411 Ferrochelatase_N Ferro 29.1 2.1E+02 0.0045 20.2 6.7 65 30-96 72-143 (159)
101 cd00138 PLDc Phospholipase D. 28.4 84 0.0018 21.9 3.4 38 31-68 22-65 (176)
102 PF14528 LAGLIDADG_3: LAGLIDAD 28.2 86 0.0019 19.0 3.0 31 17-49 21-51 (77)
103 PRK07933 thymidylate kinase; V 28.1 1.8E+02 0.0039 21.6 5.3 31 19-49 2-34 (213)
104 cd04109 Rab28 Rab28 subfamily. 28.1 2.4E+02 0.0052 20.6 6.5 28 54-81 58-86 (215)
105 PF13289 SIR2_2: SIR2-like dom 27.9 1.3E+02 0.0029 20.0 4.2 9 31-39 76-84 (143)
106 PF01269 Fibrillarin: Fibrilla 27.6 63 0.0014 25.0 2.7 49 82-134 106-167 (229)
107 PRK10569 NAD(P)H-dependent FMN 27.4 2.2E+02 0.0047 20.9 5.5 55 30-85 18-82 (191)
108 TIGR03026 NDP-sugDHase nucleot 27.4 1.2E+02 0.0026 24.9 4.5 57 20-76 321-384 (411)
109 PRK01424 S-adenosylmethionine: 27.3 95 0.0021 25.7 3.8 66 31-107 207-275 (366)
110 PF07454 SpoIIP: Stage II spor 26.7 1.2E+02 0.0026 23.9 4.2 40 12-51 70-132 (268)
111 PF09413 DUF2007: Domain of un 26.7 68 0.0015 19.0 2.3 21 31-51 11-31 (67)
112 PF00009 GTP_EFTU: Elongation 26.7 1.6E+02 0.0036 20.9 4.7 36 53-88 77-113 (188)
113 cd06328 PBP1_SBP_like_2 Peripl 26.6 2.2E+02 0.0048 22.1 5.8 52 17-69 138-190 (333)
114 cd04885 ACT_ThrD-I Tandem C-te 26.4 80 0.0017 18.8 2.6 30 15-46 37-66 (68)
115 PF02337 Gag_p10: Retroviral G 26.3 56 0.0012 21.5 1.9 19 30-48 9-27 (90)
116 PF00585 Thr_dehydrat_C: C-ter 26.3 1.3E+02 0.0028 19.4 3.7 32 14-47 48-79 (91)
117 PRK11921 metallo-beta-lactamas 26.1 3.6E+02 0.0079 22.0 8.0 59 19-83 254-314 (394)
118 PF08477 Miro: Miro-like prote 26.1 99 0.0022 19.8 3.2 25 63-90 68-92 (119)
119 PF12076 Wax2_C: WAX2 C-termin 26.0 45 0.00098 24.4 1.6 74 30-108 9-83 (164)
120 cd04128 Spg1 Spg1p. Spg1p (se 26.0 2.5E+02 0.0053 20.0 5.7 51 63-117 67-117 (182)
121 PF02230 Abhydrolase_2: Phosph 25.9 1.5E+02 0.0033 21.6 4.5 50 15-64 155-206 (216)
122 cd02067 B12-binding B12 bindin 25.5 2E+02 0.0044 18.8 6.7 76 30-113 13-90 (119)
123 cd06350 PBP1_GPCR_family_C_lik 25.5 1.6E+02 0.0034 22.9 4.7 42 29-70 174-217 (348)
124 cd08584 PI-PLCc_GDPD_SF_unchar 25.4 1.7E+02 0.0038 21.9 4.7 35 46-82 127-161 (192)
125 cd06370 PBP1_Speract_GC_like L 25.3 1.4E+02 0.003 24.2 4.5 27 29-55 150-176 (404)
126 COG2077 Tpx Peroxiredoxin [Pos 25.2 51 0.0011 24.0 1.7 22 68-89 74-97 (158)
127 PF05570 DUF765: Circovirus pr 25.2 45 0.00097 16.8 1.0 9 1-9 1-9 (29)
128 KOG2934 Uncharacterized conser 25.1 64 0.0014 24.1 2.2 22 31-52 82-104 (204)
129 cd06346 PBP1_ABC_ligand_bindin 24.8 2.3E+02 0.005 21.7 5.5 39 30-68 152-190 (312)
130 TIGR00177 molyb_syn molybdenum 24.8 81 0.0018 21.9 2.7 45 30-74 27-72 (144)
131 TIGR02298 HpaD_Fe 3,4-dihydrox 24.8 3.4E+02 0.0075 21.3 9.5 76 30-107 97-178 (282)
132 cd00532 MGS-like MGS-like doma 24.7 1.1E+02 0.0023 20.3 3.2 60 18-79 2-77 (112)
133 PF01380 SIS: SIS domain SIS d 24.7 97 0.0021 20.3 3.0 56 14-81 54-110 (131)
134 COG0125 Tmk Thymidylate kinase 24.5 1.6E+02 0.0034 22.2 4.4 97 18-115 4-140 (208)
135 COG0462 PrsA Phosphoribosylpyr 24.3 3.9E+02 0.0084 21.7 7.0 102 30-135 15-121 (314)
136 cd06379 PBP1_iGluR_NMDA_NR1 N- 24.2 2.2E+02 0.0047 22.7 5.4 14 31-44 170-183 (377)
137 PF08433 KTI12: Chromatin asso 23.9 2.6E+02 0.0055 21.9 5.6 101 30-136 16-139 (270)
138 PRK10628 LigB family dioxygena 23.7 3.5E+02 0.0077 21.0 6.6 77 20-100 62-140 (246)
139 TIGR00389 glyS_dimeric glycyl- 23.4 2.6E+02 0.0056 24.5 5.9 62 15-80 457-519 (551)
140 TIGR00408 proS_fam_I prolyl-tR 23.4 1.6E+02 0.0034 25.0 4.6 62 14-79 281-348 (472)
141 PF09673 TrbC_Ftype: Type-F co 23.2 2.1E+02 0.0045 19.2 4.4 37 18-60 2-39 (113)
142 PRK08350 hypothetical protein; 23.1 91 0.002 25.6 2.9 34 12-45 278-311 (341)
143 TIGR00113 queA S-adenosylmethi 23.0 1.2E+02 0.0026 24.9 3.7 66 31-107 186-254 (344)
144 cd06349 PBP1_ABC_ligand_bindin 23.0 2.2E+02 0.0048 22.0 5.2 51 17-68 137-188 (340)
145 cd03146 GAT1_Peptidase_E Type 22.8 2.8E+02 0.006 20.5 5.4 52 17-74 34-86 (212)
146 cd06327 PBP1_SBP_like_1 Peripl 22.7 3.5E+02 0.0075 20.9 6.2 36 29-64 149-185 (334)
147 PRK05465 ethanolamine ammonia- 22.7 1E+02 0.0022 24.3 3.0 45 30-79 131-180 (260)
148 PRK08306 dipicolinate synthase 22.7 1.4E+02 0.0029 23.6 3.9 52 24-78 9-65 (296)
149 cd06361 PBP1_GPC6A_like Ligand 22.4 2.4E+02 0.0053 23.0 5.4 26 29-54 186-211 (403)
150 KOG0395 Ras-related GTPase [Ge 22.3 1.7E+02 0.0037 21.6 4.1 56 61-118 67-122 (196)
151 KOG3573 Caspase, apoptotic cys 22.2 48 0.001 26.2 1.2 27 19-45 231-257 (300)
152 TIGR00640 acid_CoA_mut_C methy 22.2 2.7E+02 0.0059 19.2 8.6 86 18-110 5-90 (132)
153 cd04882 ACT_Bt0572_2 C-termina 22.1 66 0.0014 18.3 1.6 16 32-47 50-65 (65)
154 cd06547 GH85_ENGase Endo-beta- 21.5 2.8E+02 0.0062 22.5 5.6 64 18-81 176-245 (339)
155 PRK10076 pyruvate formate lyas 21.5 2.8E+02 0.0061 20.8 5.2 32 20-51 42-75 (213)
156 cd06386 PBP1_NPR_C_like Ligand 21.4 3E+02 0.0066 22.1 5.8 44 32-75 157-201 (387)
157 PRK02261 methylaspartate mutas 21.4 2.9E+02 0.0063 19.2 7.0 73 33-113 21-94 (137)
158 KOG1954 Endocytosis/signaling 21.3 3E+02 0.0066 23.4 5.6 78 52-132 165-242 (532)
159 cd01450 vWFA_subfamily_ECM Von 21.0 2.7E+02 0.0057 18.5 4.8 40 68-110 102-141 (161)
160 cd01867 Rab8_Rab10_Rab13_like 20.8 2.9E+02 0.0062 18.9 7.6 28 62-92 69-96 (167)
161 TIGR01166 cbiO cobalt transpor 20.8 3.2E+02 0.0069 19.4 6.2 77 34-110 107-186 (190)
162 PRK11064 wecC UDP-N-acetyl-D-m 20.7 1.9E+02 0.004 24.0 4.4 66 20-85 328-404 (415)
163 cd01864 Rab19 Rab19 subfamily. 20.7 2.8E+02 0.0061 18.8 6.7 30 53-82 59-89 (165)
164 cd05008 SIS_GlmS_GlmD_1 SIS (S 20.7 1.4E+02 0.0029 19.6 3.1 31 14-47 47-77 (126)
165 COG4868 Uncharacterized protei 20.6 1.9E+02 0.004 24.1 4.2 62 31-93 121-193 (493)
166 cd07371 2A5CPDO_AB The alpha a 20.5 4.1E+02 0.0089 20.5 11.6 110 20-132 79-203 (268)
167 cd04170 EF-G_bact Elongation f 20.5 3.9E+02 0.0084 20.3 6.5 74 53-135 71-145 (268)
168 KOG4764 Uncharacterized conser 20.5 83 0.0018 19.6 1.7 17 29-45 52-68 (70)
169 PF00107 ADH_zinc_N: Zinc-bind 20.4 2.4E+02 0.0051 18.4 4.3 31 16-50 35-65 (130)
170 COG0300 DltE Short-chain dehyd 20.3 2.7E+02 0.0059 21.9 5.0 24 30-56 165-188 (265)
171 PF02878 PGM_PMM_I: Phosphoglu 20.2 1.9E+02 0.0041 19.7 3.8 33 16-48 41-73 (137)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=5.6e-35 Score=215.15 Aligned_cols=109 Identities=38% Similarity=0.617 Sum_probs=101.4
Q ss_pred CCCCCCCCCCCceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCC
Q 039252 3 SSSSSINMIPHTKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 3 ~~~~~~~~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
+||||.+ ..|||||||++.|+++.|+.+|+.+|+++||++|+|.. +.+|+.|.++|.+||++|+++|+|+||+|.
T Consensus 18 ~~~~~~~----~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya 93 (187)
T PLN03194 18 PSSSSSA----KPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYC 93 (187)
T ss_pred ccCCCCC----CCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcc
Confidence 3445555 78999999999999989999999999999999999998 999999999999999999999999999999
Q ss_pred CchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCccccc
Q 039252 82 SSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQ 119 (139)
Q Consensus 82 ~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~~ 119 (139)
.|.||++||..++++. ..||||||+++|++|++|
T Consensus 94 ~S~WCLdEL~~I~e~~----~~ViPIFY~VdPsdVr~q 127 (187)
T PLN03194 94 ESYFCLHELALIMESK----KRVIPIFCDVKPSQLRVV 127 (187)
T ss_pred cchhHHHHHHHHHHcC----CEEEEEEecCCHHHhhcc
Confidence 9999999999998753 489999999999999996
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=9.2e-35 Score=261.92 Aligned_cols=135 Identities=51% Similarity=0.846 Sum_probs=125.7
Q ss_pred CCCCCCCCCCCCCceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC
Q 039252 1 MASSSSSINMIPHTKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY 80 (139)
Q Consensus 1 ~~~~~~~~~~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~ 80 (139)
|||||||+ +.+.|||||||+++|+|+.|+.||+.+|.++||++|.|+.+..|+.|..++.+||++|++.|+|+|++|
T Consensus 1 ~~~~~~~~---~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~y 77 (1153)
T PLN03210 1 MASSSSSS---RNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNY 77 (1153)
T ss_pred CCCCCCCC---CCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCc
Confidence 67766543 369999999999999999999999999999999999988799999999999999999999999999999
Q ss_pred CCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCccccccCchHHHHHHHHHHhcccC
Q 039252 81 ASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEKM 138 (139)
Q Consensus 81 ~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~~~~ 138 (139)
+.|.||++||..+++++++.++.||||||+|+|++|+.|+|.||++|.++++...+++
T Consensus 78 a~s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~~~ 135 (1153)
T PLN03210 78 ASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTEDE 135 (1153)
T ss_pred ccchHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccchhH
Confidence 9999999999999999988999999999999999999999999999999987765543
No 3
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.93 E-value=5.3e-25 Score=154.77 Aligned_cols=122 Identities=44% Similarity=0.725 Sum_probs=103.4
Q ss_pred eeeEEEecccC-cchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHH
Q 039252 15 KYDVFLSFRGK-DVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKI 93 (139)
Q Consensus 15 ~yDVFISys~~-D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a 93 (139)
+|||||||+++ +....|+.+|...|...|+.+|.|+....|... .+|.++|++|+++|+|+||+|+.|+||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchH-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 59999999993 444679999999999999999999873333333 3999999999999999999999999999999999
Q ss_pred HHHHhh-cCCEEEEEEEecCCCccccccCchHHHHHHHHHHhccc
Q 039252 94 LESKNK-YGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFKEK 137 (139)
Q Consensus 94 ~~~~~~-~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~~~ 137 (139)
.+.... ...+||||+++..|.++.++.+.++..+..+...+.++
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~ 124 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPED 124 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCc
Confidence 987644 66899999999888889999999999998875555443
No 4
>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=99.91 E-value=4.2e-26 Score=161.97 Aligned_cols=115 Identities=39% Similarity=0.603 Sum_probs=100.7
Q ss_pred EEEecccCcchhhHHHHHHHHHhcC--CceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHH
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRK--KIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKIL 94 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~--Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~ 94 (139)
|||||++.+.+++|+.+|...|++. |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|+||+.|+..|+
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999333568999999999999 999999998 9999999999999999999999999999999999999999999
Q ss_pred HHHhhc--CCEEEEEEEecCCCccc-cccCchHHHHHHHHH
Q 039252 95 ESKNKY--GQIVVPVFYLVDPSDVR-NQTGTFGDSFSKLEE 132 (139)
Q Consensus 95 ~~~~~~--~~~iiPV~~~v~p~~v~-~~~~~~~~~f~~~~~ 132 (139)
++.... ...|+||++++.++++. .+.+.|+..|....+
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~ 121 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLR 121 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEE
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhhee
Confidence 997554 48999999999999999 688888887765544
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.82 E-value=3.8e-21 Score=128.99 Aligned_cols=87 Identities=31% Similarity=0.494 Sum_probs=74.9
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHH
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESK 97 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~ 97 (139)
|||||++.|. .+|..|...|++.|+++|+|..+.+|..+.+.|.++|++|+++|+++||+|..|+||..|+..|.+
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--EFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 8999999995 499999999999999999996588999999999999999999999999999999999999999944
Q ss_pred hhcCCEEEEEEEe
Q 039252 98 NKYGQIVVPVFYL 110 (139)
Q Consensus 98 ~~~~~~iiPV~~~ 110 (139)
.+.+||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 33489999975
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.25 E-value=1.6e-11 Score=101.84 Aligned_cols=91 Identities=24% Similarity=0.405 Sum_probs=79.5
Q ss_pred CceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCC--------Cc
Q 039252 13 HTKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYA--------SS 83 (139)
Q Consensus 13 ~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~--------~S 83 (139)
+++.||||||++.- .+..+.-|+-.|.-+||+||+|-+ +..|. +.+.+...|..++.+|+|++|+.+ .-
T Consensus 610 skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nCe 687 (832)
T KOG3678|consen 610 SKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCE 687 (832)
T ss_pred cCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccHH
Confidence 47899999998774 457999999999999999999999 88886 677899999999999999999964 36
Q ss_pred hhHHHHHHHHHHHHhhcCCEEEEEEE
Q 039252 84 RWCLNELVKILESKNKYGQIVVPVFY 109 (139)
Q Consensus 84 ~wc~~El~~a~~~~~~~~~~iiPV~~ 109 (139)
.|...|+..|+++.+ .|||||=
T Consensus 688 DWVHKEl~~Afe~~K----NIiPI~D 709 (832)
T KOG3678|consen 688 DWVHKELKCAFEHQK----NIIPIFD 709 (832)
T ss_pred HHHHHHHHHHHHhcC----Ceeeeec
Confidence 788899999998776 7999984
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=98.92 E-value=1.9e-09 Score=75.63 Aligned_cols=90 Identities=22% Similarity=0.364 Sum_probs=49.7
Q ss_pred eeEEEecccCcchhhHHHHHHHHHhcC-------CceE-Ee---------eCC-CCCCCCcchhhHHhhhcCcEEEEEEc
Q 039252 16 YDVFLSFRGKDVRHNFISHLNAALCRK-------KIVT-FN---------DDK-LNRGDEISPSLSSAIEGSKISIVIFS 77 (139)
Q Consensus 16 yDVFISys~~D~~~~fv~~L~~~L~~~-------Gi~v-f~---------d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS 77 (139)
|.|||||++.|.. ..+..|.+.+... ++.. +. +.. ......|...|.++|.+|+++||+++
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 5799999999853 4778888777663 2221 11 111 22334778899999999999999999
Q ss_pred CCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEe
Q 039252 78 KGYASSRWCLNELVKILESKNKYGQIVVPVFYL 110 (139)
Q Consensus 78 ~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~ 110 (139)
++...|.|+..|+..|++ .+..||.|.+.
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 999999999999999887 34478888764
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=98.32 E-value=5.7e-06 Score=58.82 Aligned_cols=64 Identities=20% Similarity=0.307 Sum_probs=52.8
Q ss_pred eEEEecccCcch-hhHHHHHHHHHhcC-CceEEeeCC-CC--CCCCcchhhHHhhhcCcEEEEEEcCCC
Q 039252 17 DVFLSFRGKDVR-HNFISHLNAALCRK-KIVTFNDDK-LN--RGDEISPSLSSAIEGSKISIVIFSKGY 80 (139)
Q Consensus 17 DVFISys~~D~~-~~fv~~L~~~L~~~-Gi~vf~d~~-~~--~G~~i~~~i~~aI~~S~~~I~vlS~~~ 80 (139)
-|||||++.... ...|..|...|.+. |+.|.+|.. .. ++..+..=+.+++++++.+|+|+||.+
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 499999986543 36789999999999 999999998 63 366677778888999999999999654
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=97.59 E-value=0.00026 Score=49.56 Aligned_cols=96 Identities=19% Similarity=0.172 Sum_probs=69.7
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCC-------------Cc
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYA-------------SS 83 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~-------------~S 83 (139)
|||.|+ .|. .++..+...|+..|+.+-.=.. ...|..+.+.+.+.+.+++.+|++++|+=. ..
T Consensus 2 VFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~aR 78 (125)
T PF10137_consen 2 VFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRAR 78 (125)
T ss_pred EEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCccccccccc
Confidence 899998 553 4888999999988888644444 788999999999999999999999999622 12
Q ss_pred hhHHHHHHHHHHHHhhcCCEEEEEEEe--cCCCcccc
Q 039252 84 RWCLNELVKILESKNKYGQIVVPVFYL--VDPSDVRN 118 (139)
Q Consensus 84 ~wc~~El~~a~~~~~~~~~~iiPV~~~--v~p~~v~~ 118 (139)
.....|+..++.+. +..+++-+.-+ -.|+|+..
T Consensus 79 ~NVifE~G~f~g~L--Gr~rv~~l~~~~v~~PSDl~G 113 (125)
T PF10137_consen 79 QNVIFELGLFIGKL--GRERVFILVKGGVELPSDLSG 113 (125)
T ss_pred cceeehhhHHHhhc--CcceEEEEEcCCccCCcccCC
Confidence 34578999988754 22345544422 22666543
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=95.64 E-value=0.049 Score=35.04 Aligned_cols=65 Identities=18% Similarity=0.174 Sum_probs=48.5
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCCC-CCCCCcchhhHHhhhcCcEEEEEEcCCCCCc
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKL-NRGDEISPSLSSAIEGSKISIVIFSKGYASS 83 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~-~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S 83 (139)
||||-.-.|-. .--+.|.+.|.+.|..+..-+.+ ..+..-.+.+.+.|++|+++|.++...|-..
T Consensus 2 VFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 2 VFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred EEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 89998877753 34467888888888776444332 3355666788899999999999999998653
No 11
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=94.87 E-value=0.031 Score=43.80 Aligned_cols=94 Identities=16% Similarity=0.169 Sum_probs=65.8
Q ss_pred CCCceeeEEEecccCcchhhHHHHHHHHHhcC--CceEEeeCC----CCCCCCcchhhHHhhh-cCcEEEEEEcCCCCCc
Q 039252 11 IPHTKYDVFLSFRGKDVRHNFISHLNAALCRK--KIVTFNDDK----LNRGDEISPSLSSAIE-GSKISIVIFSKGYASS 83 (139)
Q Consensus 11 ~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~--Gi~vf~d~~----~~~G~~i~~~i~~aI~-~S~~~I~vlS~~~~~S 83 (139)
+..+.||+=+||.++-. ..|+....+++.. .+..|+|.. +.+| ++.+-+...-. .|++.++....+|...
T Consensus 173 ~~~~~~DiG~SFaGEAR--~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~-sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 173 SSEKPVDSGISFAGEAR--NLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPG-SLVSTLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred ccccccceeeEeehhhh--hHHHHHHHhhhcccCCceeeeechhhccccCc-cHHHhcccccCceEEEEEEEeCCceEEe
Confidence 35689999999998753 5999999999844 566788875 3333 34433333322 6888999999999999
Q ss_pred hhHHHHHHHHHHHHhhcCCEEEEEEE
Q 039252 84 RWCLNELVKILESKNKYGQIVVPVFY 109 (139)
Q Consensus 84 ~wc~~El~~a~~~~~~~~~~iiPV~~ 109 (139)
.||..|...+-... .-..+.||.|
T Consensus 250 ~~c~~E~~~~r~~~--~~d~~~rI~~ 273 (329)
T COG4916 250 STCHIEGLEGRLNP--ILDTGFRIKY 273 (329)
T ss_pred eeeccchhhccccc--cccccceEEE
Confidence 99999977654321 1124556655
No 12
>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=94.72 E-value=0.24 Score=33.37 Aligned_cols=77 Identities=16% Similarity=0.028 Sum_probs=54.2
Q ss_pred hhHHHHHHHHHhcCCceEEeeCC--CC---CCC----CcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhh
Q 039252 29 HNFISHLNAALCRKKIVTFNDDK--LN---RGD----EISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNK 99 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~--~~---~G~----~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~ 99 (139)
..+...+.+.|++.|+.++...+ .. .+. .+.+.-.++|++|+++|+++.+.- .+.=+..|+..|....+
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~algk- 90 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALGK- 90 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCCC-
Confidence 46889999999999999998774 21 122 233344578999999999988755 67778899999976433
Q ss_pred cCCEEEEEEEe
Q 039252 100 YGQIVVPVFYL 110 (139)
Q Consensus 100 ~~~~iiPV~~~ 110 (139)
+|+-+.-+
T Consensus 91 ---pv~~~~~d 98 (113)
T PF05014_consen 91 ---PVILLTED 98 (113)
T ss_dssp ---EEEEEECC
T ss_pred ---EEEEEEcC
Confidence 55544433
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=93.34 E-value=0.33 Score=36.72 Aligned_cols=96 Identities=22% Similarity=0.167 Sum_probs=68.8
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcC-C-ceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCC--------C----
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRK-K-IVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYA--------S---- 82 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~-G-i~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~--------~---- 82 (139)
-|||-|+++ ..|.....+|++. - -.+|.|.-+..|..+.+.+.+-|.+++..|++.+|+=. .
T Consensus 84 kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~p 159 (233)
T COG4271 84 KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAFP 159 (233)
T ss_pred eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhccc
Confidence 899999764 3777777888755 3 34787776888999999999999999999999999943 1
Q ss_pred --chhHHHHHHHHHHHHhhcCCEEEEEEEe----cCCCcccc
Q 039252 83 --SRWCLNELVKILESKNKYGQIVVPVFYL----VDPSDVRN 118 (139)
Q Consensus 83 --S~wc~~El~~a~~~~~~~~~~iiPV~~~----v~p~~v~~ 118 (139)
......||..++.+. ++.+++-+.-+ --|||+..
T Consensus 160 raRqNVifELGm~mgrL--gRkrv~Il~k~~envelPSDi~G 199 (233)
T COG4271 160 RARQNVIFELGMFMGRL--GRKRVMILMKRDENVELPSDIAG 199 (233)
T ss_pred cccccchhhHhhHHhhc--ccceEEEEecccccccCccccCc
Confidence 233567888888764 23355444331 23777654
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=89.26 E-value=2.1 Score=26.91 Aligned_cols=61 Identities=10% Similarity=0.063 Sum_probs=39.6
Q ss_pred eeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC
Q 039252 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY 80 (139)
Q Consensus 16 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~ 80 (139)
++|+|...+++. ...+..+...|.+.|+++-+|.+ +..+...+..|-..--.+++++.++.
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~---~~~~~~~~~~a~~~g~~~~iiig~~e 62 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR---NEKLGKKIREAQLQKIPYILVVGDKE 62 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcch
Confidence 677777655443 35778899999999999998865 23455566666544333455555443
No 15
>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=84.84 E-value=4.9 Score=25.24 Aligned_cols=60 Identities=18% Similarity=0.169 Sum_probs=39.4
Q ss_pred eeEEEecccC---cchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 16 YDVFLSFRGK---DVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 16 yDVFISys~~---D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
++|+|-..+. . ....+..+...|.+.|+++-+|.. +..+...+..|-...-.+++++.++
T Consensus 2 ~~v~ii~~~~~~~~-~~~~a~~~~~~Lr~~g~~v~~~~~---~~~~~k~~~~a~~~g~~~~iiig~~ 64 (94)
T cd00738 2 IDVAIVPLTDPRVE-AREYAQKLLNALLANGIRVLYDDR---ERKIGKKFREADLRGVPFAVVVGED 64 (94)
T ss_pred eEEEEEECCCCcHH-HHHHHHHHHHHHHHCCCEEEecCC---CcCHhHHHHHHHhCCCCEEEEECCC
Confidence 5777665443 2 235778899999999999998764 3455555666654444566777764
No 16
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=81.37 E-value=12 Score=24.47 Aligned_cols=61 Identities=15% Similarity=0.099 Sum_probs=43.1
Q ss_pred HHHHHHHhcCCceEEeeCCC--CCCCCcchhhH---HhhhcCcEEEEEEcCCCCCchhHHHHHHHHHH
Q 039252 33 SHLNAALCRKKIVTFNDDKL--NRGDEISPSLS---SAIEGSKISIVIFSKGYASSRWCLNELVKILE 95 (139)
Q Consensus 33 ~~L~~~L~~~Gi~vf~d~~~--~~G~~i~~~i~---~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~ 95 (139)
....+.|...|+.|.---.+ ..|.++.+-+. ..+..|+.++++ |++..|.=|+-|...|..
T Consensus 19 ~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~l--~gWe~S~GA~~E~~~A~~ 84 (92)
T PF14359_consen 19 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYML--PGWENSRGARLEHELAKK 84 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEEc--CCcccCcchHHHHHHHHH
Confidence 45778889999877644443 45555554333 456678755554 999999999999998875
No 17
>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=80.69 E-value=3.9 Score=26.10 Aligned_cols=44 Identities=20% Similarity=0.252 Sum_probs=30.6
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhh-cCcEEEEE
Q 039252 29 HNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIE-GSKISIVI 75 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~-~S~~~I~v 75 (139)
..++..|...|.+.|+++.+|.. +..+...+..|-. +...+|+|
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~---~~~~~k~~~~a~~~g~p~~iii 59 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS---DKSLGKQIKYADKLGIPFIIII 59 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS---SSTHHHHHHHHHHTTESEEEEE
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCchhHHHHHHhhcCCeEEEEE
Confidence 35789999999999999999975 3444456666654 44444444
No 18
>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=77.59 E-value=9.7 Score=25.78 Aligned_cols=63 Identities=14% Similarity=-0.029 Sum_probs=41.9
Q ss_pred ceeeEEEecccC-cchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC
Q 039252 14 TKYDVFLSFRGK-DVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY 80 (139)
Q Consensus 14 ~~yDVFISys~~-D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~ 80 (139)
..+||||-..++ +.....+..|...|.+.|++|-+|.. ..+...+..|-+.--.+++++.++-
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 357888877651 22235678899999999999998753 3556666666554444566666554
No 19
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=76.37 E-value=3.3 Score=32.70 Aligned_cols=101 Identities=19% Similarity=0.323 Sum_probs=73.2
Q ss_pred CCCCceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCC---CCCCCCcchhhHHhhhc--CcEEEEEEcCCCCCch
Q 039252 10 MIPHTKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK---LNRGDEISPSLSSAIEG--SKISIVIFSKGYASSR 84 (139)
Q Consensus 10 ~~~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~---~~~G~~i~~~i~~aI~~--S~~~I~vlS~~~~~S~ 84 (139)
|+++-++.+=+||.+.|. ..++...+-|...|+.+|+|.. =..|.++.+ ++..|.+ .-.++..+|.+|-...
T Consensus 1 ~~~~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~ 77 (329)
T COG4916 1 MTRNVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKM 77 (329)
T ss_pred CccchheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcC
Confidence 566778888999999885 4899999999999999999864 234555552 3333333 3345778899999999
Q ss_pred hHHHHHHHHHHHHh-hcCCEEEEEEEecCC
Q 039252 85 WCLNELVKILESKN-KYGQIVVPVFYLVDP 113 (139)
Q Consensus 85 wc~~El~~a~~~~~-~~~~~iiPV~~~v~p 113 (139)
|...|+...+...+ +....++|-+++..|
T Consensus 78 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 78 WTNHERQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred CCcHHHHHHHHHHhhhccEEehhhhhccCC
Confidence 99999888776653 345677887776443
No 20
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=71.79 E-value=19 Score=21.70 Aligned_cols=60 Identities=17% Similarity=0.084 Sum_probs=35.1
Q ss_pred HHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEE
Q 039252 33 SHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIV 104 (139)
Q Consensus 33 ~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~i 104 (139)
..+++.|++.|++|-.... ..+++.....++++++|.+.-+. -.++....+-.+.++..|
T Consensus 8 ~a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lv 67 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLV 67 (70)
T ss_pred HHHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEE
Confidence 3577788888998854322 12244557889999999966553 233333333333444444
No 21
>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=71.13 E-value=28 Score=26.86 Aligned_cols=68 Identities=16% Similarity=0.091 Sum_probs=48.6
Q ss_pred hhHHHHHHHHHhcCCceEEeeCC--CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHh
Q 039252 29 HNFISHLNAALCRKKIVTFNDDK--LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKN 98 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~--~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~ 98 (139)
.+++.+|.+.|.+.|+.+-.... +--|--+.-.. .-.+.++=|+.+|-+...+.....+|..++....
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vPL~~--~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVPLKL--MYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHHHHH--HcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 36999999999999998865543 44454333222 2234567788888888878888889999998764
No 22
>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=68.88 E-value=6.6 Score=27.26 Aligned_cols=32 Identities=6% Similarity=0.052 Sum_probs=25.4
Q ss_pred hhHHHHHHHHHhcCCceEEeeCC-C---CCCCCcch
Q 039252 29 HNFISHLNAALCRKKIVTFNDDK-L---NRGDEISP 60 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~-~---~~G~~i~~ 60 (139)
...++.|++.|+..|++|+.|.+ - .+|..+.+
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~ 78 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDK 78 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHh
Confidence 46789999999999999999987 3 46655543
No 23
>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=67.38 E-value=19 Score=22.63 Aligned_cols=48 Identities=15% Similarity=0.082 Sum_probs=31.2
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY 80 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~ 80 (139)
..+..|...|...|+++.+|.+ +..+...+..|-..--.+++++.++-
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCch
Confidence 5778899999999999999876 22344445555443334555555543
No 24
>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=60.96 E-value=23 Score=30.42 Aligned_cols=61 Identities=10% Similarity=0.135 Sum_probs=42.3
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
...||+|..-+++. ...+..|.+.|.+.|++|-+|.+ +..+...+..|-..--..++++.+
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEch
Confidence 46788887765443 46789999999999999999865 445666666665543345555554
No 25
>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=59.60 E-value=37 Score=20.53 Aligned_cols=58 Identities=19% Similarity=0.137 Sum_probs=34.1
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
||+|...+++.. .-+..+...|.+.|++|.++.. +..+...+..|-...-..++++.+
T Consensus 3 ~v~i~~~~~~~~-~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 3 DVYVVPLGEGAL-SEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred cEEEEEcChHHH-HHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 677776544322 3567888999999999988653 123444444443333234455544
No 26
>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=58.81 E-value=10 Score=25.11 Aligned_cols=56 Identities=18% Similarity=0.239 Sum_probs=34.2
Q ss_pred cCcchhhHHHHHHHHHhcCCceEEeeCC-CCC----------CCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 24 GKDVRHNFISHLNAALCRKKIVTFNDDK-LNR----------GDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 24 ~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~----------G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
..|.|++-+..|.+.|.++|+.|...+- +.. |-.+.+.+.++++.++++|+.....
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~ 77 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHD 77 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--G
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCH
Confidence 3467778889999999999999877664 321 2223446678888888766654433
No 27
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=55.73 E-value=36 Score=28.38 Aligned_cols=61 Identities=18% Similarity=0.132 Sum_probs=40.6
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
.++|+|-.-+++. ...+..|...|.+.|+++.+|.. +..+...+..|-+.---.++++.++
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~---srSLgKQiK~AdK~GaPfvIIIGed 334 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL---DDSLGNKIRRAGTEWIPFVIIIGER 334 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECch
Confidence 4677776655543 35778999999999999999864 3455566666655444445555443
No 28
>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=55.71 E-value=23 Score=25.90 Aligned_cols=47 Identities=30% Similarity=0.314 Sum_probs=34.6
Q ss_pred HHhcCCce-EEeeCC--CC-CC-CCcchhhHHhhhcCcE-----EEEEEcCCCCCch
Q 039252 38 ALCRKKIV-TFNDDK--LN-RG-DEISPSLSSAIEGSKI-----SIVIFSKGYASSR 84 (139)
Q Consensus 38 ~L~~~Gi~-vf~d~~--~~-~G-~~i~~~i~~aI~~S~~-----~I~vlS~~~~~S~ 84 (139)
.|.+.||+ +-+|.+ +. |. ..+.+++.+.+++++. -|+|+|.+.-.+.
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~ 91 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSD 91 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCccc
Confidence 48899999 667766 53 44 5677888888887774 3889998876554
No 29
>COG0400 Predicted esterase [General function prediction only]
Probab=55.58 E-value=33 Score=25.86 Aligned_cols=56 Identities=18% Similarity=0.068 Sum_probs=43.2
Q ss_pred CCCceeeEEEecccCcc--hhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhh
Q 039252 11 IPHTKYDVFLSFRGKDV--RHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIE 67 (139)
Q Consensus 11 ~~~~~yDVFISys~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~ 67 (139)
......-|||+|-..|. ....+.+|.+.|+..|..|+.... ..|..+..+-.+++.
T Consensus 142 ~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~~-~~GH~i~~e~~~~~~ 199 (207)
T COG0400 142 PDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRWH-EGGHEIPPEELEAAR 199 (207)
T ss_pred cccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEEe-cCCCcCCHHHHHHHH
Confidence 35678889999988886 356778999999999999987653 478888866555543
No 30
>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=55.28 E-value=23 Score=21.94 Aligned_cols=32 Identities=16% Similarity=0.179 Sum_probs=17.1
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEe
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFN 48 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~ 48 (139)
.|+|.+-..+.....+..+.+.|...|+.+++
T Consensus 45 ~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~ 76 (79)
T cd03364 45 EVILAFDGDEAGQKAALRALELLLKLGLNVRV 76 (79)
T ss_pred eEEEEECCCHHHHHHHHHHHHHHHHCCCeEEE
Confidence 45555544333344555666666666665553
No 31
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=54.85 E-value=47 Score=24.54 Aligned_cols=76 Identities=12% Similarity=-0.018 Sum_probs=52.0
Q ss_pred hHHHHHHHHHhcCCceEEeeCC--C-----CCC---CCcchhhHHhhhcCcEEEEEEcCCC-CCchhHHHHHHHHHHHHh
Q 039252 30 NFISHLNAALCRKKIVTFNDDK--L-----NRG---DEISPSLSSAIEGSKISIVIFSKGY-ASSRWCLNELVKILESKN 98 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~--~-----~~G---~~i~~~i~~aI~~S~~~I~vlS~~~-~~S~wc~~El~~a~~~~~ 98 (139)
+..+.|++.|.+.|+.++.-.. . .|+ ..|.+.=...|.+|+.+|+++.+-= ...+-+..|+.++....+
T Consensus 20 ~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~AlgK 99 (172)
T COG3613 20 ELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAIALGK 99 (172)
T ss_pred HHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHHHcCC
Confidence 5678889999999999887632 1 221 1233344466889999999998765 123446789999987443
Q ss_pred hcCCEEEEEEE
Q 039252 99 KYGQIVVPVFY 109 (139)
Q Consensus 99 ~~~~~iiPV~~ 109 (139)
++++.+-
T Consensus 100 ----Pv~~~~~ 106 (172)
T COG3613 100 ----PVYAYRK 106 (172)
T ss_pred ----ceEEEee
Confidence 7777664
No 32
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=54.68 E-value=39 Score=28.25 Aligned_cols=63 Identities=16% Similarity=0.024 Sum_probs=40.6
Q ss_pred eeeEEEeccc--CcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCC
Q 039252 15 KYDVFLSFRG--KDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 15 ~yDVFISys~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
.++|+|---. .+.....+..|...|.+.|++|.+|.+ -.+|. .+..|-..---+++|+.++-+
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~----ki~~a~~~giP~~iiVG~~e~ 410 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGA----KFATMDLIGLPWQIIVGPKGL 410 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhH----HHHHHHHcCCCEEEEECCccc
Confidence 4788876542 233346789999999999999999987 54454 344443332335666666544
No 33
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=53.25 E-value=56 Score=25.85 Aligned_cols=71 Identities=25% Similarity=0.197 Sum_probs=48.4
Q ss_pred HHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC-----------------CCCCchhHHHHHHHHHHHH
Q 039252 35 LNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK-----------------GYASSRWCLNELVKILESK 97 (139)
Q Consensus 35 L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~-----------------~~~~S~wc~~El~~a~~~~ 97 (139)
+.-.|..+|+++.--- +.|+.+++.++.+ +...+++-+.++| +|..-.-|..||..|-+-.
T Consensus 159 lS~YLA~~G~KvAN~P-Lvpe~~lP~~L~~-~~~~kivGLtIdp~rL~~IR~~Rl~~lg~s~Ya~~~~i~~El~~A~~l~ 236 (269)
T PRK05339 159 TSLYLANKGIKAANYP-LVPEVPLPEELFP-IDPKKIFGLTIDPERLIEIRKERLPNLGLSRYASLEQCREELAEAERLF 236 (269)
T ss_pred HHHHHHccCCceEeeC-CCCCCCCCHHHHh-CCCCcEEEEeCCHHHHHHHHHHHhcccCcCcCCCHHHHHHHHHHHHHHH
Confidence 4556666899886321 6677777766654 5555776666665 4788889999999998877
Q ss_pred hhcCCEEEEE
Q 039252 98 NKYGQIVVPV 107 (139)
Q Consensus 98 ~~~~~~iiPV 107 (139)
+..+-++|=|
T Consensus 237 ~k~~~pvIdv 246 (269)
T PRK05339 237 RREGIPVIDV 246 (269)
T ss_pred HHcCCCEEEC
Confidence 6555555433
No 34
>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=53.10 E-value=57 Score=20.75 Aligned_cols=64 Identities=13% Similarity=0.080 Sum_probs=41.0
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-CC-------CCCCcchhhHHhhhcCcEEEEEEcCCCC
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LN-------RGDEISPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~-------~G~~i~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
+|.|..+.-....++.+|...|.++|.++.+-+- .. -+..+......++..|+.+|+++.++..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~ 74 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPL 74 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHH
Confidence 3566655544456778999999888988655421 11 1112334455788889999888887644
No 35
>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=52.97 E-value=22 Score=23.74 Aligned_cols=29 Identities=7% Similarity=0.054 Sum_probs=22.0
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEe
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFN 48 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~ 48 (139)
||||.+..|.. -...+.+.|.+.|++++-
T Consensus 3 vlisv~~~dk~--~~~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSKP--ELLPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCcccch--hHHHHHHHHHHCCCEEEE
Confidence 79999877753 444777888888998864
No 36
>PRK02551 flavoprotein NrdI; Provisional
Probab=52.85 E-value=76 Score=22.87 Aligned_cols=103 Identities=15% Similarity=0.250 Sum_probs=51.6
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcC--CceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC-CCc--------hh
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRK--KIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY-ASS--------RW 85 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~--Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~-~~S--------~w 85 (139)
=+|.|-++.-. .||..|...+.+. +..... +...+.+.++-.. +. ..--.+++.|.| -.. .|
T Consensus 6 I~Y~S~TGNt~--rFv~kL~~~~~~~~~~~~~~~---i~~~~~i~~~~~~-~~-~~~p~vli~pTY~~gG~~~~~~~~~~ 78 (154)
T PRK02551 6 LVYISLSGNTR--SFVKRLSDYLATQHKDIEVNP---INIKDLIHETTDF-FP-ETEPFVAFLPTYLEGGNGIDNGDVEI 78 (154)
T ss_pred EEEEeCChhHH--HHHHHHhcHHhhcccccccee---cccccccCccccc-cc-cCCCEEEEEeeecCCCCCcccCcccc
Confidence 36888776643 5999998766442 343321 2222222111000 11 122344556777 322 45
Q ss_pred HHHHHHHHHHHHhhcCCEEEEEEEecCCCccccccCchHHHHHHHHHHhc
Q 039252 86 CLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFK 135 (139)
Q Consensus 86 c~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~ 135 (139)
....+...+..... ...+.=|+= .....||+.|...+..+.
T Consensus 79 vp~~v~dFL~~~~N-~~~~~gVig--------sGNrNfg~~F~~aa~~ia 119 (154)
T PRK02551 79 LTTPLGDFIAYHDN-AKRCLGIIG--------SGNRNFNNQYCLTAKQYA 119 (154)
T ss_pred chHHHHHHHcchhh-hhheEEEEe--------ecccHHHHHHHHHHHHHH
Confidence 66666666532221 234555542 224478888888777554
No 37
>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=52.42 E-value=32 Score=25.60 Aligned_cols=46 Identities=17% Similarity=0.082 Sum_probs=32.5
Q ss_pred eeeEEEecccCc-----chhhHHHHHHHHHhcCCceEEeeCC-C-CCCCCcch
Q 039252 15 KYDVFLSFRGKD-----VRHNFISHLNAALCRKKIVTFNDDK-L-NRGDEISP 60 (139)
Q Consensus 15 ~yDVFISys~~D-----~~~~fv~~L~~~L~~~Gi~vf~d~~-~-~~G~~i~~ 60 (139)
.++|+|---..+ .-...+..|...|...|+++-+|.+ - .+|..+..
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHH
Confidence 467776643322 1235788999999999999999987 4 77776554
No 38
>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=51.35 E-value=27 Score=25.88 Aligned_cols=43 Identities=14% Similarity=0.291 Sum_probs=36.5
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEE
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISI 73 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I 73 (139)
...+.|..+.+.+|+-+|.|.+ .+|+.|...|.+.+.++..+-
T Consensus 36 ~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~khaf 78 (174)
T TIGR00334 36 ETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENCF 78 (174)
T ss_pred HHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEEe
Confidence 4677888888999999999988 789999999999998877543
No 39
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=50.85 E-value=30 Score=24.21 Aligned_cols=54 Identities=19% Similarity=0.254 Sum_probs=39.3
Q ss_pred eeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCc
Q 039252 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSK 70 (139)
Q Consensus 16 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~ 70 (139)
.++|+-..+.=....+.+.|..++..+|+-++.|-+ .+|+.|...|.+.+.++.
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 455665544322135788888888999999998877 678888888888887744
No 40
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=49.70 E-value=82 Score=21.53 Aligned_cols=85 Identities=13% Similarity=0.247 Sum_probs=43.7
Q ss_pred CCceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcC---cEEEEEEcCCCCCchhHHH
Q 039252 12 PHTKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGS---KISIVIFSKGYASSRWCLN 88 (139)
Q Consensus 12 ~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S---~~~I~vlS~~~~~S~wc~~ 88 (139)
+...+|++|.|+..... .....+ ....++.++. +.|.++.+.+.+|++.. .-.|+++.-+.-. -+..
T Consensus 7 ~~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~~----Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~~ 76 (122)
T PF09837_consen 7 QADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFFP----QQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTPD 76 (122)
T ss_dssp -TSSSEEEEEE----TT-HHHHHH---HH-TTSEEEE------SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----HH
T ss_pred cCCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEee----cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCHH
Confidence 44678999999877643 222222 4555677664 67888888888887765 2255555555432 1334
Q ss_pred HHHHHHHHHhhcCCEEEE
Q 039252 89 ELVKILESKNKYGQIVVP 106 (139)
Q Consensus 89 El~~a~~~~~~~~~~iiP 106 (139)
.+..|.+..+....++-|
T Consensus 77 ~l~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 77 DLEQAFEALQRHDVVLGP 94 (122)
T ss_dssp HHHHHHHHTTT-SEEEEE
T ss_pred HHHHHHHHhccCCEEEee
Confidence 566666655444445555
No 41
>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=48.50 E-value=67 Score=25.19 Aligned_cols=71 Identities=23% Similarity=0.123 Sum_probs=49.3
Q ss_pred HHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC-------------------CCCCchhHHHHHHHHHH
Q 039252 35 LNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK-------------------GYASSRWCLNELVKILE 95 (139)
Q Consensus 35 L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~-------------------~~~~S~wc~~El~~a~~ 95 (139)
|.-.|..+|++|---- +.|+.+++.++.+ +...+++-+.++| +|..-..|..||..|-+
T Consensus 153 lS~YLA~~G~KvAN~P-Lvpe~~lP~~L~~-~~~~ki~GLtidp~~L~~IR~~Rl~~lg~~~s~Ya~~~~i~~El~~A~~ 230 (255)
T PF03618_consen 153 LSMYLANKGYKVANVP-LVPEVPLPEELFE-VDPKKIFGLTIDPERLIEIRRERLKSLGLDDSSYADLERIEEELEYAER 230 (255)
T ss_pred hhHHHHhcCcceeecC-cCCCCCCCHHHHh-CCCCcEEEEECCHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHH
Confidence 4455666898875311 6778888877764 3566666666664 57888899999999988
Q ss_pred HHhhcCCEEEEE
Q 039252 96 SKNKYGQIVVPV 107 (139)
Q Consensus 96 ~~~~~~~~iiPV 107 (139)
-.+..+-++|=|
T Consensus 231 l~~~~~~pvIdv 242 (255)
T PF03618_consen 231 LFRKLGCPVIDV 242 (255)
T ss_pred HHHHcCCCEEEC
Confidence 776655555433
No 42
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=47.70 E-value=49 Score=29.14 Aligned_cols=60 Identities=13% Similarity=0.069 Sum_probs=38.6
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
-++|+|.--+++ ....+..|.+.|...|++|.+|.+ -..|. .+.+|-..---.++|+.++
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgk----Kir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGK----KIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHH----HHHHHHHcCCCEEEEECcc
Confidence 368877665443 346889999999999999999987 44444 4444433222345555544
No 43
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=47.69 E-value=1.5e+02 Score=24.13 Aligned_cols=91 Identities=14% Similarity=0.186 Sum_probs=54.7
Q ss_pred HHHHHHHHHhcC----CceEEeeCCCCCCCCcchhhHHhhhc---CcEEEEEEcCCCCCch--hHHHHHHHHHHHHhh-c
Q 039252 31 FISHLNAALCRK----KIVTFNDDKLNRGDEISPSLSSAIEG---SKISIVIFSKGYASSR--WCLNELVKILESKNK-Y 100 (139)
Q Consensus 31 fv~~L~~~L~~~----Gi~vf~d~~~~~G~~i~~~i~~aI~~---S~~~I~vlS~~~~~S~--wc~~El~~a~~~~~~-~ 100 (139)
..+.+.++|+++ .++|++.- +-|.+..++..+++.. -+++++.+.|.|..+. -..+++..++..... -
T Consensus 74 ~T~~q~~~L~~~L~~~~~~V~~am--ry~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~~al~~~~~~~ 151 (320)
T COG0276 74 ITRAQAAALEERLDLPDFKVYLAM--RYGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELARALKELRGQP 151 (320)
T ss_pred HHHHHHHHHHHHhCCCCccEEEee--cCCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHHHHHHhcCCCC
Confidence 444555555443 57777764 4566666666666664 3457889999987543 345677777765432 1
Q ss_pred CCEEEEEEEecCCCccccccCchHHHHHHHHH
Q 039252 101 GQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEE 132 (139)
Q Consensus 101 ~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~~ 132 (139)
....||-+|+ .+.|-.+++++.+
T Consensus 152 ~i~~I~~~~~---------~p~yI~a~a~~I~ 174 (320)
T COG0276 152 KISTIPDYYD---------EPLYIEALADSIR 174 (320)
T ss_pred ceEEecCccC---------ChHHHHHHHHHHH
Confidence 3466666664 3456666665544
No 44
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=47.03 E-value=1e+02 Score=23.75 Aligned_cols=67 Identities=16% Similarity=0.155 Sum_probs=43.6
Q ss_pred hHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcC
Q 039252 30 NFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYG 101 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~ 101 (139)
...+.|.+.++.+| --++|-+ ..+.+.. .++...-.+-. +|+|-|...+.+...|+...+.++...+
T Consensus 79 ~~i~ll~~la~~~~-~d~iDiEl~~~~~~~-~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 79 EYIELLKKLAELNG-PDYIDIELSSPEDDV-KEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHhhcC-CCEEEEEccCcchhH-HHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 45666666666666 5677777 3333322 22222222222 8999999999999999999999886544
No 45
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=46.49 E-value=55 Score=28.44 Aligned_cols=60 Identities=15% Similarity=0.188 Sum_probs=39.6
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
..||+|..-+++ ....+..+.+.|.+.|++|-+|.+ +..+...+..|-..--..++|+.+
T Consensus 438 P~qV~Iipi~e~-~~~~A~~Ia~~LR~~GirVelD~~---~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDE-VNEYAEKVLNDMRKRRIRAEIDYA---GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHH-HHHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECh
Confidence 458887765443 346788999999999999999875 334555666654433334555554
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=45.08 E-value=45 Score=28.42 Aligned_cols=72 Identities=15% Similarity=0.245 Sum_probs=38.1
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHH
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESK 97 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~ 97 (139)
+|+-|+++|.-...+ +.|.+.. |++|..|. +.-.+.+||.+|==|-+ .|..+|+...+...
T Consensus 128 AFVtf~~Ke~Aq~Ai----k~lnn~E--------ir~GK~ig--vc~Svan~RLFiG~IPK-----~k~keeIlee~~kV 188 (506)
T KOG0117|consen 128 AFVTFCTKEEAQEAI----KELNNYE--------IRPGKLLG--VCVSVANCRLFIGNIPK-----TKKKEEILEEMKKV 188 (506)
T ss_pred EEEEeecHHHHHHHH----HHhhCcc--------ccCCCEeE--EEEeeecceeEeccCCc-----cccHHHHHHHHHhh
Confidence 799999987533333 3343332 33444443 12235667766654433 46667777666654
Q ss_pred hhcCCEEEEEEEe
Q 039252 98 NKYGQIVVPVFYL 110 (139)
Q Consensus 98 ~~~~~~iiPV~~~ 110 (139)
-.+ ++..|+|.
T Consensus 189 teG--VvdVivy~ 199 (506)
T KOG0117|consen 189 TEG--VVDVIVYP 199 (506)
T ss_pred CCC--eeEEEEec
Confidence 222 44445553
No 47
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=44.87 E-value=65 Score=26.85 Aligned_cols=46 Identities=22% Similarity=0.269 Sum_probs=35.7
Q ss_pred hhhHHhhhcCc-EEEEEEcCCC-CCchhHHHHHHHHHHHHhhcCCEEE
Q 039252 60 PSLSSAIEGSK-ISIVIFSKGY-ASSRWCLNELVKILESKNKYGQIVV 105 (139)
Q Consensus 60 ~~i~~aI~~S~-~~I~vlS~~~-~~S~wc~~El~~a~~~~~~~~~~ii 105 (139)
+.+++++.+.+ +..++.+|+= ...-|..+||.++.+.....+.+||
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 47888888887 6777788874 5788999999999887665665554
No 48
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=44.61 E-value=60 Score=28.32 Aligned_cols=61 Identities=10% Similarity=0.034 Sum_probs=41.4
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
..||+|-.-+... ...+..|.+.|.+.|++|-+|.+ +..+...+..|-..--..++|+.++
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 4588887755433 35788999999999999999865 3445556666654444456666653
No 49
>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=42.62 E-value=39 Score=22.24 Aligned_cols=61 Identities=21% Similarity=0.287 Sum_probs=36.6
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCC----CC-CCC---------CcchhhHHhhhcCcEEEEEEcCC
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK----LN-RGD---------EISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~----~~-~G~---------~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
.||+|.+..|.. -...+.+.|.+.|++++--.. +. .|- .-..++.+.|++-++-++|-.|+
T Consensus 2 ~vl~s~~~~~k~--~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDKP--EAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcHh--HHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 388999877753 344777777778888764210 00 010 01246777777777777776665
No 50
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=42.34 E-value=51 Score=27.95 Aligned_cols=45 Identities=18% Similarity=0.096 Sum_probs=31.6
Q ss_pred eeeEEEeccc-----CcchhhHHHHHHHHHhcCCceEEeeC-C-CCCCCCcc
Q 039252 15 KYDVFLSFRG-----KDVRHNFISHLNAALCRKKIVTFNDD-K-LNRGDEIS 59 (139)
Q Consensus 15 ~yDVFISys~-----~D~~~~fv~~L~~~L~~~Gi~vf~d~-~-~~~G~~i~ 59 (139)
.++|+|---. .+.-...+..|.+.|.+.|++|-+|. + -.+|..+.
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~ 338 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFN 338 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHH
Confidence 4788776531 12224578999999999999999998 4 56665443
No 51
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=41.63 E-value=63 Score=26.92 Aligned_cols=61 Identities=13% Similarity=0.113 Sum_probs=40.2
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
...||+|.+-+.+. ...+-.+.+.|.++|++|-++.. +..+...+..|-+.--..++++.+
T Consensus 324 ~~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~~---~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 324 QSIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDLS---SSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEeeC---CCCHHHHHHHHHHcCCCEEEEEec
Confidence 34689998854433 35677899999999999987643 334555666665543345555554
No 52
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=41.28 E-value=28 Score=30.11 Aligned_cols=64 Identities=16% Similarity=0.172 Sum_probs=40.9
Q ss_pred ceeeEEEeccc--CcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCC
Q 039252 14 TKYDVFLSFRG--KDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 14 ~~yDVFISys~--~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
-.|+|+|---. .+.....+..|...|...|+++-+|++ -.+|..+.+.- ..... +++++.++..
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad---~~GiP-~~iiiG~~e~ 533 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADAD---LIGIP-HRIVVGDRGL 533 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHH---hcCCC-EEEEEcCccc
Confidence 45888887543 222346788999999999999999988 55555443321 22223 4555665533
No 53
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=40.62 E-value=1.4e+02 Score=21.54 Aligned_cols=66 Identities=14% Similarity=0.134 Sum_probs=45.0
Q ss_pred HHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEe
Q 039252 31 FISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYL 110 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~ 110 (139)
-+..|.+..++.|++|++ .+|..+.-.+....+-- .+|.| =|..+|...++.....+..++-|+.+
T Consensus 74 ~Ig~l~~lae~~g~~v~i----~~Ggt~ar~~ik~~~p~-~iigV---------AC~~dL~~g~~~~~~~~ip~~gV~l~ 139 (158)
T PF01976_consen 74 DIGDLKKLAEKYGYKVYI----ATGGTLARKIIKEYRPK-AIIGV---------ACERDLISGIQDLKPLGIPVQGVLLD 139 (158)
T ss_pred chhHHHHHHHHcCCEEEE----EcChHHHHHHHHHhCCC-EEEEE---------echHHHHHHHHHHhhcCCCeeEEEeC
Confidence 356788888999999996 46766665444433322 33333 38899999888776566778778775
No 54
>PLN03194 putative disease resistance protein; Provisional
Probab=40.32 E-value=1.3e+02 Score=22.58 Aligned_cols=64 Identities=13% Similarity=0.187 Sum_probs=45.0
Q ss_pred cCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEE
Q 039252 41 RKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVF 108 (139)
Q Consensus 41 ~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~ 108 (139)
+..+.||+.-+ ---...+...+..+++...+.+++-......+.--..+|..+++..+ ..|.||
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSr----i~IvVf 88 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCK----VGVAVF 88 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCe----EEEEEE
Confidence 45789999876 33334678889999999887777766566666555567777776443 677776
No 55
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=39.86 E-value=69 Score=26.11 Aligned_cols=60 Identities=20% Similarity=0.402 Sum_probs=40.2
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhh-cCcEEEEEEcCCCCC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIE-GSKISIVIFSKGYAS 82 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~-~S~~~I~vlS~~~~~ 82 (139)
.||+-|.|+.+| |+..|.++ .-+||.++++. .|.++.+.....+. ..|+.++=.=..|..
T Consensus 196 GfD~~idyk~~d----~~~~L~~a-~P~GIDvyfeN---VGg~v~DAv~~~ln~~aRi~~CG~IS~YN~ 256 (340)
T COG2130 196 GFDAGIDYKAED----FAQALKEA-CPKGIDVYFEN---VGGEVLDAVLPLLNLFARIPVCGAISQYNA 256 (340)
T ss_pred CCceeeecCccc----HHHHHHHH-CCCCeEEEEEc---CCchHHHHHHHhhccccceeeeeehhhcCC
Confidence 589999997664 77666433 44799999985 57777777776666 455555544444543
No 56
>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=39.42 E-value=1.4e+02 Score=23.43 Aligned_cols=60 Identities=7% Similarity=0.076 Sum_probs=33.7
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCC-CcchhhHHhhhcCcEEEEEEc
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGD-EISPSLSSAIEGSKISIVIFS 77 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~-~i~~~i~~aI~~S~~~I~vlS 77 (139)
.|.+-|...+-....+..+...+++.|++|-....+.++. ++. .+...|..++.=++++.
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~-~~i~~l~~~~~d~v~~~ 206 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLT-SEVLKLKAANPDAILPA 206 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchH-HHHHHHHhcCCCEEEEc
Confidence 4555564333224567778888888898877554455553 444 44445555444344443
No 57
>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=39.29 E-value=96 Score=20.24 Aligned_cols=71 Identities=15% Similarity=0.078 Sum_probs=40.6
Q ss_pred HHHHHHHHhcCCceE-EeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEe
Q 039252 32 ISHLNAALCRKKIVT-FNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYL 110 (139)
Q Consensus 32 v~~L~~~L~~~Gi~v-f~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~ 110 (139)
...|...|++.|+.| .+|-...+ +++.+.+.+.+.-++.+|-.+.. ...++..+.+..+.....+.-|+-+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~---~~~~~~~l~~~~k~~~p~~~iv~GG 88 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTP---NLPEAKRLARAIKERNPNIPIVVGG 88 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSST---HHHHHHHHHHHHHTTCTTSEEEEEE
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcC---cHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 468889999999997 44433221 67778887776666766654433 3444444444443333333334333
No 58
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=38.74 E-value=79 Score=27.25 Aligned_cols=61 Identities=8% Similarity=0.106 Sum_probs=40.3
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
.+||+|---+++ ....+..|...|.+.|++|-+|.+ +..+...+..|-..---.++|+.++
T Consensus 476 p~~v~Ii~~~~~-~~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 476 PVQVVIIPVADA-HNEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CccEEEEEeChH-HHHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEech
Confidence 468888765443 245788999999999999999875 2334555666655433355555543
No 59
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=38.71 E-value=1.8e+02 Score=23.23 Aligned_cols=66 Identities=14% Similarity=0.021 Sum_probs=36.4
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCC
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYAS 82 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~ 82 (139)
-|+|-|+...-...+++.+++.|+..|.++-.+....|++.-...+...|..+..-++++......
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~ 215 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPD 215 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCcc
Confidence 455555544434567778888888888863333334444432445555555554445555444443
No 60
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=38.35 E-value=71 Score=26.35 Aligned_cols=51 Identities=10% Similarity=0.141 Sum_probs=37.4
Q ss_pred CcchhhHHHHHHHHHhcCCceEEeeCC-CCC----CCCcchhhHHhhhcCcEEEEE
Q 039252 25 KDVRHNFISHLNAALCRKKIVTFNDDK-LNR----GDEISPSLSSAIEGSKISIVI 75 (139)
Q Consensus 25 ~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~----G~~i~~~i~~aI~~S~~~I~v 75 (139)
.|.|++=+..|.+.|..+|.+|...+- +.. |-.+.++..+++++++.+|+.
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 366 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIISN 366 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEEc
Confidence 366777888999999999998876665 332 345667777888888876654
No 61
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=37.80 E-value=35 Score=21.18 Aligned_cols=24 Identities=13% Similarity=0.408 Sum_probs=11.1
Q ss_pred CCceEEeeCCCCCCCCcchhhHHhh
Q 039252 42 KKIVTFNDDKLNRGDEISPSLSSAI 66 (139)
Q Consensus 42 ~Gi~vf~d~~~~~G~~i~~~i~~aI 66 (139)
+.+-+|+|.+ .+|......+.+.+
T Consensus 47 ~~Vii~~D~D-~~G~~~a~~i~~~l 70 (81)
T PF13662_consen 47 KEVIIAFDND-KAGEKAAQKIAKKL 70 (81)
T ss_dssp SEEEEEEESS-HHHHHHHHHHHHHH
T ss_pred ceEEEEeCcC-HHHHHHHHHHHHHH
Confidence 4444555554 34444444444433
No 62
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=37.69 E-value=1.8e+02 Score=22.02 Aligned_cols=75 Identities=11% Similarity=0.152 Sum_probs=45.7
Q ss_pred CCCC-CcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCccccccCchHHHHHHHH
Q 039252 53 NRGD-EISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLE 131 (139)
Q Consensus 53 ~~G~-~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~ 131 (139)
.||. .+..+...+++.++.+|+|++..-.-..+...- ++.....+. |+++-+++.|... ..|...+++..
T Consensus 71 TPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~----~~~~~~~~~---P~iivvNK~D~~~--a~~~~~~~~i~ 141 (237)
T cd04168 71 TPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRIL----WRLLRKLNI---PTIIFVNKIDRAG--ADLEKVYQEIK 141 (237)
T ss_pred CCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHH----HHHHHHcCC---CEEEEEECccccC--CCHHHHHHHHH
Confidence 3664 456677889999999999998775544443322 222222232 3333344555442 35788888888
Q ss_pred HHhcc
Q 039252 132 ERFKE 136 (139)
Q Consensus 132 ~~~~~ 136 (139)
..|+.
T Consensus 142 ~~~~~ 146 (237)
T cd04168 142 EKLSS 146 (237)
T ss_pred HHHCC
Confidence 87764
No 63
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=37.68 E-value=1.4e+02 Score=20.88 Aligned_cols=54 Identities=13% Similarity=0.092 Sum_probs=32.2
Q ss_pred HHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCcccc
Q 039252 63 SSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRN 118 (139)
Q Consensus 63 ~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~ 118 (139)
...+..++.+|++++.+-..|--...++...+...... .=+|+++-..+.|+.+
T Consensus 68 ~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~--~~~piilvgNK~Dl~~ 121 (172)
T cd04141 68 DQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLT--EDIPLVLVGNKVDLES 121 (172)
T ss_pred HHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCC--CCCCEEEEEEChhhhh
Confidence 35577899999999987666655544444444432211 1256666556666543
No 64
>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=37.48 E-value=1.3e+02 Score=20.47 Aligned_cols=79 Identities=14% Similarity=0.055 Sum_probs=47.1
Q ss_pred hhHHHHHHHHHhcCCceE-EeeCC-C-CC-----------CCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHH
Q 039252 29 HNFISHLNAALCRKKIVT-FNDDK-L-NR-----------GDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKIL 94 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~v-f~d~~-~-~~-----------G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~ 94 (139)
...++.+.+.|++.|+.+ .++-. . .| -.+-.+++.+.+.+++ .|++.||.|..+.- -.|..++
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-GIIFASPVYNGSVS--GQLKNFL 93 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSS-EEEEEEEEBTTBE---HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCC-eEEEeecEEcCcCC--hhhhHHH
Confidence 357788999998888775 33333 2 11 1222346678888888 67777999886533 2344455
Q ss_pred HHHh------hcCCEEEEEEEe
Q 039252 95 ESKN------KYGQIVVPVFYL 110 (139)
Q Consensus 95 ~~~~------~~~~~iiPV~~~ 110 (139)
++.. -.+..+.+|-..
T Consensus 94 D~~~~~~~~~~~~K~~~~i~~~ 115 (152)
T PF03358_consen 94 DRLSCWFRRALRGKPVAIIAVG 115 (152)
T ss_dssp HTHHHTHTTTTTTSEEEEEEEE
T ss_pred HHhccccccccCCCEEEEEEEe
Confidence 5431 134566666554
No 65
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=36.82 E-value=41 Score=26.23 Aligned_cols=51 Identities=20% Similarity=0.088 Sum_probs=34.5
Q ss_pred HHHHHHHhcCCceE--EeeCCCCCCCCcchhhHHhhhcCcE--EEEEEcCCCCCc
Q 039252 33 SHLNAALCRKKIVT--FNDDKLNRGDEISPSLSSAIEGSKI--SIVIFSKGYASS 83 (139)
Q Consensus 33 ~~L~~~L~~~Gi~v--f~d~~~~~G~~i~~~i~~aI~~S~~--~I~vlS~~~~~S 83 (139)
+.|...|..+||+| +.-..-+.=.++..++..+++.+.. .|++|||.-+++
T Consensus 146 dil~kkL~~~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~ 200 (260)
T KOG4132|consen 146 DILPKKLHDKGIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKS 200 (260)
T ss_pred HHHHHHHHhCCceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHH
Confidence 57889999999986 3222211112345578888887743 699999998874
No 66
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=36.77 E-value=1.9e+02 Score=25.02 Aligned_cols=79 Identities=14% Similarity=0.094 Sum_probs=66.0
Q ss_pred HHHHHHHHhcCCceEEeeCC---CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEE
Q 039252 32 ISHLNAALCRKKIVTFNDDK---LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVF 108 (139)
Q Consensus 32 v~~L~~~L~~~Gi~vf~d~~---~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~ 108 (139)
...+..--++.|+.+=.|.. +..|..-.-+|.+++..-..++++-=|..+-.|.-.+||-.++.+.+..+..||-|-
T Consensus 118 ~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLyr~a~iLILDEPTaVLTP~E~~~lf~~l~~l~~~G~tIi~IT 197 (501)
T COG3845 118 RARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALYRGARLLILDEPTAVLTPQEADELFEILRRLAAEGKTIIFIT 197 (501)
T ss_pred HHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEe
Confidence 34555555777998877765 788887777999999988888999999999999999999999999888899999888
Q ss_pred Ee
Q 039252 109 YL 110 (139)
Q Consensus 109 ~~ 110 (139)
++
T Consensus 198 HK 199 (501)
T COG3845 198 HK 199 (501)
T ss_pred cc
Confidence 75
No 67
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=36.76 E-value=1.2e+02 Score=19.92 Aligned_cols=30 Identities=20% Similarity=0.264 Sum_probs=20.7
Q ss_pred chhhHHhhhcC-cEEEEEEcCCCCCchhHHHHH
Q 039252 59 SPSLSSAIEGS-KISIVIFSKGYASSRWCLNEL 90 (139)
Q Consensus 59 ~~~i~~aI~~S-~~~I~vlS~~~~~S~wc~~El 90 (139)
.+++.+|+++. +.+++.+...++ +||....
T Consensus 3 ~~~~~~a~~~~~k~vlv~f~a~wC--~~C~~~~ 33 (125)
T cd02951 3 YEDLAEAAADGKKPLLLLFSQPGC--PYCDKLK 33 (125)
T ss_pred HHHHHHHHHcCCCcEEEEEeCCCC--HHHHHHH
Confidence 45677888888 777777766553 5676544
No 68
>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=36.65 E-value=1.3e+02 Score=20.64 Aligned_cols=46 Identities=4% Similarity=0.014 Sum_probs=29.3
Q ss_pred hhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEE
Q 039252 60 PSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVF 108 (139)
Q Consensus 60 ~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~ 108 (139)
+-+.+.+..++.+|+|++.+- .|...+.....+.......++|-|+
T Consensus 120 ~~~~~~~~~~d~vi~V~~~~~---~~~~~~~~~l~~~~~~~~~~~i~V~ 165 (168)
T PF00350_consen 120 EITEEYLPKADVVIFVVDANQ---DLTESDMEFLKQMLDPDKSRTIFVL 165 (168)
T ss_dssp HHHHHHHSTTEEEEEEEETTS---TGGGHHHHHHHHHHTTTCSSEEEEE
T ss_pred HHHHHhhccCCEEEEEeccCc---ccchHHHHHHHHHhcCCCCeEEEEE
Confidence 446677889999999997765 4444455555555444444555553
No 69
>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=36.47 E-value=75 Score=18.17 Aligned_cols=32 Identities=19% Similarity=0.158 Sum_probs=23.9
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEE
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTF 47 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf 47 (139)
..+.+++.....+. .-...+.+.|++.|++++
T Consensus 41 ~~~~~~i~v~~~~~--~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 41 GEVEVELTLETRGA--EHIEEIIAALREAGYDVR 72 (73)
T ss_pred ceEEEEEEEEeCCH--HHHHHHHHHHHHcCCEEe
Confidence 56777787766553 245789999999999876
No 70
>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=36.18 E-value=2.1e+02 Score=22.27 Aligned_cols=78 Identities=15% Similarity=0.092 Sum_probs=50.5
Q ss_pred hhHHHHHHHHHhcCCceEE-eeCC---CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHH-HhhcCCE
Q 039252 29 HNFISHLNAALCRKKIVTF-NDDK---LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILES-KNKYGQI 103 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf-~d~~---~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~-~~~~~~~ 103 (139)
.++++.|.+.|.+.|+.+- .+.. +--|--..-... .-...++=|+.+|.+...+.....+|..++.+ .++.+.+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l-~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~~r 168 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITACTLM-GIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQNKR 168 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHHHHHH-cccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 3699999999999999985 6653 333433221111 01134555677888877788888899999885 4444456
Q ss_pred EEEE
Q 039252 104 VVPV 107 (139)
Q Consensus 104 iiPV 107 (139)
|.-|
T Consensus 169 V~iI 172 (271)
T cd07373 169 VAVV 172 (271)
T ss_pred EEEE
Confidence 6544
No 71
>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=36.02 E-value=1.2e+02 Score=19.50 Aligned_cols=54 Identities=15% Similarity=0.187 Sum_probs=34.0
Q ss_pred HHHHHHHHHhcCCceEEeeCCCCCC-CCcchhhHHhhhcCcEEEEEEcCCCCCchh
Q 039252 31 FISHLNAALCRKKIVTFNDDKLNRG-DEISPSLSSAIEGSKISIVIFSKGYASSRW 85 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~~~~G-~~i~~~i~~aI~~S~~~I~vlS~~~~~S~w 85 (139)
....+++.+++.|.+.-++.+ ..| ..-...|...|.+++.+|++.+--.-...|
T Consensus 11 ~~~~~~~~~~~~G~~~~~hg~-~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~ 65 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHHGR-DGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMW 65 (97)
T ss_pred cHHHHHHHHHHcCCEEEEEec-CCCCccchhHHHHhcCCCCEEEEEeCCcChHHHH
Confidence 556888999999998655411 111 112224888999999888886544334333
No 72
>PRK12435 ferrochelatase; Provisional
Probab=35.96 E-value=2.3e+02 Score=22.69 Aligned_cols=53 Identities=9% Similarity=0.111 Sum_probs=32.4
Q ss_pred hHHHHHHHHHhcC----CceEEeeCCCCCCCCcchhhHHhhh--cCc-EEEEEEcCCCCCch
Q 039252 30 NFISHLNAALCRK----KIVTFNDDKLNRGDEISPSLSSAIE--GSK-ISIVIFSKGYASSR 84 (139)
Q Consensus 30 ~fv~~L~~~L~~~----Gi~vf~d~~~~~G~~i~~~i~~aI~--~S~-~~I~vlS~~~~~S~ 84 (139)
..+..|.+.|.+. .+.|.+.- +-|.+..++..+.+. +++ ++++.+.|.|..+.
T Consensus 61 ~qa~~L~~~L~~~~~~~~~~V~~am--ry~~P~i~~~l~~l~~~g~~~iv~lpLyPqyS~~T 120 (311)
T PRK12435 61 EQAKALEKALNEVQDEVEFKLYLGL--KHIEPFIEDAVEQMHNDGIEEAISIVLAPHYSTFS 120 (311)
T ss_pred HHHHHHHHHHhhccCCCCceEEEEe--cCCCCCHHHHHHHHHHcCCCeEEEEECCCcccccc
Confidence 3566777888654 26677664 455555655555554 344 45556799987653
No 73
>PRK14077 pnk inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=35.82 E-value=99 Score=24.50 Aligned_cols=41 Identities=20% Similarity=0.137 Sum_probs=28.2
Q ss_pred CCCceee-EEEecccCcchhhHHHHHHHHHhcCCceEEeeCC
Q 039252 11 IPHTKYD-VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK 51 (139)
Q Consensus 11 ~~~~~yD-VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~ 51 (139)
++++.+. |.|-++........+..|.+.|+++|+.++++..
T Consensus 5 ~~~~~~~~i~ii~~~~~~~~~~~~~i~~~l~~~g~~~~~~~~ 46 (287)
T PRK14077 5 IDHKNIKKIGLVTRPNVSLDKEILKLQKILSIYKVEILLEKE 46 (287)
T ss_pred cccccCCEEEEEeCCcHHHHHHHHHHHHHHHHCCCEEEEecc
Confidence 3445555 6665553333346788899999999999999763
No 74
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=35.74 E-value=91 Score=27.36 Aligned_cols=63 Identities=10% Similarity=0.126 Sum_probs=41.9
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
...+|+|-.-+++.....+..|...|.+.|++|-+|.+ +..+...+..|-+.--..++++.++
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 45688777655411236788999999999999999865 3455556666655444455555543
No 75
>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=35.68 E-value=2e+02 Score=21.98 Aligned_cols=52 Identities=12% Similarity=0.118 Sum_probs=30.7
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCC-CCcchhhHHhhhcC
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRG-DEISPSLSSAIEGS 69 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~i~~~i~~aI~~S 69 (139)
.|.+-|...+-....+..+.+.|++.|+++-....+.+| .++. .+...+.++
T Consensus 137 ~v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~-~~l~~i~~~ 189 (334)
T cd06342 137 KVAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFS-AILTKIKAA 189 (334)
T ss_pred EEEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHH-HHHHHHHhc
Confidence 355555444433456778888888889887665555555 3444 344445543
No 76
>PF05636 HIGH_NTase1: HIGH Nucleotidyl Transferase; InterPro: IPR008513 This family consists of several bacterial proteins of unknown function.; PDB: 3GMI_A.
Probab=35.58 E-value=54 Score=27.20 Aligned_cols=47 Identities=21% Similarity=0.515 Sum_probs=21.2
Q ss_pred HhhhcCcEEEEEEcCCCCC-------chhHHHHHHHHHHHHhhcCCEE--EEEEEecCCCc
Q 039252 64 SAIEGSKISIVIFSKGYAS-------SRWCLNELVKILESKNKYGQIV--VPVFYLVDPSD 115 (139)
Q Consensus 64 ~aI~~S~~~I~vlS~~~~~-------S~wc~~El~~a~~~~~~~~~~i--iPV~~~v~p~~ 115 (139)
+.+..++++|+|+|.+|++ +.|.+.|+...- +-+.| +|+.|-+.+.+
T Consensus 25 k~~~~ad~ii~vMSGnFvQRGEPAi~dKw~RA~~AL~~-----GaDLViELP~~~a~qsA~ 80 (388)
T PF05636_consen 25 KKITGADVIIAVMSGNFVQRGEPAIIDKWTRAEMALKN-----GADLVIELPVVYALQSAE 80 (388)
T ss_dssp H---TSSEEEEEE--TTSBTSSB-SS-HHHHHHHHHHH-----T-SEEEE---G-------
T ss_pred hccCCCCEEEEEECCCcccCCCeeeCCHHHHHHHHHHc-----CCCEEEECCCcccccccc
Confidence 3455789999999999986 788887764432 22233 57766554443
No 77
>PLN02449 ferrochelatase
Probab=35.40 E-value=2.8e+02 Score=23.88 Aligned_cols=65 Identities=15% Similarity=0.155 Sum_probs=40.9
Q ss_pred hHHHHHHHHHhcCC--ceEEeeCCCCCCCCcchhhHHhhhc---CcEEEEEEcCCCCC--chhHHHHHHHHHHH
Q 039252 30 NFISHLNAALCRKK--IVTFNDDKLNRGDEISPSLSSAIEG---SKISIVIFSKGYAS--SRWCLNELVKILES 96 (139)
Q Consensus 30 ~fv~~L~~~L~~~G--i~vf~d~~~~~G~~i~~~i~~aI~~---S~~~I~vlS~~~~~--S~wc~~El~~a~~~ 96 (139)
..+..|.++|.+.| ++|++. ++-|.+..++..+.+.+ .+++++.+-|.|.. +.-+.+.+..++..
T Consensus 164 ~Qa~~Lq~~L~~~~~~~~V~~a--MRY~~P~iedal~~l~~~G~~~iVvLPLYPQyS~sTtgSs~~~l~~~~~~ 235 (485)
T PLN02449 164 EQAEALAKALEAKNLPAKVYVG--MRYWHPFTEEAIDQIKADGITKLVVLPLYPQFSISTSGSSLRLLESIFRE 235 (485)
T ss_pred HHHHHHHHHHhccCCCeEEEEh--hhcCCCCHHHHHHHHHhcCCCeEEEEECCcccccccHHHHHHHHHHHHhh
Confidence 35667888887765 567665 44556666665555543 45678888888864 34455566555543
No 78
>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=34.89 E-value=1.3e+02 Score=20.03 Aligned_cols=70 Identities=21% Similarity=0.238 Sum_probs=39.7
Q ss_pred HHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhh-cCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEE
Q 039252 31 FISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIE-GSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFY 109 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~-~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~ 109 (139)
....|..+|++.|+.|-.-.. .+.....++ .+++.-+|++=+ .--..+...+++..+. ...=||||+
T Consensus 5 ~~~~l~~~L~~~~~~vv~~~~-------~dd~~~~i~~~~~i~avvi~~d----~~~~~~~~~ll~~i~~-~~~~iPVFl 72 (115)
T PF03709_consen 5 ASRELAEALEQRGREVVDADS-------TDDALAIIESFTDIAAVVISWD----GEEEDEAQELLDKIRE-RNFGIPVFL 72 (115)
T ss_dssp HHHHHHHHHHHTTTEEEEESS-------HHHHHHHHHCTTTEEEEEEECH----HHHHHHHHHHHHHHHH-HSTT-EEEE
T ss_pred HHHHHHHHHHHCCCEEEEeCC-------hHHHHHHHHhCCCeeEEEEEcc----cccchhHHHHHHHHHH-hCCCCCEEE
Confidence 567899999999999765432 223344444 588888888866 1111222222332221 123578888
Q ss_pred ecC
Q 039252 110 LVD 112 (139)
Q Consensus 110 ~v~ 112 (139)
-.+
T Consensus 73 ~~~ 75 (115)
T PF03709_consen 73 LAE 75 (115)
T ss_dssp EES
T ss_pred Eec
Confidence 544
No 79
>PF12435 DUF3678: Protein of unknown function (DUF3678) ; InterPro: IPR022146 This domain family is found in eukaryotes, and is approximately 40 amino acids in length.
Probab=34.09 E-value=11 Score=20.89 Aligned_cols=20 Identities=35% Similarity=0.491 Sum_probs=15.1
Q ss_pred CCCCCCCCCCceeeEEEecc
Q 039252 4 SSSSINMIPHTKYDVFLSFR 23 (139)
Q Consensus 4 ~~~~~~~~~~~~yDVFISys 23 (139)
+++|.+|.+.+..-.|+-|.
T Consensus 17 ~ssS~~~~H~~~~~~fl~~a 36 (38)
T PF12435_consen 17 SSSSSSMLHRQCRHIFLDYA 36 (38)
T ss_pred cccccchhhhhhcchhhhcc
Confidence 45688888888888887663
No 80
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=33.98 E-value=1e+02 Score=21.37 Aligned_cols=65 Identities=18% Similarity=0.185 Sum_probs=39.0
Q ss_pred HHHHHHHHHh--cCCceEEeeCCCCCCCCcchhhHHhhhc----CcEEEEEEcCCCCCc-hhHHHHHHHHHH
Q 039252 31 FISHLNAALC--RKKIVTFNDDKLNRGDEISPSLSSAIEG----SKISIVIFSKGYASS-RWCLNELVKILE 95 (139)
Q Consensus 31 fv~~L~~~L~--~~Gi~vf~d~~~~~G~~i~~~i~~aI~~----S~~~I~vlS~~~~~S-~wc~~El~~a~~ 95 (139)
.+..|.+.|. ...+.+.+=.+..|+..+...+.++|++ --.-|+|+.+.|+.. --.+.|+..-..
T Consensus 46 ~~~~v~~~l~~~~~~~~~~fqS~~g~~~Wl~P~~~~~l~~l~~~G~~~i~v~p~gF~~D~~Etl~di~~e~~ 117 (135)
T cd00419 46 TARLVAERLGLPFDEYELAYQSRFGPGEWLEPSTDDALEELAKEGVKNVVVVPIGFVSDHLETLYELDIEYR 117 (135)
T ss_pred HHHHHHHHhCCCCCCEEEEecCCCCCCCCCCCCHHHHHHHHHHcCCCeEEEECCccccccHHHHHHHHHHHH
Confidence 5566777776 4457766655555565555556655543 234688899999854 334556654443
No 81
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=33.90 E-value=97 Score=24.59 Aligned_cols=57 Identities=12% Similarity=0.130 Sum_probs=30.9
Q ss_pred EEEecccCc-chhhHHHHHHHHHhcCCceEEeeCCCCCC---CCcchhhHHhhhcCcEEEEE
Q 039252 18 VFLSFRGKD-VRHNFISHLNAALCRKKIVTFNDDKLNRG---DEISPSLSSAIEGSKISIVI 75 (139)
Q Consensus 18 VFISys~~D-~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G---~~i~~~i~~aI~~S~~~I~v 75 (139)
|.|-|...+ -....+..+.+.|++.|+.+-....+.++ .++...+. .+..+..+|++
T Consensus 140 v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~-~i~~~~~vii~ 200 (389)
T cd06352 140 AVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQ-DIKRRSRIIIM 200 (389)
T ss_pred EEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHH-HhhhcceEEEE
Confidence 444454333 12356778888888888887554444454 44544444 44444433333
No 82
>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=32.77 E-value=1.7e+02 Score=22.93 Aligned_cols=47 Identities=19% Similarity=0.223 Sum_probs=25.4
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCC-CCcchhhH
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRG-DEISPSLS 63 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~i~~~i~ 63 (139)
.|.|-|...+-....+..+.+.|++.|+++-....+.++ .++...+.
T Consensus 140 ~v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~s~~i~ 187 (347)
T cd06335 140 KVALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWGDKDMTAQLL 187 (347)
T ss_pred eEEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCCCccHHHHHH
Confidence 455555433333456677777777778776544334444 34443333
No 83
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=32.65 E-value=2.1e+02 Score=22.56 Aligned_cols=102 Identities=20% Similarity=0.160 Sum_probs=52.4
Q ss_pred hHHHHHHHHHhcCCc--eEEe-eCC-CCCCC--C---------cchhhHHhhhc---CcEEEEEEcCCCCCchhHHHHHH
Q 039252 30 NFISHLNAALCRKKI--VTFN-DDK-LNRGD--E---------ISPSLSSAIEG---SKISIVIFSKGYASSRWCLNELV 91 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi--~vf~-d~~-~~~G~--~---------i~~~i~~aI~~---S~~~I~vlS~~~~~S~wc~~El~ 91 (139)
.-+.+|+++|+.+|- .+.+ |+. +..++ . +...+..+++. -.-+|++-|-||.++- ++||.
T Consensus 16 trA~~L~~~l~~~~~K~~v~ii~deslg~~~ns~y~~s~~EK~lRg~L~S~v~R~Lsk~~iVI~DslNyIKGf--RYeLy 93 (281)
T KOG3062|consen 16 TRAVELREALKERGTKQSVRIIDDESLGIEKNSNYGDSQAEKALRGKLRSAVDRSLSKGDIVIVDSLNYIKGF--RYELY 93 (281)
T ss_pred hHHHHHHHHHHhhcccceEEEechhhcCCCCcccccccHHHHHHHHHHHHHHHhhcccCcEEEEecccccccc--eeeee
Confidence 468899999998873 3444 333 43333 1 11122222221 1236778899998752 33433
Q ss_pred HHHHHHhhcCCEEEEEEE-ecCCCccc---------cccCchHHHHHHHHHHhccc
Q 039252 92 KILESKNKYGQIVVPVFY-LVDPSDVR---------NQTGTFGDSFSKLEERFKEK 137 (139)
Q Consensus 92 ~a~~~~~~~~~~iiPV~~-~v~p~~v~---------~~~~~~~~~f~~~~~~~~~~ 137 (139)
-..+... ...=|++ .+.+...+ ...|--.+.|+++.++|.|-
T Consensus 94 C~ak~~~----tt~Cvv~t~vp~e~~r~~Ns~~~~p~e~gy~~e~le~L~~RyEeP 145 (281)
T KOG3062|consen 94 CEAKAAR----TTYCVVHTAVPQELCREWNSEREDPGEDGYDDELLEALVQRYEEP 145 (281)
T ss_pred eehhccc----eeEEEEEecCCHHHHHHhcccCCCCCCCCCCHHHHHHHHHHhhCC
Confidence 2222221 2233333 23322211 12345578899999998763
No 84
>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=32.57 E-value=33 Score=29.88 Aligned_cols=63 Identities=22% Similarity=0.241 Sum_probs=39.2
Q ss_pred eeeEEEecc-cCc-chhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCC
Q 039252 15 KYDVFLSFR-GKD-VRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 15 ~yDVFISys-~~D-~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
-|+|-|--- .+| .-...+..|++.|+..|++|.+|++ -.+|..+.+.-.-++ - ..+++.++.+
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~dadliGi---P-~~i~vG~~~l 538 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFADSELIGI---P-LRVVVGKKNL 538 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHhhhhcCC---C-EEEEECCCcc
Confidence 356654322 222 2346889999999999999999998 677765554322222 1 3455666544
No 85
>PLN02530 histidine-tRNA ligase
Probab=32.52 E-value=1.3e+02 Score=25.63 Aligned_cols=61 Identities=10% Similarity=-0.033 Sum_probs=40.8
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
...||+|.+-.++. ...+..+.+.|.++|++|-++.. +..+...+..|-+.--..++++.+
T Consensus 400 ~~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~~---~~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 400 HQVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVLE---PKKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEecC---CCCHHHHHHHHHHCCCCEEEEEch
Confidence 44689998855543 35678899999999999987643 234555666666544445555554
No 86
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=32.29 E-value=1.9e+02 Score=23.18 Aligned_cols=93 Identities=14% Similarity=0.209 Sum_probs=49.9
Q ss_pred hHHHHHHHHHhcCC--ceEEeeCCCCCCCCcchhhHHhhh---cCcEEEEEEcCCCCCc--hhHHHHHHHHHHHHh-hcC
Q 039252 30 NFISHLNAALCRKK--IVTFNDDKLNRGDEISPSLSSAIE---GSKISIVIFSKGYASS--RWCLNELVKILESKN-KYG 101 (139)
Q Consensus 30 ~fv~~L~~~L~~~G--i~vf~d~~~~~G~~i~~~i~~aI~---~S~~~I~vlS~~~~~S--~wc~~El~~a~~~~~-~~~ 101 (139)
..+..|.+.|...| +.|++. ++-|.+..++..+.+. -.+++++.+.|.|..+ .-+.+++..++.... .-.
T Consensus 73 ~qa~~l~~~L~~~~~~~~V~~a--mry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS~~ttgs~~~~~~~~~~~~~~~~~ 150 (316)
T PF00762_consen 73 RQAEALQQRLDERGVDVEVYYA--MRYGPPSIEDALEELKADGVDRIVVLPLYPQYSSSTTGSYLDEVERALKKSRPNPK 150 (316)
T ss_dssp HHHHHHHHHHHHH-EEEEEEEE--ESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--TTTHHHHHHHHHHHHHHTHSSSE
T ss_pred HHHHHHHHHHHhcCCCeeEEEE--eccCCCCHHHHHHHHHHcCCCeEEEEeCCCchhHhhHHHHHHHHHHHHHhcCCCCe
Confidence 46677777787664 455554 4566666666665555 3456788999999843 445567766665421 112
Q ss_pred CEEEEEEEecCCCccccccCchHHHHHHHHHH
Q 039252 102 QIVVPVFYLVDPSDVRNQTGTFGDSFSKLEER 133 (139)
Q Consensus 102 ~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~~~ 133 (139)
.++|+=+++ ...|-+++.++...
T Consensus 151 ~~~i~~~~~---------~p~yi~a~~~~i~~ 173 (316)
T PF00762_consen 151 VRFIPSFYD---------HPAYIEALAERIRE 173 (316)
T ss_dssp EEEE---TT----------HHHHHHHHHHHHH
T ss_pred EEEeCCccC---------CHHHHHHHHHHHHH
Confidence 234443332 23466666655543
No 87
>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=31.73 E-value=1.6e+02 Score=22.87 Aligned_cols=59 Identities=22% Similarity=0.269 Sum_probs=33.8
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCC---CCcchhhHHhhh--cCcEEEEEEc
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRG---DEISPSLSSAIE--GSKISIVIFS 77 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G---~~i~~~i~~aI~--~S~~~I~vlS 77 (139)
|.+-|...+-....+..+.+.|++.|+.+-....+.+| .++...+. .|. +.+++++..+
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~-~i~~~~~dvvi~~~~ 201 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALK-KLKEKDSRVIVVHFS 201 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHH-HHhcCCCeEEEEECC
Confidence 54555444323356788888888889887666555565 34444444 444 3444444433
No 88
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=31.64 E-value=55 Score=25.67 Aligned_cols=42 Identities=21% Similarity=0.181 Sum_probs=28.4
Q ss_pred HHHHHHHHHhcCCceEEeeCCCCCCC---CcchhhHHhhhcCcEEEE
Q 039252 31 FISHLNAALCRKKIVTFNDDKLNRGD---EISPSLSSAIEGSKISIV 74 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~~~~G~---~i~~~i~~aI~~S~~~I~ 74 (139)
=+.+|.+.|...|+.+....- .|| .|.+.+..+.++++++|+
T Consensus 22 Na~~la~~L~~~G~~v~~~~~--VgD~~~~I~~~l~~a~~r~D~vI~ 66 (255)
T COG1058 22 NAAFLADELTELGVDLARITT--VGDNPDRIVEALREASERADVVIT 66 (255)
T ss_pred hHHHHHHHHHhcCceEEEEEe--cCCCHHHHHHHHHHHHhCCCEEEE
Confidence 356899999999999876543 454 344566666777665444
No 89
>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=31.07 E-value=1.6e+02 Score=19.91 Aligned_cols=11 Identities=18% Similarity=0.304 Sum_probs=5.2
Q ss_pred EEEEEEcCCCC
Q 039252 71 ISIVIFSKGYA 81 (139)
Q Consensus 71 ~~I~vlS~~~~ 81 (139)
..|+|+++-=.
T Consensus 44 ~~iivlNK~DL 54 (141)
T cd01857 44 KNILLLNKADL 54 (141)
T ss_pred cEEEEEechhc
Confidence 34555554433
No 90
>PF11004 Kdo_hydroxy: 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; InterPro: IPR021266 This bacterial family of proteins has no known function.
Probab=30.97 E-value=42 Score=26.69 Aligned_cols=36 Identities=25% Similarity=0.571 Sum_probs=27.9
Q ss_pred hcCCEEEEEEEecCCCccccccCchHHHHHHHHHHhc
Q 039252 99 KYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEERFK 135 (139)
Q Consensus 99 ~~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~ 135 (139)
..|.+|+-||-+++|.... +..+-|+.|.+..++|-
T Consensus 137 ~~G~RiLRvF~NINP~g~p-RvWrvGEpF~~~a~rfl 172 (281)
T PF11004_consen 137 TYGERILRVFTNINPDGEP-RVWRVGEPFEDMARRFL 172 (281)
T ss_pred CCCceeeEEeeccCCCCCC-cccccCCChHHHHHHhc
Confidence 3567999999999999533 35667888888888774
No 91
>COG2719 SpoVR Uncharacterized conserved protein [Function unknown]
Probab=30.95 E-value=75 Score=27.10 Aligned_cols=53 Identities=32% Similarity=0.517 Sum_probs=40.8
Q ss_pred CchhHHHHHHHHHHHH----hhcCCEEEEEEEecCCCc------------cccccCchHHHHHHHHHHh
Q 039252 82 SSRWCLNELVKILESK----NKYGQIVVPVFYLVDPSD------------VRNQTGTFGDSFSKLEERF 134 (139)
Q Consensus 82 ~S~wc~~El~~a~~~~----~~~~~~iiPV~~~v~p~~------------v~~~~~~~~~~f~~~~~~~ 134 (139)
.|.|...+|....+.. +..+.-..|+-|++.+++ .+..-.+||+.|.+.++..
T Consensus 7 ~~d~~~~~L~~~~~eI~~ia~~~gLD~Yp~q~Evi~~eqM~da~ss~GMP~rY~HWSfGKkf~k~k~~Y 75 (495)
T COG2719 7 GSDWTFKLLDRYLEEIERIAKEYGLDTYPVQYEVITSEQMMDAYSSVGMPTRYPHWSFGKKFEKTKQLY 75 (495)
T ss_pred CchhHHHHHHHHHHHHHHHHHHhCCCCCCceEEEecHHHHHHHHHhcCCCcCCcchhHHHHHHHHHHHH
Confidence 6889999988876653 445678999999988887 2334479999999998754
No 92
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=30.92 E-value=2.8e+02 Score=22.26 Aligned_cols=65 Identities=9% Similarity=0.060 Sum_probs=35.2
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcC---cEEEEEEcCCCCC
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGS---KISIVIFSKGYAS 82 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S---~~~I~vlS~~~~~ 82 (139)
|.|-|...|........|.+.|++.|+.+-....+.++..-...+...|++. |++|+.....+..
T Consensus 135 vaii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~ 202 (382)
T cd06371 135 VAIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLIG 202 (382)
T ss_pred EEEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeeccccC
Confidence 3344444332234577888889889987655444544543333555556543 4555444444543
No 93
>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=30.88 E-value=1.3e+02 Score=18.69 Aligned_cols=36 Identities=19% Similarity=0.145 Sum_probs=26.4
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK 51 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~ 51 (139)
.-=|+|+|--.+-. ..-.++.+.|.++|+.|+.-+.
T Consensus 16 k~~v~i~HG~~eh~-~ry~~~a~~L~~~G~~V~~~D~ 51 (79)
T PF12146_consen 16 KAVVVIVHGFGEHS-GRYAHLAEFLAEQGYAVFAYDH 51 (79)
T ss_pred CEEEEEeCCcHHHH-HHHHHHHHHHHhCCCEEEEECC
Confidence 56688988655433 4556899999999999876553
No 94
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=30.10 E-value=97 Score=24.86 Aligned_cols=44 Identities=23% Similarity=0.494 Sum_probs=34.9
Q ss_pred hhhHHhhhcCcEEEEEEcCCCC---CchhHHHHHHHHHHHHhhcCCEEEEEEE
Q 039252 60 PSLSSAIEGSKISIVIFSKGYA---SSRWCLNELVKILESKNKYGQIVVPVFY 109 (139)
Q Consensus 60 ~~i~~aI~~S~~~I~vlS~~~~---~S~wc~~El~~a~~~~~~~~~~iiPV~~ 109 (139)
+.-..+|.+++.-++|+-|.+. ..+|..+||.+..+ ++ ++||-|
T Consensus 33 d~~~~~i~~~~f~llVVDps~~g~~~~~~~~eelr~~~~----gg--~~pIAY 79 (300)
T COG2342 33 DAYINEILNSPFDLLVVDPSYCGPFNTPWTIEELRTKAD----GG--VKPIAY 79 (300)
T ss_pred cchHHHHhcCCCcEEEEeccccCCCCCcCcHHHHHHHhc----CC--eeEEEE
Confidence 4556789999999999999765 68999999988643 33 778876
No 95
>PLN02908 threonyl-tRNA synthetase
Probab=30.08 E-value=1.4e+02 Score=26.70 Aligned_cols=60 Identities=10% Similarity=0.071 Sum_probs=41.1
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
..+|+|..-+.+. ...+..+.+.|.++|++|-+|.. +..+...+..|-..--.+++|+.+
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 3588777755443 35788999999999999998854 445666677665544445555554
No 96
>PF05985 EutC: Ethanolamine ammonia-lyase light chain (EutC); InterPro: IPR009246 This family consists of several bacterial ethanolamine ammonia-lyase light chain (EutC) sequences. Ethanolamine ammonia-lyase is a bacterial enzyme that catalyses the adenosylcobalamin-dependent conversion of certain vicinal amino alcohols to oxo compounds and ammonia [].; GO: 0008851 ethanolamine ammonia-lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3ABO_B 3ABR_B 3ABS_B 3ANY_B 3AO0_D 3ABQ_B.
Probab=30.07 E-value=44 Score=25.97 Aligned_cols=45 Identities=16% Similarity=0.299 Sum_probs=29.0
Q ss_pred hHHHHHHHHHhcCCceE---EeeCC--CCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 30 NFISHLNAALCRKKIVT---FNDDK--LNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~v---f~d~~--~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
.|...|.+.|...|+++ ++-.. +..|+ +|.+++ +++++|++|.+.
T Consensus 124 ~~l~~L~~~L~~~g~~~ap~~~v~~gRVa~gD----~Ige~L-~a~~vv~LIGER 173 (237)
T PF05985_consen 124 PLLPALLPGLKSAGWSVAPPVLVRQGRVALGD----EIGEAL-GARVVVVLIGER 173 (237)
T ss_dssp HHHHHHHHHHHTTTS-B---EEEET--TTHHH----HHHHHH-T-SEEEEEEE--
T ss_pred HHHHHHHHHHHhcCCCcCCeEEEeeceeehhH----HHHHHh-CCCEEEEEEeCC
Confidence 47788999999998864 55443 55555 555555 788888888765
No 97
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=29.52 E-value=1.8e+02 Score=21.18 Aligned_cols=54 Identities=11% Similarity=0.114 Sum_probs=31.4
Q ss_pred hHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhc---CCEEEEEEEecCCCcccc
Q 039252 62 LSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKY---GQIVVPVFYLVDPSDVRN 118 (139)
Q Consensus 62 i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~---~~~iiPV~~~v~p~~v~~ 118 (139)
...++++++.+|+|++.+ +++...++....+...+. ...=+|+++-..+.|+..
T Consensus 74 ~~~~~~~ad~iilv~D~~---~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~ 130 (198)
T cd04142 74 RFRGLRNSRAFILVYDIC---SPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR 130 (198)
T ss_pred HHhhhccCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence 345688999999999976 444455554444332111 112356666556666643
No 98
>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional
Probab=29.50 E-value=77 Score=27.80 Aligned_cols=42 Identities=10% Similarity=0.146 Sum_probs=28.8
Q ss_pred CCCCCCceeeE--EEecccCcchhhHHHHHHHHHhcCCceEEeeC
Q 039252 8 INMIPHTKYDV--FLSFRGKDVRHNFISHLNAALCRKKIVTFNDD 50 (139)
Q Consensus 8 ~~~~~~~~yDV--FISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~ 50 (139)
|+|..+...-| |+.|++..+ .++++.|...|.++|++|-.=+
T Consensus 2 ~~~~~~~~~~vi~ivG~s~sGK-TTlie~li~~L~~~G~rVavIK 45 (597)
T PRK14491 2 TPFTNPLSIPLLGFCAYSGTGK-TTLLEQLIPELNQRGLRLAVIK 45 (597)
T ss_pred CcccCCCCccEEEEEcCCCCCH-HHHHHHHHHHHHhCCceEEEEE
Confidence 44444443334 677766553 5799999999999999975543
No 99
>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=29.27 E-value=2.4e+02 Score=20.88 Aligned_cols=85 Identities=16% Similarity=0.153 Sum_probs=53.0
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC----------------CCchhHHHHHHHH
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY----------------ASSRWCLNELVKI 93 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~----------------~~S~wc~~El~~a 93 (139)
.+.+.|++.+...++.+.....-..-..-.++..+...+++.+|+++.+.+ ..-+++..||...
T Consensus 47 t~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~aD~vIv~~~~~~~e~~~~~~~~~~~~~~~~l~~~q~~li~~ 126 (227)
T PF01915_consen 47 TPLDALKQRFGNAGVVVPEGGDAVDDDEGIDEAVAAAKEADVVIVFVGRPSGEGNDNNTEGESDRSDLALPANQQELIKA 126 (227)
T ss_dssp HHHHHHHHHHHTTSEEEECCCCCCCCCSCHHHHHHHHHCSSEEEEEEETTSBCCCSS-EETTGSCSSTBCCCHHHHHHHH
T ss_pred cHHhhhccccCCCceEEeeeccccccccchHHHHHHhhcCCEEEEeccccccccccccccccCCcccccchhhHHHHHHH
Confidence 577788888888888765433211122334467788889999999988333 3345677777776
Q ss_pred HHHHhhcCCEEEEEEEecCCCccc
Q 039252 94 LESKNKYGQIVVPVFYLVDPSDVR 117 (139)
Q Consensus 94 ~~~~~~~~~~iiPV~~~v~p~~v~ 117 (139)
+.... ..+|-|+.-..|-++.
T Consensus 127 v~~~~---~~~Ivvv~~~~P~~l~ 147 (227)
T PF01915_consen 127 VAAAG---KKVIVVVNSGNPYDLD 147 (227)
T ss_dssp HHHHH---SCEEEEEE-SSGGCGH
T ss_pred HHHhc---CCeEEEEecCCccccH
Confidence 65432 3456566656666653
No 100
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=29.11 E-value=2.1e+02 Score=20.20 Aligned_cols=65 Identities=14% Similarity=0.185 Sum_probs=38.7
Q ss_pred hHHHHHHHHHhcCC--ceEEeeCCCCCCCCcchhhH-Hhhhc--CcEEEEEEcCCCCC--chhHHHHHHHHHHH
Q 039252 30 NFISHLNAALCRKK--IVTFNDDKLNRGDEISPSLS-SAIEG--SKISIVIFSKGYAS--SRWCLNELVKILES 96 (139)
Q Consensus 30 ~fv~~L~~~L~~~G--i~vf~d~~~~~G~~i~~~i~-~aI~~--S~~~I~vlS~~~~~--S~wc~~El~~a~~~ 96 (139)
..+..|.+.|.+.+ +.|... ++-|.+..++.. +..++ .+++++-+.|.|.. ..-+.+++..++..
T Consensus 72 ~q~~~l~~~L~~~~~~~~v~~a--mry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~~ 143 (159)
T cd03411 72 AQAEALEKALDERGIDVKVYLA--MRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALKK 143 (159)
T ss_pred HHHHHHHHHHhccCCCcEEEeh--HhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHHh
Confidence 46677778887653 555554 445555554444 33433 56678888898874 34455666666553
No 101
>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=28.38 E-value=84 Score=21.92 Aligned_cols=38 Identities=21% Similarity=0.153 Sum_probs=20.7
Q ss_pred HHHHHHHHHhcCCceEEeeCC-CCC-----CCCcchhhHHhhhc
Q 039252 31 FISHLNAALCRKKIVTFNDDK-LNR-----GDEISPSLSSAIEG 68 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~-~~~-----G~~i~~~i~~aI~~ 68 (139)
+...+.+.+.+..-++++-.. +.+ +..+.+.|.++.+.
T Consensus 22 ~~~~i~~~I~~A~~~I~i~~~~~~~~~~~~~~~l~~~L~~a~~r 65 (176)
T cd00138 22 DLDALLEAISNAKKSIYIASFYLSPLITEYGPVILDALLAAARR 65 (176)
T ss_pred HHHHHHHHHHhhheEEEEEEeEecccccccchHHHHHHHHHHHC
Confidence 555666666655545555444 443 45555566666553
No 102
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=28.23 E-value=86 Score=18.96 Aligned_cols=31 Identities=19% Similarity=0.159 Sum_probs=22.6
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEee
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFND 49 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d 49 (139)
.+.|+++..+. .+++.+...|.+-||..-+.
T Consensus 21 ~~~i~~~~~s~--~ll~~v~~lL~~lGi~~~i~ 51 (77)
T PF14528_consen 21 SVRISISSKSK--ELLEDVQKLLLRLGIKASIY 51 (77)
T ss_dssp EEEEEEEES-H--HHHHHHHHHHHHTT--EEEE
T ss_pred EEEEEEEECCH--HHHHHHHHHHHHCCCeeEEE
Confidence 56788877764 59999999999999987554
No 103
>PRK07933 thymidylate kinase; Validated
Probab=28.13 E-value=1.8e+02 Score=21.62 Aligned_cols=31 Identities=19% Similarity=0.218 Sum_probs=22.6
Q ss_pred EEecccCcc--hhhHHHHHHHHHhcCCceEEee
Q 039252 19 FLSFRGKDV--RHNFISHLNAALCRKKIVTFND 49 (139)
Q Consensus 19 FISys~~D~--~~~fv~~L~~~L~~~Gi~vf~d 49 (139)
||.+-+-|. ..+.+..|.+.|+.+|++|..-
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~ 34 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVATL 34 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 666655553 2468899999999999887643
No 104
>cd04109 Rab28 Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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
Probab=28.11 E-value=2.4e+02 Score=20.55 Aligned_cols=28 Identities=14% Similarity=0.323 Sum_probs=18.3
Q ss_pred CCCCcchhh-HHhhhcCcEEEEEEcCCCC
Q 039252 54 RGDEISPSL-SSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 54 ~G~~i~~~i-~~aI~~S~~~I~vlS~~~~ 81 (139)
+|......+ ..-+++++.+|+|++-.-.
T Consensus 58 ~G~~~~~~l~~~~~~~ad~iilV~D~t~~ 86 (215)
T cd04109 58 GGQSIGGKMLDKYIYGAHAVFLVYDVTNS 86 (215)
T ss_pred CCcHHHHHHHHHHhhcCCEEEEEEECCCH
Confidence 565444333 3457799999999986543
No 105
>PF13289 SIR2_2: SIR2-like domain
Probab=27.94 E-value=1.3e+02 Score=20.02 Aligned_cols=9 Identities=33% Similarity=0.497 Sum_probs=4.1
Q ss_pred HHHHHHHHH
Q 039252 31 FISHLNAAL 39 (139)
Q Consensus 31 fv~~L~~~L 39 (139)
+-..|...|
T Consensus 76 ~~~~l~~~l 84 (143)
T PF13289_consen 76 FPNFLRSLL 84 (143)
T ss_pred HHHHHHHHH
Confidence 334444444
No 106
>PF01269 Fibrillarin: Fibrillarin; InterPro: IPR000692 Fibrillarin is a component of a nucleolar small nuclear ribonucleoprotein (SnRNP), functioning in vivo in ribosomal RNA processing [, ]. It is associated with U3, U8 and U13 small nuclear RNAs in mammals [] and is similar to the yeast NOP1 protein []. Fibrillarin has a well conserved sequence of around 320 amino acids, and contains 3 domains, an N-terminal Gly/Arg-rich region; a central domain resembling other RNA-binding proteins and containing an RNP-2-like consensus sequence; and a C-terminal alpha-helical domain. An evolutionarily related pre-rRNA processing protein, which lacks the Gly/Arg-rich domain, has been found in various archaebacteria.; GO: 0003723 RNA binding, 0008168 methyltransferase activity, 0006364 rRNA processing, 0008033 tRNA processing; PDB: 3PLA_E 3ID6_C 3ID5_B 1NT2_A 3NVK_J 2NNW_B 3NVM_B 3NMU_J 1PRY_A 1G8A_A ....
Probab=27.58 E-value=63 Score=25.00 Aligned_cols=49 Identities=12% Similarity=0.192 Sum_probs=30.1
Q ss_pred CchhHHHHHHHHHHHHhhcCCEEEEEEEec-CCCccccc------------cCchHHHHHHHHHHh
Q 039252 82 SSRWCLNELVKILESKNKYGQIVVPVFYLV-DPSDVRNQ------------TGTFGDSFSKLEERF 134 (139)
Q Consensus 82 ~S~wc~~El~~a~~~~~~~~~~iiPV~~~v-~p~~v~~~------------~~~~~~~f~~~~~~~ 134 (139)
.|+|+..+|....+++. +||||+-+. .|...+.. ......-+..|.+.|
T Consensus 106 fs~r~~rdL~~la~~R~----NIiPIl~DAr~P~~Y~~lv~~VDvI~~DVaQp~Qa~I~~~Na~~f 167 (229)
T PF01269_consen 106 FSPRSMRDLLNLAKKRP----NIIPILEDARHPEKYRMLVEMVDVIFQDVAQPDQARIAALNARHF 167 (229)
T ss_dssp SSHHHHHHHHHHHHHST----TEEEEES-TTSGGGGTTTS--EEEEEEE-SSTTHHHHHHHHHHHH
T ss_pred ecchhHHHHHHHhccCC----ceeeeeccCCChHHhhcccccccEEEecCCChHHHHHHHHHHHhh
Confidence 48999999987766544 699999752 23332221 124566666666554
No 107
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=27.45 E-value=2.2e+02 Score=20.92 Aligned_cols=55 Identities=5% Similarity=0.045 Sum_probs=35.5
Q ss_pred hHHHHHHHHHhcCCceE-EeeCC-CCCC--------CCcchhhHHhhhcCcEEEEEEcCCCCCchh
Q 039252 30 NFISHLNAALCRKKIVT-FNDDK-LNRG--------DEISPSLSSAIEGSKISIVIFSKGYASSRW 85 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~v-f~d~~-~~~G--------~~i~~~i~~aI~~S~~~I~vlS~~~~~S~w 85 (139)
..++.+.+.|.+.|..+ .+|-. +.++ .+-...+.+.|.+++ .|++.||-|..|--
T Consensus 18 ~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD-~iIi~tP~Y~~s~p 82 (191)
T PRK10569 18 ALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQAD-GLIVATPVYKASFS 82 (191)
T ss_pred HHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCC-EEEEECCccCCCCC
Confidence 35577777788788876 45544 4432 122236667788888 67778999886543
No 108
>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=27.41 E-value=1.2e+02 Score=24.92 Aligned_cols=57 Identities=19% Similarity=0.271 Sum_probs=38.1
Q ss_pred Eecc--cCcchhhHHHHHHHHHhcCCceEEeeCC-CCCCC----CcchhhHHhhhcCcEEEEEE
Q 039252 20 LSFR--GKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGD----EISPSLSSAIEGSKISIVIF 76 (139)
Q Consensus 20 ISys--~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~----~i~~~i~~aI~~S~~~I~vl 76 (139)
++|. ..|.|++=+..|.+.|.++|.+|...+- ..... ...+.+.+++++++.+|+.-
T Consensus 321 lafK~~t~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t 384 (411)
T TIGR03026 321 LAFKPNTDDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILT 384 (411)
T ss_pred eEecCCCCccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEec
Confidence 3564 2356677788999999999999877765 33221 11245667888888766653
No 109
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=27.26 E-value=95 Score=25.70 Aligned_cols=66 Identities=17% Similarity=0.229 Sum_probs=35.0
Q ss_pred HHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHH--HHHHHHHHHHhhcCCEEEEE
Q 039252 31 FISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCL--NELVKILESKNKYGQIVVPV 107 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~--~El~~a~~~~~~~~~~iiPV 107 (139)
|...|.+.|+.+|+.+..--- +..|...+-.. +. +..+-.-++||. .|...++...+..+.+||.|
T Consensus 207 FT~~ll~~L~~kGv~~a~vTLHVG~GTF~PV~~-e~----------i~~H~MH~E~~~I~~eta~~In~ak~~G~RIiAV 275 (366)
T PRK01424 207 FTKDILDKLKAKGIQTAFLTLHVGAGTFLPVKT-EN----------IHEHKMHTEYCSITPETAEIINKAKQEGRRIIAV 275 (366)
T ss_pred CCHHHHHHHHHCCCeEEEEEEeecCCCCcCccc-cc----------cccCCccceEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 777888888888887543322 44443222110 01 122233445553 45555666656666777776
No 110
>PF07454 SpoIIP: Stage II sporulation protein P (SpoIIP); InterPro: IPR010897 This family contains the bacterial stage II sporulation protein P (SpoIIP) (approximately 350 residues long). It has been shown that a block in polar cytokinesis in Bacillus subtilis is mediated partly by transcription of spoIID, spoIIM and spoIIP. This inhibition of polar division is involved in the locking in of asymmetry after the formation of a polar septum during sporulation []. SpoIIP is one of the three genes (spoIID, spoIIM and spoIIP, [, , ]), under the control of sigma E, that have been shown to be essential for the engulfment of the forespore by the mother cell. Their products are involved in degradation of the septal peptidoglycan and mutations in spoIID, spoIIM or spoIIP block sporulation at morphological stage II, prior to the stage of engulfment. These three genes are absolutely conserved (sometimes even duplicated) in all endospore formers [].
Probab=26.72 E-value=1.2e+02 Score=23.87 Aligned_cols=40 Identities=15% Similarity=0.085 Sum_probs=29.6
Q ss_pred CCceeeEEEecccCcchh-----------------------hHHHHHHHHHhcCCceEEeeCC
Q 039252 12 PHTKYDVFLSFRGKDVRH-----------------------NFISHLNAALCRKKIVTFNDDK 51 (139)
Q Consensus 12 ~~~~yDVFISys~~D~~~-----------------------~fv~~L~~~L~~~Gi~vf~d~~ 51 (139)
......|+|-|.|.++.. .+.+.|.+.|+++||.|-.|..
T Consensus 70 ~~~~~~V~IYhTH~~EsY~p~~~~~~~~~~~~~~~~~~nV~~VG~~L~~~Le~~Gi~v~h~~t 132 (268)
T PF07454_consen 70 TSGKPQVLIYHTHSTESYLPSDGLKSVPGPGGATDEEVNVVKVGDRLAQELEKYGIGVIHDKT 132 (268)
T ss_pred CCCCCEEEEEeCCCccccccccccccCCCCCccccccchHHHHHHHHHHHHHHCCCcEEEeCC
Confidence 457788999887765421 1336899999999999988876
No 111
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=26.68 E-value=68 Score=18.99 Aligned_cols=21 Identities=14% Similarity=0.146 Sum_probs=14.0
Q ss_pred HHHHHHHHHhcCCceEEeeCC
Q 039252 31 FISHLNAALCRKKIVTFNDDK 51 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~ 51 (139)
=+..++..|+.+||.+++...
T Consensus 11 ea~~i~~~L~~~gI~~~v~~~ 31 (67)
T PF09413_consen 11 EAELIKGLLEENGIPAFVKNE 31 (67)
T ss_dssp HHHHHHHHHHHTT--EE--S-
T ss_pred HHHHHHHHHHhCCCcEEEECC
Confidence 567899999999999998776
No 112
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=26.68 E-value=1.6e+02 Score=20.89 Aligned_cols=36 Identities=8% Similarity=0.168 Sum_probs=26.2
Q ss_pred CCCC-CcchhhHHhhhcCcEEEEEEcCCCCCchhHHH
Q 039252 53 NRGD-EISPSLSSAIEGSKISIVIFSKGYASSRWCLN 88 (139)
Q Consensus 53 ~~G~-~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~ 88 (139)
.||. .+..++..++..++.+|+|++.+---......
T Consensus 77 tPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~ 113 (188)
T PF00009_consen 77 TPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEE 113 (188)
T ss_dssp ESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHH
T ss_pred cccccceeecccceecccccceeeeeccccccccccc
Confidence 4775 45567888999999999999987554444433
No 113
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=26.60 E-value=2.2e+02 Score=22.14 Aligned_cols=52 Identities=8% Similarity=0.091 Sum_probs=32.5
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCC-CcchhhHHhhhcC
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGD-EISPSLSSAIEGS 69 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~-~i~~~i~~aI~~S 69 (139)
.|.+-|...+-...+...+.+.|++.|+++-......+|. ++...+. .|..+
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~ 190 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQ-RLLDA 190 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHH-HHHhc
Confidence 4555565444334577888899999999987655566664 4554444 44433
No 114
>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=26.40 E-value=80 Score=18.78 Aligned_cols=30 Identities=13% Similarity=0.061 Sum_probs=22.2
Q ss_pred eeeEEEecccCcchhhHHHHHHHHHhcCCceE
Q 039252 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIVT 46 (139)
Q Consensus 15 ~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~v 46 (139)
.-.|+++....+. .-...|.++|++.|+++
T Consensus 37 ~~~v~v~ie~~~~--~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 37 EARVLVGIQVPDR--EDLAELKERLEALGYPY 66 (68)
T ss_pred ceEEEEEEEeCCH--HHHHHHHHHHHHcCCCc
Confidence 4567777765553 46778999999999864
No 115
>PF02337 Gag_p10: Retroviral GAG p10 protein; InterPro: IPR003322 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from beta-retroviruses such as Mason-Pfizer monkey virus (MPMV) (Simian Mason-Pfizer virus) and Mouse mammary tumor virus (MMTV) [, ]. This entry also identifies matrix proteins from several eukaryotic endogenous retroviruses, which arise when one or more copies of the retroviral genome becomes integrated into the host genome [].; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2F77_X 2F76_X.
Probab=26.32 E-value=56 Score=21.49 Aligned_cols=19 Identities=26% Similarity=0.260 Sum_probs=13.6
Q ss_pred hHHHHHHHHHhcCCceEEe
Q 039252 30 NFISHLNAALCRKKIVTFN 48 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~ 48 (139)
.|+..|...|+.+|+++-.
T Consensus 9 ~fv~~Lk~lLk~rGi~v~~ 27 (90)
T PF02337_consen 9 PFVSILKHLLKERGIRVKK 27 (90)
T ss_dssp HHHHHHHHHHHCCT----H
T ss_pred HHHHHHHHHHHHcCeeecH
Confidence 5999999999999998853
No 116
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see IPR001926 from INTERPRO) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region [].; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1TDJ_A 3IAU_A.
Probab=26.31 E-value=1.3e+02 Score=19.40 Aligned_cols=32 Identities=13% Similarity=-0.069 Sum_probs=23.7
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEE
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTF 47 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf 47 (139)
..-.|+++..-.+.+ -...|.+.|+..|+.+.
T Consensus 48 ~~a~vlvgi~v~~~~--~~~~l~~~L~~~gy~~~ 79 (91)
T PF00585_consen 48 DFARVLVGIEVPDAE--DLEELIERLKALGYPYE 79 (91)
T ss_dssp SCSEEEEEEE-SSTH--HHHHHHHHHTSSS-EEE
T ss_pred CeeeEEEEEEeCCHH--HHHHHHHHHHHcCCCeE
Confidence 356799999877654 36789999999999876
No 117
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=26.12 E-value=3.6e+02 Score=21.98 Aligned_cols=59 Identities=8% Similarity=0.090 Sum_probs=33.6
Q ss_pred EEecccCcchhhHHHHHHHHHh--cCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCc
Q 039252 19 FLSFRGKDVRHNFISHLNAALC--RKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASS 83 (139)
Q Consensus 19 FISys~~D~~~~fv~~L~~~L~--~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S 83 (139)
|-|-.+.- +..|+.+.+.|+ ..|+.+-+.+ ..+.-.+.+...+.+++ .|++-||.|..+
T Consensus 254 Y~S~~GnT--e~mA~~ia~g~~~~~~g~~v~~~~---~~~~~~~~i~~~~~~~d-~ii~GspT~~~~ 314 (394)
T PRK11921 254 YDTMWNST--RRMAEAIAEGIKKANKDVTVKLYN---SAKSDKNDIITEVFKSK-AILVGSSTINRG 314 (394)
T ss_pred EECCchHH--HHHHHHHHHHHhhcCCCCeEEEEE---CCCCCHHHHHHHHHhCC-EEEEECCCcCcc
Confidence 44444443 258899999997 6787764322 11222334555555666 455567776544
No 118
>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=26.05 E-value=99 Score=19.81 Aligned_cols=25 Identities=12% Similarity=0.121 Sum_probs=17.4
Q ss_pred HHhhhcCcEEEEEEcCCCCCchhHHHHH
Q 039252 63 SSAIEGSKISIVIFSKGYASSRWCLNEL 90 (139)
Q Consensus 63 ~~aI~~S~~~I~vlS~~~~~S~wc~~El 90 (139)
...+..++.+|+|++..- +....++
T Consensus 68 ~~~~~~~d~~ilv~D~s~---~~s~~~~ 92 (119)
T PF08477_consen 68 QFFLKKADAVILVYDLSD---PESLEYL 92 (119)
T ss_dssp HHHHHHSCEEEEEEECCG---HHHHHHH
T ss_pred cchhhcCcEEEEEEcCCC---hHHHHHH
Confidence 445899999999998663 3444444
No 119
>PF12076 Wax2_C: WAX2 C-terminal domain; InterPro: IPR021940 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 170 amino acids in length. This domain is found associated with PF04116 from PFAM. This domain has a conserved LEGW sequence motif. This region has similarity to short chain dehydrogenases [].
Probab=26.01 E-value=45 Score=24.41 Aligned_cols=74 Identities=22% Similarity=0.258 Sum_probs=47.0
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHH-HhhcCCEEEEEE
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILES-KNKYGQIVVPVF 108 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~-~~~~~~~iiPV~ 108 (139)
..+..+..+|.++|++|-+-.+ .-.+.|...+.....--+++|.+|....|-..+-....++ ....+...+|..
T Consensus 9 KvaraiA~~LC~rgv~V~m~~~-----~~y~~lk~~~~~~~~~~Lv~~~~~~~K~WlVGd~l~~~EQ~~Ap~Gt~Fipfs 83 (164)
T PF12076_consen 9 KVARAIALALCRRGVQVVMLSK-----ERYESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPFS 83 (164)
T ss_pred HHHHHHHHHHHhcCCEEEEecH-----HHHHHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeecc
Confidence 4788899999999999876432 2234555555555455566777887777755333333333 344677888864
No 120
>cd04128 Spg1 Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. 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
Probab=26.00 E-value=2.5e+02 Score=19.99 Aligned_cols=51 Identities=12% Similarity=0.204 Sum_probs=25.7
Q ss_pred HHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCccc
Q 039252 63 SSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVR 117 (139)
Q Consensus 63 ~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~ 117 (139)
...+++++.+|+|++-.-.. ...++...++........-+||+. ..+.|+.
T Consensus 67 ~~~~~~a~~iilv~D~t~~~---s~~~i~~~~~~~~~~~~~~~pilV-gnK~Dl~ 117 (182)
T cd04128 67 PLVCNDAVAILFMFDLTRKS---TLNSIKEWYRQARGFNKTAIPILV-GTKYDLF 117 (182)
T ss_pred HHHCcCCCEEEEEEECcCHH---HHHHHHHHHHHHHHhCCCCCEEEE-EEchhcc
Confidence 34577899999999854333 333333332222111112245554 4566653
No 121
>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=25.88 E-value=1.5e+02 Score=21.62 Aligned_cols=50 Identities=16% Similarity=0.102 Sum_probs=30.1
Q ss_pred eeeEEEecccCcch--hhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHH
Q 039252 15 KYDVFLSFRGKDVR--HNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSS 64 (139)
Q Consensus 15 ~yDVFISys~~D~~--~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~ 64 (139)
...||++|...|.- ...+..+.+.|++.|.++-+...-..|..+..+...
T Consensus 155 ~~pi~~~hG~~D~vvp~~~~~~~~~~L~~~~~~v~~~~~~g~gH~i~~~~~~ 206 (216)
T PF02230_consen 155 KTPILIIHGDEDPVVPFEWAEKTAEFLKAAGANVEFHEYPGGGHEISPEELR 206 (216)
T ss_dssp TS-EEEEEETT-SSSTHHHHHHHHHHHHCTT-GEEEEEETT-SSS--HHHHH
T ss_pred CCcEEEEecCCCCcccHHHHHHHHHHHHhcCCCEEEEEcCCCCCCCCHHHHH
Confidence 44699999988862 457889999999999876544321256666654333
No 122
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=25.54 E-value=2e+02 Score=18.83 Aligned_cols=76 Identities=13% Similarity=0.100 Sum_probs=41.3
Q ss_pred hHH-HHHHHHHhcCCceEEeeCCCCCCCCc-chhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEE
Q 039252 30 NFI-SHLNAALCRKKIVTFNDDKLNRGDEI-SPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPV 107 (139)
Q Consensus 30 ~fv-~~L~~~L~~~Gi~vf~d~~~~~G~~i-~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV 107 (139)
.+- .-+...|+..|++|..- |... .+++.+++.+.+.-++.+|-......--..++...++ +.+..=++|
T Consensus 13 ~lG~~~~~~~l~~~G~~V~~l-----g~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~---~~~~~~~~i 84 (119)
T cd02067 13 DIGKNIVARALRDAGFEVIDL-----GVDVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELK---EAGLDDIPV 84 (119)
T ss_pred hHHHHHHHHHHHHCCCEEEEC-----CCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHH---HcCCCCCeE
Confidence 344 35566678899998542 2222 3477788888877777777663333222233333333 222212556
Q ss_pred EEecCC
Q 039252 108 FYLVDP 113 (139)
Q Consensus 108 ~~~v~p 113 (139)
++...+
T Consensus 85 ~vGG~~ 90 (119)
T cd02067 85 LVGGAI 90 (119)
T ss_pred EEECCC
Confidence 665443
No 123
>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=25.50 E-value=1.6e+02 Score=22.86 Aligned_cols=42 Identities=14% Similarity=0.110 Sum_probs=23.2
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCCCCC--CcchhhHHhhhcCc
Q 039252 29 HNFISHLNAALCRKKIVTFNDDKLNRGD--EISPSLSSAIEGSK 70 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G~--~i~~~i~~aI~~S~ 70 (139)
...+..+.+.+++.|+.+-....+.++. .-...+...|+.+.
T Consensus 174 ~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~ 217 (348)
T cd06350 174 RSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSST 217 (348)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCC
Confidence 3466777777777787765444354441 12224445555544
No 124
>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=25.37 E-value=1.7e+02 Score=21.87 Aligned_cols=35 Identities=11% Similarity=0.016 Sum_probs=27.6
Q ss_pred EEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCC
Q 039252 46 TFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYAS 82 (139)
Q Consensus 46 vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~ 82 (139)
||+|.- -+..+..++.....+..+-|+++||..-.
T Consensus 127 VW~D~f--~~~~~~~~~~~~~~~~~~~~c~VSpELh~ 161 (192)
T cd08584 127 VWIDSF--TSLWLDNDLILKLLKAGKKICLVSPELHG 161 (192)
T ss_pred EEEecc--cccCCCHHHHHHHHHCCcEEEEECHHHcC
Confidence 898864 44667777888888889999999998664
No 125
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=25.28 E-value=1.4e+02 Score=24.19 Aligned_cols=27 Identities=7% Similarity=-0.031 Sum_probs=17.7
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCCCC
Q 039252 29 HNFISHLNAALCRKKIVTFNDDKLNRG 55 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G 55 (139)
...+..+.+.|++.|+.+-....+.++
T Consensus 150 ~~~~~~~~~~~~~~g~~iv~~~~~~~~ 176 (404)
T cd06370 150 SSVFETLKEEAELRNITISHVEYYADF 176 (404)
T ss_pred HHHHHHHHHHHHHcCCEEEEEEEECCC
Confidence 346677777887888887654445454
No 126
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=25.19 E-value=51 Score=23.96 Aligned_cols=22 Identities=23% Similarity=0.416 Sum_probs=17.0
Q ss_pred cCcEEEEEEcCC--CCCchhHHHH
Q 039252 68 GSKISIVIFSKG--YASSRWCLNE 89 (139)
Q Consensus 68 ~S~~~I~vlS~~--~~~S~wc~~E 89 (139)
-....++.+|-+ |.++.||..|
T Consensus 74 ~~~~~Vl~IS~DLPFAq~RfC~ae 97 (158)
T COG2077 74 LGNTVVLCISMDLPFAQKRFCGAE 97 (158)
T ss_pred cCCcEEEEEeCCChhHHhhhhhhc
Confidence 344677888888 7899999876
No 127
>PF05570 DUF765: Circovirus protein of unknown function (DUF765); InterPro: IPR008484 This family consists of several short (27-30aa) porcine and bovine circovirus ORF6 proteins of unknown function.
Probab=25.17 E-value=45 Score=16.81 Aligned_cols=9 Identities=44% Similarity=0.423 Sum_probs=6.1
Q ss_pred CCCCCCCCC
Q 039252 1 MASSSSSIN 9 (139)
Q Consensus 1 ~~~~~~~~~ 9 (139)
||||++..+
T Consensus 1 masstpasp 9 (29)
T PF05570_consen 1 MASSTPASP 9 (29)
T ss_pred CCcCCCCCC
Confidence 788876554
No 128
>KOG2934 consensus Uncharacterized conserved protein, contains Josephin domain [General function prediction only]
Probab=25.11 E-value=64 Score=24.09 Aligned_cols=22 Identities=18% Similarity=0.131 Sum_probs=18.5
Q ss_pred HHHHHHHHHhcCCce-EEeeCCC
Q 039252 31 FISHLNAALCRKKIV-TFNDDKL 52 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~-vf~d~~~ 52 (139)
=++-+-.+|..+|+. ||+|++-
T Consensus 82 dvnvimaalq~~gl~avw~dRrr 104 (204)
T KOG2934|consen 82 DVNVIMAALQQCGLEAVWLDRRR 104 (204)
T ss_pred cHHHHHHHHHhcCceeeeccccC
Confidence 356788999999998 9999873
No 129
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake 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 uptake 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 its ligand specificity has not been determined experimentally.
Probab=24.84 E-value=2.3e+02 Score=21.74 Aligned_cols=39 Identities=13% Similarity=-0.024 Sum_probs=21.2
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhc
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEG 68 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~ 68 (139)
..+..+.+.|++.|+++--...+.+|..=...+...|.+
T Consensus 152 ~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~ 190 (312)
T cd06346 152 GLADAFTKAFEALGGTVTNVVAHEEGKSSYSSEVAAAAA 190 (312)
T ss_pred HHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHh
Confidence 455667777777787765444455554222233444443
No 130
>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=24.83 E-value=81 Score=21.93 Aligned_cols=45 Identities=16% Similarity=0.100 Sum_probs=25.3
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCC-CCcchhhHHhhhcCcEEEE
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRG-DEISPSLSSAIEGSKISIV 74 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~i~~~i~~aI~~S~~~I~ 74 (139)
.....|.+.|++.|+++..-..+.-. +.+.+.+.+++++++.+|.
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliIt 72 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLT 72 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEE
Confidence 34557888899999887643322111 2344555555555554443
No 131
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=24.81 E-value=3.4e+02 Score=21.25 Aligned_cols=76 Identities=9% Similarity=0.007 Sum_probs=49.1
Q ss_pred hHHHHHHHHHhcCCceEEe--eC-C-CCCCCCcchhhHHhhhcCcEEEEEEcCC-CCCchhHHHHHHHHHHHH-hhcCCE
Q 039252 30 NFISHLNAALCRKKIVTFN--DD-K-LNRGDEISPSLSSAIEGSKISIVIFSKG-YASSRWCLNELVKILESK-NKYGQI 103 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~--d~-~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~-~~~S~wc~~El~~a~~~~-~~~~~~ 103 (139)
+++..|.+.+.+.|+.+-. +. + +--|--+.-.... .+.++=||.+|.+ ...+.....+|..++... ++.+.+
T Consensus 97 eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~--p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~i~~~~~r 174 (282)
T TIGR02298 97 ALGQLIADEAQEHGVKTLAHQVPSLGLEYGTLVPMRYMN--EDGHFKVVSIAAWCTVHDIEESRALGEAIRKAIEQSDGR 174 (282)
T ss_pred HHHHHHHHHHHHCCCceeeccCCCCCCCeehHhHHHHhC--CCCCCcEEEEeecCCCCCHHHHHHHHHHHHHHHHhcCCC
Confidence 6999999999999998752 22 2 4455444322221 2345667778776 445777778999988875 334455
Q ss_pred EEEE
Q 039252 104 VVPV 107 (139)
Q Consensus 104 iiPV 107 (139)
|.-|
T Consensus 175 V~iI 178 (282)
T TIGR02298 175 VAVL 178 (282)
T ss_pred EEEE
Confidence 5444
No 132
>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=24.75 E-value=1.1e+02 Score=20.31 Aligned_cols=60 Identities=23% Similarity=0.348 Sum_probs=36.6
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeC--------C------CCCCCC-cchhhHHhhhc-CcEEEEEEcCC
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDD--------K------LNRGDE-ISPSLSSAIEG-SKISIVIFSKG 79 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~--------~------~~~G~~-i~~~i~~aI~~-S~~~I~vlS~~ 79 (139)
||||-+..|+. -...+...|.+.|++++--. . +..+.. -..++.+.|.+ -++-++|..|+
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 VFLSVSDHVKA--MLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccHH--HHHHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 68888776643 33466677777777764221 0 111100 12468888888 88888888776
No 133
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] 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 possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=24.67 E-value=97 Score=20.30 Aligned_cols=56 Identities=11% Similarity=0.109 Sum_probs=31.5
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEE-eeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCC
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTF-NDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf-~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
...=++||+++... +..+.+. .+.++|.++- +-.. ++. ...+.++..+.+-+.+..
T Consensus 54 ~d~vi~is~sg~~~--~~~~~~~-~ak~~g~~vi~iT~~--~~~-------~l~~~ad~~l~~~~~~~~ 110 (131)
T PF01380_consen 54 DDLVIIISYSGETR--ELIELLR-FAKERGAPVILITSN--SES-------PLARLADIVLYIPTGEES 110 (131)
T ss_dssp TEEEEEEESSSTTH--HHHHHHH-HHHHTTSEEEEEESS--TTS-------HHHHHSSEEEEEESSCGS
T ss_pred cceeEeeeccccch--hhhhhhH-HHHhcCCeEEEEeCC--CCC-------chhhhCCEEEEecCCCcc
Confidence 34445777777653 3555554 8889998863 2211 122 223456777777666554
No 134
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=24.49 E-value=1.6e+02 Score=22.20 Aligned_cols=97 Identities=16% Similarity=0.162 Sum_probs=56.8
Q ss_pred EEEecccCcc--hhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhc---------------------------
Q 039252 18 VFLSFRGKDV--RHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEG--------------------------- 68 (139)
Q Consensus 18 VFISys~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~--------------------------- 68 (139)
.||.+=+-|. ..+.++.|.+.|+.+|++|.+-.. +.|.++.+.|.+.+.+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~trE-P~~~~ige~iR~~ll~~~~~~~~~~e~lLfaadR~~h~~~~i~ 82 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTRE-PGGTPIGEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEVIK 82 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC-CCCChHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4777766653 246889999999999998766543 2233333333332221
Q ss_pred --CcEEEEEEcCCCCCchhHHHH--------HHHHHHHH-hhcCCEEEEEEEecCCCc
Q 039252 69 --SKISIVIFSKGYASSRWCLNE--------LVKILESK-NKYGQIVVPVFYLVDPSD 115 (139)
Q Consensus 69 --S~~~I~vlS~~~~~S~wc~~E--------l~~a~~~~-~~~~~~iiPV~~~v~p~~ 115 (139)
-...-+|++..|.-|..+..- ....+... ..+-.+=+-++++++|..
T Consensus 83 pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~ 140 (208)
T COG0125 83 PALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEV 140 (208)
T ss_pred HhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHH
Confidence 011247888999888777652 22222221 112235566788888876
No 135
>COG0462 PrsA Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]
Probab=24.29 E-value=3.9e+02 Score=21.69 Aligned_cols=102 Identities=13% Similarity=0.171 Sum_probs=54.4
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcC----CEEE
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYG----QIVV 105 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~----~~ii 105 (139)
.++..+.+.|.-.=.++-.. ++.-|+ +.-+|.+.+++.+++ ++=|...-.+++-+ ||..++...+..+ ..|+
T Consensus 15 ~La~~ia~~l~~~l~~~~~~-rF~DGE-~~V~i~EsVrg~dVf-I~qs~~~pvnd~lm-ELLi~idA~k~asA~~It~Vi 90 (314)
T COG0462 15 ELAEKIAKRLGIPLGKVEVK-RFPDGE-IYVRIEESVRGKDVF-IIQSTSPPVNDNLM-ELLIMIDALKRASAKRITAVI 90 (314)
T ss_pred HHHHHHHHHhCCCcccceeE-EcCCCc-EEEEecccccCCeEE-EEeCCCCCcCHHHH-HHHHHHHHHHhcCCceEEEEe
Confidence 47777777775432221111 144454 334788999999998 44444443555555 5655555443322 2556
Q ss_pred EEEEecCCCcc-ccccCchHHHHHHHHHHhc
Q 039252 106 PVFYLVDPSDV-RNQTGTFGDSFSKLEERFK 135 (139)
Q Consensus 106 PV~~~v~p~~v-~~~~~~~~~~f~~~~~~~~ 135 (139)
|-|---..... +.+.+--+++++++.+..+
T Consensus 91 PY~gYARQDk~~~~repIsaklvA~lL~~aG 121 (314)
T COG0462 91 PYFGYARQDKAFKPREPISAKLVANLLETAG 121 (314)
T ss_pred ecchhhccCcccCCCCCEeHHHHHHHHHHcC
Confidence 65532112212 4445556777777766543
No 136
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=24.19 E-value=2.2e+02 Score=22.67 Aligned_cols=14 Identities=14% Similarity=0.195 Sum_probs=7.1
Q ss_pred HHHHHHHHHhcCCc
Q 039252 31 FISHLNAALCRKKI 44 (139)
Q Consensus 31 fv~~L~~~L~~~Gi 44 (139)
.+..+.+.|++.|+
T Consensus 170 ~~~~~~~~~~~~g~ 183 (377)
T cd06379 170 AQKRFETLLEEREI 183 (377)
T ss_pred HHHHHHHHHHhcCC
Confidence 44445555555555
No 137
>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=23.93 E-value=2.6e+02 Score=21.88 Aligned_cols=101 Identities=16% Similarity=0.220 Sum_probs=50.3
Q ss_pred hHHHHHHHHHhcCCceE-EeeCC-C--CCCCC------------cchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHH
Q 039252 30 NFISHLNAALCRKKIVT-FNDDK-L--NRGDE------------ISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKI 93 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~v-f~d~~-~--~~G~~------------i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a 93 (139)
.++.+|.+.|+..|.++ .+++. + ..... +..++.+++.. +.+|++-+.+|.+| -++||..+
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 TRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALSK-DTIVILDDNNYIKG--MRYELYCL 92 (270)
T ss_dssp HHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHTT--SEEEE-S---SHH--HHHHHHHH
T ss_pred HHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhcc-CeEEEEeCCchHHH--HHHHHHHH
Confidence 68999999999988876 44433 2 23321 11223334444 35778888899987 56788776
Q ss_pred HHHHhhcCCEEEEEEEecCCCcc------cccc-CchHHHHHHHHHHhcc
Q 039252 94 LESKNKYGQIVVPVFYLVDPSDV------RNQT-GTFGDSFSKLEERFKE 136 (139)
Q Consensus 94 ~~~~~~~~~~iiPV~~~v~p~~v------~~~~-~~~~~~f~~~~~~~~~ 136 (139)
.+.. +....-|+.+.....- |... ..=.+.|+++.++|.+
T Consensus 93 Ar~~---~~~~c~i~~~~~~e~~~~~N~~R~~~~~~~~e~i~~m~~RfE~ 139 (270)
T PF08433_consen 93 ARAY---GTTFCVIYCDCPLETCLQRNSKRPEPERYPEETIDDMIQRFEE 139 (270)
T ss_dssp HHHT---T-EEEEEEEE--HHHHHHHHHHTT-S--S-HHHHHHHHHH---
T ss_pred HHHc---CCCEEEEEECCCHHHHHHhhhccCCCCCCCHHHHHHHHHHhcC
Confidence 5543 3345556665544331 1111 1346778888888864
No 138
>PRK10628 LigB family dioxygenase; Provisional
Probab=23.72 E-value=3.5e+02 Score=21.00 Aligned_cols=77 Identities=12% Similarity=0.074 Sum_probs=52.8
Q ss_pred EecccCcchhhHHHHHHHHHhcCCceEEeeC-C-CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHH
Q 039252 20 LSFRGKDVRHNFISHLNAALCRKKIVTFNDD-K-LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESK 97 (139)
Q Consensus 20 ISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~-~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~ 97 (139)
|.|..... .+.+..+.+.|++.|+.+ -+. + +--|-... +...--+.++=|+-+|=+...++-...+|..++...
T Consensus 62 ~~Ypa~G~-p~LA~~i~~ll~~~~~~~-~~~~rGlDHG~Wvp--L~~m~P~adIPVvqlSl~~~~~~~~h~~lG~aL~~L 137 (246)
T PRK10628 62 THYPAPGS-PALAQRLVELLAPVPVTL-DKEAWGFDHGSWGV--LIKMYPDADIPMVQLSIDSTKPAAWHFEMGRKLAAL 137 (246)
T ss_pred ecCCCCCC-HHHHHHHHHHhhhcCccc-CCcccCcccchhhh--hhhhCCCCCCCeEEeecCCCCCHHHHHHHHHHHHhh
Confidence 77765543 379999999999888832 222 4 55555433 223334567778888888878888888999999876
Q ss_pred hhc
Q 039252 98 NKY 100 (139)
Q Consensus 98 ~~~ 100 (139)
++.
T Consensus 138 R~~ 140 (246)
T PRK10628 138 RDE 140 (246)
T ss_pred ccC
Confidence 543
No 139
>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=23.43 E-value=2.6e+02 Score=24.51 Aligned_cols=62 Identities=18% Similarity=0.011 Sum_probs=39.8
Q ss_pred eeeEEEecccCc-chhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCC
Q 039252 15 KYDVFLSFRGKD-VRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGY 80 (139)
Q Consensus 15 ~yDVFISys~~D-~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~ 80 (139)
.++|+|-.-.++ .....+..|.+.|.+.|++|.+|.. |. +...+..|-+.---+++++.++-
T Consensus 457 P~kV~VIpl~~~~el~~~A~eIa~~LR~~GI~VeiD~s---~s-IGKq~rrADeiGiPf~IIIG~~E 519 (551)
T TIGR00389 457 PIKVAVLPLVNKEELKEIAKEIFQALRKTGIRIKYDDS---GT-IGKRYRRADEIGTPFCVTIDFET 519 (551)
T ss_pred CceEEEEEecCcHHHHHHHHHHHHHHHHCCCEEEEECC---CC-HHHHHHHHHHcCCCEEEEECCch
Confidence 567766554432 1235788999999999999999864 33 66666666544434555555443
No 140
>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=23.41 E-value=1.6e+02 Score=25.03 Aligned_cols=62 Identities=10% Similarity=-0.028 Sum_probs=38.5
Q ss_pred ceeeEEEecc--cC---cchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 14 TKYDVFLSFR--GK---DVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 14 ~~yDVFISys--~~---D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
-.++|+|--- .+ +.-...+..|.+.|.+.|++|-+|.+ -.+|. .+..|-..---+++++.++
T Consensus 281 aP~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~gk----k~k~Ae~~GvP~~IiIG~~ 348 (472)
T TIGR00408 281 APIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPGR----KFYQWEIKGIPLRIEVGPN 348 (472)
T ss_pred CcceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHH----HHHHHHHCCCCEEEEECcc
Confidence 3478887642 21 12246789999999999999999986 44454 3434433333345555554
No 141
>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=23.25 E-value=2.1e+02 Score=19.22 Aligned_cols=37 Identities=24% Similarity=0.402 Sum_probs=23.5
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-CCCCCCcch
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISP 60 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~ 60 (139)
+|+|+|-.+. -...|.+..++.|+.+-+ | +.+| .+.+
T Consensus 2 iFvS~SMP~~---~L~~l~~~a~~~~~~~V~--RG~~~g-~~~~ 39 (113)
T PF09673_consen 2 IFVSFSMPDA---SLRNLLKQAERAGVVVVF--RGFPDG-SFKP 39 (113)
T ss_pred EEEECCCCHH---HHHHHHHHHHhCCcEEEE--ECCCCC-CHHH
Confidence 7999997763 344555666666776544 4 5666 4543
No 142
>PRK08350 hypothetical protein; Provisional
Probab=23.09 E-value=91 Score=25.58 Aligned_cols=34 Identities=12% Similarity=0.141 Sum_probs=28.4
Q ss_pred CCceeeEEEecccCcchhhHHHHHHHHHhcCCce
Q 039252 12 PHTKYDVFLSFRGKDVRHNFISHLNAALCRKKIV 45 (139)
Q Consensus 12 ~~~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~ 45 (139)
+...|-+.+|||+.++++.|+.+|.-+|...-|+
T Consensus 278 ~~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 278 KSERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HHcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 3456889999999998889999998888877776
No 143
>TIGR00113 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase. This model describes the enzyme for S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA). QueA synthesizes Queuosine which is usually in the first position of the anticodon of tRNAs specific for asparagine, aspartate, histidine, and tyrosine.
Probab=22.96 E-value=1.2e+02 Score=24.88 Aligned_cols=66 Identities=15% Similarity=0.118 Sum_probs=32.9
Q ss_pred HHHHHHHHHhcCCceEEeeCC-CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHH--HHHHHHHHHHhhcCCEEEEE
Q 039252 31 FISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCL--NELVKILESKNKYGQIVVPV 107 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~-~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~--~El~~a~~~~~~~~~~iiPV 107 (139)
|...|.+.|+.+|+.+..--- ...|...+-+. +. +..+-.-++|+. .|...++...+..+.+||.|
T Consensus 186 Ft~~ll~~l~~kGv~~a~vTLHVG~GTF~PV~~-e~----------i~~H~mH~E~~~v~~~ta~~i~~ak~~G~RIiAV 254 (344)
T TIGR00113 186 FSEELLEKLKAKGVQYAFITLHVGAGTFRPVEA-DN----------IEDHVMHAEYYEVPQETVEALNKTRENGGRIIAV 254 (344)
T ss_pred CCHHHHHHHHHCCCeEEEEEEeecCCCCcCccc-cc----------cccCCcccEEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 777888888888876543322 33343211100 00 122223344442 34555555555566677776
No 144
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. 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 the uptake 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 its ligand specificity has not been determined experimentally.
Probab=22.96 E-value=2.2e+02 Score=22.00 Aligned_cols=51 Identities=10% Similarity=0.058 Sum_probs=28.3
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCC-CcchhhHHhhhc
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGD-EISPSLSSAIEG 68 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~-~i~~~i~~aI~~ 68 (139)
.|.|-|...+-...+...+...|++.|+++-......++. ++.. ....+..
T Consensus 137 ~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~-~v~~l~~ 188 (340)
T cd06349 137 KVAILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYVPGEKDFRP-TITRLRD 188 (340)
T ss_pred EEEEEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeCCCCCcHHH-HHHHHHh
Confidence 4566665444334566777788888888766444344443 3333 3334443
No 145
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=22.83 E-value=2.8e+02 Score=20.53 Aligned_cols=52 Identities=12% Similarity=0.122 Sum_probs=33.3
Q ss_pred eEEEecccCcchhhHHHHHHHHHhcC-CceEEeeCCCCCCCCcchhhHHhhhcCcEEEE
Q 039252 17 DVFLSFRGKDVRHNFISHLNAALCRK-KIVTFNDDKLNRGDEISPSLSSAIEGSKISIV 74 (139)
Q Consensus 17 DVFISys~~D~~~~fv~~L~~~L~~~-Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~ 74 (139)
=+||...+.|. .+++....++|++. |+.+-.-..+. .+...+.|.+++.+++
T Consensus 34 i~~IptAs~~~-~~~~~~~~~a~~~l~G~~~~~~~~~~-----~~~~~~~l~~ad~I~l 86 (212)
T cd03146 34 VLFVPTASGDR-DEYTARFYAAFESLRGVEVSHLHLFD-----TEDPLDALLEADVIYV 86 (212)
T ss_pred EEEECCCCCCH-HHHHHHHHHHHhhccCcEEEEEeccC-----cccHHHHHhcCCEEEE
Confidence 36888887764 36888999999999 98754322111 2344566666664433
No 146
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=22.74 E-value=3.5e+02 Score=20.89 Aligned_cols=36 Identities=11% Similarity=0.062 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCCCC-CCcchhhHH
Q 039252 29 HNFISHLNAALCRKKIVTFNDDKLNRG-DEISPSLSS 64 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~~~~G-~~i~~~i~~ 64 (139)
..++..+.+.|++.|+++-....+.++ .++...+.+
T Consensus 149 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~ 185 (334)
T cd06327 149 HSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLLQ 185 (334)
T ss_pred HHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHHH
Confidence 346677777778888887655444443 345544443
No 147
>PRK05465 ethanolamine ammonia-lyase small subunit; Provisional
Probab=22.70 E-value=1e+02 Score=24.34 Aligned_cols=45 Identities=18% Similarity=0.289 Sum_probs=30.6
Q ss_pred hHHHHHHHHHhcCCce---EEeeCC--CCCCCCcchhhHHhhhcCcEEEEEEcCC
Q 039252 30 NFISHLNAALCRKKIV---TFNDDK--LNRGDEISPSLSSAIEGSKISIVIFSKG 79 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~---vf~d~~--~~~G~~i~~~i~~aI~~S~~~I~vlS~~ 79 (139)
.|...|.+.|...|++ +++... +..|+ +|.+++ +++++|++|.+.
T Consensus 131 ~~l~al~~~L~~~g~~iap~v~~~qgRValgD----~Ige~L-~ar~vvvLIGER 180 (260)
T PRK05465 131 PLLPALLAGLKAAGWSVGPPVFVRQGRVALGD----EIGELL-GAKVVVVLIGER 180 (260)
T ss_pred HHHHHHHHHHHHcCCCcCCeEEEecCeehHHH----HHHHHh-CCCEEEEEEecC
Confidence 4777888888888865 355443 55555 444554 688888888765
No 148
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=22.65 E-value=1.4e+02 Score=23.63 Aligned_cols=52 Identities=23% Similarity=0.166 Sum_probs=36.6
Q ss_pred cCcchhhHHHHHHHHHhcCCceEEe---eCC--CCCCCCcchhhHHhhhcCcEEEEEEcC
Q 039252 24 GKDVRHNFISHLNAALCRKKIVTFN---DDK--LNRGDEISPSLSSAIEGSKISIVIFSK 78 (139)
Q Consensus 24 ~~D~~~~fv~~L~~~L~~~Gi~vf~---d~~--~~~G~~i~~~i~~aI~~S~~~I~vlS~ 78 (139)
+.|.|+ ..+.+.|.+.|++|+. ++. -..|-.+.+...+++.+++++|.++.+
T Consensus 9 ggd~r~---~~~~~~l~~~G~~v~~~g~~~~~~~~~g~~~~~~~~~~~~~ad~ii~~~p~ 65 (296)
T PRK08306 9 GGDARQ---LELIRKLVELGAKVSLVGFDQLDHGFTGATKSSSLEEALSDVDVIILPVPG 65 (296)
T ss_pred cCcHHH---HHHHHHHHHCCCEEEEEeccccccccCCceeeccHHHHhccCCEEEECCcc
Confidence 456552 2577889999999875 222 356766765667789999999988655
No 149
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=22.37 E-value=2.4e+02 Score=22.99 Aligned_cols=26 Identities=4% Similarity=-0.052 Sum_probs=14.9
Q ss_pred hhHHHHHHHHHhcCCceEEeeCCCCC
Q 039252 29 HNFISHLNAALCRKKIVTFNDDKLNR 54 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~vf~d~~~~~ 54 (139)
...+..+.+.|++.|+.+-....+.+
T Consensus 186 ~~~~~~f~~~~~~~GicIa~~e~~~~ 211 (403)
T cd06361 186 RSALETFIIQAEANGVCIAFKEILPA 211 (403)
T ss_pred HHHHHHHHHHHHHCCeEEEEEEEecC
Confidence 34566677777777765543333433
No 150
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=22.28 E-value=1.7e+02 Score=21.61 Aligned_cols=56 Identities=14% Similarity=0.048 Sum_probs=38.6
Q ss_pred hhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCcccc
Q 039252 61 SLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRN 118 (139)
Q Consensus 61 ~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~ 118 (139)
.-..-+...+.+++|+|=+-..|=-+...+...+.+.+.. .-+||++-.++.|+..
T Consensus 67 ~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~--~~~PivlVGNK~Dl~~ 122 (196)
T KOG0395|consen 67 MRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGR--DDVPIILVGNKCDLER 122 (196)
T ss_pred HHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCc--CCCCEEEEEEcccchh
Confidence 3344588899999999988888766666666555332322 2289998778888754
No 151
>KOG3573 consensus Caspase, apoptotic cysteine protease [Cell cycle control, cell division, chromosome partitioning]
Probab=22.24 E-value=48 Score=26.18 Aligned_cols=27 Identities=22% Similarity=0.250 Sum_probs=17.7
Q ss_pred EEecccCcchhhHHHHHHHHHhcCCce
Q 039252 19 FLSFRGKDVRHNFISHLNAALCRKKIV 45 (139)
Q Consensus 19 FISys~~D~~~~fv~~L~~~L~~~Gi~ 45 (139)
|+||++.+...||+..|.+.|.+++-+
T Consensus 231 ~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 231 YVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred ceeeecCCCceeeHHHHHHHHHHhcch
Confidence 445555555567888888888766544
No 152
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=22.23 E-value=2.7e+02 Score=19.18 Aligned_cols=86 Identities=13% Similarity=0.009 Sum_probs=50.1
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHH
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESK 97 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~ 97 (139)
|++.=-+.|..+-=++-+...|+..|+.|-. ..++.-.+++.++..+.+.-++++|--.-...--..++...+
T Consensus 5 v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~----lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L--- 77 (132)
T TIGR00640 5 ILVAKMGQDGHDRGAKVIATAYADLGFDVDV----GPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKEL--- 77 (132)
T ss_pred EEEEeeCCCccHHHHHHHHHHHHhCCcEEEE----CCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHH---
Confidence 3444444454322335566778899999875 233344457777777888878888776655433344444443
Q ss_pred hhcCCEEEEEEEe
Q 039252 98 NKYGQIVVPVFYL 110 (139)
Q Consensus 98 ~~~~~~iiPV~~~ 110 (139)
++.+..-++|+..
T Consensus 78 ~~~g~~~i~vivG 90 (132)
T TIGR00640 78 DKLGRPDILVVVG 90 (132)
T ss_pred HhcCCCCCEEEEe
Confidence 3333335677776
No 153
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.10 E-value=66 Score=18.32 Aligned_cols=16 Identities=13% Similarity=0.096 Sum_probs=13.0
Q ss_pred HHHHHHHHhcCCceEE
Q 039252 32 ISHLNAALCRKKIVTF 47 (139)
Q Consensus 32 v~~L~~~L~~~Gi~vf 47 (139)
...+.+.|+++||+++
T Consensus 50 ~~~~~~~L~~~G~~v~ 65 (65)
T cd04882 50 IEKAIEVLQERGVELV 65 (65)
T ss_pred HHHHHHHHHHCCceEC
Confidence 5578889999999874
No 154
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=21.53 E-value=2.8e+02 Score=22.47 Aligned_cols=64 Identities=17% Similarity=0.273 Sum_probs=38.3
Q ss_pred EEEecccCcchhhHHHHHHHHHhcCCceEEeeCC-----CCCCCCc-chhhHHhhhcCcEEEEEEcCCCC
Q 039252 18 VFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-----LNRGDEI-SPSLSSAIEGSKISIVIFSKGYA 81 (139)
Q Consensus 18 VFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~~-----~~~G~~i-~~~i~~aI~~S~~~I~vlS~~~~ 81 (139)
+|+.|...+....-...+.+.+.+..+.|+.--+ ...|..+ .......+.+-...|.+++|...
T Consensus 176 ~FlNY~W~~~~l~~s~~~a~~~g~~~~dvy~GiDv~grg~~~~~~~~~~~~~~~~~~~~~Svalfap~W~ 245 (339)
T cd06547 176 IFLNYWWTEESLERSVQLAEGLGRSPYDVYVGVDVWGRGTKGGGGWNSDKALDEIKKAGLSVALFAPGWT 245 (339)
T ss_pred eeEecCCCcchHHHHHHHHHHcCCCHhHEEEEEEEEcCCcccCCCCchhhhhhhhcccCeEEEEEcCcch
Confidence 7999998864311222345556554444443332 2323334 34566778889999999999854
No 155
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=21.52 E-value=2.8e+02 Score=20.83 Aligned_cols=32 Identities=13% Similarity=0.196 Sum_probs=24.0
Q ss_pred EecccCcc--hhhHHHHHHHHHhcCCceEEeeCC
Q 039252 20 LSFRGKDV--RHNFISHLNAALCRKKIVTFNDDK 51 (139)
Q Consensus 20 ISys~~D~--~~~fv~~L~~~L~~~Gi~vf~d~~ 51 (139)
|.+|+.+. ...|+..|.+.+.+.|++++++..
T Consensus 42 Vt~SGGEPllq~~fl~~l~~~~k~~gi~~~leTn 75 (213)
T PRK10076 42 VTLSGGEVLMQAEFATRFLQRLRLWGVSCAIETA 75 (213)
T ss_pred EEEeCchHHcCHHHHHHHHHHHHHcCCCEEEECC
Confidence 44555543 346888899999999999999876
No 156
>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=21.44 E-value=3e+02 Score=22.07 Aligned_cols=44 Identities=9% Similarity=-0.010 Sum_probs=23.4
Q ss_pred HHHHHHHHhcCCceEEeeCCCCCCCCcchhhHHhhhc-CcEEEEE
Q 039252 32 ISHLNAALCRKKIVTFNDDKLNRGDEISPSLSSAIEG-SKISIVI 75 (139)
Q Consensus 32 v~~L~~~L~~~Gi~vf~d~~~~~G~~i~~~i~~aI~~-S~~~I~v 75 (139)
+..|.+.|+..|+.+-.......++.-..++.+.++. +|++|+.
T Consensus 157 ~~~l~~~~~~~gi~v~~~~~~~~~~~d~~~~l~~ik~~~rvii~~ 201 (387)
T cd06386 157 LEGVHHVFQEEGYHMSIYPFDETKDLDLDEIIRAIQASERVVIMC 201 (387)
T ss_pred HHHHHHHHHhcCceEEEEecCCCCcccHHHHHHHHHhcCcEEEEe
Confidence 6677788888887765543233333223344444543 3333333
No 157
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=21.40 E-value=2.9e+02 Score=19.16 Aligned_cols=73 Identities=15% Similarity=0.047 Sum_probs=43.1
Q ss_pred HHHHHHHhcCCceEEeeCCCCCCCCcc-hhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEec
Q 039252 33 SHLNAALCRKKIVTFNDDKLNRGDEIS-PSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLV 111 (139)
Q Consensus 33 ~~L~~~L~~~Gi~vf~d~~~~~G~~i~-~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v 111 (139)
.-+.-.|+.+|++|-+ .|...+ +++.+++.+.+.-++.+|--...+.--..++...++. .+..=++|++..
T Consensus 21 ~iv~~~lr~~G~eVi~-----LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~~---~~~~~~~i~vGG 92 (137)
T PRK02261 21 KILDRALTEAGFEVIN-----LGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKCIE---AGLGDILLYVGG 92 (137)
T ss_pred HHHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHHHh---cCCCCCeEEEEC
Confidence 3455566889999865 344444 5788888887776777765544444333444444432 222125777765
Q ss_pred CC
Q 039252 112 DP 113 (139)
Q Consensus 112 ~p 113 (139)
.+
T Consensus 93 ~~ 94 (137)
T PRK02261 93 NL 94 (137)
T ss_pred CC
Confidence 54
No 158
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.26 E-value=3e+02 Score=23.40 Aligned_cols=78 Identities=15% Similarity=0.221 Sum_probs=51.0
Q ss_pred CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCccccccCchHHHHHHHH
Q 039252 52 LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLE 131 (139)
Q Consensus 52 ~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~ 131 (139)
+..|-++...+.--++.++.+|+++.|+=+. .-.|...++...+.....|=.|+=+-+.-+-.++...||.+.+..+
T Consensus 165 isR~ydF~~v~~WFaeR~D~IiLlfD~hKLD---IsdEf~~vi~aLkG~EdkiRVVLNKADqVdtqqLmRVyGALmWslg 241 (532)
T KOG1954|consen 165 ISRGYDFTGVLEWFAERVDRIILLFDAHKLD---ISDEFKRVIDALKGHEDKIRVVLNKADQVDTQQLMRVYGALMWSLG 241 (532)
T ss_pred ccccCChHHHHHHHHHhccEEEEEechhhcc---ccHHHHHHHHHhhCCcceeEEEeccccccCHHHHHHHHHHHHHhhh
Confidence 6667788888888999999999999998764 3367777777765444444444433222222334456776666554
Q ss_pred H
Q 039252 132 E 132 (139)
Q Consensus 132 ~ 132 (139)
.
T Consensus 242 k 242 (532)
T KOG1954|consen 242 K 242 (532)
T ss_pred h
Confidence 4
No 159
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=20.98 E-value=2.7e+02 Score=18.54 Aligned_cols=40 Identities=13% Similarity=0.030 Sum_probs=26.2
Q ss_pred cCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEe
Q 039252 68 GSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYL 110 (139)
Q Consensus 68 ~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~ 110 (139)
..+..|+++|........ +...+.+..++.+..+++|-..
T Consensus 102 ~~~~~iiliTDG~~~~~~---~~~~~~~~~~~~~v~v~~i~~g 141 (161)
T cd01450 102 NVPKVIIVLTDGRSDDGG---DPKEAAAKLKDEGIKVFVVGVG 141 (161)
T ss_pred CCCeEEEEECCCCCCCCc---chHHHHHHHHHCCCEEEEEecc
Confidence 455678888888766554 4555555555567778877654
No 160
>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=20.82 E-value=2.9e+02 Score=18.87 Aligned_cols=28 Identities=7% Similarity=0.118 Sum_probs=18.1
Q ss_pred hHHhhhcCcEEEEEEcCCCCCchhHHHHHHH
Q 039252 62 LSSAIEGSKISIVIFSKGYASSRWCLNELVK 92 (139)
Q Consensus 62 i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~ 92 (139)
....+++++.+|++++-+- +....++..
T Consensus 69 ~~~~~~~ad~~i~v~d~~~---~~s~~~~~~ 96 (167)
T cd01867 69 TTAYYRGAMGIILVYDITD---EKSFENIRN 96 (167)
T ss_pred HHHHhCCCCEEEEEEECcC---HHHHHhHHH
Confidence 3455788999999998643 334444443
No 161
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=20.76 E-value=3.2e+02 Score=19.39 Aligned_cols=77 Identities=13% Similarity=0.079 Sum_probs=49.9
Q ss_pred HHHHHHhcCCceEEeeCC---CCCCCCcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEe
Q 039252 34 HLNAALCRKKIVTFNDDK---LNRGDEISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYL 110 (139)
Q Consensus 34 ~L~~~L~~~Gi~vf~d~~---~~~G~~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~ 110 (139)
.+.+.|+.-|+.-+.+.. +..|+.-.-.|..++-.--.++++--|...-..-...++..++......+..||-|-++
T Consensus 107 ~~~~~l~~~~l~~~~~~~~~~LS~G~~qrv~laral~~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tili~sH~ 186 (190)
T TIGR01166 107 RVREALTAVGASGLRERPTHCLSGGEKKRVAIAGAVAMRPDVLLLDEPTAGLDPAGREQMLAILRRLRAEGMTVVISTHD 186 (190)
T ss_pred HHHHHHHHcCchhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeec
Confidence 344455556776555554 55666555567777776666777777777677777778888777654445667666554
No 162
>PRK11064 wecC UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional
Probab=20.74 E-value=1.9e+02 Score=24.02 Aligned_cols=66 Identities=14% Similarity=0.222 Sum_probs=40.1
Q ss_pred Eeccc--CcchhhHHHHHHHHHhcCC-ceEEeeCC-CCC------CCCcchhhHHhhhcCcEEEEEEcCC-CCCchh
Q 039252 20 LSFRG--KDVRHNFISHLNAALCRKK-IVTFNDDK-LNR------GDEISPSLSSAIEGSKISIVIFSKG-YASSRW 85 (139)
Q Consensus 20 ISys~--~D~~~~fv~~L~~~L~~~G-i~vf~d~~-~~~------G~~i~~~i~~aI~~S~~~I~vlS~~-~~~S~w 85 (139)
++|.. .|.|++=+..|.+.|.++| ..|-.++- +.. +.....++.+++++++.+|+.-... |..-.|
T Consensus 328 lafK~~t~d~r~Sp~~~l~~~L~~~gg~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~ad~vvi~t~~~~~~~~~~ 404 (415)
T PRK11064 328 LAFKPNIDDLRESPAMEIAELIAQWHSGETLVVEPNIHQLPKKLDGLVTLVSLDEALATADVLVMLVDHSQFKAING 404 (415)
T ss_pred eEECCCCcchhhChHHHHHHHHHhcCCcEEEEECCCCCchhhhccCceeeCCHHHHHhCCCEEEECCCCHHhccCCH
Confidence 46643 3566777889999999985 88766554 322 1112246678888888666554333 443333
No 163
>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=20.68 E-value=2.8e+02 Score=18.76 Aligned_cols=30 Identities=17% Similarity=0.140 Sum_probs=18.9
Q ss_pred CCCCCcchh-hHHhhhcCcEEEEEEcCCCCC
Q 039252 53 NRGDEISPS-LSSAIEGSKISIVIFSKGYAS 82 (139)
Q Consensus 53 ~~G~~i~~~-i~~aI~~S~~~I~vlS~~~~~ 82 (139)
.||...... ....+..++.+|++++..-..
T Consensus 59 ~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~ 89 (165)
T cd01864 59 TAGQERFRTITQSYYRSANGAIIAYDITRRS 89 (165)
T ss_pred CCChHHHHHHHHHHhccCCEEEEEEECcCHH
Confidence 356432222 345567899999999886443
No 164
>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=20.66 E-value=1.4e+02 Score=19.64 Aligned_cols=31 Identities=13% Similarity=-0.076 Sum_probs=19.2
Q ss_pred ceeeEEEecccCcchhhHHHHHHHHHhcCCceEE
Q 039252 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTF 47 (139)
Q Consensus 14 ~~yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf 47 (139)
...=++||+++... -+....+.+.++|.++.
T Consensus 47 ~d~~I~iS~sG~t~---e~~~~~~~a~~~g~~vi 77 (126)
T cd05008 47 DTLVIAISQSGETA---DTLAALRLAKEKGAKTV 77 (126)
T ss_pred CcEEEEEeCCcCCH---HHHHHHHHHHHcCCeEE
Confidence 33445777777653 34456677777887754
No 165
>COG4868 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.62 E-value=1.9e+02 Score=24.06 Aligned_cols=62 Identities=21% Similarity=0.310 Sum_probs=41.0
Q ss_pred HHHHHHHHHhcCCceEEeeCCCCCC-----CCcchh----hHHhhhcCcEEEEEEcCCCCCc--hhHHHHHHHH
Q 039252 31 FISHLNAALCRKKIVTFNDDKLNRG-----DEISPS----LSSAIEGSKISIVIFSKGYASS--RWCLNELVKI 93 (139)
Q Consensus 31 fv~~L~~~L~~~Gi~vf~d~~~~~G-----~~i~~~----i~~aI~~S~~~I~vlS~~~~~S--~wc~~El~~a 93 (139)
-+...+..|+++|++++++.-+ +| +.|.+. ..+-|+.+|..|+|-.|.=-+. --|+..|..-
T Consensus 121 ~a~aF~~rLEr~Gikvy~H~~i-kGYPtD~~~IvS~EG~GkN~YieTtrnlvVVTAPGPGSGKLATClSq~Yhd 193 (493)
T COG4868 121 AADAFRTRLERNGIKVYLHYPI-KGYPTDVDHIVSDEGMGKNAYIETTRNLVVVTAPGPGSGKLATCLSQMYHD 193 (493)
T ss_pred hHHHHHHHHHhcCcceEEeccc-CCCCCchhheeCcccCCccchhhcccceEEEeCCCCCcchHHHHHHHHHHH
Confidence 5678899999999999998642 23 222221 1234788999999988875443 3466655443
No 166
>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=20.53 E-value=4.1e+02 Score=20.54 Aligned_cols=110 Identities=13% Similarity=0.018 Sum_probs=60.7
Q ss_pred EecccCcchhhHHHHHHHHHhcCCceEEe--eCC--CCCCCCcchhhHHhhhcCcEEEEEEcCCC-CCchhHHHHHHHHH
Q 039252 20 LSFRGKDVRHNFISHLNAALCRKKIVTFN--DDK--LNRGDEISPSLSSAIEGSKISIVIFSKGY-ASSRWCLNELVKIL 94 (139)
Q Consensus 20 ISys~~D~~~~fv~~L~~~L~~~Gi~vf~--d~~--~~~G~~i~~~i~~aI~~S~~~I~vlS~~~-~~S~wc~~El~~a~ 94 (139)
+.|.-.-. .+++..|.+.|.+.|+.+-. +.. +--|--+.-.+.. .+.++-++.+|=+. .-+.....+|..++
T Consensus 79 ~~y~~~g~-~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~--p~~~ipvV~vs~~~~~~~~~~~~~lG~al 155 (268)
T cd07371 79 LDYSINVD-VELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLMR--PGTDIPPVVISANNLYLSGEETEGEMDLA 155 (268)
T ss_pred eeecCCCC-HHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHhc--CCCCCCeEEEEecCcCCCHHHHHHHHHHH
Confidence 45543322 36999999999999998875 222 3445443322221 23455455555332 35777778999988
Q ss_pred HHH-hhcCCEEEEEEEecCCCcc-cc--------ccCchHHHHHHHHH
Q 039252 95 ESK-NKYGQIVVPVFYLVDPSDV-RN--------QTGTFGDSFSKLEE 132 (139)
Q Consensus 95 ~~~-~~~~~~iiPV~~~v~p~~v-~~--------~~~~~~~~f~~~~~ 132 (139)
.+. ++.+.+|.-|-=...-.++ ++ .....++.|++...
T Consensus 156 ~~~l~~~~~rv~iIgSG~lsH~l~~~~~~~~~~~~~~~~~~~fD~~~~ 203 (268)
T cd07371 156 GKATRDAGKRVAVLGSGGLSHSHFHEEIDPPKDHIESEEGDKWNRRML 203 (268)
T ss_pred HHHHHHcCCcEEEEEecCccccccCCCCCcccccccchhhHHHHHHHH
Confidence 643 4444555544322222222 11 12256778877664
No 167
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=20.52 E-value=3.9e+02 Score=20.28 Aligned_cols=74 Identities=16% Similarity=0.280 Sum_probs=40.8
Q ss_pred CCCC-CcchhhHHhhhcCcEEEEEEcCCCCCchhHHHHHHHHHHHHhhcCCEEEEEEEecCCCccccccCchHHHHHHHH
Q 039252 53 NRGD-EISPSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLE 131 (139)
Q Consensus 53 ~~G~-~i~~~i~~aI~~S~~~I~vlS~~~~~S~wc~~El~~a~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~f~~~~ 131 (139)
.||. .+......++..++.+|+|++..-........ .++.....+. |+++-+...|... ..+....++..
T Consensus 71 tPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~----~~~~~~~~~~---p~iivvNK~D~~~--~~~~~~~~~l~ 141 (268)
T cd04170 71 TPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEK----LWEFADEAGI---PRIIFINKMDRER--ADFDKTLAALQ 141 (268)
T ss_pred CcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHH----HHHHHHHcCC---CEEEEEECCccCC--CCHHHHHHHHH
Confidence 3564 34567788999999999999887654443332 2222222232 3333333444332 24666666666
Q ss_pred HHhc
Q 039252 132 ERFK 135 (139)
Q Consensus 132 ~~~~ 135 (139)
+.++
T Consensus 142 ~~~~ 145 (268)
T cd04170 142 EAFG 145 (268)
T ss_pred HHhC
Confidence 5554
No 168
>KOG4764 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.50 E-value=83 Score=19.65 Aligned_cols=17 Identities=29% Similarity=0.374 Sum_probs=14.7
Q ss_pred hhHHHHHHHHHhcCCce
Q 039252 29 HNFISHLNAALCRKKIV 45 (139)
Q Consensus 29 ~~fv~~L~~~L~~~Gi~ 45 (139)
..|-.+|++.|++.|.+
T Consensus 52 DDFS~QLkaELek~g~k 68 (70)
T KOG4764|consen 52 DDFSNQLKAELEKKGHK 68 (70)
T ss_pred hHHHHHHHHHHHhcccc
Confidence 46999999999999865
No 169
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=20.41 E-value=2.4e+02 Score=18.36 Aligned_cols=31 Identities=13% Similarity=0.258 Sum_probs=20.0
Q ss_pred eeEEEecccCcchhhHHHHHHHHHhcCCceEEeeC
Q 039252 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDD 50 (139)
Q Consensus 16 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~d~ 50 (139)
.+.++.++..| +.+.+.+....+|+.+.+|-
T Consensus 35 a~~~~~~~~~~----~~~~i~~~~~~~~~d~vid~ 65 (130)
T PF00107_consen 35 ADHVIDYSDDD----FVEQIRELTGGRGVDVVIDC 65 (130)
T ss_dssp ESEEEETTTSS----HHHHHHHHTTTSSEEEEEES
T ss_pred ccccccccccc----cccccccccccccceEEEEe
Confidence 45666665544 66666666666778777763
No 170
>COG0300 DltE Short-chain dehydrogenases of various substrate specificities [General function prediction only]
Probab=20.28 E-value=2.7e+02 Score=21.90 Aligned_cols=24 Identities=17% Similarity=0.181 Sum_probs=18.7
Q ss_pred hHHHHHHHHHhcCCceEEeeCCCCCCC
Q 039252 30 NFISHLNAALCRKKIVTFNDDKLNRGD 56 (139)
Q Consensus 30 ~fv~~L~~~L~~~Gi~vf~d~~~~~G~ 56 (139)
.|.+.|+.+|...|++|.. +.||.
T Consensus 165 ~fSeaL~~EL~~~gV~V~~---v~PG~ 188 (265)
T COG0300 165 SFSEALREELKGTGVKVTA---VCPGP 188 (265)
T ss_pred HHHHHHHHHhcCCCeEEEE---EecCc
Confidence 4667888888888999876 56775
No 171
>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=20.20 E-value=1.9e+02 Score=19.73 Aligned_cols=33 Identities=12% Similarity=0.081 Sum_probs=17.5
Q ss_pred eeEEEecccCcchhhHHHHHHHHHhcCCceEEe
Q 039252 16 YDVFLSFRGKDVRHNFISHLNAALCRKKIVTFN 48 (139)
Q Consensus 16 yDVFISys~~D~~~~fv~~L~~~L~~~Gi~vf~ 48 (139)
.-|.|+|-.......++..+.+.|...|++|+.
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 445565544333345556666666666666553
Done!