Query 041158
Match_columns 118
No_of_seqs 110 out of 1022
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 04:20:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041158.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041158hhsearch_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 1E-36 2.2E-41 215.8 9.7 104 10-117 23-127 (187)
2 PLN03210 Resistant to P. syrin 100.0 2.7E-33 5.8E-38 241.2 10.8 117 1-118 1-117 (1153)
3 smart00255 TIR Toll - interleu 99.9 7.8E-25 1.7E-29 147.8 9.2 103 13-116 1-105 (140)
4 PF01582 TIR: TIR domain; Int 99.9 2.8E-25 6.2E-30 151.4 2.7 100 16-115 1-105 (141)
5 PF13676 TIR_2: TIR domain; PD 99.9 1.8E-22 3.9E-27 130.3 2.9 87 16-108 1-87 (102)
6 KOG3678 SARM protein (with ste 99.5 5.9E-14 1.3E-18 111.7 7.7 92 10-107 609-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 99.0 5.3E-10 1.2E-14 75.3 5.2 90 14-108 1-108 (130)
8 PF08357 SEFIR: SEFIR domain; 98.5 1.2E-06 2.6E-11 59.8 8.7 64 15-78 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.7 0.00015 3.2E-09 48.9 6.2 75 16-93 2-90 (125)
10 COG4916 Uncharacterized protei 95.9 0.0095 2.1E-07 44.9 3.4 95 8-107 172-273 (329)
11 PF05014 Nuc_deoxyrib_tr: Nucl 95.7 0.16 3.6E-06 32.9 8.4 77 27-108 13-98 (113)
12 PF13271 DUF4062: Domain of un 95.6 0.05 1.1E-06 33.7 5.3 64 16-80 2-66 (83)
13 COG4271 Predicted nucleotide-b 95.0 0.22 4.8E-06 36.3 7.9 83 6-94 77-175 (233)
14 PF14359 DUF4406: Domain of un 92.1 1.4 3.1E-05 27.9 7.1 63 29-93 17-84 (92)
15 cd00860 ThrRS_anticodon ThrRS 90.5 1.5 3.3E-05 26.5 5.9 61 14-78 2-62 (91)
16 cd00738 HGTP_anticodon HGTP an 88.3 2 4.4E-05 26.0 5.3 62 14-78 2-65 (94)
17 PF03129 HGTP_anticodon: Antic 86.6 1.5 3.3E-05 26.9 4.0 48 27-77 15-62 (94)
18 cd00858 GlyRS_anticodon GlyRS 86.0 3.7 7.9E-05 26.8 5.8 67 9-79 22-89 (121)
19 PF14258 DUF4350: Domain of un 85.2 5.6 0.00012 23.3 6.4 61 31-103 8-68 (70)
20 COG4916 Uncharacterized protei 79.0 3.8 8.2E-05 31.2 4.1 98 10-110 3-106 (329)
21 COG0400 Predicted esterase [Ge 78.5 6.7 0.00015 28.5 5.3 58 7-65 140-199 (207)
22 cd00861 ProRS_anticodon_short 77.9 6.4 0.00014 23.9 4.4 50 27-79 17-66 (94)
23 cd07363 45_DOPA_Dioxygenase Th 76.5 13 0.00029 27.5 6.5 68 27-96 80-149 (253)
24 TIGR00418 thrS threonyl-tRNA s 72.2 13 0.00028 30.6 6.0 64 11-78 468-531 (563)
25 PF09837 DUF2064: Uncharacteri 71.0 27 0.00058 23.0 8.2 86 9-104 6-94 (122)
26 cd02426 Pol_gamma_b_Cterm C-te 70.3 2.5 5.5E-05 28.2 1.2 66 10-79 24-95 (128)
27 PRK14938 Ser-tRNA(Thr) hydrola 69.4 19 0.00042 28.8 6.1 65 9-77 270-334 (387)
28 COG1658 Small primase-like pro 68.4 9.4 0.0002 25.8 3.7 57 13-70 29-85 (127)
29 cd00859 HisRS_anticodon HisRS 68.2 19 0.00041 21.0 4.8 58 15-76 3-60 (91)
30 COG3613 Nucleoside 2-deoxyribo 66.2 39 0.00084 24.1 6.5 76 28-107 20-106 (172)
31 PRK12325 prolyl-tRNA synthetas 65.0 11 0.00025 30.2 4.2 65 12-80 344-411 (439)
32 PF09419 PGP_phosphatase: Mito 64.4 27 0.00058 24.6 5.5 47 36-82 35-91 (168)
33 PRK09194 prolyl-tRNA synthetas 63.0 13 0.00027 30.9 4.2 68 8-79 463-533 (565)
34 KOG1136 Predicted cleavage and 62.6 14 0.0003 29.5 4.0 55 50-107 181-241 (501)
35 COG1168 MalY Bifunctional PLP- 62.5 28 0.00061 27.8 5.8 46 58-103 148-195 (388)
36 PF10087 DUF2325: Uncharacteri 62.2 36 0.00077 21.2 6.1 58 29-87 11-69 (97)
37 cd03364 TOPRIM_DnaG_primases T 61.6 9.1 0.0002 22.9 2.4 25 41-66 45-69 (79)
38 cd02042 ParA ParA and ParB of 59.2 39 0.00085 20.7 5.7 65 16-80 3-75 (104)
39 cd01424 MGS_CPS_II Methylglyox 59.1 43 0.00093 21.2 5.8 61 15-77 2-76 (110)
40 cd08584 PI-PLCc_GDPD_SF_unchar 57.9 35 0.00077 24.6 5.3 37 44-82 127-163 (192)
41 PRK14799 thrS threonyl-tRNA sy 57.8 37 0.0008 28.3 6.0 61 13-77 438-498 (545)
42 PF03720 UDPG_MGDP_dh_C: UDP-g 57.8 14 0.00031 23.4 3.0 58 23-80 12-80 (106)
43 cd07373 2A5CPDO_A The alpha su 57.7 78 0.0017 23.7 8.1 76 27-105 90-172 (271)
44 PF01990 ATP-synt_F: ATP synth 57.6 39 0.00084 21.0 4.9 54 33-90 9-62 (95)
45 PRK00413 thrS threonyl-tRNA sy 56.6 30 0.00065 28.9 5.4 62 13-78 539-600 (638)
46 PF01976 DUF116: Protein of un 56.0 50 0.0011 22.9 5.6 64 30-108 75-139 (158)
47 TIGR00334 5S_RNA_mat_M5 ribonu 55.3 18 0.00039 25.8 3.3 44 28-72 36-79 (174)
48 PRK03991 threonyl-tRNA synthet 54.8 41 0.0009 28.4 5.9 62 12-77 498-559 (613)
49 cd01423 MGS_CPS_I_III Methylgl 54.6 16 0.00034 23.5 2.8 60 16-77 3-80 (116)
50 cd00532 MGS-like MGS-like doma 54.4 45 0.00098 21.3 5.0 60 16-77 2-77 (112)
51 PF05636 HIGH_NTase1: HIGH Nuc 54.4 15 0.00033 29.2 3.2 47 62-113 25-80 (388)
52 cd00862 ProRS_anticodon_zinc P 53.6 18 0.00039 25.9 3.2 51 9-59 6-63 (202)
53 PRK12305 thrS threonyl-tRNA sy 53.2 47 0.001 27.4 6.0 62 12-77 475-536 (575)
54 COG0710 AroD 3-dehydroquinate 52.5 69 0.0015 23.8 6.2 67 28-99 79-146 (231)
55 PF03358 FMN_red: NADPH-depend 51.4 61 0.0013 21.3 5.4 79 27-108 17-115 (152)
56 PRK08661 prolyl-tRNA synthetas 51.2 39 0.00084 27.5 5.1 49 9-57 283-338 (477)
57 CHL00201 syh histidine-tRNA sy 50.1 42 0.0009 26.9 5.1 61 12-76 324-384 (430)
58 PRK12444 threonyl-tRNA synthet 49.8 54 0.0012 27.6 5.9 64 12-78 540-603 (639)
59 COG1058 CinA Predicted nucleot 49.4 26 0.00056 26.4 3.5 42 29-72 22-66 (255)
60 cd06371 PBP1_sensory_GC_DEF_li 49.3 1.2E+02 0.0026 23.4 7.7 53 28-80 147-202 (382)
61 COG3845 ABC-type uncharacteriz 49.0 1.2E+02 0.0026 25.2 7.5 80 30-109 118-200 (501)
62 PRK10628 LigB family dioxygena 48.0 67 0.0015 24.0 5.6 78 18-99 62-141 (246)
63 cd06340 PBP1_ABC_ligand_bindin 47.8 93 0.002 23.4 6.5 60 15-75 146-206 (347)
64 PRK02228 V-type ATP synthase s 46.8 68 0.0015 20.4 4.8 43 36-80 14-56 (100)
65 KOG2792 Putative cytochrome C 46.7 20 0.00043 27.3 2.6 32 81-112 152-187 (280)
66 PF13662 Toprim_4: Toprim doma 46.4 16 0.00034 21.9 1.7 24 40-64 47-70 (81)
67 cd02951 SoxW SoxW family; SoxW 45.2 79 0.0017 20.1 5.6 31 57-89 3-34 (125)
68 cd06342 PBP1_ABC_LIVBP_like Ty 45.0 1.2E+02 0.0027 22.2 7.2 51 16-67 138-189 (334)
69 PF09152 DUF1937: Domain of un 44.8 62 0.0013 21.5 4.4 62 33-94 32-107 (116)
70 cd03411 Ferrochelatase_N Ferro 44.6 99 0.0022 21.1 6.5 64 28-93 72-142 (159)
71 PF02310 B12-binding: B12 bind 42.5 85 0.0018 19.7 6.2 60 30-97 17-77 (121)
72 cd06352 PBP1_NPR_GC_like Ligan 42.4 61 0.0013 24.7 4.8 41 27-68 152-195 (389)
73 cd06366 PBP1_GABAb_receptor Li 42.3 1.2E+02 0.0025 22.8 6.3 58 16-74 138-200 (350)
74 PLN02530 histidine-tRNA ligase 42.1 78 0.0017 25.8 5.6 61 12-76 400-460 (487)
75 cd06335 PBP1_ABC_ligand_bindin 41.6 1.3E+02 0.0028 22.6 6.5 19 27-45 152-170 (347)
76 PLN02908 threonyl-tRNA synthet 41.5 78 0.0017 27.1 5.6 61 13-77 589-649 (686)
77 PRK08155 acetolactate synthase 41.5 90 0.002 25.7 5.9 49 1-67 1-49 (564)
78 PF13289 SIR2_2: SIR2-like dom 41.4 78 0.0017 20.3 4.7 9 30-38 77-85 (143)
79 PLN03194 putative disease resi 40.9 1.4E+02 0.003 21.6 7.0 64 39-106 24-88 (187)
80 PF08477 Miro: Miro-like prote 40.9 51 0.0011 20.4 3.6 46 61-107 68-113 (119)
81 COG0683 LivK ABC-type branched 40.5 1.7E+02 0.0036 22.5 7.7 17 27-43 162-178 (366)
82 TIGR01101 V_ATP_synt_F vacuola 39.4 59 0.0013 21.5 3.7 46 54-109 46-91 (115)
83 cd00138 PLDc Phospholipase D. 39.4 1.2E+02 0.0025 20.3 6.1 38 28-65 21-64 (176)
84 PF12913 SH3_6: SH3 domain of 39.2 17 0.00037 20.8 1.0 15 16-30 29-43 (54)
85 PF12146 Hydrolase_4: Putative 38.3 56 0.0012 19.7 3.3 36 12-48 15-50 (79)
86 PF00350 Dynamin_N: Dynamin fa 38.2 1.1E+02 0.0023 20.2 5.1 46 58-106 120-165 (168)
87 TIGR00177 molyb_syn molybdenum 37.9 50 0.0011 22.1 3.3 46 28-73 27-73 (144)
88 PF02230 Abhydrolase_2: Phosph 37.8 1E+02 0.0022 21.7 5.1 50 13-63 155-207 (216)
89 cd06379 PBP1_iGluR_NMDA_NR1 N- 37.6 1.5E+02 0.0032 22.7 6.3 9 58-66 172-180 (377)
90 cd06370 PBP1_Speract_GC_like L 37.3 67 0.0015 25.0 4.4 26 28-53 151-176 (404)
91 PF00762 Ferrochelatase: Ferro 36.8 1E+02 0.0022 23.7 5.2 67 28-94 73-144 (316)
92 cd01857 HSR1_MMR1 HSR1/MMR1. 36.2 1.2E+02 0.0027 19.7 5.7 47 32-79 4-54 (141)
93 cd04142 RRP22 RRP22 subfamily. 36.1 58 0.0013 22.9 3.6 52 60-114 74-128 (198)
94 TIGR00389 glyS_dimeric glycyl- 35.7 1.6E+02 0.0035 24.8 6.5 64 12-79 456-520 (551)
95 COG0434 SgcQ Predicted TIM-bar 35.7 91 0.002 23.6 4.5 75 33-114 138-219 (263)
96 cd04141 Rit_Rin_Ric Rit/Rin/Ri 35.4 1.4E+02 0.003 20.1 5.5 53 60-114 67-119 (172)
97 TIGR00409 proS_fam_II prolyl-t 35.4 23 0.00051 29.6 1.6 65 12-80 472-539 (568)
98 PF14528 LAGLIDADG_3: LAGLIDAD 35.3 58 0.0013 19.0 3.0 31 15-47 21-51 (77)
99 cd06350 PBP1_GPCR_family_C_lik 35.1 1.2E+02 0.0026 22.6 5.3 41 27-68 174-217 (348)
100 PF03481 SUA5: Putative GTP-bi 35.1 92 0.002 20.3 4.2 53 14-67 68-123 (125)
101 PF06856 DUF1251: Protein of u 35.0 40 0.00086 22.6 2.3 62 7-83 54-119 (120)
102 PRK07933 thymidylate kinase; V 34.8 1.2E+02 0.0025 21.8 5.0 30 17-46 2-33 (213)
103 COG0399 WecE Predicted pyridox 34.6 2.4E+02 0.0051 22.5 7.3 68 27-99 82-149 (374)
104 TIGR00408 proS_fam_I prolyl-tR 34.6 95 0.0021 25.3 4.9 65 9-77 278-348 (472)
105 PF02900 LigB: Catalytic LigB 33.8 1.9E+02 0.0042 21.2 6.2 68 27-96 96-169 (272)
106 PF03618 Kinase-PPPase: Kinase 33.8 1.6E+02 0.0035 22.2 5.7 29 76-104 213-241 (255)
107 PLN02449 ferrochelatase 33.7 2.1E+02 0.0046 23.7 6.7 63 28-92 164-233 (485)
108 PRK15057 UDP-glucose 6-dehydro 33.6 93 0.002 24.6 4.6 55 18-72 304-365 (388)
109 cd06328 PBP1_SBP_like_2 Peripl 33.4 1.7E+02 0.0037 21.9 6.0 53 15-68 138-191 (333)
110 PF01269 Fibrillarin: Fibrilla 33.3 40 0.00086 25.1 2.3 25 80-108 106-130 (229)
111 PRK08350 hypothetical protein; 33.2 31 0.00067 27.2 1.9 34 10-43 278-311 (341)
112 smart00175 RAB Rab subfamily o 33.1 1.4E+02 0.003 19.3 4.9 34 56-92 62-95 (164)
113 PRK11263 cardiolipin synthase 33.1 81 0.0018 25.3 4.3 14 28-41 18-31 (411)
114 PF01212 Beta_elim_lyase: Beta 33.1 2.2E+02 0.0047 21.6 6.5 53 53-108 104-164 (290)
115 cd06547 GH85_ENGase Endo-beta- 33.1 97 0.0021 24.2 4.6 62 16-79 176-245 (339)
116 cd06386 PBP1_NPR_C_like Ligand 33.0 2.3E+02 0.005 21.9 6.9 17 30-46 157-173 (387)
117 cd07371 2A5CPDO_AB The alpha a 32.9 2.1E+02 0.0045 21.3 8.3 84 18-104 79-168 (268)
118 PF12076 Wax2_C: WAX2 C-termin 32.8 23 0.00049 25.0 1.0 74 28-106 9-83 (164)
119 smart00646 Ami_3 Ami_3. 32.6 61 0.0013 20.4 2.9 48 10-66 5-55 (113)
120 PRK12435 ferrochelatase; Provi 32.5 2.3E+02 0.005 21.8 6.7 52 28-81 61-119 (311)
121 PF14386 DUF4417: Domain of un 32.3 59 0.0013 23.5 3.1 72 39-113 44-124 (200)
122 PF05985 EutC: Ethanolamine am 32.0 52 0.0011 24.6 2.8 46 27-77 123-173 (237)
123 PF06309 Torsin: Torsin; Inte 31.9 1.3E+02 0.0029 20.2 4.5 59 16-74 54-127 (127)
124 PLN02866 phospholipase D 31.8 1.3E+02 0.0028 27.4 5.6 59 50-108 339-405 (1068)
125 PF03709 OKR_DC_1_N: Orn/Lys/A 31.8 1.4E+02 0.0031 19.1 4.7 42 29-77 5-47 (115)
126 cd06349 PBP1_ABC_ligand_bindin 31.7 1.4E+02 0.0031 22.2 5.3 32 15-46 137-168 (340)
127 COG2130 Putative NADP-dependen 31.6 1.3E+02 0.0027 23.8 4.9 45 13-65 196-240 (340)
128 COG0124 HisS Histidyl-tRNA syn 31.3 2E+02 0.0044 23.4 6.2 63 11-77 333-395 (429)
129 PF09413 DUF2007: Domain of un 31.2 43 0.00094 19.1 1.9 21 29-49 11-31 (67)
130 cd06346 PBP1_ABC_ligand_bindin 31.2 1.8E+02 0.0038 21.5 5.7 26 28-53 152-177 (312)
131 PF02337 Gag_p10: Retroviral G 31.1 38 0.00082 21.5 1.7 18 28-45 9-26 (90)
132 PF00994 MoCF_biosynth: Probab 30.9 84 0.0018 20.8 3.5 46 28-73 17-63 (144)
133 KOG3573 Caspase, apoptotic cys 30.8 34 0.00074 25.9 1.7 27 17-43 231-257 (300)
134 cd04128 Spg1 Spg1p. Spg1p (se 30.7 1.8E+02 0.0038 19.9 5.3 16 62-77 68-83 (182)
135 cd00154 Rab Rab family. Rab G 30.5 1.4E+02 0.0031 18.7 5.4 25 56-80 62-86 (159)
136 COG1736 DPH2 Diphthamide synth 30.3 1.4E+02 0.0031 23.6 5.1 55 58-115 229-284 (347)
137 cd06367 PBP1_iGluR_NMDA N-term 30.3 2.2E+02 0.0048 21.5 6.2 17 27-43 150-166 (362)
138 PHA02558 uvsW UvsW helicase; P 30.1 94 0.002 25.3 4.2 48 9-56 43-92 (501)
139 cd05014 SIS_Kpsf KpsF-like pro 30.0 1.5E+02 0.0032 18.7 6.6 70 27-106 12-81 (128)
140 TIGR03026 NDP-sugDHase nucleot 29.9 1.2E+02 0.0026 23.9 4.7 58 18-75 321-385 (411)
141 PF00155 Aminotran_1_2: Aminot 29.9 2.2E+02 0.0048 21.3 6.1 47 57-103 132-185 (363)
142 cd01868 Rab11_like Rab11-like. 29.6 1.6E+02 0.0035 19.1 5.1 52 60-114 69-120 (165)
143 KOG1000 Chromatin remodeling p 29.6 1E+02 0.0023 26.0 4.3 60 40-107 213-272 (689)
144 cd06361 PBP1_GPC6A_like Ligand 29.4 1.9E+02 0.0041 22.7 5.8 17 28-44 187-203 (403)
145 cd01864 Rab19 Rab19 subfamily. 29.4 1.6E+02 0.0035 19.3 4.7 21 60-80 69-89 (165)
146 KOG3974 Predicted sugar kinase 29.2 1.3E+02 0.0029 23.1 4.6 33 67-99 100-132 (306)
147 cd00419 Ferrochelatase_C Ferro 28.6 1.5E+02 0.0032 19.8 4.4 65 28-92 45-116 (135)
148 PRK13883 conjugal transfer pro 28.6 67 0.0015 22.3 2.7 25 24-48 60-84 (151)
149 cd04112 Rab26 Rab26 subfamily. 28.6 1.6E+02 0.0035 20.1 4.8 19 60-78 67-85 (191)
150 cd01860 Rab5_related Rab5-rela 28.5 1.7E+02 0.0036 18.9 4.9 16 62-77 69-84 (163)
151 COG2342 Predicted extracellula 28.5 1.3E+02 0.0028 23.3 4.4 44 58-107 33-79 (300)
152 KOG0259 Tyrosine aminotransfer 28.4 3.2E+02 0.007 22.3 6.7 54 50-103 179-236 (447)
153 cd00758 MoCF_BD MoCF_BD: molyb 28.3 96 0.0021 20.3 3.4 45 28-72 19-64 (133)
154 cd04140 ARHI_like ARHI subfami 28.3 1.8E+02 0.0039 19.1 5.0 20 61-80 67-86 (165)
155 PF02878 PGM_PMM_I: Phosphoglu 28.1 83 0.0018 20.7 3.1 58 12-74 39-98 (137)
156 TIGR02298 HpaD_Fe 3,4-dihydrox 28.0 2.5E+02 0.0054 21.2 6.0 76 27-104 96-177 (282)
157 PRK02261 methylaspartate mutas 27.9 1.9E+02 0.0041 19.3 6.5 75 28-110 17-93 (137)
158 cd06502 TA_like Low-specificit 27.9 2E+02 0.0042 21.3 5.4 43 57-99 110-159 (338)
159 PF04244 DPRP: Deoxyribodipyri 27.9 1.9E+02 0.0041 21.2 5.2 53 28-82 78-132 (224)
160 PRK13728 conjugal transfer pro 27.6 1.4E+02 0.0031 21.2 4.3 38 71-110 73-110 (181)
161 KOG4132 Uroporphyrinogen III s 27.5 1.1E+02 0.0023 23.1 3.7 51 30-81 145-200 (260)
162 COG4567 Response regulator con 27.4 47 0.001 23.5 1.8 20 27-46 19-38 (182)
163 COG0529 CysC Adenylylsulfate k 27.4 32 0.00069 24.9 1.0 33 20-53 31-65 (197)
164 cd04795 SIS SIS domain. SIS (S 27.2 1.3E+02 0.0029 17.3 7.1 71 27-106 10-81 (87)
165 COG0125 Tmk Thymidylate kinase 26.9 1.6E+02 0.0035 21.3 4.6 33 16-48 4-38 (208)
166 COG4635 HemG Flavodoxin [Energ 26.4 80 0.0017 22.4 2.8 31 16-46 3-34 (175)
167 PF01094 ANF_receptor: Recepto 26.3 93 0.002 22.8 3.4 17 28-44 136-152 (348)
168 cd06358 PBP1_NHase Type I peri 26.1 2.8E+02 0.006 20.6 6.3 54 15-68 134-187 (333)
169 cd04122 Rab14 Rab14 subfamily. 26.0 2E+02 0.0043 18.9 5.2 25 56-80 64-88 (166)
170 cd04886 ACT_ThrD-II-like C-ter 25.9 1.2E+02 0.0027 16.5 3.7 32 12-45 41-72 (73)
171 cd05008 SIS_GlmS_GlmD_1 SIS (S 25.7 74 0.0016 20.1 2.5 31 13-46 46-78 (126)
172 PF03437 BtpA: BtpA family; I 25.6 1.9E+02 0.0041 21.8 4.9 76 33-115 133-215 (254)
173 cd01867 Rab8_Rab10_Rab13_like 25.5 2E+02 0.0044 18.9 5.7 23 56-78 65-87 (167)
174 cd04885 ACT_ThrD-I Tandem C-te 25.4 1E+02 0.0022 17.6 2.8 30 13-44 37-66 (68)
175 PRK13762 tRNA-modifying enzyme 25.1 2.6E+02 0.0056 21.5 5.7 36 14-49 131-166 (322)
176 COG0512 PabA Anthranilate/para 24.7 1.2E+02 0.0027 21.9 3.6 45 26-79 10-56 (191)
177 cd07367 CarBb CarBb is the B s 24.5 3E+02 0.0066 20.5 6.6 75 27-103 90-174 (268)
178 PRK01424 S-adenosylmethionine: 24.5 1.3E+02 0.0027 24.1 3.8 18 27-44 205-222 (366)
179 PF00585 Thr_dehydrat_C: C-ter 24.5 1.3E+02 0.0029 18.6 3.4 31 13-45 49-79 (91)
180 PLN02187 rooty/superroot1 24.5 2.1E+02 0.0046 23.0 5.3 42 58-99 195-237 (462)
181 PF00647 EF1G: Elongation fact 24.3 32 0.00069 22.5 0.5 28 20-47 23-50 (107)
182 smart00052 EAL Putative diguan 24.3 2.5E+02 0.0054 19.5 6.9 44 32-80 137-180 (241)
183 KOG0257 Kynurenine aminotransf 24.2 2E+02 0.0044 23.4 5.0 42 58-99 163-205 (420)
184 PRK05465 ethanolamine ammonia- 24.1 1.1E+02 0.0024 23.2 3.4 46 27-77 130-180 (260)
185 cd06327 PBP1_SBP_like_1 Peripl 23.8 3.1E+02 0.0067 20.3 6.1 34 28-61 150-184 (334)
186 cd01865 Rab3 Rab3 subfamily. 23.8 1.9E+02 0.0041 19.0 4.3 17 61-77 68-84 (165)
187 cd01885 EF2 EF2 (for archaea a 23.7 2.9E+02 0.0063 20.0 5.6 27 52-78 81-108 (222)
188 cd04101 RabL4 RabL4 (Rab-like4 23.7 2.1E+02 0.0046 18.5 4.9 18 60-77 69-86 (164)
189 cd06365 PBP1_Pheromone_recepto 23.6 2.2E+02 0.0048 22.8 5.3 26 27-52 186-211 (469)
190 cd04117 Rab15 Rab15 subfamily. 23.6 2.2E+02 0.0048 18.7 5.6 21 59-79 65-85 (161)
191 PF14792 DNA_pol_B_palm: DNA p 23.6 97 0.0021 20.0 2.7 30 13-42 42-75 (112)
192 PF07283 TrbH: Conjugal transf 23.3 1.3E+02 0.0028 20.1 3.2 22 27-48 35-56 (121)
193 PRK10569 NAD(P)H-dependent FMN 23.3 2.7E+02 0.0059 19.6 5.4 78 28-108 18-108 (191)
194 KOG0395 Ras-related GTPase [Ge 23.3 2.2E+02 0.0047 20.2 4.7 60 55-116 63-122 (196)
195 PF03446 NAD_binding_2: NAD bi 23.3 72 0.0016 21.6 2.1 49 29-77 12-68 (163)
196 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 23.2 2.2E+02 0.0048 18.5 5.2 28 52-79 59-87 (166)
197 KOG2534 DNA polymerase IV (fam 23.2 2.6E+02 0.0056 22.2 5.2 65 12-76 188-255 (353)
198 COG3340 PepE Peptidase E [Amin 23.1 2.7E+02 0.0059 20.7 5.1 69 15-87 35-104 (224)
199 smart00852 MoCF_biosynth Proba 23.1 1.2E+02 0.0026 19.8 3.1 42 28-69 18-60 (135)
200 PF13401 AAA_22: AAA domain; P 22.9 1.5E+02 0.0033 18.5 3.6 53 17-75 42-94 (131)
201 COG1763 MobB Molybdopterin-gua 22.9 85 0.0018 21.9 2.4 29 17-46 7-35 (161)
202 cd03146 GAT1_Peptidase_E Type 22.9 1.7E+02 0.0037 20.9 4.1 53 14-72 33-86 (212)
203 cd05710 SIS_1 A subgroup of th 22.8 93 0.002 19.9 2.5 31 13-46 47-79 (120)
204 TIGR00441 gmhA phosphoheptose 22.8 89 0.0019 21.1 2.5 65 12-91 78-144 (154)
205 PRK03767 NAD(P)H:quinone oxido 22.8 2.8E+02 0.006 19.4 5.7 62 27-93 16-93 (200)
206 PRK08306 dipicolinate synthase 22.7 1.1E+02 0.0025 23.1 3.3 52 22-76 9-65 (296)
207 PRK14491 putative bifunctional 22.7 86 0.0019 26.5 2.8 29 17-46 15-43 (597)
208 PRK01395 V-type ATP synthase s 22.6 2.2E+02 0.0047 18.2 4.2 41 36-80 17-57 (104)
209 PF00319 SRF-TF: SRF-type tran 22.6 70 0.0015 17.9 1.6 16 62-77 28-43 (51)
210 COG2077 Tpx Peroxiredoxin [Pos 22.5 65 0.0014 22.6 1.7 22 67-88 75-98 (158)
211 PRK04173 glycyl-tRNA synthetas 22.5 3.3E+02 0.0072 22.1 6.1 64 10-78 360-424 (456)
212 cd06269 PBP1_glutamate_recepto 22.4 2.8E+02 0.0061 19.4 7.7 13 31-43 158-170 (298)
213 PF00563 EAL: EAL domain; Int 22.2 2.7E+02 0.006 19.2 5.9 62 37-103 143-207 (236)
214 PF04748 Polysacc_deac_2: Dive 22.1 1.3E+02 0.0029 21.7 3.4 58 43-105 148-208 (213)
215 COG2984 ABC-type uncharacteriz 22.1 3.9E+02 0.0085 21.0 6.1 58 22-80 169-226 (322)
216 PF07454 SpoIIP: Stage II spor 22.1 1.7E+02 0.0038 22.1 4.1 40 10-49 70-132 (268)
217 PF05818 TraT: Enterobacterial 21.9 1.7E+02 0.0036 21.6 3.9 36 10-45 18-54 (215)
218 cd01866 Rab2 Rab2 subfamily. 21.9 2.5E+02 0.0053 18.5 5.1 19 60-78 70-88 (168)
219 TIGR00442 hisS histidyl-tRNA s 21.8 2.6E+02 0.0057 21.7 5.3 61 12-76 321-381 (397)
220 PLN02837 threonine-tRNA ligase 21.8 3E+02 0.0065 23.3 5.8 62 12-78 515-576 (614)
221 PRK13355 bifunctional HTH-doma 21.7 2.6E+02 0.0056 22.7 5.4 42 58-99 272-314 (517)
222 cd04882 ACT_Bt0572_2 C-termina 21.7 61 0.0013 17.7 1.3 16 30-45 50-65 (65)
223 PF13155 Toprim_2: Toprim-like 21.7 96 0.0021 18.7 2.3 39 29-68 34-75 (96)
224 PF00009 GTP_EFTU: Elongation 21.6 2.7E+02 0.0059 18.9 5.3 30 51-80 77-107 (188)
225 cd02742 GH20_hexosaminidase Be 21.3 1.4E+02 0.003 22.7 3.5 29 78-106 64-92 (303)
226 PF00728 Glyco_hydro_20: Glyco 21.2 1.3E+02 0.0028 22.8 3.4 25 82-106 69-93 (351)
227 cd04106 Rab23_lke Rab23-like s 21.1 2.4E+02 0.0052 18.1 4.6 22 56-77 64-85 (162)
228 TIGR00113 queA S-adenosylmethi 21.0 1.5E+02 0.0033 23.4 3.7 18 27-44 184-201 (344)
229 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 21.0 2.4E+02 0.0052 19.4 4.5 49 63-115 73-122 (182)
230 cd00032 CASc Caspase, interleu 21.0 2E+02 0.0043 21.0 4.2 62 30-92 34-107 (243)
231 cd06565 GH20_GcnA-like Glycosy 20.9 1.2E+02 0.0026 23.0 3.1 27 80-106 54-80 (301)
232 cd00881 GTP_translation_factor 20.9 2.6E+02 0.0056 18.4 5.1 35 51-85 69-104 (189)
233 PF12965 DUF3854: Domain of un 20.9 2.6E+02 0.0056 18.6 4.4 16 31-46 92-107 (130)
234 PTZ00099 rab6; Provisional 20.9 2.4E+02 0.0053 19.3 4.5 19 60-78 46-64 (176)
235 cd00885 cinA Competence-damage 20.8 1.6E+02 0.0035 20.4 3.5 44 28-71 19-63 (170)
236 TIGR02836 spore_IV_A stage IV 20.8 3.4E+02 0.0075 22.5 5.7 66 43-111 120-192 (492)
237 KOG1954 Endocytosis/signaling 20.7 3.4E+02 0.0075 22.3 5.6 54 50-106 165-218 (532)
238 PTZ00187 succinyl-CoA syntheta 20.7 2.4E+02 0.0053 21.9 4.7 32 51-82 96-127 (317)
239 PRK11064 wecC UDP-N-acetyl-D-m 20.6 1.8E+02 0.0038 23.2 4.1 60 18-77 328-397 (415)
240 PRK12420 histidyl-tRNA synthet 20.6 3.7E+02 0.008 21.3 5.9 59 12-76 337-396 (423)
241 PRK09004 FMN-binding protein M 20.6 2.2E+02 0.0048 19.0 4.1 20 27-46 16-35 (146)
242 PF11495 Regulator_TrmB: Archa 20.6 3.4E+02 0.0073 19.6 6.0 52 52-108 7-58 (233)
243 cd06568 GH20_SpHex_like A subg 20.5 1.2E+02 0.0026 23.5 3.1 27 80-106 69-95 (329)
244 cd04125 RabA_like RabA-like su 20.5 2.8E+02 0.0061 18.7 5.0 20 59-78 65-84 (188)
245 PLN02734 glycyl-tRNA synthetas 20.5 99 0.0021 26.7 2.7 43 13-56 572-615 (684)
246 PRK12299 obgE GTPase CgtA; Rev 20.4 3.4E+02 0.0073 21.0 5.5 24 56-79 226-249 (335)
247 PRK13793 nicotinamide-nucleoti 20.3 3.1E+02 0.0068 19.8 5.0 20 67-86 70-89 (196)
248 PLN02231 alanine transaminase 20.3 3.6E+02 0.0078 22.3 5.9 44 58-101 256-306 (534)
249 PRK06348 aspartate aminotransf 20.2 3E+02 0.0065 21.1 5.3 42 58-99 153-195 (384)
250 PRK00414 gmhA phosphoheptose i 20.2 1.1E+02 0.0025 21.5 2.7 53 12-77 110-166 (192)
251 PRK13364 protocatechuate 4,5-d 20.2 3.9E+02 0.0085 20.2 6.6 66 27-95 98-172 (278)
252 TIGR00640 acid_CoA_mut_C methy 20.1 2.8E+02 0.006 18.4 8.7 86 16-108 5-90 (132)
253 PF00258 Flavodoxin_1: Flavodo 20.1 1.6E+02 0.0035 19.0 3.3 44 27-75 11-54 (143)
254 COG0276 HemH Protoheme ferro-l 20.1 4.3E+02 0.0094 20.6 7.3 66 41-108 90-161 (320)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1e-36 Score=215.77 Aligned_cols=104 Identities=36% Similarity=0.695 Sum_probs=98.6
Q ss_pred CCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHH
Q 041158 10 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDEL 88 (118)
Q Consensus 10 ~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El 88 (118)
..+.|||||||++.|+++.|+.+|+.+|+++|+++|+|.. +++|+.+.+.|.+||++|+++|+|+||+|++|.||++||
T Consensus 23 ~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL 102 (187)
T PLN03194 23 SAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHEL 102 (187)
T ss_pred CCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHH
Confidence 3457999999999999999999999999999999999997 999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhCCCEEEEEEeecCCCCcccC
Q 041158 89 LKILECKHVYGQIVIPVFCRVDPSHVRWQ 117 (118)
Q Consensus 89 ~~~~~~~~~~~~~iiPI~~~v~p~~v~~q 117 (118)
..++++. ..||||||+++|+||++|
T Consensus 103 ~~I~e~~----~~ViPIFY~VdPsdVr~q 127 (187)
T PLN03194 103 ALIMESK----KRVIPIFCDVKPSQLRVV 127 (187)
T ss_pred HHHHHcC----CEEEEEEecCCHHHhhcc
Confidence 9999753 489999999999999997
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=2.7e-33 Score=241.23 Aligned_cols=117 Identities=48% Similarity=0.772 Sum_probs=110.4
Q ss_pred CCCCCCCCCCCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 1 MASSSSSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 1 ~~~~~~~~~~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
|++||| .++.+.|||||||+++|+++.|+.||+.+|.++||.+|.|++++.|+.+..++.+||++|++.|+|+|++|+.
T Consensus 1 ~~~~~~-~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~ 79 (1153)
T PLN03210 1 MASSSS-SSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYAS 79 (1153)
T ss_pred CCCCCC-CCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCccc
Confidence 566554 4467899999999999999999999999999999999998889999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHhhhhCCCEEEEEEeecCCCCcccCC
Q 041158 81 SGWCLDELLKILECKHVYGQIVIPVFCRVDPSHVRWQT 118 (118)
Q Consensus 81 S~wc~~El~~~~~~~~~~~~~iiPI~~~v~p~~v~~q~ 118 (118)
|.||++||.++++|.++.+++||||||+|+|+|||+|+
T Consensus 80 s~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~ 117 (1153)
T PLN03210 80 SSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQT 117 (1153)
T ss_pred chHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhcc
Confidence 99999999999999999999999999999999999985
No 3
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.92 E-value=7.8e-25 Score=147.79 Aligned_cols=103 Identities=41% Similarity=0.663 Sum_probs=87.3
Q ss_pred eeeEEEEeee-ccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHH
Q 041158 13 KHGIFLSFRG-EDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKI 91 (118)
Q Consensus 13 ~~dVFISys~-~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~ 91 (118)
+|||||||++ .+..+.|+.+|...|...|+.+|.|+....|.... +|.++|++|+++|+++||+|+.|+||..|+..+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a 79 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA 79 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence 5899999998 34446899999999999999999987643333333 999999999999999999999999999999999
Q ss_pred HHhhhh-CCCEEEEEEeecCCCCccc
Q 041158 92 LECKHV-YGQIVIPVFCRVDPSHVRW 116 (118)
Q Consensus 92 ~~~~~~-~~~~iiPI~~~v~p~~v~~ 116 (118)
.+...+ ...+||||+++..|+++..
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~ 105 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRK 105 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHh
Confidence 987654 6789999999987765543
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=2.8e-25 Score=151.43 Aligned_cols=100 Identities=36% Similarity=0.643 Sum_probs=88.8
Q ss_pred EEEEeeeccCccchHHHHHHHHccC--CcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHH
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHN--NIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKIL 92 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~--Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~ 92 (118)
|||||++.+++..|+.+|..+|+++ |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|.||+.|+..|+
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 8999999333468999999999998 999999887 9999999999999999999999999999999999999999999
Q ss_pred HhhhhC--CCEEEEEEeecCCCCcc
Q 041158 93 ECKHVY--GQIVIPVFCRVDPSHVR 115 (118)
Q Consensus 93 ~~~~~~--~~~iiPI~~~v~p~~v~ 115 (118)
++..+. ...|+|+|+++.+++++
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~ 105 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVR 105 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCH
T ss_pred hhccccccccceeeEeccCChhhcC
Confidence 987654 49999999999999887
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.86 E-value=1.8e-22 Score=130.25 Aligned_cols=87 Identities=31% Similarity=0.553 Sum_probs=75.2
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhh
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 95 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~ 95 (118)
|||||+++|. .+|..|...|+..|+++|+|+++.+|+.+.+.|.++|++|+++|+++||+|..|+||..|+..+.+
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 8999999984 699999999999999999997799999999999999999999999999999999999999999843
Q ss_pred hhCCCEEEEEEee
Q 041158 96 HVYGQIVIPVFCR 108 (118)
Q Consensus 96 ~~~~~~iiPI~~~ 108 (118)
.+.+||||.++
T Consensus 77 --~~~~iipv~~~ 87 (102)
T PF13676_consen 77 --RGKPIIPVRLD 87 (102)
T ss_dssp --TSESEEEEECS
T ss_pred --CCCEEEEEEEC
Confidence 45589999974
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.50 E-value=5.9e-14 Score=111.71 Aligned_cols=92 Identities=27% Similarity=0.441 Sum_probs=79.9
Q ss_pred CCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccC--------
Q 041158 10 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYAS-------- 80 (118)
Q Consensus 10 ~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~-------- 80 (118)
-+++.||||||+... ...++.-|...|+.+|++||+|-+ +..|+ |.+.+.+.|..++.+|+|++|+.+.
T Consensus 609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 357899999998764 467999999999999999999988 98887 6678999999999999999999863
Q ss_pred chhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 81 SGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 81 S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
-+|+.+|+..++++.+ .|||||-
T Consensus 687 eDWVHKEl~~Afe~~K----NIiPI~D 709 (832)
T KOG3678|consen 687 EDWVHKELKCAFEHQK----NIIPIFD 709 (832)
T ss_pred HHHHHHHHHHHHHhcC----Ceeeeec
Confidence 6788999988887665 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=99.02 E-value=5.3e-10 Score=75.32 Aligned_cols=90 Identities=22% Similarity=0.373 Sum_probs=49.3
Q ss_pred eeEEEEeeeccCccchHHHHHHHHccC-------Ccce-EE---------eCC-CCCCccchHHHHHHHHhcCeEEEEec
Q 041158 14 HGIFLSFRGEDTRDNFTSHLYSALCHN-------NIET-FI---------DND-LKRGDEISQSLLDTIEASTISIIIFS 75 (118)
Q Consensus 14 ~dVFISys~~D~~~~fv~~L~~~L~~~-------Gi~v-~~---------d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S 75 (118)
|.|||||++.|.. ..+..|...+... ++.. |. +.. ....+.+...|.+.|..|+++||+++
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 5799999999863 3777777777652 1211 11 111 22334678899999999999999999
Q ss_pred CCccCchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 041158 76 ERYASSGWCLDELLKILECKHVYGQIVIPVFCR 108 (118)
Q Consensus 76 ~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~ 108 (118)
++...|.|+..|+..+++ .+..||-|.+.
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 999999999999998876 55688888763
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=98.50 E-value=1.2e-06 Score=59.81 Aligned_cols=64 Identities=19% Similarity=0.318 Sum_probs=51.3
Q ss_pred eEEEEeeeccCc-cchHHHHHHHHccC-CcceEEeCC-CCC--CccchHHHHHHHHhcCeEEEEecCCc
Q 041158 15 GIFLSFRGEDTR-DNFTSHLYSALCHN-NIETFIDND-LKR--GDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 15 dVFISys~~D~~-~~fv~~L~~~L~~~-Gi~v~~d~~-~~~--G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
-|||||++.... ...|..|...|++. |+.|.+|.. ... +..+..=+.+.+++++.+|+|+||.+
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 499999985443 36799999999999 999999986 532 55555567778999999999999654
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=97.70 E-value=0.00015 Score=48.86 Aligned_cols=75 Identities=16% Similarity=0.211 Sum_probs=61.0
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCc-------------cCc
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERY-------------ASS 81 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~-------------~~S 81 (118)
|||.|+ .|. .++..+...|+..|+.+.+=.. ...|..+.+.+.+.+.+|+..|++++|+= ..-
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 899997 553 6899999999988887765444 78899999999999999999999999952 224
Q ss_pred hhhHHHHHHHHH
Q 041158 82 GWCLDELLKILE 93 (118)
Q Consensus 82 ~wc~~El~~~~~ 93 (118)
+.+..|+..++.
T Consensus 79 ~NVifE~G~f~g 90 (125)
T PF10137_consen 79 QNVIFELGLFIG 90 (125)
T ss_pred cceeehhhHHHh
Confidence 557789988876
No 10
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=95.87 E-value=0.0095 Score=44.89 Aligned_cols=95 Identities=15% Similarity=0.083 Sum_probs=65.5
Q ss_pred CCCCCeeeEEEEeeeccCccchHHHHHHHHccC--CcceEEeCC----CCCCccchHHHHHHH-HhcCeEEEEecCCccC
Q 041158 8 PRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHN--NIETFIDND----LKRGDEISQSLLDTI-EASTISIIIFSERYAS 80 (118)
Q Consensus 8 ~~~~~~~dVFISys~~D~~~~fv~~L~~~L~~~--Gi~v~~d~~----~~~G~~~~~~i~~~i-~~s~~~I~v~S~~~~~ 80 (118)
.+..+.||+=+||.++- .++|+....+++.. -...|+|-. +-+|. +.+-+...- ..|++.+|.+..+|..
T Consensus 172 d~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~~~L~~~Y~~rC~~~~VF~~~~Y~~ 248 (329)
T COG4916 172 DSSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LVSTLDPGYDIRCVVTTVFNTGSYIC 248 (329)
T ss_pred cccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-HHHhcccccCceEEEEEEEeCCceEE
Confidence 46778999999998874 47999999999843 356677753 33333 322222222 2689999999999999
Q ss_pred chhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 81 SGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 81 S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
..||.-|...+.... .-..+.||.|
T Consensus 249 K~~c~~E~~~~r~~~--~~d~~~rI~~ 273 (329)
T COG4916 249 KSTCHIEGLEGRLNP--ILDTGFRIKY 273 (329)
T ss_pred eeeeccchhhccccc--cccccceEEE
Confidence 999999987654321 2234666655
No 11
>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=95.68 E-value=0.16 Score=32.85 Aligned_cols=77 Identities=22% Similarity=0.129 Sum_probs=53.7
Q ss_pred cchHHHHHHHHccCCcceEEeCC--CC---CCcc----chHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhh
Q 041158 27 DNFTSHLYSALCHNNIETFIDND--LK---RGDE----ISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHV 97 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~--~~---~G~~----~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~ 97 (118)
..+..++.+.|+++|+.++...+ .. .+.. +.+.-.++|++|+++|+++.+.- .+.-+..|+..|...
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~al--- 88 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYAL--- 88 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHC---
Confidence 46889999999999999886543 21 1222 33444569999999999998755 677888999998763
Q ss_pred CCCEEEEEEee
Q 041158 98 YGQIVIPVFCR 108 (118)
Q Consensus 98 ~~~~iiPI~~~ 108 (118)
+.+|+-+.-+
T Consensus 89 -gkpv~~~~~d 98 (113)
T PF05014_consen 89 -GKPVILLTED 98 (113)
T ss_dssp -TSEEEEEECC
T ss_pred -CCEEEEEEcC
Confidence 3455544433
No 12
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=95.55 E-value=0.05 Score=33.67 Aligned_cols=64 Identities=20% Similarity=0.226 Sum_probs=46.8
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeCCC-CCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDL-KRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~-~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
||||=.-.|-. .--..|.+.+.+.|..+..-+.+ ..+..-.+.+.+.|++|+++|.++...|=.
T Consensus 2 VFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~ 66 (83)
T PF13271_consen 2 VFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGS 66 (83)
T ss_pred EEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCC
Confidence 89987666642 34467778888778766543333 335566678999999999999999999854
No 13
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=95.03 E-value=0.22 Score=36.27 Aligned_cols=83 Identities=16% Similarity=0.139 Sum_probs=61.7
Q ss_pred CCCCCCCeeeEEEEeeeccCccchHHHHHHHHc-cCC-cceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCcc----
Q 041158 6 SSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALC-HNN-IETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYA---- 79 (118)
Q Consensus 6 ~~~~~~~~~dVFISys~~D~~~~fv~~L~~~L~-~~G-i~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~---- 79 (118)
++++..+ -|||-|++. +.|.....+|. +.. ..+|.|.-+..|..+.+.+++-|...+..|++.+|+=.
T Consensus 77 ~t~p~~k--kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~ 150 (233)
T COG4271 77 ATMPNLK--KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRA 150 (233)
T ss_pred cccCCce--eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCccccccc
Confidence 3555544 999999654 36766666665 433 56777776899999999999999999999999999844
Q ss_pred ----------CchhhHHHHHHHHHh
Q 041158 80 ----------SSGWCLDELLKILEC 94 (118)
Q Consensus 80 ----------~S~wc~~El~~~~~~ 94 (118)
.-..+..||..++.+
T Consensus 151 ~~~~~k~~praRqNVifELGm~mgr 175 (233)
T COG4271 151 VHSREKAFPRARQNVIFELGMFMGR 175 (233)
T ss_pred ccchhhccccccccchhhHhhHHhh
Confidence 133467788887763
No 14
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=92.14 E-value=1.4 Score=27.90 Aligned_cols=63 Identities=11% Similarity=-0.038 Sum_probs=42.4
Q ss_pred hHHHHHHHHccCCcceEEeCCC--CCCccchH---HHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHH
Q 041158 29 FTSHLYSALCHNNIETFIDNDL--KRGDEISQ---SLLDTIEASTISIIIFSERYASSGWCLDELLKILE 93 (118)
Q Consensus 29 fv~~L~~~L~~~Gi~v~~d~~~--~~G~~~~~---~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~ 93 (118)
-.....+.|+..|..|.---.+ ..|..+.+ .-...|..|+.+++ =|++..|.-|+-|...|.+
T Consensus 17 ~f~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~ 84 (92)
T PF14359_consen 17 AFNAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKK 84 (92)
T ss_pred HHHHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHH
Confidence 3456788899999766532223 45554443 33345667886544 4999999999999988765
No 15
>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=90.48 E-value=1.5 Score=26.46 Aligned_cols=61 Identities=7% Similarity=0.155 Sum_probs=39.6
Q ss_pred eeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 14 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 14 ~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
++|+|...+.+. ...+..+...|++.|++|-+|.. +..+..++..|-..---.++++.++.
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 687777655433 45788899999999999988753 23455556555444334555555543
No 16
>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=88.34 E-value=2 Score=26.03 Aligned_cols=62 Identities=13% Similarity=0.168 Sum_probs=39.9
Q ss_pred eeEEEEeeecc--CccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 14 HGIFLSFRGED--TRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 14 ~dVFISys~~D--~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
++|+|-..+.+ .....+..+...|++.|+++.+|.. +..+..++..+-..---+++++.++-
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~~---~~~~~k~~~~a~~~g~~~~iiig~~e 65 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR---ERKIGKKFREADLRGVPFAVVVGEDE 65 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecCC---CcCHhHHHHHHHhCCCCEEEEECCCh
Confidence 57777654330 1246788899999999999988653 34555555555444445677777643
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=86.56 E-value=1.5 Score=26.93 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=31.9
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
..++.+|...|.+.|+++.+|.. +..+...+..|-..---+++++.++
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~---~~~~~k~~~~a~~~g~p~~iiiG~~ 62 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS---DKSLGKQIKYADKLGIPFIIIIGEK 62 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS---SSTHHHHHHHHHHTTESEEEEEEHH
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCchhHHHHHHhhcCCeEEEEECch
Confidence 46889999999999999999864 3334445555554333345555543
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=86.04 E-value=3.7 Score=26.82 Aligned_cols=67 Identities=9% Similarity=-0.055 Sum_probs=44.6
Q ss_pred CCCCeeeEEEEeeec-cCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 9 RNSNKHGIFLSFRGE-DTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 9 ~~~~~~dVFISys~~-D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
.--..+||||-.-++ +.....+..|...|++.|++|-+|.. ..+..++..|-+.---+++++.++-.
T Consensus 22 ~~lap~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e~ 89 (121)
T cd00858 22 PALAPIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDTL 89 (121)
T ss_pred CCcCCcEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCch
Confidence 334568888877651 22245778899999999999988753 35666666665544456677776543
No 19
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=85.24 E-value=5.6 Score=23.26 Aligned_cols=61 Identities=16% Similarity=0.181 Sum_probs=36.3
Q ss_pred HHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEE
Q 041158 31 SHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVI 103 (118)
Q Consensus 31 ~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~ii 103 (118)
..++..|++.|++|-.... ..+++......+++++|.+.-+. ..++..+.+..++++..+|
T Consensus 8 ~a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~--~~~~~~l~~~v~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSE--PEEAEALLEWVEAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCc--hHHHHHHHHHHHcCCEEEE
Confidence 3577788888988843221 12244557889999999966553 3444444444444444443
No 20
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=78.96 E-value=3.8 Score=31.22 Aligned_cols=98 Identities=20% Similarity=0.298 Sum_probs=68.6
Q ss_pred CCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCC---CCCCccchHHHHHHHHh--cCeEEEEecCCccCchhh
Q 041158 10 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND---LKRGDEISQSLLDTIEA--STISIIIFSERYASSGWC 84 (118)
Q Consensus 10 ~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~---~~~G~~~~~~i~~~i~~--s~~~I~v~S~~~~~S~wc 84 (118)
+.-++.+=+||.++|. .+|+...+.|...|+.+|+|-- =--|.++.+ .+..|.+ .-..+..+|.+|-...|.
T Consensus 3 ~~~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~~~ 79 (329)
T COG4916 3 RNVQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKMWT 79 (329)
T ss_pred cchheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcCCC
Confidence 3456777889988884 6899999999999999998741 122344332 2223333 335677889999999999
Q ss_pred HHHHHHHHHhhh-hCCCEEEEEEeecC
Q 041158 85 LDELLKILECKH-VYGQIVIPVFCRVD 110 (118)
Q Consensus 85 ~~El~~~~~~~~-~~~~~iiPI~~~v~ 110 (118)
..|++....+.+ +....++|-.++..
T Consensus 80 ~~~~~~~~a~~~~~~~~~~~~~~~~~~ 106 (329)
T COG4916 80 NHERQAMQARAFQEHQEYILPARFDET 106 (329)
T ss_pred cHHHHHHHHHHhhhccEEehhhhhccC
Confidence 999988776544 46677888777543
No 21
>COG0400 Predicted esterase [General function prediction only]
Probab=78.53 E-value=6.7 Score=28.47 Aligned_cols=58 Identities=19% Similarity=0.146 Sum_probs=44.0
Q ss_pred CCCCCCeeeEEEEeeeccC--ccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHH
Q 041158 7 SPRNSNKHGIFLSFRGEDT--RDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE 65 (118)
Q Consensus 7 ~~~~~~~~dVFISys~~D~--~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~ 65 (118)
........-|||+|-..|. ....+.+|.+.|+..|..|+... +..|..+..+-.++++
T Consensus 140 ~~~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~ 199 (207)
T COG0400 140 LLPDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAAR 199 (207)
T ss_pred cccccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHH
Confidence 3446678889999987775 35678999999999999998754 5678888765555544
No 22
>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=77.87 E-value=6.4 Score=23.93 Aligned_cols=50 Identities=14% Similarity=0.266 Sum_probs=32.7
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
...+..|...|++.|+++.+|.. +..+...+..|-..---+++++.++-.
T Consensus 17 ~~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~e~ 66 (94)
T cd00861 17 QELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKKSA 66 (94)
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCchh
Confidence 35788999999999999999864 223444455554444445666665543
No 23
>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=76.53 E-value=13 Score=27.53 Aligned_cols=68 Identities=15% Similarity=0.075 Sum_probs=49.0
Q ss_pred cchHHHHHHHHccCCcceEEeCC--CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhh
Q 041158 27 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKH 96 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~--~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~ 96 (118)
..++.+|.+.|.++|+.+-.+.+ +-.|-.+. +.-.-.+.++=||.+|-+...+.....+|..++...+
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vP--L~~~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~~l~ 149 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVP--LKLMYPDADIPVVQLSLPASLDPAEHYALGRALAPLR 149 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHH--HHHHcCCCCCcEEEEEecCCCCHHHHHHHHHHHHhhh
Confidence 47999999999999998865442 55555433 2222234577788999888878888889999887544
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=72.21 E-value=13 Score=30.61 Aligned_cols=64 Identities=6% Similarity=0.149 Sum_probs=44.5
Q ss_pred CCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 11 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 11 ~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
....||+|-.-+++. ...+..|...|++.|++|-+|.. +..+..++..|-+.---.++++.++-
T Consensus 468 ~~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~~E 531 (563)
T TIGR00418 468 LAPVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGDKE 531 (563)
T ss_pred CCCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEchhh
Confidence 356788887755433 46889999999999999999853 44566666666554444566666543
No 25
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=71.02 E-value=27 Score=23.03 Aligned_cols=86 Identities=9% Similarity=0.247 Sum_probs=44.3
Q ss_pred CCCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhc---CeEEEEecCCccCchhhH
Q 041158 9 RNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAS---TISIIIFSERYASSGWCL 85 (118)
Q Consensus 9 ~~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s---~~~I~v~S~~~~~S~wc~ 85 (118)
.+...+|++|.|...... .....+ ....++.++ .+.|.++.+.+.++++.. .-.|+++..+--. -+.
T Consensus 6 ~~~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~----~Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~ 75 (122)
T PF09837_consen 6 AQADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFF----PQQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTP 75 (122)
T ss_dssp --TSSSEEEEEE----TT-HHHHHH---HH-TTSEEE----E--SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----H
T ss_pred ccCCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEe----ecCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCH
Confidence 455678999999876543 232222 334455554 367788888887777766 2356666655443 244
Q ss_pred HHHHHHHHhhhhCCCEEEE
Q 041158 86 DELLKILECKHVYGQIVIP 104 (118)
Q Consensus 86 ~El~~~~~~~~~~~~~iiP 104 (118)
..+..+.+..+....++-|
T Consensus 76 ~~l~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 76 DDLEQAFEALQRHDVVLGP 94 (122)
T ss_dssp HHHHHHHHHTTT-SEEEEE
T ss_pred HHHHHHHHHhccCCEEEee
Confidence 5666666665555666666
No 26
>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=70.35 E-value=2.5 Score=28.23 Aligned_cols=66 Identities=6% Similarity=-0.027 Sum_probs=38.9
Q ss_pred CCCeeeEEEEeee--ccCccchHHHHHHHHccCCcceEEeCCC----CCCccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 10 NSNKHGIFLSFRG--EDTRDNFTSHLYSALCHNNIETFIDNDL----KRGDEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 10 ~~~~~dVFISys~--~D~~~~fv~~L~~~L~~~Gi~v~~d~~~----~~G~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
.--.|+|=|---. .+.-...+..|++.|+..|++|+.|.+. .+|..+.+.-.-++ =+.+++.++.+
T Consensus 24 ~iAP~qV~Iipi~~~~~~~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~~dliGi----P~~I~IG~~~l 95 (128)
T cd02426 24 CLAPYKVAIDCGKGDTAELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDKYDEMGV----LFTLLISEQTL 95 (128)
T ss_pred CCCCeEEEEEeccCChHHHHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHhhhhcCC----CEEEEECCCcc
Confidence 3345666544321 2223567899999999999999998763 46665543322222 13445555543
No 27
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=69.39 E-value=19 Score=28.78 Aligned_cols=65 Identities=17% Similarity=0.128 Sum_probs=43.3
Q ss_pred CCCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 9 RNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 9 ~~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
..-..++|+|-.-+++. ...+..|...|++.|++|.+|.. +..+..++..|-+.---.++++.++
T Consensus 270 pwLAP~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~---srSLgKQiK~AdK~GaPfvIIIGed 334 (387)
T PRK14938 270 DWLNPIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL---DDSLGNKIRRAGTEWIPFVIIIGER 334 (387)
T ss_pred CccCcceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECch
Confidence 34456788777655543 35788999999999999998753 3456666666655444455555543
No 28
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=68.43 E-value=9.4 Score=25.78 Aligned_cols=57 Identities=12% Similarity=0.184 Sum_probs=42.8
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeE
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTIS 70 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~ 70 (118)
..++|+=..+.-....+.+.|..++..+|+-++.|-+ .+|+.+...+.+.+..+..+
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~~~ 85 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAKGA 85 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccccc
Confidence 3456666544322246888999999999999998876 78999999999998886554
No 29
>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=68.16 E-value=19 Score=21.02 Aligned_cols=58 Identities=17% Similarity=0.202 Sum_probs=34.1
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecC
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 76 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~ 76 (118)
||+|...+.+. ..-+..+...|+..|++|.++.. +..+...+..+-...--.++++.+
T Consensus 3 ~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 3 DVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred cEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 67776644432 24577889999999999987543 123444444443332234555554
No 30
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=66.17 E-value=39 Score=24.06 Aligned_cols=76 Identities=13% Similarity=0.086 Sum_probs=52.3
Q ss_pred chHHHHHHHHccCCcceEEe--CC-----CCC---CccchHHHHHHHHhcCeEEEEecCCc-cCchhhHHHHHHHHHhhh
Q 041158 28 NFTSHLYSALCHNNIETFID--ND-----LKR---GDEISQSLLDTIEASTISIIIFSERY-ASSGWCLDELLKILECKH 96 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d--~~-----~~~---G~~~~~~i~~~i~~s~~~I~v~S~~~-~~S~wc~~El~~~~~~~~ 96 (118)
...+.|++.|.+.|+.++.- .. ..+ +..|.+.=.+.|.+|+.+|.++.+-= ...+-+..|+..+..
T Consensus 20 ~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~A--- 96 (172)
T COG3613 20 ELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAIA--- 96 (172)
T ss_pred HHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHHH---
Confidence 46678888899999988863 22 222 12344455668899999999988765 224557789998876
Q ss_pred hCCCEEEEEEe
Q 041158 97 VYGQIVIPVFC 107 (118)
Q Consensus 97 ~~~~~iiPI~~ 107 (118)
.++.+++.+-
T Consensus 97 -lgKPv~~~~~ 106 (172)
T COG3613 97 -LGKPVYAYRK 106 (172)
T ss_pred -cCCceEEEee
Confidence 4557777663
No 31
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=64.98 E-value=11 Score=30.21 Aligned_cols=65 Identities=15% Similarity=0.137 Sum_probs=41.4
Q ss_pred CeeeEEEEeee--ccCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 12 NKHGIFLSFRG--EDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 12 ~~~dVFISys~--~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
..++|+|---. .+.....+..|...|++.|++|.+|.+ -..|. ++.++-..---.++|+.++-+.
T Consensus 344 aP~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~----ki~~a~~~giP~~iiVG~~e~~ 411 (439)
T PRK12325 344 APFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGA----KFATMDLIGLPWQIIVGPKGLA 411 (439)
T ss_pred CCeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhH----HHHHHHHcCCCEEEEECCcccc
Confidence 45789876542 222246889999999999999999876 44444 3433333323356677766543
No 32
>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=64.40 E-value=27 Score=24.60 Aligned_cols=47 Identities=28% Similarity=0.350 Sum_probs=34.0
Q ss_pred HHccCCcceEE-eCC--CC-CC-ccchHHHHHHHHhcCe-----EEEEecCCccCch
Q 041158 36 ALCHNNIETFI-DND--LK-RG-DEISQSLLDTIEASTI-----SIIIFSERYASSG 82 (118)
Q Consensus 36 ~L~~~Gi~v~~-d~~--~~-~G-~~~~~~i~~~i~~s~~-----~I~v~S~~~~~S~ 82 (118)
.|.+.||+..+ |.+ +. +. +.+.+++.+.+++++. -|+|+|.+.-.++
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 48899999764 554 53 44 5577888888888773 3899999875554
No 33
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=62.96 E-value=13 Score=30.92 Aligned_cols=68 Identities=16% Similarity=0.270 Sum_probs=43.1
Q ss_pred CCCCCeeeEEEEeee-c-cCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 8 PRNSNKHGIFLSFRG-E-DTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 8 ~~~~~~~dVFISys~-~-D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
+..-..++|+|---. + +.....+..|+..|+..|+++.+|.+ -.+|..+.+.-. ... -.+++++++..
T Consensus 463 P~~iaP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad~---~Gi-P~~iiiG~~e~ 533 (565)
T PRK09194 463 PKAIAPFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADADL---IGI-PHRIVVGDRGL 533 (565)
T ss_pred CCccCCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHHh---cCC-CEEEEEcCccc
Confidence 334567899887643 2 22246889999999999999999986 555554433211 122 24566666644
No 34
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=62.59 E-value=14 Score=29.51 Aligned_cols=55 Identities=27% Similarity=0.537 Sum_probs=37.6
Q ss_pred CCCCccchHHHHHHHHhcCeEEEEecCCcc----CchhhHH-HHHHHH-HhhhhCCCEEEEEEe
Q 041158 50 LKRGDEISQSLLDTIEASTISIIIFSERYA----SSGWCLD-ELLKIL-ECKHVYGQIVIPVFC 107 (118)
Q Consensus 50 ~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~----~S~wc~~-El~~~~-~~~~~~~~~iiPI~~ 107 (118)
+.|...+.. .-|..+|--++|--..|. .|..|++ |+..++ +|-..++.++||||-
T Consensus 181 mTpDrHLGa---A~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 181 MTPDRHLGA---AWIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred CCcccccch---hhhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeee
Confidence 444444432 245667777777666776 4888876 766665 566778999999994
No 35
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=62.48 E-value=28 Score=27.84 Aligned_cols=46 Identities=24% Similarity=0.234 Sum_probs=37.5
Q ss_pred HHHHHHHHhcC-eEEEEecCCc-cCchhhHHHHHHHHHhhhhCCCEEE
Q 041158 58 QSLLDTIEAST-ISIIIFSERY-ASSGWCLDELLKILECKHVYGQIVI 103 (118)
Q Consensus 58 ~~i~~~i~~s~-~~I~v~S~~~-~~S~wc~~El~~~~~~~~~~~~~ii 103 (118)
+.+++++.+.+ .+.++.+|+= ...-|..+||..+.+..++.+.+||
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 57888999887 5667777764 5688999999999998887887776
No 36
>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=62.21 E-value=36 Score=21.20 Aligned_cols=58 Identities=12% Similarity=0.120 Sum_probs=36.8
Q ss_pred hHHHHHHHHccCCcceEEeCCCCCCc-cchHHHHHHHHhcCeEEEEecCCccCchhhHHH
Q 041158 29 FTSHLYSALCHNNIETFIDNDLKRGD-EISQSLLDTIEASTISIIIFSERYASSGWCLDE 87 (118)
Q Consensus 29 fv~~L~~~L~~~Gi~v~~d~~~~~G~-~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~E 87 (118)
....+.+.+++.|...-.. .-..|. .-...+...|.+++++|++.+--.-...|...+
T Consensus 11 ~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~ 69 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKK 69 (97)
T ss_pred cHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHH
Confidence 5677888999999876554 111121 122358889999999988876555444444433
No 37
>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=61.61 E-value=9.1 Score=22.90 Aligned_cols=25 Identities=16% Similarity=0.270 Sum_probs=11.3
Q ss_pred CcceEEeCCCCCCccchHHHHHHHHh
Q 041158 41 NIETFIDNDLKRGDEISQSLLDTIEA 66 (118)
Q Consensus 41 Gi~v~~d~~~~~G~~~~~~i~~~i~~ 66 (118)
.+-+|+|.+ .+|.....++.+.+..
T Consensus 45 ~vii~~D~D-~aG~~a~~~~~~~l~~ 69 (79)
T cd03364 45 EVILAFDGD-EAGQKAALRALELLLK 69 (79)
T ss_pred eEEEEECCC-HHHHHHHHHHHHHHHH
Confidence 445555544 4444444444444443
No 38
>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=59.24 E-value=39 Score=20.71 Aligned_cols=65 Identities=12% Similarity=0.141 Sum_probs=42.0
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEE-eCCCC-------CCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFI-DNDLK-------RGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~-d~~~~-------~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
+|.|..+.-....++.+|...|.++|.++.+ |-+.. -+..+......++..|+..|+++.++..+
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~s 75 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPLD 75 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHHH
Confidence 3556554433345678899999888988775 32111 11223344568899999999999887553
No 39
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=59.14 E-value=43 Score=21.16 Aligned_cols=61 Identities=18% Similarity=0.274 Sum_probs=39.2
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEEeCC----CC-CCc---------cchHHHHHHHHhcCeEEEEecCC
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND----LK-RGD---------EISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~----~~-~G~---------~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
.||+|.+..|. .-...+.+.|.+.|++++--.. ++ .|- .=..++.+.|++-++-++|-.|+
T Consensus 2 ~vl~s~~~~~k--~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDK--PEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcH--hHHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 48999987764 3455777777778888875310 10 110 11257888888888888877665
No 40
>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=57.90 E-value=35 Score=24.61 Aligned_cols=37 Identities=14% Similarity=0.130 Sum_probs=28.9
Q ss_pred eEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCch
Q 041158 44 TFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSG 82 (118)
Q Consensus 44 v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~ 82 (118)
||+|. ..+..+..++...+.++.+-|+++||..-.-+
T Consensus 127 VW~D~--f~~~~~~~~~~~~~~~~~~~~c~VSpELh~~~ 163 (192)
T cd08584 127 VWIDS--FTSLWLDNDLILKLLKAGKKICLVSPELHGRD 163 (192)
T ss_pred EEEec--ccccCCCHHHHHHHHHCCcEEEEECHHHcCCC
Confidence 79886 33466777888888888999999999977543
No 41
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=57.77 E-value=37 Score=28.33 Aligned_cols=61 Identities=11% Similarity=0.256 Sum_probs=40.7
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
..||+|-.-+.+ ....+..|.+.|++.|++|-+|.. ++.+..++..|-..---.++|+.++
T Consensus 438 P~qV~Iipi~e~-~~~~A~~Ia~~LR~~GirVelD~~---~~~lgkkir~A~k~gip~viIIG~~ 498 (545)
T PRK14799 438 SVQVRVLPITDE-VNEYAEKVLNDMRKRRIRAEIDYA---GETLSKRIKNAYDQGVPYILIVGKK 498 (545)
T ss_pred CceEEEEEcCHH-HHHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEChh
Confidence 568888765443 246889999999999999999864 3445556666544333355555544
No 42
>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=57.75 E-value=14 Score=23.45 Aligned_cols=58 Identities=14% Similarity=0.226 Sum_probs=35.4
Q ss_pred ccCccchHHHHHHHHccCCcceEEeCC-CCC----------CccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 23 EDTRDNFTSHLYSALCHNNIETFIDND-LKR----------GDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 23 ~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~----------G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
.|.|.+=+-.|.+.|..+|+.|.+.+- +.. |-.+.+.+.++++.++++|+....+-..
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h~~f~ 80 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDHDEFR 80 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--GGGG
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecCHHHh
Confidence 566777889999999999999876542 221 2223346688899999887765554443
No 43
>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=57.67 E-value=78 Score=23.67 Aligned_cols=76 Identities=14% Similarity=0.148 Sum_probs=50.7
Q ss_pred cchHHHHHHHHccCCcceE-EeCC---CCCCccchHHHHHHH-H-hcCeEEEEecCCccCchhhHHHHHHHHHh-hhhCC
Q 041158 27 DNFTSHLYSALCHNNIETF-IDND---LKRGDEISQSLLDTI-E-ASTISIIIFSERYASSGWCLDELLKILEC-KHVYG 99 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~-~d~~---~~~G~~~~~~i~~~i-~-~s~~~I~v~S~~~~~S~wc~~El~~~~~~-~~~~~ 99 (118)
..++..|.+.|.+.|+.+- .|.. +-.|--.. ..-+ . ..++=|+.+|.+...+.....+|..++.. .++.+
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vP---L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~~~l~~~~ 166 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITA---CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAADAAKDQN 166 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHH---HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHHHHcC
Confidence 4799999999999999986 6552 34444332 2223 2 35666777888887777788899998873 44444
Q ss_pred CEEEEE
Q 041158 100 QIVIPV 105 (118)
Q Consensus 100 ~~iiPI 105 (118)
.++.=|
T Consensus 167 ~rV~iI 172 (271)
T cd07373 167 KRVAVV 172 (271)
T ss_pred CeEEEE
Confidence 555533
No 44
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=57.62 E-value=39 Score=21.00 Aligned_cols=54 Identities=22% Similarity=0.273 Sum_probs=37.3
Q ss_pred HHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHH
Q 041158 33 LYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLK 90 (118)
Q Consensus 33 L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~ 90 (118)
+..-++..|+..+... ...++..+.+.+.+++-.+.|++++.++... -..++..
T Consensus 9 ~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~ 62 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDE 62 (95)
T ss_dssp HHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHH
T ss_pred HHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHH
Confidence 4455667898888754 1345566677777788999999999998873 3334444
No 45
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=56.61 E-value=30 Score=28.92 Aligned_cols=62 Identities=6% Similarity=0.116 Sum_probs=42.1
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
..||+|-.-+... ...+..|.+.|+++|++|-+|.. +..+..++..|-..---.++|+.++-
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kki~~A~~~g~~~~iiiG~~E 600 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDLR---NEKIGYKIREAQLQKVPYMLVVGDKE 600 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEECC---CCCHhHHHHHhhccCCCEEEEEcchh
Confidence 5688887654332 46789999999999999998854 34455566665544444666676643
No 46
>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=56.04 E-value=50 Score=22.95 Aligned_cols=64 Identities=14% Similarity=0.247 Sum_probs=41.9
Q ss_pred HHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHH-hcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 041158 30 TSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE-ASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCR 108 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~-~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~ 108 (118)
+..|.+..++.|+++++ -+|..+...+....+ ++=+.|. |..+|...++.....+..++-|+++
T Consensus 75 Ig~l~~lae~~g~~v~i----~~Ggt~ar~~ik~~~p~~iigVA-----------C~~dL~~g~~~~~~~~ip~~gV~l~ 139 (158)
T PF01976_consen 75 IGDLKKLAEKYGYKVYI----ATGGTLARKIIKEYRPKAIIGVA-----------CERDLISGIQDLKPLGIPVQGVLLD 139 (158)
T ss_pred hhHHHHHHHHcCCEEEE----EcChHHHHHHHHHhCCCEEEEEe-----------chHHHHHHHHHHhhcCCCeeEEEeC
Confidence 56788888999999986 445544433333222 2222333 8899998887666567778777764
No 47
>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=55.27 E-value=18 Score=25.78 Aligned_cols=44 Identities=14% Similarity=0.174 Sum_probs=35.2
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEE
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISII 72 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~ 72 (118)
.-...|..+.+.+|+-+|.|.+ .+|+.|...|.+.+-.+.+.-+
T Consensus 36 ~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~khafi 79 (174)
T TIGR00334 36 ETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENCFI 79 (174)
T ss_pred HHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEEee
Confidence 4567788888899999999886 7888888888888887776533
No 48
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=54.83 E-value=41 Score=28.45 Aligned_cols=62 Identities=8% Similarity=0.161 Sum_probs=39.2
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
-.++|+|---+.+ ....+..|.+.|+..|++|.+|.+ ++.+...+.+|-..---.++++.++
T Consensus 498 AP~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr---~~slgkKir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 498 SPTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDR---DESLGKKIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred cCceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 4578877765433 346899999999999999999875 2233334444433222345555544
No 49
>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=54.58 E-value=16 Score=23.54 Aligned_cols=60 Identities=12% Similarity=0.112 Sum_probs=37.2
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeC--------C-CC------C---CccchHHHHHHHHhcCeEEEEecCC
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDN--------D-LK------R---GDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~--------~-~~------~---G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
||||.+..|. .-...+.+.|...|++++--. . +. . |..-..++.+.|++=.+-++|-.|+
T Consensus 3 vlisv~~~dk--~~~~~~a~~l~~~G~~i~aT~gTa~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~ 80 (116)
T cd01423 3 ILISIGSYSK--PELLPTAQKLSKLGYKLYATEGTADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPS 80 (116)
T ss_pred EEEecCcccc--hhHHHHHHHHHHCCCEEEEccHHHHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCC
Confidence 7999987764 345578888888888886421 0 10 1 1111256788888777666666554
No 50
>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=54.42 E-value=45 Score=21.32 Aligned_cols=60 Identities=15% Similarity=0.229 Sum_probs=39.0
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeC--------C------CCCCcc-chHHHHHHHHh-cCeEEEEecCC
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDN--------D------LKRGDE-ISQSLLDTIEA-STISIIIFSER 77 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~--------~------~~~G~~-~~~~i~~~i~~-s~~~I~v~S~~ 77 (118)
||||-+..|. .-...+.+.|.+.|+.++--. . +..+.. -.+++.+.|.+ -++-++|..|+
T Consensus 2 i~isv~d~~K--~~~~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~ 77 (112)
T cd00532 2 VFLSVSDHVK--AMLVDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD 77 (112)
T ss_pred EEEEEEcccH--HHHHHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC
Confidence 7888877664 344577777777888776421 0 111111 12578999999 89988888776
No 51
>PF05636 HIGH_NTase1: HIGH Nucleotidyl Transferase; InterPro: IPR008513 This family consists of several bacterial proteins of unknown function.; PDB: 3GMI_A.
Probab=54.40 E-value=15 Score=29.23 Aligned_cols=47 Identities=17% Similarity=0.370 Sum_probs=21.9
Q ss_pred HHHHhcCeEEEEecCCccC-------chhhHHHHHHHHHhhhhCCCEE--EEEEeecCCCC
Q 041158 62 DTIEASTISIIIFSERYAS-------SGWCLDELLKILECKHVYGQIV--IPVFCRVDPSH 113 (118)
Q Consensus 62 ~~i~~s~~~I~v~S~~~~~-------S~wc~~El~~~~~~~~~~~~~i--iPI~~~v~p~~ 113 (118)
+.+..++++|+|+|-||++ +.|.+-|+.... +-+.| +|+.|-+.+.+
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 3455789999999999987 889988866432 22233 57777665544
No 52
>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=53.61 E-value=18 Score=25.89 Aligned_cols=51 Identities=12% Similarity=0.060 Sum_probs=35.5
Q ss_pred CCCCeeeEEEEeeeccC-----ccchHHHHHHHHccCCcceEEeCC--CCCCccchHH
Q 041158 9 RNSNKHGIFLSFRGEDT-----RDNFTSHLYSALCHNNIETFIDND--LKRGDEISQS 59 (118)
Q Consensus 9 ~~~~~~dVFISys~~D~-----~~~fv~~L~~~L~~~Gi~v~~d~~--~~~G~~~~~~ 59 (118)
...-.++|+|---+.+. -...+..|...|...|+++.+|.+ ..+|..+...
T Consensus 6 ~~iAP~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~a 63 (202)
T cd00862 6 PRVAPIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDW 63 (202)
T ss_pred hhhcCceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHH
Confidence 34456788876543221 235789999999999999999875 3777766543
No 53
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=53.17 E-value=47 Score=27.45 Aligned_cols=62 Identities=5% Similarity=0.205 Sum_probs=41.0
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
...||+|---+++ ....+..|...|++.|++|-+|.+ +..+..++..|-..---.++|+.++
T Consensus 475 ~p~~v~Ii~~~~~-~~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~~ 536 (575)
T PRK12305 475 APVQVVIIPVADA-HNEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGDK 536 (575)
T ss_pred CCccEEEEEeChH-HHHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEech
Confidence 3568988664433 246789999999999999999864 3345555666554433455555554
No 54
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=52.47 E-value=69 Score=23.80 Aligned_cols=67 Identities=16% Similarity=0.218 Sum_probs=42.6
Q ss_pred chHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 041158 28 NFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYG 99 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~ 99 (118)
.+...|.+..+.+| .-|+|-+ ..+.+.+ +++.+.-.+-. +|+|-+-+.+.+..+|+..++......+
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 46666777777666 5677876 3333322 22222222222 8889999999999999998887655433
No 55
>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=51.36 E-value=61 Score=21.35 Aligned_cols=79 Identities=19% Similarity=0.137 Sum_probs=46.8
Q ss_pred cchHHHHHHHHccCCcceEE-eCC-C-CC-----------CccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHH
Q 041158 27 DNFTSHLYSALCHNNIETFI-DND-L-KR-----------GDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKIL 92 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~-d~~-~-~~-----------G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~ 92 (118)
..+++.+.+.|++.|+.+-+ |=. . .+ -.+-.+++.+.+.+|+. |++.||.|..+.- -.+..++
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 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEADG-IIFASPVYNGSVS--GQLKNFL 93 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSSE-EEEEEEEBTTBE---HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCCe-EEEeecEEcCcCC--hhhhHHH
Confidence 46788888999888876532 321 2 11 11222466778888885 6678999987533 2444555
Q ss_pred Hhhh------hCCCEEEEEEee
Q 041158 93 ECKH------VYGQIVIPVFCR 108 (118)
Q Consensus 93 ~~~~------~~~~~iiPI~~~ 108 (118)
++.. -.++.+.+|-..
T Consensus 94 D~~~~~~~~~~~~K~~~~i~~~ 115 (152)
T PF03358_consen 94 DRLSCWFRRALRGKPVAIIAVG 115 (152)
T ss_dssp HTHHHTHTTTTTTSEEEEEEEE
T ss_pred HHhccccccccCCCEEEEEEEe
Confidence 5331 246677777554
No 56
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=51.20 E-value=39 Score=27.55 Aligned_cols=49 Identities=10% Similarity=0.066 Sum_probs=34.0
Q ss_pred CCCCeeeEEEEeee-----ccCccchHHHHHHHHccCCcceEEeC-C-CCCCccch
Q 041158 9 RNSNKHGIFLSFRG-----EDTRDNFTSHLYSALCHNNIETFIDN-D-LKRGDEIS 57 (118)
Q Consensus 9 ~~~~~~dVFISys~-----~D~~~~fv~~L~~~L~~~Gi~v~~d~-~-~~~G~~~~ 57 (118)
.....++|+|---. .+.....+..|.+.|+..|++|-+|. + -.+|..+.
T Consensus 283 ~~iAP~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~ 338 (477)
T PRK08661 283 PKIAPIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFN 338 (477)
T ss_pred cccCCCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHH
Confidence 33446889876541 11224578999999999999999987 4 56666554
No 57
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=50.12 E-value=42 Score=26.86 Aligned_cols=61 Identities=11% Similarity=0.187 Sum_probs=39.8
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 76 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~ 76 (118)
...||+|.+-+.+. ...+-.+.+.|+++|++|-+|-. +..+..++..|-+.--..++++.+
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 34789998754432 35678899999999999877532 344555666665543345555654
No 58
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=49.82 E-value=54 Score=27.64 Aligned_cols=64 Identities=5% Similarity=0.099 Sum_probs=43.2
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
...+|+|-.-+++.....+..|...|++.|++|-+|.. +..+..++..|-+.---.++++.++-
T Consensus 540 ap~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~~---~~sl~kq~k~A~k~g~~~~iiiG~~E 603 (639)
T PRK12444 540 APVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDER---DEKLGYKIREAQMQKIPYVLVIGDKE 603 (639)
T ss_pred CCceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEcchh
Confidence 46788877655411246889999999999999998753 34555566666554444566666543
No 59
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=49.41 E-value=26 Score=26.44 Aligned_cols=42 Identities=19% Similarity=0.207 Sum_probs=28.2
Q ss_pred hHHHHHHHHccCCcceEEeCCCCCCcc---chHHHHHHHHhcCeEEE
Q 041158 29 FTSHLYSALCHNNIETFIDNDLKRGDE---ISQSLLDTIEASTISII 72 (118)
Q Consensus 29 fv~~L~~~L~~~Gi~v~~d~~~~~G~~---~~~~i~~~i~~s~~~I~ 72 (118)
=+.+|.+.|...|+.+..- ..-||+ |.+.+..++++++++|+
T Consensus 22 Na~~la~~L~~~G~~v~~~--~~VgD~~~~I~~~l~~a~~r~D~vI~ 66 (255)
T COG1058 22 NAAFLADELTELGVDLARI--TTVGDNPDRIVEALREASERADVVIT 66 (255)
T ss_pred hHHHHHHHHHhcCceEEEE--EecCCCHHHHHHHHHHHHhCCCEEEE
Confidence 4668999999999998753 234544 44566666667555444
No 60
>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=49.31 E-value=1.2e+02 Score=23.41 Aligned_cols=53 Identities=11% Similarity=0.164 Sum_probs=28.2
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhc---CeEEEEecCCccC
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAS---TISIIIFSERYAS 80 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s---~~~I~v~S~~~~~ 80 (118)
.....|.+.|+..|+.+-....+..++.-...+.+.|+.+ |++|+.....+..
T Consensus 147 ~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~ 202 (382)
T cd06371 147 ETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLIG 202 (382)
T ss_pred HHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeeccccC
Confidence 4567777888888876654434544432223444555543 3444444444443
No 61
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=49.04 E-value=1.2e+02 Score=25.24 Aligned_cols=80 Identities=15% Similarity=0.143 Sum_probs=65.6
Q ss_pred HHHHHHHHccCCcceEEeCC---CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 30 TSHLYSALCHNNIETFIDND---LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~~d~~---~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
...+...-++.|+.+=.|.. +..|+.-.-+|.+++.+-..++++--|..+=.+--.+||-.+++..++.+..||-|-
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 34555555788988866653 788988878999999998888999999999999888999988888888899999988
Q ss_pred eec
Q 041158 107 CRV 109 (118)
Q Consensus 107 ~~v 109 (118)
++.
T Consensus 198 HKL 200 (501)
T COG3845 198 HKL 200 (501)
T ss_pred ccH
Confidence 753
No 62
>PRK10628 LigB family dioxygenase; Provisional
Probab=47.99 E-value=67 Score=24.04 Aligned_cols=78 Identities=12% Similarity=0.063 Sum_probs=53.9
Q ss_pred EEeeeccCccchHHHHHHHHccCCcceEEeC-C-CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhh
Q 041158 18 LSFRGEDTRDNFTSHLYSALCHNNIETFIDN-D-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 95 (118)
Q Consensus 18 ISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~-~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~ 95 (118)
|.|..... -.++.++.+.|++.|+.+ -+. + +-.|-... +.-.--++++=|+-+|=+...++-...+|.+++...
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 77754433 479999999999888833 222 4 66676543 333445688888889988877877778999888755
Q ss_pred hhCC
Q 041158 96 HVYG 99 (118)
Q Consensus 96 ~~~~ 99 (118)
++.+
T Consensus 138 R~~g 141 (246)
T PRK10628 138 RDEG 141 (246)
T ss_pred ccCC
Confidence 4433
No 63
>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=47.78 E-value=93 Score=23.43 Aligned_cols=60 Identities=8% Similarity=0.076 Sum_probs=31.6
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCc-cchHHHHHHHHhcCeEEEEec
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGD-EISQSLLDTIEASTISIIIFS 75 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~-~~~~~i~~~i~~s~~~I~v~S 75 (118)
.|.+-|...+-....+..+...+++.|+.|-....+.++. ++.. +...|.+++.-++++.
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~-~i~~l~~~~~d~v~~~ 206 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTS-EVLKLKAANPDAILPA 206 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHH-HHHHHHhcCCCEEEEc
Confidence 3555553222224566677777778887776544455443 4443 4445555544444443
No 64
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=46.78 E-value=68 Score=20.35 Aligned_cols=43 Identities=7% Similarity=0.264 Sum_probs=25.8
Q ss_pred HHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 36 ALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 36 ~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
-++..|+..++.. ...+...+.+.+.+.+-++.|++++.+...
T Consensus 14 GFrLaGi~~~~~~--~~~ee~~~~l~~l~~~~d~gII~Ite~~~~ 56 (100)
T PRK02228 14 GFRLAGIRKVYEV--PDDEKLDEAVEEVLEDDDVGILVMHDDDLE 56 (100)
T ss_pred HHHHcCCceEEee--CCHHHHHHHHHHHhhCCCEEEEEEehhHhH
Confidence 3455677644311 111345555655666777899999988766
No 65
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=46.73 E-value=20 Score=27.31 Aligned_cols=32 Identities=34% Similarity=0.501 Sum_probs=22.6
Q ss_pred chhhHHHHHHHHHh---h-hhCCCEEEEEEeecCCC
Q 041158 81 SGWCLDELLKILEC---K-HVYGQIVIPVFCRVDPS 112 (118)
Q Consensus 81 S~wc~~El~~~~~~---~-~~~~~~iiPI~~~v~p~ 112 (118)
-+-|.+||...... . .+.+..++|||.-++|+
T Consensus 152 PDICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 152 PDICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred CCcChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 45688898775442 2 24567777999999884
No 66
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=46.43 E-value=16 Score=21.92 Aligned_cols=24 Identities=25% Similarity=0.482 Sum_probs=12.2
Q ss_pred CCcceEEeCCCCCCccchHHHHHHH
Q 041158 40 NNIETFIDNDLKRGDEISQSLLDTI 64 (118)
Q Consensus 40 ~Gi~v~~d~~~~~G~~~~~~i~~~i 64 (118)
+.+-+|+|.+ .+|+.....+.+.+
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 4455555554 35555555555544
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=45.17 E-value=79 Score=20.08 Aligned_cols=31 Identities=13% Similarity=0.210 Sum_probs=21.2
Q ss_pred hHHHHHHHHhc-CeEEEEecCCccCchhhHHHHH
Q 041158 57 SQSLLDTIEAS-TISIIIFSERYASSGWCLDELL 89 (118)
Q Consensus 57 ~~~i~~~i~~s-~~~I~v~S~~~~~S~wc~~El~ 89 (118)
.+++.+++++- +.+++.+...+. +||.....
T Consensus 3 ~~~~~~a~~~~~k~vlv~f~a~wC--~~C~~~~~ 34 (125)
T cd02951 3 YEDLAEAAADGKKPLLLLFSQPGC--PYCDKLKR 34 (125)
T ss_pred HHHHHHHHHcCCCcEEEEEeCCCC--HHHHHHHH
Confidence 35677888888 888887776664 46765443
No 68
>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=44.99 E-value=1.2e+02 Score=22.24 Aligned_cols=51 Identities=14% Similarity=0.163 Sum_probs=28.0
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCC-ccchHHHHHHHHhc
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEAS 67 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~~~i~~s 67 (118)
|.+-|...+-....+..+.+.|+..|+++-....+.+| .++. .+...|+++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~-~~l~~i~~~ 189 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFS-AILTKIKAA 189 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHH-HHHHHHHhc
Confidence 44445433333456677777787778777544445554 3444 334445554
No 69
>PF09152 DUF1937: Domain of unknown function (DUF1937); InterPro: IPR015235 This entry is represented by Bacteriophage N15, Gp57. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a set of hypothetical bacterial and phage proteins whose exact function has not, as yet, been described. ; PDB: 1T1J_A.
Probab=44.82 E-value=62 Score=21.52 Aligned_cols=62 Identities=11% Similarity=0.020 Sum_probs=36.9
Q ss_pred HHHHHccCCcceEEe----C----C-CCC-----CccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHh
Q 041158 33 LYSALCHNNIETFID----N----D-LKR-----GDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILEC 94 (118)
Q Consensus 33 L~~~L~~~Gi~v~~d----~----~-~~~-----G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~ 94 (118)
-..+|-+.|+.+|-- . . +.. +..|.+--..-++.|+.+|++-.|.+..|.-...|+..+...
T Consensus 32 ~aa~l~~~G~~~fSpv~~sH~~~~~~~~~~~~~~~~~W~~~d~~~L~~c~~lvV~~i~GW~~S~Gi~~Ei~~a~~~ 107 (116)
T PF09152_consen 32 VAAELLKAGHAAFSPVVMSHPINFELLGDDDPLIQKLWEDWDRPFLDACDELVVLDIPGWDDSEGIWAEIEAAEEM 107 (116)
T ss_dssp HHHHHHHTT-EEEEHHHHHHHHHCCGTTS-HHHHHHHHHHHHHHHHHH-SEEEE---TTGGG-HHHHHHHHHHHHT
T ss_pred HHHHHHhcCCeeEeccccccccchhcccccCcchhHHHHHHhHHHHHhcceeEEecCCCccccccHHHHHHHHHHc
Confidence 334455689888843 0 1 111 222334444467789999999999999999999999988763
No 70
>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=44.64 E-value=99 Score=21.05 Aligned_cols=64 Identities=20% Similarity=0.388 Sum_probs=39.1
Q ss_pred chHHHHHHHHccCC--cceEEeCCCCCCccchHHHHHHHHh---cCeEEEEecCCccC--chhhHHHHHHHHH
Q 041158 28 NFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEA---STISIIIFSERYAS--SGWCLDELLKILE 93 (118)
Q Consensus 28 ~fv~~L~~~L~~~G--i~v~~d~~~~~G~~~~~~i~~~i~~---s~~~I~v~S~~~~~--S~wc~~El~~~~~ 93 (118)
..+..|.+.|.+.+ +.|..- ++.|+....+..+.+.+ -+++++.+.|.|.. ..-+.+++..++.
T Consensus 72 ~q~~~l~~~L~~~~~~~~v~~a--mry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~ 142 (159)
T cd03411 72 AQAEALEKALDERGIDVKVYLA--MRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALK 142 (159)
T ss_pred HHHHHHHHHHhccCCCcEEEeh--HhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHH
Confidence 46677888887654 444333 66666655544444433 44677788998864 4456667766654
No 71
>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=42.54 E-value=85 Score=19.68 Aligned_cols=60 Identities=17% Similarity=0.123 Sum_probs=36.9
Q ss_pred HHHHHHHHccCCcceEE-eCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhh
Q 041158 30 TSHLYSALCHNNIETFI-DNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHV 97 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~~-d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~ 97 (118)
...|...|+++|+.|-+ |-.... +++.+.+.+.+.-++.+|-.+. |...++..+.+..++
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~---~~~~~~~~l~~~~k~ 77 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMT---PNLPEAKRLARAIKE 77 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSS---THHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCc---CcHHHHHHHHHHHHh
Confidence 46688899999998854 433322 5777778877766677765433 344444444444443
No 72
>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=42.42 E-value=61 Score=24.72 Aligned_cols=41 Identities=15% Similarity=0.043 Sum_probs=22.7
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCC---ccchHHHHHHHHhcC
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRG---DEISQSLLDTIEAST 68 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G---~~~~~~i~~~i~~s~ 68 (118)
...+..+.++|+..|+.+-....+.++ ..+...+ +.+..+.
T Consensus 152 ~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~ 195 (389)
T cd06352 152 FFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEIL-QDIKRRS 195 (389)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHH-HHhhhcc
Confidence 355677777777778776544335544 3444444 3444444
No 73
>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=42.25 E-value=1.2e+02 Score=22.76 Aligned_cols=58 Identities=19% Similarity=0.302 Sum_probs=31.9
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCC---ccchHHHHHHHHh--cCeEEEEe
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRG---DEISQSLLDTIEA--STISIIIF 74 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G---~~~~~~i~~~i~~--s~~~I~v~ 74 (118)
|.+-|...+-...++..+.+.|++.|+.+-....+.+| .++...+ ..|.. .+++++..
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~~dvvi~~~ 200 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDAL-KKLKEKDSRVIVVHF 200 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHH-HHHhcCCCeEEEEEC
Confidence 44545443333456777888888888877555446655 3444343 34443 44444433
No 74
>PLN02530 histidine-tRNA ligase
Probab=42.10 E-value=78 Score=25.82 Aligned_cols=61 Identities=7% Similarity=0.005 Sum_probs=40.9
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 76 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~ 76 (118)
...||+|.+-.++. ...+..+.+.|+++|++|-+|-. +..+...+..|-+.--..++++.+
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 45689998755443 35788899999999999977632 234555666665544445666664
No 75
>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=41.60 E-value=1.3e+02 Score=22.62 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=10.3
Q ss_pred cchHHHHHHHHccCCcceE
Q 041158 27 DNFTSHLYSALCHNNIETF 45 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~ 45 (118)
...+..+.+.|++.|+.+-
T Consensus 152 ~~~~~~~~~~~~~~G~~v~ 170 (347)
T cd06335 152 RSNRKDLTAALAARGLKPV 170 (347)
T ss_pred hhHHHHHHHHHHHcCCeeE
Confidence 3455555555655565553
No 76
>PLN02908 threonyl-tRNA synthetase
Probab=41.53 E-value=78 Score=27.08 Aligned_cols=61 Identities=11% Similarity=0.144 Sum_probs=41.8
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
..+|+|-.-+.+. ...+..+.+.|+++|++|-+|.. +..+..++..|-..---+++|+.++
T Consensus 589 p~qv~Vipv~~~~-~~~A~~va~~LR~~Gi~vevd~~---~~~l~kkir~A~~~g~~~viivG~~ 649 (686)
T PLN02908 589 PRQAIVVPISEKS-QDYAEEVRAQLHAAGFYVDVDVT---DRKIQKKVREAQLAQYNYILVVGEA 649 (686)
T ss_pred CceEEEEEECHHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECch
Confidence 4588877755432 46889999999999999988743 4556666666655444456666654
No 77
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=41.48 E-value=90 Score=25.69 Aligned_cols=49 Identities=22% Similarity=0.188 Sum_probs=32.0
Q ss_pred CCCCCCCCCCCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhc
Q 041158 1 MASSSSSPRNSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAS 67 (118)
Q Consensus 1 ~~~~~~~~~~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s 67 (118)
|++|-++.++++ ..-++.|.+.|.+.|++..+ --||.... .+.+++.++
T Consensus 1 ~~~~~~~~~~~~--------------~~~~~~l~~~L~~~GV~~vF---gvpG~~~~-~l~dal~~~ 49 (564)
T PRK08155 1 MASSGTTSTRKR--------------FTGAELIVRLLERQGIRIVT---GIPGGAIL-PLYDALSQS 49 (564)
T ss_pred CCCCCCCccCCc--------------ccHHHHHHHHHHHcCCCEEE---eCCCcccH-HHHHHHhcc
Confidence 677755555543 13577899999999987655 45776654 456667655
No 78
>PF13289 SIR2_2: SIR2-like domain
Probab=41.37 E-value=78 Score=20.33 Aligned_cols=9 Identities=33% Similarity=0.220 Sum_probs=3.8
Q ss_pred HHHHHHHHc
Q 041158 30 TSHLYSALC 38 (118)
Q Consensus 30 v~~L~~~L~ 38 (118)
-..|...|.
T Consensus 77 ~~~l~~~l~ 85 (143)
T PF13289_consen 77 PNFLRSLLR 85 (143)
T ss_pred HHHHHHHHc
Confidence 344444443
No 79
>PLN03194 putative disease resistance protein; Provisional
Probab=40.87 E-value=1.4e+02 Score=21.57 Aligned_cols=64 Identities=13% Similarity=0.243 Sum_probs=44.7
Q ss_pred cCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 39 HNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 39 ~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
+..+.||+.-+ --....|...+.+++++..+-+++-........--..+|..+++.. ...|.||
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeS----ri~IvVf 88 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNC----KVGVAVF 88 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhC----eEEEEEE
Confidence 45789999754 3333467888999999998887776655666655556777777643 3677776
No 80
>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=40.86 E-value=51 Score=20.40 Aligned_cols=46 Identities=20% Similarity=0.182 Sum_probs=24.5
Q ss_pred HHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 61 LDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 61 ~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
...+..++.+|+|++..-..|-.-..++...+...++.... +||++
T Consensus 68 ~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~-~piil 113 (119)
T PF08477_consen 68 QFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKN-IPIIL 113 (119)
T ss_dssp HHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSC-SEEEE
T ss_pred cchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCC-CCEEE
Confidence 34589999999999766433322223333223333322222 77665
No 81
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=40.52 E-value=1.7e+02 Score=22.51 Aligned_cols=17 Identities=18% Similarity=0.114 Sum_probs=8.2
Q ss_pred cchHHHHHHHHccCCcc
Q 041158 27 DNFTSHLYSALCHNNIE 43 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~ 43 (118)
+.++..+.+.|+..|.+
T Consensus 162 ~~~~~~~~~~l~~~G~~ 178 (366)
T COG0683 162 EGLADAFKAALKALGGE 178 (366)
T ss_pred hhHHHHHHHHHHhCCCe
Confidence 34444445555555544
No 82
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=39.37 E-value=59 Score=21.48 Aligned_cols=46 Identities=17% Similarity=0.333 Sum_probs=28.5
Q ss_pred ccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEeec
Q 041158 54 DEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCRV 109 (118)
Q Consensus 54 ~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~v 109 (118)
+.+.+.+.+.+.+-++.|++++.+.++ ++...++..+ .++|..+.+
T Consensus 46 eei~~~~~~~l~~~digIIlIte~~a~------~i~~~I~~~~----~~~PaIieI 91 (115)
T TIGR01101 46 SEIEDCFNRFLKRDDIAIILINQHIAE------MIRHAVDAHT----RSIPAVLEI 91 (115)
T ss_pred HHHHHHHHHHhhcCCeEEEEEcHHHHH------HhHHHHHhcC----CcCCEEEEE
Confidence 445556666677889999999987665 3333333222 466666544
No 83
>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=39.37 E-value=1.2e+02 Score=20.33 Aligned_cols=38 Identities=21% Similarity=0.245 Sum_probs=16.9
Q ss_pred chHHHHHHHHccCCcceEEeCC-CCC-----CccchHHHHHHHH
Q 041158 28 NFTSHLYSALCHNNIETFIDND-LKR-----GDEISQSLLDTIE 65 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~-~~~-----G~~~~~~i~~~i~ 65 (118)
.+...+.+.+.+..-++++-.- +.+ +..+.+.+.++.+
T Consensus 21 ~~~~~i~~~I~~A~~~I~i~~~~~~~~~~~~~~~l~~~L~~a~~ 64 (176)
T cd00138 21 SDLDALLEAISNAKKSIYIASFYLSPLITEYGPVILDALLAAAR 64 (176)
T ss_pred hHHHHHHHHHHhhheEEEEEEeEecccccccchHHHHHHHHHHH
Confidence 3445555555544333443322 333 3444445555444
No 84
>PF12913 SH3_6: SH3 domain of the SH3b1 type; PDB: 3M1U_B.
Probab=39.20 E-value=17 Score=20.81 Aligned_cols=15 Identities=13% Similarity=0.310 Sum_probs=11.7
Q ss_pred EEEEeeeccCccchH
Q 041158 16 IFLSFRGEDTRDNFT 30 (118)
Q Consensus 16 VFISys~~D~~~~fv 30 (118)
|+|+|.++|..+.||
T Consensus 29 v~i~H~S~D~~W~fV 43 (54)
T PF12913_consen 29 VYILHTSRDGAWAFV 43 (54)
T ss_dssp EEEEEE-TTSSEEEE
T ss_pred EEEEEECCCCCEEEE
Confidence 899999999876665
No 85
>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=38.25 E-value=56 Score=19.67 Aligned_cols=36 Identities=14% Similarity=0.113 Sum_probs=26.2
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDN 48 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~ 48 (118)
.+--|+|.|--.+- ...-.++.+.|.++|+.|+.-+
T Consensus 15 ~k~~v~i~HG~~eh-~~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEH-SGRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHH-HHHHHHHHHHHHhCCCEEEEEC
Confidence 46778998854432 2456789999999999999643
No 86
>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=38.18 E-value=1.1e+02 Score=20.25 Aligned_cols=46 Identities=7% Similarity=0.021 Sum_probs=29.1
Q ss_pred HHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 58 QSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
+.+.+.+..++++|+|++.+- .|...+...+.+.......+.|-|+
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 457778889999999997766 4454455555554444444455443
No 87
>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=37.94 E-value=50 Score=22.11 Aligned_cols=46 Identities=11% Similarity=0.091 Sum_probs=26.6
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC-ccchHHHHHHHHhcCeEEEE
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISIII 73 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~~I~v 73 (118)
.....|.+.|++.|+.+....-+... +.+.+.+.+++++++++|..
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 34557888899999887643222222 23445555555555555443
No 88
>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=37.79 E-value=1e+02 Score=21.69 Aligned_cols=50 Identities=20% Similarity=0.166 Sum_probs=30.0
Q ss_pred eeeEEEEeeeccCc--cchHHHHHHHHccCCcceEEeCCCC-CCccchHHHHHH
Q 041158 13 KHGIFLSFRGEDTR--DNFTSHLYSALCHNNIETFIDNDLK-RGDEISQSLLDT 63 (118)
Q Consensus 13 ~~dVFISys~~D~~--~~fv~~L~~~L~~~Gi~v~~d~~~~-~G~~~~~~i~~~ 63 (118)
...||+.|...|.- ..++..+.+.|++.|.++-+.. .. .|..+..+..+.
T Consensus 155 ~~pi~~~hG~~D~vvp~~~~~~~~~~L~~~~~~v~~~~-~~g~gH~i~~~~~~~ 207 (216)
T PF02230_consen 155 KTPILIIHGDEDPVVPFEWAEKTAEFLKAAGANVEFHE-YPGGGHEISPEELRD 207 (216)
T ss_dssp TS-EEEEEETT-SSSTHHHHHHHHHHHHCTT-GEEEEE-ETT-SSS--HHHHHH
T ss_pred CCcEEEEecCCCCcccHHHHHHHHHHHHhcCCCEEEEE-cCCCCCCCCHHHHHH
Confidence 45699999888863 3567889999999998765433 34 566665444433
No 89
>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=37.61 E-value=1.5e+02 Score=22.65 Aligned_cols=9 Identities=11% Similarity=0.209 Sum_probs=3.6
Q ss_pred HHHHHHHHh
Q 041158 58 QSLLDTIEA 66 (118)
Q Consensus 58 ~~i~~~i~~ 66 (118)
+.+.++++.
T Consensus 172 ~~~~~~~~~ 180 (377)
T cd06379 172 KRFETLLEE 180 (377)
T ss_pred HHHHHHHHh
Confidence 334444443
No 90
>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=37.28 E-value=67 Score=24.96 Aligned_cols=26 Identities=12% Similarity=-0.171 Sum_probs=14.7
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG 53 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G 53 (118)
..+..+.+.|++.|+.+-....+..+
T Consensus 151 ~~~~~~~~~~~~~g~~iv~~~~~~~~ 176 (404)
T cd06370 151 SVFETLKEEAELRNITISHVEYYADF 176 (404)
T ss_pred HHHHHHHHHHHHcCCEEEEEEEECCC
Confidence 45566666666667666443334444
No 91
>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=36.81 E-value=1e+02 Score=23.71 Aligned_cols=67 Identities=19% Similarity=0.294 Sum_probs=37.6
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHh--c-CeEEEEecCCccC--chhhHHHHHHHHHh
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEA--S-TISIIIFSERYAS--SGWCLDELLKILEC 94 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~--s-~~~I~v~S~~~~~--S~wc~~El~~~~~~ 94 (118)
..+..|.+.|...|..+-..-.+..|....++..+.+.+ + +++++.+.|.|.. ..-+.+++..++..
T Consensus 73 ~qa~~l~~~L~~~~~~~~V~~amry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS~~ttgs~~~~~~~~~~~ 144 (316)
T PF00762_consen 73 RQAEALQQRLDERGVDVEVYYAMRYGPPSIEDALEELKADGVDRIVVLPLYPQYSSSTTGSYLDEVERALKK 144 (316)
T ss_dssp HHHHHHHHHHHHH-EEEEEEEEESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--TTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCeeEEEEeccCCCCHHHHHHHHHHcCCCeEEEEeCCCchhHhhHHHHHHHHHHHHHh
Confidence 456677777776643322222267777766666666663 3 3567778888874 44455666665543
No 92
>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=36.22 E-value=1.2e+02 Score=19.73 Aligned_cols=47 Identities=11% Similarity=0.089 Sum_probs=19.9
Q ss_pred HHHHHHccCCcceE-EeCCCCCCccchHHHHHHHHhc---CeEEEEecCCcc
Q 041158 32 HLYSALCHNNIETF-IDNDLKRGDEISQSLLDTIEAS---TISIIIFSERYA 79 (118)
Q Consensus 32 ~L~~~L~~~Gi~v~-~d~~~~~G~~~~~~i~~~i~~s---~~~I~v~S~~~~ 79 (118)
.+..+++...+-++ +|-+-..+. ....+.+.+... .-.|+++++.=.
T Consensus 4 ~~~~~i~~aD~vl~ViD~~~p~~~-~~~~l~~~l~~~~~~k~~iivlNK~DL 54 (141)
T cd01857 4 QLWRVVERSDIVVQIVDARNPLLF-RPPDLERYVKEVDPRKKNILLLNKADL 54 (141)
T ss_pred HHHHHHhhCCEEEEEEEccCCccc-CCHHHHHHHHhccCCCcEEEEEechhc
Confidence 34555555443333 343311111 122444444432 345666665433
No 93
>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=36.13 E-value=58 Score=22.86 Aligned_cols=52 Identities=10% Similarity=0.013 Sum_probs=29.5
Q ss_pred HHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhC---CCEEEEEEeecCCCCc
Q 041158 60 LLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVY---GQIVIPVFCRVDPSHV 114 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~---~~~iiPI~~~v~p~~v 114 (118)
...+++.++++|+|++.+ +++..+++....+...+. ...-+|+++-..+.|+
T Consensus 74 ~~~~~~~ad~iilv~D~~---~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl 128 (198)
T cd04142 74 RFRGLRNSRAFILVYDIC---SPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQ 128 (198)
T ss_pred HHhhhccCCEEEEEEECC---CHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccc
Confidence 445688999999999976 344444444333322111 1223677765555555
No 94
>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=35.71 E-value=1.6e+02 Score=24.78 Aligned_cols=64 Identities=13% Similarity=0.074 Sum_probs=42.0
Q ss_pred CeeeEEEEeeecc-CccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 12 NKHGIFLSFRGED-TRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 12 ~~~dVFISys~~D-~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
..++|+|-.-..+ .....+..|.+.|++.|++|.+|.. |. +..++..+=+.---+++++.++-+
T Consensus 456 AP~kV~VIpl~~~~el~~~A~eIa~~LR~~GI~VeiD~s---~s-IGKq~rrADeiGiPf~IIIG~~El 520 (551)
T TIGR00389 456 APIKVAVLPLVNKEELKEIAKEIFQALRKTGIRIKYDDS---GT-IGKRYRRADEIGTPFCVTIDFETL 520 (551)
T ss_pred CCceEEEEEecCcHHHHHHHHHHHHHHHHCCCEEEEECC---CC-HHHHHHHHHHcCCCEEEEECCchh
Confidence 4678877664432 2246788999999999999998863 33 655666655444445666665543
No 95
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=35.67 E-value=91 Score=23.62 Aligned_cols=75 Identities=21% Similarity=0.309 Sum_probs=50.9
Q ss_pred HHHHHccCCcceEEeCCCCCCcc-----chHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 33 LYSALCHNNIETFIDNDLKRGDE-----ISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 33 L~~~L~~~Gi~v~~d~~~~~G~~-----~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
++..|. .+++++.|-..+.|.. +.+...+.+++...==+|+|-.--.++=-.+||..+.+... .|||.
T Consensus 138 ~r~~L~-~~v~vlADv~VKHa~~l~~~~~~~~v~dtver~~aDaVI~tG~~TG~~~d~~el~~a~~~~~------~pvlv 210 (263)
T COG0434 138 YRARLG-SRVKVLADVHVKHAVHLGNRSLEEAVKDTVERGLADAVIVTGSRTGSPPDLEELKLAKEAVD------TPVLV 210 (263)
T ss_pred HHHhcc-CCcEEEeecchhcccccCCcCHHHHHHHHHHccCCCEEEEecccCCCCCCHHHHHHHHhccC------CCEEE
Confidence 334444 6799999976666654 44555666777666667778888888888899888765222 88887
Q ss_pred e--cCCCCc
Q 041158 108 R--VDPSHV 114 (118)
Q Consensus 108 ~--v~p~~v 114 (118)
. +.+.++
T Consensus 211 GSGv~~eN~ 219 (263)
T COG0434 211 GSGVNPENI 219 (263)
T ss_pred ecCCCHHHH
Confidence 4 555444
No 96
>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=35.45 E-value=1.4e+02 Score=20.10 Aligned_cols=53 Identities=15% Similarity=0.021 Sum_probs=29.8
Q ss_pred HHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEeecCCCCc
Q 041158 60 LLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCRVDPSHV 114 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~v~p~~v 114 (118)
....+..++.+|++++.+-..|--...++...+...+. ..=+|+++-..+.|+
T Consensus 67 ~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~--~~~~piilvgNK~Dl 119 (172)
T cd04141 67 RDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRL--TEDIPLVLVGNKVDL 119 (172)
T ss_pred hHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcC--CCCCCEEEEEEChhh
Confidence 34467788899999887766654444444333332211 112576665555555
No 97
>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=35.40 E-value=23 Score=29.56 Aligned_cols=65 Identities=15% Similarity=0.293 Sum_probs=40.9
Q ss_pred CeeeEEEEee-ecc-CccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 12 NKHGIFLSFR-GED-TRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 12 ~~~dVFISys-~~D-~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
-.|+|=|--- .+| .....+.+|++.|+..|++|.+|++ -.+|..+.+.-.-++ - ..+++.++.+.
T Consensus 472 AP~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~dadliGi---P-~~i~vG~~~l~ 539 (568)
T TIGR00409 472 APYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFADSELIGI---P-LRVVVGKKNLD 539 (568)
T ss_pred CCeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHhhhhcCC---C-EEEEECCCccc
Confidence 4577765432 222 2346889999999999999999987 667776654322121 1 35556666543
No 98
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=35.30 E-value=58 Score=19.00 Aligned_cols=31 Identities=13% Similarity=0.159 Sum_probs=23.1
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEEe
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFID 47 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d 47 (118)
.+.|+++..+ ..+++.+...|...|+..-+.
T Consensus 21 ~~~i~~~~~s--~~ll~~v~~lL~~lGi~~~i~ 51 (77)
T PF14528_consen 21 SVRISISSKS--KELLEDVQKLLLRLGIKASIY 51 (77)
T ss_dssp EEEEEEEES---HHHHHHHHHHHHHTT--EEEE
T ss_pred EEEEEEEECC--HHHHHHHHHHHHHCCCeeEEE
Confidence 5778887776 479999999999999987654
No 99
>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=35.11 E-value=1.2e+02 Score=22.57 Aligned_cols=41 Identities=22% Similarity=0.238 Sum_probs=22.8
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCC---ccchHHHHHHHHhcC
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRG---DEISQSLLDTIEAST 68 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G---~~~~~~i~~~i~~s~ 68 (118)
...+..+.+.++..|+.+-....+..+ ..+. .+.+.|+.+.
T Consensus 174 ~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~-~~l~~l~~~~ 217 (348)
T cd06350 174 RSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIK-RILKKLKSST 217 (348)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHH-HHHHHHHhCC
Confidence 456667777777777766443335554 2233 4455555554
No 100
>PF03481 SUA5: Putative GTP-binding controlling metal-binding; InterPro: IPR005145 The function of this domain is unknown, it is found in P32579 from SWISSPROT and its relatives. It is found C-terminal to the IPR006070 from INTERPRO.; PDB: 2EQA_A 3AJE_A 4E1B_A 2YV4_A.
Probab=35.08 E-value=92 Score=20.32 Aligned_cols=53 Identities=11% Similarity=0.220 Sum_probs=31.9
Q ss_pred eeEEEEeeeccCccchHHHHHHHHc---cCCcceEEeCCCCCCccchHHHHHHHHhc
Q 041158 14 HGIFLSFRGEDTRDNFTSHLYSALC---HNNIETFIDNDLKRGDEISQSLLDTIEAS 67 (118)
Q Consensus 14 ~dVFISys~~D~~~~fv~~L~~~L~---~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s 67 (118)
++.+++.+-.++-...+..|+..|+ +.|+.+-+-+.+ +...+...|.+.|.++
T Consensus 68 ~~~~~~l~~~~d~~~~A~~Lf~~LR~~D~~~~~~I~ie~~-~~~~~g~Ai~dRL~RA 123 (125)
T PF03481_consen 68 FDIVYSLSLPGDPEEAARNLFAALRELDELGVDLILIEGP-PETGLGLAIMDRLRRA 123 (125)
T ss_dssp GSEEEEEESTTSHHHHHHHHHHHHHHHHHTT-SEEEEEEE-SGCCCHHHHHHHHHHH
T ss_pred cceEEEecCCCCHHHHHHHHHHHHHHHhhcCCCEEEEeeC-CCcCcHHHHHHHHHHh
Confidence 3555555543333579999999986 467766543332 3445556777777654
No 101
>PF06856 DUF1251: Protein of unknown function (DUF1251); InterPro: IPR009661 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf17; it is a family of uncharacterised viral proteins.
Probab=34.99 E-value=40 Score=22.58 Aligned_cols=62 Identities=16% Similarity=0.237 Sum_probs=36.9
Q ss_pred CCCCCCeeeEEEEeeeccCc--cchH-HHHHHHHccC-CcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCch
Q 041158 7 SPRNSNKHGIFLSFRGEDTR--DNFT-SHLYSALCHN-NIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSG 82 (118)
Q Consensus 7 ~~~~~~~~dVFISys~~D~~--~~fv-~~L~~~L~~~-Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~ 82 (118)
...+.-.||-|+++ .|+. ..|+ ..|.+..+.+ |.+| ..+.++|++..++=+.+-+-++.+.
T Consensus 54 ~~~~~i~FDGF~d~--~DE~~T~PFvv~~L~~l~~~~~~l~V-------------r~ma~ame~~tvLkifINEAi~~~~ 118 (120)
T PF06856_consen 54 DKQRPIVFDGFPDE--DDEGKTVPFVVGPLNSLRENHAGLKV-------------RDMAKAMESQTVLKIFINEAIIPRR 118 (120)
T ss_pred CCCCceEECCCCCc--cccccccccEeehhhhhhhhhcCccH-------------HHHHHHhcCCcEEEEEEeeeEcccc
Confidence 34455678889888 4432 2444 4454444443 4444 2567788887777666766666655
Q ss_pred h
Q 041158 83 W 83 (118)
Q Consensus 83 w 83 (118)
|
T Consensus 119 ~ 119 (120)
T PF06856_consen 119 W 119 (120)
T ss_pred C
Confidence 5
No 102
>PRK07933 thymidylate kinase; Validated
Probab=34.85 E-value=1.2e+02 Score=21.77 Aligned_cols=30 Identities=20% Similarity=0.231 Sum_probs=22.1
Q ss_pred EEEeeeccCc--cchHHHHHHHHccCCcceEE
Q 041158 17 FLSFRGEDTR--DNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 17 FISys~~D~~--~~fv~~L~~~L~~~Gi~v~~ 46 (118)
||.+-|-|.. ...+..|.+.|+.+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 6777666542 46788899999988887764
No 103
>COG0399 WecE Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]
Probab=34.65 E-value=2.4e+02 Score=22.51 Aligned_cols=68 Identities=18% Similarity=0.134 Sum_probs=41.5
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYG 99 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~ 99 (118)
-.|+......|......||.|-+...+.--.+.|.++|......|+++ ++...+- ++..+.+..++.+
T Consensus 82 ~TfvATan~i~~~Ga~PVFvDid~~T~nid~~~ie~aIt~~tKAIipV--hl~G~~~---dm~~i~~la~~~~ 149 (374)
T COG0399 82 FTFVATANAVLLVGAKPVFVDIDPDTLNIDPDLIEAAITPRTKAIIPV--HLAGQPC---DMDAIMALAKRHG 149 (374)
T ss_pred CchHHHHHHHHHcCCeEEEEecCCcccCCCHHHHHHHcccCCeEEEEe--hhccCCC---CHHHHHHHHHHcC
Confidence 468888888888766778888764444433468888998866555543 4444333 4444444444444
No 104
>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=34.64 E-value=95 Score=25.29 Aligned_cols=65 Identities=9% Similarity=-0.002 Sum_probs=39.7
Q ss_pred CCCCeeeEEEEee--ec---cCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 9 RNSNKHGIFLSFR--GE---DTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 9 ~~~~~~dVFISys--~~---D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
.....++|+|--- .+ +.....+..|.+.|++.|++|-+|.+ -.+|.. +.++-..---+++++.++
T Consensus 278 ~~iaP~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~gkk----~k~Ae~~GvP~~IiIG~~ 348 (472)
T TIGR00408 278 PRVAPIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPGRK----FYQWEIKGIPLRIEVGPN 348 (472)
T ss_pred hhhCcceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHH----HHHHHHCCCCEEEEECcc
Confidence 3445688988642 21 12246789999999999999999875 444444 333333322345555554
No 105
>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms. Cleavage of aromatic rings is one of the most important functions of dioxygenases, which play key roles in the degradation of aromatic compounds. The substrates of ring-cleavage dioxygenases can be classified into two groups according to the mode of scission of the aromatic ring. Intradiol enzymes (IPR000627 from INTERPRO) use a non-haem Fe(III) to cleave the aromatic ring between two hydroxyl groups (ortho-cleavage), whereas extradiol enzymes use a non-haem Fe(II) to cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon (meta-cleavage) [, ]. These two subfamilies differ in sequence, structural fold, iron ligands, and the orientation of second sphere active site amino acid residues. Extradiol dioxygenases are usually homo-multimeric, bind one atom of ferrous ion per subunit and have a subunit size of about 33 kDa. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes (IPR000486 from INTERPRO) show sequence similarity, with the two-domain class II enzymes having evolved from a class I enzyme through gene duplication. Class III enzymes are different in sequence and structure, but they do share several common active-site characteristics with the class II enzymes, in particular the coordination sphere and the disposition of the putative catalytic base are very similar. Class III enzymes usually have two subunits, designated A and B. Enzymes that belong to the extradiol class III family include Protocatechuate 4,5-dioxygenase (4,5-PCD; LigAB) (1.13.11.8 from EC) []; and 2'-aminobiphenyl-2,3-diol 1,2-dioxygenase (CarBaBb) []. The crystal structure of dioxygenase LigAB revealed that the molecule is an alpha2beta2 tetramer. The active site contains a non-heme iron coordinated by His12, His61, Glu242, and a water molecule located in a deep cleft of the beta subunit, which is covered by the alpha subunit []. This entry represents the structural domain of subunit B.; GO: 0008198 ferrous iron binding, 0016491 oxidoreductase activity, 0006725 cellular aromatic compound metabolic process; PDB: 2PW6_A 1B4U_D 1BOU_B.
Probab=33.83 E-value=1.9e+02 Score=21.25 Aligned_cols=68 Identities=13% Similarity=0.091 Sum_probs=40.5
Q ss_pred cchHHHHHHHHccCCcceEEeCC--CCCCccchHHHHHHHHhcCeEEEEecCCc----cCchhhHHHHHHHHHhhh
Q 041158 27 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIEASTISIIIFSERY----ASSGWCLDELLKILECKH 96 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~--~~~G~~~~~~i~~~i~~s~~~I~v~S~~~----~~S~wc~~El~~~~~~~~ 96 (118)
..++.+|.+.|.+.|+.+=.+.+ +-.|--.. +.-.-.+.++=|+-+|-+. ..+.--..+|..++....
T Consensus 96 ~~la~~i~~~l~~~g~~~~~~~~~~lDHG~~vP--L~~l~p~~~~Pvv~is~~~~~~p~~~~~~~~~lG~aL~~~~ 169 (272)
T PF02900_consen 96 PELAERIAEHLRKAGFDVAASPERGLDHGVWVP--LYFLFPDADIPVVPISINSFAPPSPSPERHYRLGRALRKAR 169 (272)
T ss_dssp HHHHHHHHHHHHHTTS-EEECSS--B-HHHHHH--HHHHCTT-SSEEEEEEEETSSS-TS-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCCEEeccCcCCcccccee--eeecccccCcceeeeEeecccccCCCHHHHHHHHHHHHHHH
Confidence 47999999999999998643333 44554332 1112224466666666665 566666778888886544
No 106
>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=33.80 E-value=1.6e+02 Score=22.18 Aligned_cols=29 Identities=24% Similarity=0.082 Sum_probs=22.5
Q ss_pred CCccCchhhHHHHHHHHHhhhhCCCEEEE
Q 041158 76 ERYASSGWCLDELLKILECKHVYGQIVIP 104 (118)
Q Consensus 76 ~~~~~S~wc~~El~~~~~~~~~~~~~iiP 104 (118)
.+|..-+-|.+||..+-+..++.+-++|=
T Consensus 213 s~Ya~~~~i~~El~~A~~l~~~~~~pvId 241 (255)
T PF03618_consen 213 SSYADLERIEEELEYAERLFRKLGCPVID 241 (255)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHcCCCEEE
Confidence 57888899999999998876666655553
No 107
>PLN02449 ferrochelatase
Probab=33.69 E-value=2.1e+02 Score=23.71 Aligned_cols=63 Identities=19% Similarity=0.319 Sum_probs=37.5
Q ss_pred chHHHHHHHHccCC--cceEEeCCCCCCccchHHHHHHHHh---cCeEEEEecCCccC--chhhHHHHHHHH
Q 041158 28 NFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEA---STISIIIFSERYAS--SGWCLDELLKIL 92 (118)
Q Consensus 28 ~fv~~L~~~L~~~G--i~v~~d~~~~~G~~~~~~i~~~i~~---s~~~I~v~S~~~~~--S~wc~~El~~~~ 92 (118)
.-+..|.++|.+.| +.|++. |..|..+.++..+.+.+ -+++++.+-|.|.. +.-+.+.+..+.
T Consensus 164 ~Qa~~Lq~~L~~~~~~~~V~~a--MRY~~P~iedal~~l~~~G~~~iVvLPLYPQyS~sTtgSs~~~l~~~~ 233 (485)
T PLN02449 164 EQAEALAKALEAKNLPAKVYVG--MRYWHPFTEEAIDQIKADGITKLVVLPLYPQFSISTSGSSLRLLESIF 233 (485)
T ss_pred HHHHHHHHHHhccCCCeEEEEh--hhcCCCCHHHHHHHHHhcCCCeEEEEECCcccccccHHHHHHHHHHHH
Confidence 34567777787666 445443 66676666666666653 33567778888753 344455555544
No 108
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=33.58 E-value=93 Score=24.65 Aligned_cols=55 Identities=13% Similarity=0.239 Sum_probs=39.9
Q ss_pred EEeee--ccCccchHHHHHHHHccCCcceEEeCC-CCC----CccchHHHHHHHHhcCeEEE
Q 041158 18 LSFRG--EDTRDNFTSHLYSALCHNNIETFIDND-LKR----GDEISQSLLDTIEASTISII 72 (118)
Q Consensus 18 ISys~--~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~----G~~~~~~i~~~i~~s~~~I~ 72 (118)
++|.. .|.+.+=+-.|.+.|..+|..|...+- +.. |-.+.++..++++.|+.+|+
T Consensus 304 lafK~~t~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 304 LIMKSGSDNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred ceeCCCCCccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 45642 466778888999999999988876443 222 45566788889999998776
No 109
>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=33.44 E-value=1.7e+02 Score=21.86 Aligned_cols=53 Identities=6% Similarity=-0.083 Sum_probs=31.5
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCc-cchHHHHHHHHhcC
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGD-EISQSLLDTIEAST 68 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~-~~~~~i~~~i~~s~ 68 (118)
.|.+-|...+-.+.+...+.+.|+++|+++-....+.+|. ++...+. .|..+.
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~~ 191 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQ-RLLDAL 191 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHH-HHHhcC
Confidence 3555554333335677788888888898886554466664 3554444 444443
No 110
>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=33.29 E-value=40 Score=25.09 Aligned_cols=25 Identities=20% Similarity=0.306 Sum_probs=18.6
Q ss_pred CchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 041158 80 SSGWCLDELLKILECKHVYGQIVIPVFCR 108 (118)
Q Consensus 80 ~S~wc~~El~~~~~~~~~~~~~iiPI~~~ 108 (118)
.|+|++.+|....+. +.+||||+=+
T Consensus 106 fs~r~~rdL~~la~~----R~NIiPIl~D 130 (229)
T PF01269_consen 106 FSPRSMRDLLNLAKK----RPNIIPILED 130 (229)
T ss_dssp SSHHHHHHHHHHHHH----STTEEEEES-
T ss_pred ecchhHHHHHHHhcc----CCceeeeecc
Confidence 488999999876653 4479999854
No 111
>PRK08350 hypothetical protein; Provisional
Probab=33.18 E-value=31 Score=27.15 Aligned_cols=34 Identities=18% Similarity=0.108 Sum_probs=28.2
Q ss_pred CCCeeeEEEEeeeccCccchHHHHHHHHccCCcc
Q 041158 10 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIE 43 (118)
Q Consensus 10 ~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~ 43 (118)
+...|-+.+|||+.+++..|+.+|.-+|...-++
T Consensus 278 ~~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 278 KSERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HHcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 4557889999999888889999999999865454
No 112
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=33.13 E-value=1.4e+02 Score=19.30 Aligned_cols=34 Identities=6% Similarity=0.099 Sum_probs=20.9
Q ss_pred chHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHH
Q 041158 56 ISQSLLDTIEASTISIIIFSERYASSGWCLDELLKIL 92 (118)
Q Consensus 56 ~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~ 92 (118)
+.......+..++.+|++++.+ .++..+++...+
T Consensus 62 ~~~~~~~~~~~~d~~ilv~d~~---~~~s~~~~~~~l 95 (164)
T smart00175 62 FRSITSSYYRGAVGALLVYDIT---NRESFENLKNWL 95 (164)
T ss_pred HHHHHHHHhCCCCEEEEEEECC---CHHHHHHHHHHH
Confidence 3334455677889899998864 344555554433
No 113
>PRK11263 cardiolipin synthase 2; Provisional
Probab=33.10 E-value=81 Score=25.25 Aligned_cols=14 Identities=7% Similarity=0.413 Sum_probs=7.9
Q ss_pred chHHHHHHHHccCC
Q 041158 28 NFTSHLYSALCHNN 41 (118)
Q Consensus 28 ~fv~~L~~~L~~~G 41 (118)
++-..+.+++++.-
T Consensus 18 e~~~~l~~~I~~Ak 31 (411)
T PRK11263 18 QYYPRVFEAIAAAQ 31 (411)
T ss_pred HHHHHHHHHHHHhC
Confidence 45566666665443
No 114
>PF01212 Beta_elim_lyase: Beta-eliminating lyase; InterPro: IPR001597 This domain is found in many tryptophanases (tryptophan indole-lyase, TNase), tyrosine phenol-lyases (TPL) and threonine aldolases. It is involved in the degradation of amino acids. The glycine cleavage system is composed of four proteins: P, T, L and H. In Bacillus subtilis, the P 'protein' is an heterodimer of two subunits. The glycine cleavage system catalyses the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO(2) is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein; GO: 0016829 lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3PJ0_C 2C44_C 2V0Y_A 2OQX_A 2V1P_A 1AX4_B 3LWS_A 1C7G_A 1V72_A 2YHK_B ....
Probab=33.07 E-value=2.2e+02 Score=21.59 Aligned_cols=53 Identities=21% Similarity=0.327 Sum_probs=33.4
Q ss_pred CccchHHHHHHHHh-----cCeEEEEecCCcc---CchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 041158 53 GDEISQSLLDTIEA-----STISIIIFSERYA---SSGWCLDELLKILECKHVYGQIVIPVFCR 108 (118)
Q Consensus 53 G~~~~~~i~~~i~~-----s~~~I~v~S~~~~---~S~wc~~El~~~~~~~~~~~~~iiPI~~~ 108 (118)
|.--.+.|..+++. .+..++.++..-. ...|.++||..+.+..++++ +|++++
T Consensus 104 G~l~~~~l~~~~~~~~~h~~~~~~v~le~t~~~~GG~~~s~~el~ai~~~a~~~g---l~lhmD 164 (290)
T PF01212_consen 104 GKLTPEDLEAAIEEHGAHHPQPAVVSLENTTELAGGTVYSLEELRAISELAREHG---LPLHMD 164 (290)
T ss_dssp TBB-HHHHHHHHHHHTGTSGGEEEEEEESSBTTTTSB---HHHHHHHHHHHHHHT----EEEEE
T ss_pred CCCCHHHHHHHhhhccccCCCccEEEEEecCcCCCCeeCCHHHHHHHHHHHHhCc---eEEEEe
Confidence 44445678888887 5556665555544 67899999999998776655 666665
No 115
>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=33.07 E-value=97 Score=24.20 Aligned_cols=62 Identities=21% Similarity=0.427 Sum_probs=37.6
Q ss_pred EEEEeeeccCccchHH--HHHHHHccCCcceEEe-----CCCCCCccc-hHHHHHHHHhcCeEEEEecCCcc
Q 041158 16 IFLSFRGEDTRDNFTS--HLYSALCHNNIETFID-----NDLKRGDEI-SQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 16 VFISys~~D~~~~fv~--~L~~~L~~~Gi~v~~d-----~~~~~G~~~-~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
+|+.|.+.+. .... .+.+.+.+....||.= +....|..+ .......+.+-...|.+++|.+.
T Consensus 176 ~FlNY~W~~~--~l~~s~~~a~~~g~~~~dvy~GiDv~grg~~~~~~~~~~~~~~~~~~~~~Svalfap~W~ 245 (339)
T cd06547 176 IFLNYWWTEE--SLERSVQLAEGLGRSPYDVYVGVDVWGRGTKGGGGWNSDKALDEIKKAGLSVALFAPGWT 245 (339)
T ss_pred eeEecCCCcc--hHHHHHHHHHHcCCCHhHEEEEEEEEcCCcccCCCCchhhhhhhhcccCeEEEEEcCcch
Confidence 7999998764 2332 3455555443444431 113333344 34666788889999999999854
No 116
>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=32.98 E-value=2.3e+02 Score=21.87 Aligned_cols=17 Identities=6% Similarity=-0.025 Sum_probs=11.1
Q ss_pred HHHHHHHHccCCcceEE
Q 041158 30 TSHLYSALCHNNIETFI 46 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~~ 46 (118)
+..|.+.|+..|+.+-.
T Consensus 157 ~~~l~~~~~~~gi~v~~ 173 (387)
T cd06386 157 LEGVHHVFQEEGYHMSI 173 (387)
T ss_pred HHHHHHHHHhcCceEEE
Confidence 56666777777766644
No 117
>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=32.89 E-value=2.1e+02 Score=21.33 Aligned_cols=84 Identities=12% Similarity=0.088 Sum_probs=49.3
Q ss_pred EEeeeccCccchHHHHHHHHccCCcceEE--eCC--CCCCccchHHHHHHHHhcCeEEEEecCC-ccCchhhHHHHHHHH
Q 041158 18 LSFRGEDTRDNFTSHLYSALCHNNIETFI--DND--LKRGDEISQSLLDTIEASTISIIIFSER-YASSGWCLDELLKIL 92 (118)
Q Consensus 18 ISys~~D~~~~fv~~L~~~L~~~Gi~v~~--d~~--~~~G~~~~~~i~~~i~~s~~~I~v~S~~-~~~S~wc~~El~~~~ 92 (118)
+.|.-.- ...++..|.+.|...|+.+-. +.. +-.|--..-.... .+.++-++.+|=+ ..-+.....+|..++
T Consensus 79 ~~y~~~g-~~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~--p~~~ipvV~vs~~~~~~~~~~~~~lG~al 155 (268)
T cd07371 79 LDYSINV-DVELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLMR--PGTDIPPVVISANNLYLSGEETEGEMDLA 155 (268)
T ss_pred eeecCCC-CHHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHhc--CCCCCCeEEEEecCcCCCHHHHHHHHHHH
Confidence 4553322 247999999999999998875 222 4555544322211 2355556666633 235677777898888
Q ss_pred H-hhhhCCCEEEE
Q 041158 93 E-CKHVYGQIVIP 104 (118)
Q Consensus 93 ~-~~~~~~~~iiP 104 (118)
. ..++.+.++.=
T Consensus 156 ~~~l~~~~~rv~i 168 (268)
T cd07371 156 GKATRDAGKRVAV 168 (268)
T ss_pred HHHHHHcCCcEEE
Confidence 5 33444445443
No 118
>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=32.79 E-value=23 Score=24.99 Aligned_cols=74 Identities=19% Similarity=0.257 Sum_probs=43.4
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHh-hhhCCCEEEEEE
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILEC-KHVYGQIVIPVF 106 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~-~~~~~~~iiPI~ 106 (118)
..+..+..+|.++|++|-+-. -+.+ +.|...+.....--+++|.+|...-|-..+-....+. ....|...||.-
T Consensus 9 KvaraiA~~LC~rgv~V~m~~----~~~y-~~lk~~~~~~~~~~Lv~~~~~~~K~WlVGd~l~~~EQ~~Ap~Gt~Fipfs 83 (164)
T PF12076_consen 9 KVARAIALALCRRGVQVVMLS----KERY-ESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPFS 83 (164)
T ss_pred HHHHHHHHHHHhcCCEEEEec----HHHH-HHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeecc
Confidence 578889999999999997631 1222 3455545444344455677777766644322222222 223677788853
No 119
>smart00646 Ami_3 Ami_3.
Probab=32.57 E-value=61 Score=20.44 Aligned_cols=48 Identities=13% Similarity=0.311 Sum_probs=24.3
Q ss_pred CCCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCC---CCCccchHHHHHHHHh
Q 041158 10 NSNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDL---KRGDEISQSLLDTIEA 66 (118)
Q Consensus 10 ~~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~---~~G~~~~~~i~~~i~~ 66 (118)
+....|+|||.. .|... .. ..+|+.+|+...- ..+..+...|...+.+
T Consensus 5 n~~~ad~~iSiH-~Ns~~---~~-----~~~G~~v~~~~~~~~~~~~~~la~~i~~~l~~ 55 (113)
T smart00646 5 NAAKADLFVSIH-ANAGG---AS-----AARGFEVYYYSDKGAIRESRALASIIQKSLVK 55 (113)
T ss_pred HhcCCCEEEEEe-eCCCC---CC-----CCCEEEEEEECCCCCchHHHHHHHHHHHHHHH
Confidence 345667888873 22210 00 1347777775542 3455555555555443
No 120
>PRK12435 ferrochelatase; Provisional
Probab=32.53 E-value=2.3e+02 Score=21.77 Aligned_cols=52 Identities=13% Similarity=0.236 Sum_probs=30.4
Q ss_pred chHHHHHHHHccC--C--cceEEeCCCCCCccchHHHHHHHHh--cC-eEEEEecCCccCc
Q 041158 28 NFTSHLYSALCHN--N--IETFIDNDLKRGDEISQSLLDTIEA--ST-ISIIIFSERYASS 81 (118)
Q Consensus 28 ~fv~~L~~~L~~~--G--i~v~~d~~~~~G~~~~~~i~~~i~~--s~-~~I~v~S~~~~~S 81 (118)
..+..|.+.|... | +.|++. ++.|..+.++..+.+.+ ++ ++++.+.|.|..+
T Consensus 61 ~qa~~L~~~L~~~~~~~~~~V~~a--mry~~P~i~~~l~~l~~~g~~~iv~lpLyPqyS~~ 119 (311)
T PRK12435 61 EQAKALEKALNEVQDEVEFKLYLG--LKHIEPFIEDAVEQMHNDGIEEAISIVLAPHYSTF 119 (311)
T ss_pred HHHHHHHHHHhhccCCCCceEEEE--ecCCCCCHHHHHHHHHHcCCCeEEEEECCCccccc
Confidence 4566777777653 2 455543 56666666555555543 44 4455578887754
No 121
>PF14386 DUF4417: Domain of unknown function (DUF4417)
Probab=32.26 E-value=59 Score=23.46 Aligned_cols=72 Identities=15% Similarity=0.041 Sum_probs=36.9
Q ss_pred cCCcceEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCCcc-CchhhHHHHHH-------HHHhhhhCCCEEEEEEeec
Q 041158 39 HNNIETFIDND-LKRGDEISQSLLDTIEASTISIIIFSERYA-SSGWCLDELLK-------ILECKHVYGQIVIPVFCRV 109 (118)
Q Consensus 39 ~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~-~S~wc~~El~~-------~~~~~~~~~~~iiPI~~~v 109 (118)
..++..|.|+. ++.=-.-. ..-++.-+.+-.|+||||- -+++.+.+-.. +.....+.|..+||-..-.
T Consensus 44 ~~~vhff~~D~~fe~~w~~p---~~~i~~l~~~~~v~tPDfSly~d~P~~~qi~n~yR~r~~g~~~q~~Gi~VIP~v~W~ 120 (200)
T PF14386_consen 44 NKIVHFFVDDYRFERFWNNP---EKYIERLKRFDGVITPDFSLYSDMPRAMQIWNIYRSRWLGAYWQSNGIKVIPNVSWS 120 (200)
T ss_pred CcEEEEeEECHHHHHHHhCH---HHHHHHHHhcCeEeCCCcccccCCCHHHHHHHHHHHHHHHHHHHHCCCeEcceEEec
Confidence 44566677665 65422222 2333444447778999985 22222222211 1111235789999987654
Q ss_pred CCCC
Q 041158 110 DPSH 113 (118)
Q Consensus 110 ~p~~ 113 (118)
.+.+
T Consensus 121 ~~~s 124 (200)
T PF14386_consen 121 DKRS 124 (200)
T ss_pred Ccch
Confidence 4443
No 122
>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=31.96 E-value=52 Score=24.59 Aligned_cols=46 Identities=17% Similarity=0.358 Sum_probs=28.1
Q ss_pred cchHHHHHHHHccCCcce---E-EeCC-CCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 27 DNFTSHLYSALCHNNIET---F-IDND-LKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v---~-~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
-.|...|.+.|...|+++ + .... ...|+.+ .+.+ +++++|+++.+.
T Consensus 123 ~~~l~~L~~~L~~~g~~~ap~~~v~~gRVa~gD~I----ge~L-~a~~vv~LIGER 173 (237)
T PF05985_consen 123 APLLPALLPGLKSAGWSVAPPVLVRQGRVALGDEI----GEAL-GARVVVVLIGER 173 (237)
T ss_dssp HHHHHHHHHHHHTTTS-B---EEEET--TTHHHHH----HHHH-T-SEEEEEEE--
T ss_pred HHHHHHHHHHHHhcCCCcCCeEEEeeceeehhHHH----HHHh-CCCEEEEEEeCC
Confidence 367788999999888764 3 3333 6656554 4444 788888887654
No 123
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=31.92 E-value=1.3e+02 Score=20.20 Aligned_cols=59 Identities=24% Similarity=0.464 Sum_probs=33.7
Q ss_pred EEEEeee-ccCccchHHH-HHHHHccCCc-----ceEEeCC-CCCCc-------cchHHHHHHHHhcCeEEEEe
Q 041158 16 IFLSFRG-EDTRDNFTSH-LYSALCHNNI-----ETFIDND-LKRGD-------EISQSLLDTIEASTISIIIF 74 (118)
Q Consensus 16 VFISys~-~D~~~~fv~~-L~~~L~~~Gi-----~v~~d~~-~~~G~-------~~~~~i~~~i~~s~~~I~v~ 74 (118)
.-+||.| .-+.++|+.. |+++|-..|. ..|+... +.... .+.+.|.+.+..|...++||
T Consensus 54 LVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~I~~~v~~C~rslFIF 127 (127)
T PF06309_consen 54 LVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSWIRGNVSRCPRSLFIF 127 (127)
T ss_pred EEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHHHHHHHHhCCcCeeeC
Confidence 4566643 3345677744 6777777664 4454433 44332 34456666777777777664
No 124
>PLN02866 phospholipase D
Probab=31.85 E-value=1.3e+02 Score=27.41 Aligned_cols=59 Identities=17% Similarity=0.216 Sum_probs=41.8
Q ss_pred CCCCccchHHHHHHHHhcCeEEEE----ecCCcc-C---chhhHHHHHHHHHhhhhCCCEEEEEEee
Q 041158 50 LKRGDEISQSLLDTIEASTISIII----FSERYA-S---SGWCLDELLKILECKHVYGQIVIPVFCR 108 (118)
Q Consensus 50 ~~~G~~~~~~i~~~i~~s~~~I~v----~S~~~~-~---S~wc~~El~~~~~~~~~~~~~iiPI~~~ 108 (118)
+.-|+..-.++.++|++++..|.| ++|.+. - .+.....|..++....+.|-.|--++|+
T Consensus 339 LvDG~dyF~AL~eAIe~AKesI~I~~WwlsPEiYL~Rp~~D~~g~RL~~lL~rKAkrGVkVrVLLyD 405 (1068)
T PLN02866 339 FIDGHAAFEAIASAIENAKSEIFITGWWLCPELYLRRPFHDHESSRLDSLLEAKAKQGVQIYILLYK 405 (1068)
T ss_pred EeCHHHHHHHHHHHHHhcccEEEEEEccCCceEEEEecCCCchHHHHHHHHHHHHHCCCEEEEEEEC
Confidence 345777778999999999999998 776652 1 3455667777776555567776666665
No 125
>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=31.79 E-value=1.4e+02 Score=19.12 Aligned_cols=42 Identities=21% Similarity=0.202 Sum_probs=28.7
Q ss_pred hHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHH-hcCeEEEEecCC
Q 041158 29 FTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE-ASTISIIIFSER 77 (118)
Q Consensus 29 fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~-~s~~~I~v~S~~ 77 (118)
....|..+|++.|+.+-.-.. . +.....++ .+++.-+|++=+
T Consensus 5 ~~~~l~~~L~~~~~~vv~~~~------~-dd~~~~i~~~~~i~avvi~~d 47 (115)
T PF03709_consen 5 ASRELAEALEQRGREVVDADS------T-DDALAIIESFTDIAAVVISWD 47 (115)
T ss_dssp HHHHHHHHHHHTTTEEEEESS------H-HHHHHHHHCTTTEEEEEEECH
T ss_pred HHHHHHHHHHHCCCEEEEeCC------h-HHHHHHHHhCCCeeEEEEEcc
Confidence 567899999999998865321 2 23344444 588888888866
No 126
>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=31.73 E-value=1.4e+02 Score=22.18 Aligned_cols=32 Identities=6% Similarity=-0.142 Sum_probs=16.1
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEE
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~ 46 (118)
.|.|-|...+-...+...+...|++.|+++-.
T Consensus 137 ~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~ 168 (340)
T cd06349 137 KVAILSVNTDWGRTSADIFVKAAEKLGGQVVA 168 (340)
T ss_pred EEEEEecCChHhHHHHHHHHHHHHHcCCEEEE
Confidence 34444433332334555566666666665543
No 127
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=31.63 E-value=1.3e+02 Score=23.77 Aligned_cols=45 Identities=22% Similarity=0.438 Sum_probs=30.1
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHH
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE 65 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~ 65 (118)
.+|+=|.|+..| |+..|.++-- .||.+++|. -|..+.+.....+.
T Consensus 196 GfD~~idyk~~d----~~~~L~~a~P-~GIDvyfeN---VGg~v~DAv~~~ln 240 (340)
T COG2130 196 GFDAGIDYKAED----FAQALKEACP-KGIDVYFEN---VGGEVLDAVLPLLN 240 (340)
T ss_pred CCceeeecCccc----HHHHHHHHCC-CCeEEEEEc---CCchHHHHHHHhhc
Confidence 578999996653 7777776665 699999874 34444445555444
No 128
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=31.25 E-value=2e+02 Score=23.37 Aligned_cols=63 Identities=16% Similarity=0.217 Sum_probs=43.2
Q ss_pred CCeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 11 SNKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 11 ~~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
....||||..-+++. ...+-.|...|+++|+++=++-. +..+..++..|-+.--.+++++..+
T Consensus 333 ~~~~~v~v~~~~~~~-~~~a~~la~~LR~~g~~~~~~~~---~r~~k~q~k~A~~~g~~~~viiGe~ 395 (429)
T COG0124 333 ETRVDVYVVPLGEDA-EPEALKLAQKLRAAGISVEVDYS---GRKLKKQFKYADKLGARFAVILGED 395 (429)
T ss_pred CCCCCEEEEEcCchh-HHHHHHHHHHHHHcCCcEEEEec---cccHHHHHHHHHHCCCCEEEEEcch
Confidence 457899999887765 36788999999999999877542 2226666666666444455555544
No 129
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=31.20 E-value=43 Score=19.14 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=13.6
Q ss_pred hHHHHHHHHccCCcceEEeCC
Q 041158 29 FTSHLYSALCHNNIETFIDND 49 (118)
Q Consensus 29 fv~~L~~~L~~~Gi~v~~d~~ 49 (118)
=+..+...|+.+||.+++...
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 467789999999999998654
No 130
>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=31.19 E-value=1.8e+02 Score=21.49 Aligned_cols=26 Identities=8% Similarity=-0.097 Sum_probs=12.7
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG 53 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G 53 (118)
..+..+...+++.|+++-....+.+|
T Consensus 152 ~~~~~~~~~~~~~G~~vv~~~~~~~~ 177 (312)
T cd06346 152 GLADAFTKAFEALGGTVTNVVAHEEG 177 (312)
T ss_pred HHHHHHHHHHHHcCCEEEEEEeeCCC
Confidence 34455555555566555433224444
No 131
>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=31.06 E-value=38 Score=21.47 Aligned_cols=18 Identities=28% Similarity=0.187 Sum_probs=13.4
Q ss_pred chHHHHHHHHccCCcceE
Q 041158 28 NFTSHLYSALCHNNIETF 45 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~ 45 (118)
.|+..|...|..+|+++=
T Consensus 9 ~fv~~Lk~lLk~rGi~v~ 26 (90)
T PF02337_consen 9 PFVSILKHLLKERGIRVK 26 (90)
T ss_dssp HHHHHHHHHHHCCT----
T ss_pred HHHHHHHHHHHHcCeeec
Confidence 699999999999999874
No 132
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=30.86 E-value=84 Score=20.79 Aligned_cols=46 Identities=17% Similarity=0.167 Sum_probs=29.0
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC-ccchHHHHHHHHhcCeEEEE
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISIII 73 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~~I~v 73 (118)
.-...|.+.|++.|+.+....-+... +.+.+.+.+++++++++|..
T Consensus 17 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~Vitt 63 (144)
T PF00994_consen 17 SNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITT 63 (144)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEE
T ss_pred hHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEc
Confidence 45677889999999987543212222 34556666677777665554
No 133
>KOG3573 consensus Caspase, apoptotic cysteine protease [Cell cycle control, cell division, chromosome partitioning]
Probab=30.77 E-value=34 Score=25.92 Aligned_cols=27 Identities=19% Similarity=0.268 Sum_probs=18.9
Q ss_pred EEEeeeccCccchHHHHHHHHccCCcc
Q 041158 17 FLSFRGEDTRDNFTSHLYSALCHNNIE 43 (118)
Q Consensus 17 FISys~~D~~~~fv~~L~~~L~~~Gi~ 43 (118)
|+||++.+....|+..|.+.|.+++-+
T Consensus 231 ~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 231 YVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred ceeeecCCCceeeHHHHHHHHHHhcch
Confidence 556665555567888888888876654
No 134
>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=30.72 E-value=1.8e+02 Score=19.95 Aligned_cols=16 Identities=6% Similarity=0.102 Sum_probs=11.5
Q ss_pred HHHHhcCeEEEEecCC
Q 041158 62 DTIEASTISIIIFSER 77 (118)
Q Consensus 62 ~~i~~s~~~I~v~S~~ 77 (118)
..+++++.++++++-.
T Consensus 68 ~~~~~a~~iilv~D~t 83 (182)
T cd04128 68 LVCNDAVAILFMFDLT 83 (182)
T ss_pred HHCcCCCEEEEEEECc
Confidence 3566788888888843
No 135
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=30.45 E-value=1.4e+02 Score=18.71 Aligned_cols=25 Identities=4% Similarity=0.037 Sum_probs=18.0
Q ss_pred chHHHHHHHHhcCeEEEEecCCccC
Q 041158 56 ISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 56 ~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
+.......+++++.+|++++.+-..
T Consensus 62 ~~~~~~~~~~~~d~ii~v~d~~~~~ 86 (159)
T cd00154 62 FRSITPSYYRGAHGAILVYDITNRE 86 (159)
T ss_pred HHHHHHHHhcCCCEEEEEEECCCHH
Confidence 4445566778899999999886533
No 136
>COG1736 DPH2 Diphthamide synthase subunit DPH2 [Translation, ribosomal structure and biogenesis]
Probab=30.35 E-value=1.4e+02 Score=23.57 Aligned_cols=55 Identities=18% Similarity=0.290 Sum_probs=38.8
Q ss_pred HHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEe-ecCCCCcc
Q 041158 58 QSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFC-RVDPSHVR 115 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~-~v~p~~v~ 115 (118)
.+|..+....+..|++-+..-....+...+|.... ++.+...+.|.+ ++.|+.+.
T Consensus 229 ~~i~~a~~a~~~giiv~tk~gQ~r~~~~~~l~k~~---~~~g~~~~li~~~~i~p~~L~ 284 (347)
T COG1736 229 AAISKALDAKSFGIIVSTKGGQRRLEVARELVKLL---KEAGKEVYLIVVDEISPDKLA 284 (347)
T ss_pred HHHHHHhcCCeEEEEEecccccCcHHHHHHHHHHH---HHcCCceEEEEecCCCHHHHh
Confidence 36677777788888888888888777777776654 355556667777 47776553
No 137
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=30.27 E-value=2.2e+02 Score=21.47 Aligned_cols=17 Identities=12% Similarity=0.225 Sum_probs=9.7
Q ss_pred cchHHHHHHHHccCCcc
Q 041158 27 DNFTSHLYSALCHNNIE 43 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~ 43 (118)
..++..|.+.|+..|+.
T Consensus 150 ~~~~~~l~~~l~~~g~~ 166 (362)
T cd06367 150 RDFLDRVETTLEESFVG 166 (362)
T ss_pred HHHHHHHHHHHHhcccc
Confidence 34556666666666654
No 138
>PHA02558 uvsW UvsW helicase; Provisional
Probab=30.05 E-value=94 Score=25.32 Aligned_cols=48 Identities=6% Similarity=0.062 Sum_probs=34.7
Q ss_pred CCCCeeeEEEEeeeccC--ccchHHHHHHHHccCCcceEEeCCCCCCccc
Q 041158 9 RNSNKHGIFLSFRGEDT--RDNFTSHLYSALCHNNIETFIDNDLKRGDEI 56 (118)
Q Consensus 9 ~~~~~~dVFISys~~D~--~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~ 56 (118)
.+...||..|++-..+. ..++...|...|++.|+.+++|.+...|+.+
T Consensus 43 ~r~~~~~~~i~~~~~~~~~prG~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 92 (501)
T PHA02558 43 FKYGGWDGKIRLLDYNGLLPYGLVGQLKKFAKNRGYSIWVDPRIEENEDI 92 (501)
T ss_pred ccCCCCCceEEEeccCCCcccchHHHHHHHHHhcCCeEecCcccccCCCC
Confidence 35567888887755221 2588999999999999999998655555444
No 139
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=30.05 E-value=1.5e+02 Score=18.74 Aligned_cols=70 Identities=17% Similarity=0.269 Sum_probs=39.8
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
...+..+...|...|..+.... +++.+... ...+ +.+-+++++|..=.+ .|+..+++..++++.++|-|.
T Consensus 12 ~~~a~~~~~~l~~~g~~~~~~~---~~~~~~~~-~~~~-~~~d~vi~iS~sG~t-----~~~~~~~~~a~~~g~~vi~iT 81 (128)
T cd05014 12 GHIARKIAATLSSTGTPAFFLH---PTEALHGD-LGMV-TPGDVVIAISNSGET-----DELLNLLPHLKRRGAPIIAIT 81 (128)
T ss_pred HHHHHHHHHHhhcCCCceEEcc---cchhhccc-cCcC-CCCCEEEEEeCCCCC-----HHHHHHHHHHHHCCCeEEEEe
Confidence 4677888888888888776532 22211111 1122 233445555554433 477777777776777776654
No 140
>TIGR03026 NDP-sugDHase nucleotide sugar dehydrogenase. All of these enzymes contain three Pfam domains, pfam03721, pfam00984, and pfam03720 for the N-terminal, central, and C-terminal regions respectively.
Probab=29.90 E-value=1.2e+02 Score=23.94 Aligned_cols=58 Identities=12% Similarity=0.253 Sum_probs=38.4
Q ss_pred EEeee--ccCccchHHHHHHHHccCCcceEEeCC-CCCCc----cchHHHHHHHHhcCeEEEEec
Q 041158 18 LSFRG--EDTRDNFTSHLYSALCHNNIETFIDND-LKRGD----EISQSLLDTIEASTISIIIFS 75 (118)
Q Consensus 18 ISys~--~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~----~~~~~i~~~i~~s~~~I~v~S 75 (118)
++|.. .|.+.+=+..|.+.|.++|..|...+- ..... ...+.+.++++.++.+|+...
T Consensus 321 lafK~~t~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t~ 385 (411)
T TIGR03026 321 LAFKPNTDDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILTD 385 (411)
T ss_pred eEecCCCCccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEecC
Confidence 45643 455677888999999999999887553 32211 112456678888888777543
No 141
>PF00155 Aminotran_1_2: Aminotransferase class I and II 1-aminocyclopropane-1-carboxylate synthase signature aspartate aminotransferase signature; InterPro: IPR004839 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into class I and class II. This entry includes proteins from both subfamilies.; GO: 0016769 transferase activity, transferring nitrogenous groups, 0030170 pyridoxal phosphate binding, 0009058 biosynthetic process; PDB: 3NRA_B 3P6K_B 3OP7_A 3ASB_A 3ASA_A 1W7M_A 3FVX_A 1W7N_A 3FVU_B 3FVS_A ....
Probab=29.86 E-value=2.2e+02 Score=21.35 Aligned_cols=47 Identities=21% Similarity=0.371 Sum_probs=30.8
Q ss_pred hHHHHHHHHh------cCeEEEEecCCcc-CchhhHHHHHHHHHhhhhCCCEEE
Q 041158 57 SQSLLDTIEA------STISIIIFSERYA-SSGWCLDELLKILECKHVYGQIVI 103 (118)
Q Consensus 57 ~~~i~~~i~~------s~~~I~v~S~~~~-~S~wc~~El~~~~~~~~~~~~~ii 103 (118)
.+.+.+.+++ ...+|++-+|+.- ..-+..+|+..+.+..++.+..||
T Consensus 132 ~~~l~~~l~~~~~~~~~~~~v~~~~p~nPtG~~~~~~~l~~l~~~~~~~~~~ii 185 (363)
T PF00155_consen 132 PEALEEALDELPSKGPRPKAVLICNPNNPTGSVLSLEELRELAELAREYNIIII 185 (363)
T ss_dssp HHHHHHHHHTSHTTTETEEEEEEESSBTTTTBB--HHHHHHHHHHHHHTTSEEE
T ss_pred ccccccccccccccccccceeeecccccccccccccccccchhhhhccccccee
Confidence 3577777777 3467777788764 356778899988887666554443
No 142
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=29.59 E-value=1.6e+02 Score=19.11 Aligned_cols=52 Identities=6% Similarity=0.015 Sum_probs=25.9
Q ss_pred HHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEeecCCCCc
Q 041158 60 LLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCRVDPSHV 114 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~v~p~~v 114 (118)
....++.+..+|++++-.- +....++...+...++....=+||++-..+.|+
T Consensus 69 ~~~~~~~~~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl 120 (165)
T cd01868 69 TSAYYRGAVGALLVYDITK---KQTFENVERWLKELRDHADSNIVIMLVGNKSDL 120 (165)
T ss_pred HHHHHCCCCEEEEEEECcC---HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccc
Confidence 3446677888888888653 333444444433222211112466554444443
No 143
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=29.57 E-value=1e+02 Score=26.04 Aligned_cols=60 Identities=13% Similarity=0.299 Sum_probs=43.2
Q ss_pred CCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 40 NNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 40 ~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
+|-++++.++|-.|..+..--..+-..+..-++|+-|..+.-.|- +++...+. .+.||++
T Consensus 213 RgGR~llADeMGLGKTiQAlaIA~yyraEwplliVcPAsvrftWa-~al~r~lp-------s~~pi~v 272 (689)
T KOG1000|consen 213 RGGRILLADEMGLGKTIQALAIARYYRAEWPLLIVCPASVRFTWA-KALNRFLP-------SIHPIFV 272 (689)
T ss_pred cCCeEEEecccccchHHHHHHHHHHHhhcCcEEEEecHHHhHHHH-HHHHHhcc-------cccceEE
Confidence 466888888899999887554455567788899999999988887 35555443 4556554
No 144
>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=29.42 E-value=1.9e+02 Score=22.70 Aligned_cols=17 Identities=6% Similarity=-0.091 Sum_probs=8.1
Q ss_pred chHHHHHHHHccCCcce
Q 041158 28 NFTSHLYSALCHNNIET 44 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v 44 (118)
..+..+.++++++|+.+
T Consensus 187 ~~~~~f~~~~~~~GicI 203 (403)
T cd06361 187 SALETFIIQAEANGVCI 203 (403)
T ss_pred HHHHHHHHHHHHCCeEE
Confidence 34444445555555433
No 145
>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=29.39 E-value=1.6e+02 Score=19.27 Aligned_cols=21 Identities=14% Similarity=0.072 Sum_probs=15.0
Q ss_pred HHHHHHhcCeEEEEecCCccC
Q 041158 60 LLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~~~ 80 (118)
....++.++.++++++.+-..
T Consensus 69 ~~~~~~~~d~~llv~d~~~~~ 89 (165)
T cd01864 69 TQSYYRSANGAIIAYDITRRS 89 (165)
T ss_pred HHHHhccCCEEEEEEECcCHH
Confidence 444667789999998886443
No 146
>KOG3974 consensus Predicted sugar kinase [Carbohydrate transport and metabolism]
Probab=29.20 E-value=1.3e+02 Score=23.12 Aligned_cols=33 Identities=18% Similarity=0.200 Sum_probs=28.8
Q ss_pred cCeEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 041158 67 STISIIIFSERYASSGWCLDELLKILECKHVYG 99 (118)
Q Consensus 67 s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~ 99 (118)
.|...+|+.|..-.++|-++++..+++..++++
T Consensus 100 ~RlhavVIGPGLGRdp~~~k~i~~iley~~~~d 132 (306)
T KOG3974|consen 100 QRLHAVVIGPGLGRDPAILKEIAKILEYLRGKD 132 (306)
T ss_pred hheeEEEECCCCCCCHHHHHHHHHHHHHHhcCC
Confidence 677889999999999999999999999777543
No 147
>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=28.65 E-value=1.5e+02 Score=19.82 Aligned_cols=65 Identities=15% Similarity=0.102 Sum_probs=36.0
Q ss_pred chHHHHHHHHc--cCCcceEEeCCCCCCccchHHHHHHHHhc----CeEEEEecCCccCc-hhhHHHHHHHH
Q 041158 28 NFTSHLYSALC--HNNIETFIDNDLKRGDEISQSLLDTIEAS----TISIIIFSERYASS-GWCLDELLKIL 92 (118)
Q Consensus 28 ~fv~~L~~~L~--~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s----~~~I~v~S~~~~~S-~wc~~El~~~~ 92 (118)
..+..|.+.|. ...+.+-+=.+.-+++.+.+.+.++|++. -.-|+|+.+.|+.. -=++.|+..-.
T Consensus 45 ~~~~~v~~~l~~~~~~~~~~fqS~~g~~~Wl~P~~~~~l~~l~~~G~~~i~v~p~gF~~D~~Etl~di~~e~ 116 (135)
T cd00419 45 ETARLVAERLGLPFDEYELAYQSRFGPGEWLEPSTDDALEELAKEGVKNVVVVPIGFVSDHLETLYELDIEY 116 (135)
T ss_pred HHHHHHHHHhCCCCCCEEEEecCCCCCCCCCCCCHHHHHHHHHHcCCCeEEEECCccccccHHHHHHHHHHH
Confidence 34566667665 33344433333455655555666665532 24588899989874 22344555433
No 148
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=28.59 E-value=67 Score=22.31 Aligned_cols=25 Identities=28% Similarity=0.238 Sum_probs=18.5
Q ss_pred cCccchHHHHHHHHccCCcceEEeC
Q 041158 24 DTRDNFTSHLYSALCHNNIETFIDN 48 (118)
Q Consensus 24 D~~~~fv~~L~~~L~~~Gi~v~~d~ 48 (118)
|+.+.|...|..+|+..|+-|--+.
T Consensus 60 ~~~D~Fg~aL~~aLR~~GYaV~e~~ 84 (151)
T PRK13883 60 PTPDAFGQALVKALRDKGYALLEYN 84 (151)
T ss_pred CCCcHHHHHHHHHHHHcCeEEEecC
Confidence 3334788889999988888886543
No 149
>cd04112 Rab26 Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. 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.
Probab=28.57 E-value=1.6e+02 Score=20.10 Aligned_cols=19 Identities=0% Similarity=0.030 Sum_probs=13.4
Q ss_pred HHHHHHhcCeEEEEecCCc
Q 041158 60 LLDTIEASTISIIIFSERY 78 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~ 78 (118)
....+..++++|++++-+-
T Consensus 67 ~~~~~~~ad~~i~v~D~~~ 85 (191)
T cd04112 67 THAYYRDAHALLLLYDITN 85 (191)
T ss_pred hHHHccCCCEEEEEEECCC
Confidence 3445677888999988654
No 150
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. 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 mo
Probab=28.54 E-value=1.7e+02 Score=18.92 Aligned_cols=16 Identities=6% Similarity=0.214 Sum_probs=11.8
Q ss_pred HHHHhcCeEEEEecCC
Q 041158 62 DTIEASTISIIIFSER 77 (118)
Q Consensus 62 ~~i~~s~~~I~v~S~~ 77 (118)
..++.++.+|++++.+
T Consensus 69 ~~~~~~~~~i~v~d~~ 84 (163)
T cd01860 69 MYYRGAAAAIVVYDIT 84 (163)
T ss_pred HHhccCCEEEEEEECc
Confidence 3566788888888776
No 151
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=28.46 E-value=1.3e+02 Score=23.29 Aligned_cols=44 Identities=20% Similarity=0.495 Sum_probs=34.1
Q ss_pred HHHHHHHHhcCeEEEEecCCcc---CchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 58 QSLLDTIEASTISIIIFSERYA---SSGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~---~S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
+.-.++|.+++.-++|+-|.+. ..+|..+||.+..+ ++ ++||=|
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 4566789999999999999665 58999999887543 33 777765
No 152
>KOG0259 consensus Tyrosine aminotransferase [Amino acid transport and metabolism]
Probab=28.44 E-value=3.2e+02 Score=22.31 Aligned_cols=54 Identities=20% Similarity=0.306 Sum_probs=37.0
Q ss_pred CCCCccch---HHHHHHHHhcCeEEEEecCCcc-CchhhHHHHHHHHHhhhhCCCEEE
Q 041158 50 LKRGDEIS---QSLLDTIEASTISIIIFSERYA-SSGWCLDELLKILECKHVYGQIVI 103 (118)
Q Consensus 50 ~~~G~~~~---~~i~~~i~~s~~~I~v~S~~~~-~S~wc~~El~~~~~~~~~~~~~ii 103 (118)
+.|++.|. +.++..+.+-.+.|+|+.|+=- .+-+..+.|.++.+..++.+..||
T Consensus 179 lLPe~~weIDL~~veal~DENT~AivviNP~NPcGnVys~~HL~kiae~A~klgi~vI 236 (447)
T KOG0259|consen 179 LLPEKDWEIDLDGVEALADENTVAIVVINPNNPCGNVYSEDHLKKIAETAKKLGIMVI 236 (447)
T ss_pred ccCcccceechHHHHHhhccCeeEEEEeCCCCCCcccccHHHHHHHHHHHHHhCCeEE
Confidence 55666553 5777778888999999999854 455666666666666665555554
No 153
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=28.34 E-value=96 Score=20.34 Aligned_cols=45 Identities=13% Similarity=0.152 Sum_probs=25.7
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC-ccchHHHHHHHHhcCeEEE
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISII 72 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~~I~ 72 (118)
.-...|.+.|++.|..+-.-..+... +.+.+.+.+++++++++|.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvit 64 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLT 64 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEE
Confidence 34557888899999877432213222 2345566666666554433
No 154
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. 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. Due to
Probab=28.32 E-value=1.8e+02 Score=19.12 Aligned_cols=20 Identities=15% Similarity=0.145 Sum_probs=14.5
Q ss_pred HHHHHhcCeEEEEecCCccC
Q 041158 61 LDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 61 ~~~i~~s~~~I~v~S~~~~~ 80 (118)
...+..++.+|++++-+-..
T Consensus 67 ~~~~~~~~~~ilv~d~~~~~ 86 (165)
T cd04140 67 RLSISKGHAFILVYSVTSKQ 86 (165)
T ss_pred HHHhhcCCEEEEEEECCCHH
Confidence 34677888999998876544
No 155
>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=28.06 E-value=83 Score=20.70 Aligned_cols=58 Identities=14% Similarity=0.071 Sum_probs=35.2
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHh--cCeEEEEe
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEA--STISIIIF 74 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~--s~~~I~v~ 74 (118)
...-|.|+|-.......++..+...|...|++|+.-. .--.+.+.-++.+ +...|.|-
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g-----~~~tP~~~~~~~~~~~~ggi~iT 98 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIG-----LVPTPALSFAIRQLNADGGIMIT 98 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEE-----EB-HHHHHHHHHHHTESEEEEE-
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhccccccccc-----ccCcHHhhhhccccccceeeEEE
Confidence 3567888886555556788888888888999887422 1122344445554 55555543
No 156
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=28.03 E-value=2.5e+02 Score=21.19 Aligned_cols=76 Identities=8% Similarity=-0.017 Sum_probs=48.5
Q ss_pred cchHHHHHHHHccCCcceEE--eC-C-CCCCccchHHHHHHHHhcCeEEEEecCC-ccCchhhHHHHHHHHHhh-hhCCC
Q 041158 27 DNFTSHLYSALCHNNIETFI--DN-D-LKRGDEISQSLLDTIEASTISIIIFSER-YASSGWCLDELLKILECK-HVYGQ 100 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~--d~-~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~-~~~S~wc~~El~~~~~~~-~~~~~ 100 (118)
..++..|.+.+...|+.+-. +. . +-.|--+.-... -.+.++=||.+|.+ ...+.....+|..++... ++.+.
T Consensus 96 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l--~p~~~ipvV~is~~~~~~~~~~~~~lG~al~~~i~~~~~ 173 (282)
T TIGR02298 96 PALGQLIADEAQEHGVKTLAHQVPSLGLEYGTLVPMRYM--NEDGHFKVVSIAAWCTVHDIEESRALGEAIRKAIEQSDG 173 (282)
T ss_pred HHHHHHHHHHHHHCCCceeeccCCCCCCCeehHhHHHHh--CCCCCCcEEEEeecCCCCCHHHHHHHHHHHHHHHHhcCC
Confidence 47999999999999998752 22 2 555554432222 13456668888876 445677778898888644 33455
Q ss_pred EEEE
Q 041158 101 IVIP 104 (118)
Q Consensus 101 ~iiP 104 (118)
+++-
T Consensus 174 rV~i 177 (282)
T TIGR02298 174 RVAV 177 (282)
T ss_pred CEEE
Confidence 5543
No 157
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=27.94 E-value=1.9e+02 Score=19.33 Aligned_cols=75 Identities=16% Similarity=0.101 Sum_probs=42.5
Q ss_pred chHHH-HHHHHccCCcceEEeCCCCCCccc-hHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEE
Q 041158 28 NFTSH-LYSALCHNNIETFIDNDLKRGDEI-SQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPV 105 (118)
Q Consensus 28 ~fv~~-L~~~L~~~Gi~v~~d~~~~~G~~~-~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI 105 (118)
..-.. +...|+.+|+.|.. .|... .+++.+++.+.+.-++.+|--.....--..++...++ +.+..=++|
T Consensus 17 ~lG~~iv~~~lr~~G~eVi~-----LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~---~~~~~~~~i 88 (137)
T PRK02261 17 AVGNKILDRALTEAGFEVIN-----LGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKCI---EAGLGDILL 88 (137)
T ss_pred HHHHHHHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHHH---hcCCCCCeE
Confidence 34433 44567899999854 34433 3578888888787666666544444333344444333 222222578
Q ss_pred EeecC
Q 041158 106 FCRVD 110 (118)
Q Consensus 106 ~~~v~ 110 (118)
++.-.
T Consensus 89 ~vGG~ 93 (137)
T PRK02261 89 YVGGN 93 (137)
T ss_pred EEECC
Confidence 77544
No 158
>cd06502 TA_like Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a secondary glycine biosynthetic pathway.
Probab=27.93 E-value=2e+02 Score=21.33 Aligned_cols=43 Identities=19% Similarity=0.167 Sum_probs=26.9
Q ss_pred hHHHHHHHHh-------cCeEEEEecCCccCchhhHHHHHHHHHhhhhCC
Q 041158 57 SQSLLDTIEA-------STISIIIFSERYASSGWCLDELLKILECKHVYG 99 (118)
Q Consensus 57 ~~~i~~~i~~-------s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~ 99 (118)
.+.+.+++.+ -..+|++.+|+-..+-+...++..+.+..++.+
T Consensus 110 ~~~l~~~i~~~~~~~~~~~~~v~l~~p~n~g~~~~~~~l~~i~~~~~~~~ 159 (338)
T cd06502 110 PEDLEAAIRPRDDIHFPPPSLVSLENTTEGGTVYPLDELKAISALAKENG 159 (338)
T ss_pred HHHHHHHhhccCCCcCCcceEEEEEeecCCccccCHHHHHHHHHHHHHcC
Confidence 3577777764 235666777776555556677777776555444
No 159
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=27.88 E-value=1.9e+02 Score=21.19 Aligned_cols=53 Identities=19% Similarity=0.275 Sum_probs=24.4
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHH-HhcCe-EEEEecCCccCch
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTI-EASTI-SIIIFSERYASSG 82 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i-~~s~~-~I~v~S~~~~~S~ 82 (118)
.|...|...|.+.|+....- ..||+....+-.+.+ .+..+ +-++=+|.|+.+.
T Consensus 78 s~~~~L~~~~~~~~~~~~~~--~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~ 132 (224)
T PF04244_consen 78 SFEDALARALKQHGIDRLHV--MEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSR 132 (224)
T ss_dssp SHHHHHHHHHHHH----EEE--E--S-HHHHHHHHH----SSS-EEEE--TTSSS-H
T ss_pred cHHHHHHHHHHHcCCCEEEE--ECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCH
Confidence 68888888888777654431 567776544333333 22333 4566778888754
No 160
>PRK13728 conjugal transfer protein TrbB; Provisional
Probab=27.61 E-value=1.4e+02 Score=21.22 Aligned_cols=38 Identities=16% Similarity=0.259 Sum_probs=26.2
Q ss_pred EEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEeecC
Q 041158 71 IIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCRVD 110 (118)
Q Consensus 71 I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~v~ 110 (118)
+++|-.+++ ++|..|+-.+.+..++.+..+++|-++..
T Consensus 73 lV~FwaswC--p~C~~e~P~L~~l~~~~g~~Vi~Vs~D~~ 110 (181)
T PRK13728 73 VVLFMQGHC--PYCHQFDPVLKQLAQQYGFSVFPYTLDGQ 110 (181)
T ss_pred EEEEECCCC--HhHHHHHHHHHHHHHHcCCEEEEEEeCCC
Confidence 443433443 56889988877777777889999887633
No 161
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=27.53 E-value=1.1e+02 Score=23.11 Aligned_cols=51 Identities=14% Similarity=0.157 Sum_probs=34.2
Q ss_pred HHHHHHHHccCCcceE---EeCCCCCCccchHHHHHHHHhcCe--EEEEecCCccCc
Q 041158 30 TSHLYSALCHNNIETF---IDNDLKRGDEISQSLLDTIEASTI--SIIIFSERYASS 81 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~---~d~~~~~G~~~~~~i~~~i~~s~~--~I~v~S~~~~~S 81 (118)
-+.|...|..+||+|= ..+. +.=.++..++..+++.+.. .|++|||.-+.+
T Consensus 145 rdil~kkL~~~G~~Vds~~VY~T-~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~ 200 (260)
T KOG4132|consen 145 RDILPKKLHDKGIRVDSCEVYET-REHPDGFKQFIHALKECGFIDWIVFFSPSGVKS 200 (260)
T ss_pred hHHHHHHHHhCCceeeEEEEEee-eecccHHHHHHHHHHhcCCcceEEEECcchHHH
Confidence 3568889999999762 1111 1112344588889998854 699999998874
No 162
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=27.40 E-value=47 Score=23.55 Aligned_cols=20 Identities=15% Similarity=0.167 Sum_probs=17.5
Q ss_pred cchHHHHHHHHccCCcceEE
Q 041158 27 DNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~ 46 (118)
..|+..|..+|+++|+.|-.
T Consensus 19 ~~f~~~LaRa~e~RGf~v~~ 38 (182)
T COG4567 19 TPFLRTLARAMERRGFAVVT 38 (182)
T ss_pred hHHHHHHHHHHhccCceeEe
Confidence 58999999999999997654
No 163
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=27.39 E-value=32 Score=24.93 Aligned_cols=33 Identities=18% Similarity=0.459 Sum_probs=23.9
Q ss_pred eeeccCccchHHHHHHHHccCCcceEE-eCC-CCCC
Q 041158 20 FRGEDTRDNFTSHLYSALCHNNIETFI-DND-LKRG 53 (118)
Q Consensus 20 ys~~D~~~~fv~~L~~~L~~~Gi~v~~-d~~-~~~G 53 (118)
-|+.-+ ...|..|.+.|.+.|+++++ |.+ +..|
T Consensus 31 LSGsGK-STiA~ale~~L~~~G~~~y~LDGDnvR~g 65 (197)
T COG0529 31 LSGSGK-STIANALEEKLFAKGYHVYLLDGDNVRHG 65 (197)
T ss_pred CCCCCH-HHHHHHHHHHHHHcCCeEEEecChhHhhc
Confidence 344433 36899999999999999986 655 5443
No 164
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=27.24 E-value=1.3e+02 Score=17.32 Aligned_cols=71 Identities=20% Similarity=0.148 Sum_probs=40.3
Q ss_pred cchHHHHHHHHccC-CcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEE
Q 041158 27 DNFTSHLYSALCHN-NIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPV 105 (118)
Q Consensus 27 ~~fv~~L~~~L~~~-Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI 105 (118)
..++..+...|... |+.++.... +. +........-+.+-+++++|..=-+ .|+..+++..++++.++|-|
T Consensus 10 ~~~a~~~~~~l~~~~~~~~~~~~~---~~-~~~~~~~~~~~~~d~~i~iS~sg~t-----~~~~~~~~~a~~~g~~ii~i 80 (87)
T cd04795 10 GAIAAYFALELLELTGIEVVALIA---TE-LEHASLLSLLRKGDVVIALSYSGRT-----EELLAALEIAKELGIPVIAI 80 (87)
T ss_pred HHHHHHHHHHHhcccCCceEEeCC---cH-HHHHHHHhcCCCCCEEEEEECCCCC-----HHHHHHHHHHHHcCCeEEEE
Confidence 46888899999887 988876332 11 1111111222445556666654332 45666666666667777655
Q ss_pred E
Q 041158 106 F 106 (118)
Q Consensus 106 ~ 106 (118)
-
T Consensus 81 t 81 (87)
T cd04795 81 T 81 (87)
T ss_pred e
Confidence 3
No 165
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=26.88 E-value=1.6e+02 Score=21.31 Aligned_cols=33 Identities=18% Similarity=0.288 Sum_probs=24.9
Q ss_pred EEEEeeeccCc--cchHHHHHHHHccCCcceEEeC
Q 041158 16 IFLSFRGEDTR--DNFTSHLYSALCHNNIETFIDN 48 (118)
Q Consensus 16 VFISys~~D~~--~~fv~~L~~~L~~~Gi~v~~d~ 48 (118)
.||.+=|-|.. ...+..|.+.|+.+|++|.+-+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~tr 38 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTR 38 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 47888666642 4678899999999999887654
No 166
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=26.35 E-value=80 Score=22.44 Aligned_cols=31 Identities=16% Similarity=0.240 Sum_probs=24.5
Q ss_pred EEEEeeeccCc-cchHHHHHHHHccCCcceEE
Q 041158 16 IFLSFRGEDTR-DNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 16 VFISys~~D~~-~~fv~~L~~~L~~~Gi~v~~ 46 (118)
+-|-|++.|.. ...|..|..+|+..|+.|=+
T Consensus 3 ~LIlYstr~GqT~kIA~~iA~~L~e~g~qvdi 34 (175)
T COG4635 3 TLILYSTRDGQTRKIAEYIASHLRESGIQVDI 34 (175)
T ss_pred eEEEEecCCCcHHHHHHHHHHHhhhcCCeeee
Confidence 45778887753 46899999999999987754
No 167
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=26.31 E-value=93 Score=22.82 Aligned_cols=17 Identities=6% Similarity=-0.025 Sum_probs=9.6
Q ss_pred chHHHHHHHHccCCcce
Q 041158 28 NFTSHLYSALCHNNIET 44 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v 44 (118)
.++..+.+.++..|..+
T Consensus 136 ~~~~~~~~~~~~~~~~~ 152 (348)
T PF01094_consen 136 SLADSFQDLLRERGGIC 152 (348)
T ss_dssp HHHHHHHHHHHHHTTCE
T ss_pred ccchhhhhhhcccccce
Confidence 45666666666654433
No 168
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=26.08 E-value=2.8e+02 Score=20.61 Aligned_cols=54 Identities=15% Similarity=-0.036 Sum_probs=28.3
Q ss_pred eEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcC
Q 041158 15 GIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEAST 68 (118)
Q Consensus 15 dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 68 (118)
.|+|-+...+-.+..+..+.+.|++.|+++-....+.++..-.......|.+.+
T Consensus 134 ~v~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~l~~~~ 187 (333)
T cd06358 134 RWYLIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLGTTDFTSVLERIAASG 187 (333)
T ss_pred eEEEEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCChHHHHHHHHHHHHcC
Confidence 455544322222345667777888888876443335665332234444555544
No 169
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. 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 GT
Probab=26.04 E-value=2e+02 Score=18.87 Aligned_cols=25 Identities=4% Similarity=0.057 Sum_probs=16.8
Q ss_pred chHHHHHHHHhcCeEEEEecCCccC
Q 041158 56 ISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 56 ~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
+.......++.++.+|++++.+-..
T Consensus 64 ~~~~~~~~~~~~~~~ilv~d~~~~~ 88 (166)
T cd04122 64 FRAVTRSYYRGAAGALMVYDITRRS 88 (166)
T ss_pred HHHHHHHHhcCCCEEEEEEECCCHH
Confidence 3333445678888999998876543
No 170
>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=25.89 E-value=1.2e+02 Score=16.49 Aligned_cols=32 Identities=9% Similarity=0.142 Sum_probs=22.6
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceE
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETF 45 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~ 45 (118)
..+.+++.....|. .=...+.+.|++.|++++
T Consensus 41 ~~~~~~i~v~~~~~--~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 41 GEVEVELTLETRGA--EHIEEIIAALREAGYDVR 72 (73)
T ss_pred ceEEEEEEEEeCCH--HHHHHHHHHHHHcCCEEe
Confidence 45667777766542 345788889999998775
No 171
>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=25.72 E-value=74 Score=20.13 Aligned_cols=31 Identities=16% Similarity=0.060 Sum_probs=19.6
Q ss_pred eeeE--EEEeeeccCccchHHHHHHHHccCCcceEE
Q 041158 13 KHGI--FLSFRGEDTRDNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 13 ~~dV--FISys~~D~~~~fv~~L~~~L~~~Gi~v~~ 46 (118)
+-|+ +||+++.. .-+....+.++.+|.++..
T Consensus 46 ~~d~~I~iS~sG~t---~e~~~~~~~a~~~g~~vi~ 78 (126)
T cd05008 46 EDTLVIAISQSGET---ADTLAALRLAKEKGAKTVA 78 (126)
T ss_pred CCcEEEEEeCCcCC---HHHHHHHHHHHHcCCeEEE
Confidence 4454 56666654 3466667777778877753
No 172
>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA [], Ycf3 [, ], and Ycf4 (IPR003359 from INTERPRO) []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions.
Probab=25.61 E-value=1.9e+02 Score=21.78 Aligned_cols=76 Identities=16% Similarity=0.276 Sum_probs=43.9
Q ss_pred HHHHHccCCcceEEeCCCCC-----CccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEe
Q 041158 33 LYSALCHNNIETFIDNDLKR-----GDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFC 107 (118)
Q Consensus 33 L~~~L~~~Gi~v~~d~~~~~-----G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~ 107 (118)
.++.|... +++|.|-..+. +.++.+....+++.+..=-+++|-.-...+=-+.++..+-+ . - . +|||+
T Consensus 133 ~R~~l~a~-v~ilaDV~~kh~~~l~~~~~~~~~~~a~~~~~aDaviVtG~~TG~~~~~~~l~~vr~---~-~-~-~PVlv 205 (254)
T PF03437_consen 133 YRKRLGAD-VKILADVHVKHSSPLATRDLEEAAKDAVERGGADAVIVTGKATGEPPDPEKLKRVRE---A-V-P-VPVLV 205 (254)
T ss_pred HHHHcCCC-eEEEeeechhhcccCCCCCHHHHHHHHHHhcCCCEEEECCcccCCCCCHHHHHHHHh---c-C-C-CCEEE
Confidence 34445555 99998754333 34555566667676665555566655544444555554432 1 1 2 99998
Q ss_pred e--cCCCCcc
Q 041158 108 R--VDPSHVR 115 (118)
Q Consensus 108 ~--v~p~~v~ 115 (118)
. +.++++.
T Consensus 206 GSGvt~~Ni~ 215 (254)
T PF03437_consen 206 GSGVTPENIA 215 (254)
T ss_pred ecCCCHHHHH
Confidence 4 7776664
No 173
>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=25.48 E-value=2e+02 Score=18.86 Aligned_cols=23 Identities=4% Similarity=-0.021 Sum_probs=15.5
Q ss_pred chHHHHHHHHhcCeEEEEecCCc
Q 041158 56 ISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 56 ~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
+.......+++++++|++++-+-
T Consensus 65 ~~~~~~~~~~~ad~~i~v~d~~~ 87 (167)
T cd01867 65 FRTITTAYYRGAMGIILVYDITD 87 (167)
T ss_pred HHHHHHHHhCCCCEEEEEEECcC
Confidence 33334456778899999998643
No 174
>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=25.36 E-value=1e+02 Score=17.59 Aligned_cols=30 Identities=10% Similarity=0.030 Sum_probs=21.0
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcce
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIET 44 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v 44 (118)
.-.|+++.-..|. .-...|.++|+..|+.+
T Consensus 37 ~~~v~v~ie~~~~--~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 37 EARVLVGIQVPDR--EDLAELKERLEALGYPY 66 (68)
T ss_pred ceEEEEEEEeCCH--HHHHHHHHHHHHcCCCc
Confidence 4557777755542 46778888998888864
No 175
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=25.13 E-value=2.6e+02 Score=21.54 Aligned_cols=36 Identities=19% Similarity=0.335 Sum_probs=28.7
Q ss_pred eeEEEEeeeccCccchHHHHHHHHccCCcceEEeCC
Q 041158 14 HGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND 49 (118)
Q Consensus 14 ~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~ 49 (118)
.+|-||..|+-.-+.+...|.+.+.++|++++++..
T Consensus 131 ~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~TN 166 (322)
T PRK13762 131 KHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVTN 166 (322)
T ss_pred CEEEEeCCccccchhhHHHHHHHHHHcCCCEEEECC
Confidence 467888877766556788888899999999998765
No 176
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=24.65 E-value=1.2e+02 Score=21.89 Aligned_cols=45 Identities=29% Similarity=0.281 Sum_probs=29.2
Q ss_pred ccchHHHHHHHHccCC--cceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 26 RDNFTSHLYSALCHNN--IETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 26 ~~~fv~~L~~~L~~~G--i~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
.++|+-.|++.|++.| +.|+..+. +... .++..+--.+|+||.=-
T Consensus 10 yDSFtyNLv~yl~~lg~~v~V~rnd~------~~~~---~~~~~~pd~iviSPGPG 56 (191)
T COG0512 10 YDSFTYNLVQYLRELGAEVTVVRNDD------ISLE---LIEALKPDAIVISPGPG 56 (191)
T ss_pred ccchHHHHHHHHHHcCCceEEEECCc------cCHH---HHhhcCCCEEEEcCCCC
Confidence 3479999999999988 44544331 2111 45666666778888643
No 177
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=24.55 E-value=3e+02 Score=20.51 Aligned_cols=75 Identities=12% Similarity=0.097 Sum_probs=47.0
Q ss_pred cchHHHHHHHHccCCcceEEeCC--CCCCccchHHHHHHHHhcCeEEEEecCCccC----chhhHHHHHHHHHhh-hh--
Q 041158 27 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIEASTISIIIFSERYAS----SGWCLDELLKILECK-HV-- 97 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~--~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~----S~wc~~El~~~~~~~-~~-- 97 (118)
..++.+|.+.|.+.|+.+-.+.+ +-.|--..-.... .+.++=||-+|-|... +.....+|..++... ++
T Consensus 90 ~~LA~~i~~~l~~~g~~~~~~~~~~lDHG~~vPL~~l~--p~~~iPvV~isin~~~~p~~~~~~~~~lG~al~~~i~~~~ 167 (268)
T cd07367 90 REFARAFVRQAAEDGFDLAQAEELRPDHGVMVPLLFMG--PKLDIPVVPLIVNINTDPAPSPRRCWALGKVLAQYVEKRR 167 (268)
T ss_pred HHHHHHHHHHHHHcCCCeeeecCccCCcchhchHHHhC--CCCCCCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 47999999999999998765543 4455544323222 1245556666655443 566777898888654 33
Q ss_pred -CCCEEE
Q 041158 98 -YGQIVI 103 (118)
Q Consensus 98 -~~~~ii 103 (118)
.+.++.
T Consensus 168 ~~d~rV~ 174 (268)
T cd07367 168 PAGERVA 174 (268)
T ss_pred CCCCcEE
Confidence 455555
No 178
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=24.53 E-value=1.3e+02 Score=24.08 Aligned_cols=18 Identities=28% Similarity=0.370 Sum_probs=12.7
Q ss_pred cchHHHHHHHHccCCcce
Q 041158 27 DNFTSHLYSALCHNNIET 44 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v 44 (118)
-.|...|.+.|+.+|+.+
T Consensus 205 LHFT~~ll~~L~~kGv~~ 222 (366)
T PRK01424 205 LHFTKDILDKLKAKGIQT 222 (366)
T ss_pred CCCCHHHHHHHHHCCCeE
Confidence 357777777777777754
No 179
>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=24.46 E-value=1.3e+02 Score=18.58 Aligned_cols=31 Identities=10% Similarity=-0.062 Sum_probs=22.1
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceE
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETF 45 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~ 45 (118)
.-.||+++.-.+.+ =...|.+.|+..|+.+.
T Consensus 49 ~a~vlvgi~v~~~~--~~~~l~~~L~~~gy~~~ 79 (91)
T PF00585_consen 49 FARVLVGIEVPDAE--DLEELIERLKALGYPYE 79 (91)
T ss_dssp CSEEEEEEE-SSTH--HHHHHHHHHTSSS-EEE
T ss_pred eeeEEEEEEeCCHH--HHHHHHHHHHHcCCCeE
Confidence 55788888766542 37889999999998775
No 180
>PLN02187 rooty/superroot1
Probab=24.45 E-value=2.1e+02 Score=22.99 Aligned_cols=42 Identities=14% Similarity=0.321 Sum_probs=28.6
Q ss_pred HHHHHHHHhcCeEEEEecCCccC-chhhHHHHHHHHHhhhhCC
Q 041158 58 QSLLDTIEASTISIIIFSERYAS-SGWCLDELLKILECKHVYG 99 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~~-S~wc~~El~~~~~~~~~~~ 99 (118)
+.+.+++..-...|++.+|+--. .-|..+|+..+++..++.+
T Consensus 195 ~~l~~~~~~~~~~v~i~nP~NPTG~v~s~e~l~~i~~~a~~~~ 237 (462)
T PLN02187 195 EGIEAIADENTVAMVVINPNNPCGNVYSHDHLKKVAETARKLG 237 (462)
T ss_pred HHHHHhcCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHHHHCC
Confidence 45555665556788999998543 4466778888887665544
No 181
>PF00647 EF1G: Elongation factor 1 gamma, conserved domain; InterPro: IPR001662 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents a conserved domain usually found near the C terminus of EF1B-gamma chains, a peptide of 410-440 residues. The gamma chain appears to play a role in anchoring the EF1B complex to the beta and delta chains and to other cellular components. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 1PBU_A.
Probab=24.33 E-value=32 Score=22.52 Aligned_cols=28 Identities=14% Similarity=0.239 Sum_probs=19.6
Q ss_pred eeeccCccchHHHHHHHHccCCcceEEe
Q 041158 20 FRGEDTRDNFTSHLYSALCHNNIETFID 47 (118)
Q Consensus 20 ys~~D~~~~fv~~L~~~L~~~Gi~v~~d 47 (118)
||..|++...+.++.+.+...|+++|+-
T Consensus 23 YSN~d~~~~a~p~Fwe~~d~eg~Slw~~ 50 (107)
T PF00647_consen 23 YSNEDTRTVAMPWFWENFDPEGYSLWFC 50 (107)
T ss_dssp HHHS-GGGTHHHHHHSS--TTT-EEEEE
T ss_pred hcCCCchhhHHHHHHHhCCccccEEEEE
Confidence 6777776667788999999999999984
No 182
>smart00052 EAL Putative diguanylate phosphodiesterase. Putative diguanylate phosphodiesterase, present in a variety of bacteria.
Probab=24.27 E-value=2.5e+02 Score=19.46 Aligned_cols=44 Identities=9% Similarity=0.218 Sum_probs=22.7
Q ss_pred HHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 32 HLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 32 ~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
.....|.+.|+++++|+ +..|.. -...+...+.-.+-+++.+..
T Consensus 137 ~~i~~l~~~G~~ialdd-fg~~~~----~~~~l~~l~~d~iKld~~~~~ 180 (241)
T smart00052 137 ATLQRLRELGVRIALDD-FGTGYS----SLSYLKRLPVDLLKIDKSFVR 180 (241)
T ss_pred HHHHHHHHCCCEEEEeC-CCCcHH----HHHHHHhCCCCeEEECHHHHh
Confidence 44455566666666665 222221 123444455556666666553
No 183
>KOG0257 consensus Kynurenine aminotransferase, glutamine transaminase K [Amino acid transport and metabolism]
Probab=24.15 E-value=2e+02 Score=23.40 Aligned_cols=42 Identities=24% Similarity=0.262 Sum_probs=32.9
Q ss_pred HHHHHHHHhcCeEEEEecCCccC-chhhHHHHHHHHHhhhhCC
Q 041158 58 QSLLDTIEASTISIIIFSERYAS-SGWCLDELLKILECKHVYG 99 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~~-S~wc~~El~~~~~~~~~~~ 99 (118)
..+..++.....+|++.+|+=-. .-..++||..+.+..++.+
T Consensus 163 ~~le~~~t~kTk~Ii~ntPhNPtGkvfsReeLe~ia~l~~k~~ 205 (420)
T KOG0257|consen 163 EELESKITEKTKAIILNTPHNPTGKVFSREELERIAELCKKHG 205 (420)
T ss_pred HHHHhhccCCccEEEEeCCCCCcCcccCHHHHHHHHHHHHHCC
Confidence 46777888889999999998543 4556789999988777666
No 184
>PRK05465 ethanolamine ammonia-lyase small subunit; Provisional
Probab=24.09 E-value=1.1e+02 Score=23.17 Aligned_cols=46 Identities=20% Similarity=0.419 Sum_probs=29.9
Q ss_pred cchHHHHHHHHccCCcc----eEEeCC-CCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 27 DNFTSHLYSALCHNNIE----TFIDND-LKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~----v~~d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
..|...|.+.|...|++ ++.... ...|+.+ .+.+ .++++|+++.+.
T Consensus 130 ~~~l~al~~~L~~~g~~iap~v~~~qgRValgD~I----ge~L-~ar~vvvLIGER 180 (260)
T PRK05465 130 EPLLPALLAGLKAAGWSVGPPVFVRQGRVALGDEI----GELL-GAKVVVVLIGER 180 (260)
T ss_pred HHHHHHHHHHHHHcCCCcCCeEEEecCeehHHHHH----HHHh-CCCEEEEEEecC
Confidence 35778888888877754 333333 6666654 4444 688888887654
No 185
>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=23.79 E-value=3.1e+02 Score=20.33 Aligned_cols=34 Identities=15% Similarity=0.076 Sum_probs=17.1
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC-ccchHHHH
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLL 61 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~ 61 (118)
.++..+.+.|++.|+.+-....+..+ .++...+.
T Consensus 150 ~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~ 184 (334)
T cd06327 150 SLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLL 184 (334)
T ss_pred HHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHH
Confidence 45566666666667665433333333 34443333
No 186
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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 promot
Probab=23.76 E-value=1.9e+02 Score=18.99 Aligned_cols=17 Identities=6% Similarity=0.040 Sum_probs=11.7
Q ss_pred HHHHHhcCeEEEEecCC
Q 041158 61 LDTIEASTISIIIFSER 77 (118)
Q Consensus 61 ~~~i~~s~~~I~v~S~~ 77 (118)
...++.++.++++++-.
T Consensus 68 ~~~~~~~~~~l~v~d~~ 84 (165)
T cd01865 68 TAYYRGAMGFILMYDIT 84 (165)
T ss_pred HHHccCCcEEEEEEECC
Confidence 33566788888888754
No 187
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=23.66 E-value=2.9e+02 Score=19.98 Aligned_cols=27 Identities=7% Similarity=0.169 Sum_probs=21.5
Q ss_pred CC-ccchHHHHHHHHhcCeEEEEecCCc
Q 041158 52 RG-DEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 52 ~G-~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
|| ..+..+...+++.++.+|+|++-.-
T Consensus 81 PG~~~f~~~~~~~l~~aD~~ilVvD~~~ 108 (222)
T cd01885 81 PGHVDFSSEVTAALRLCDGALVVVDAVE 108 (222)
T ss_pred CCccccHHHHHHHHHhcCeeEEEEECCC
Confidence 56 3467788889999999999998654
No 188
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=23.66 E-value=2.1e+02 Score=18.46 Aligned_cols=18 Identities=11% Similarity=0.344 Sum_probs=13.5
Q ss_pred HHHHHHhcCeEEEEecCC
Q 041158 60 LLDTIEASTISIIIFSER 77 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~ 77 (118)
....+++++.+|++++.+
T Consensus 69 ~~~~~~~~d~ii~v~d~~ 86 (164)
T cd04101 69 VSNYWESPSVFILVYDVS 86 (164)
T ss_pred HHHHhCCCCEEEEEEECc
Confidence 455777888888888754
No 189
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=23.62 E-value=2.2e+02 Score=22.79 Aligned_cols=26 Identities=19% Similarity=0.212 Sum_probs=14.8
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCC
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKR 52 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~ 52 (118)
...+..|.++|++.|+.+-..+.+..
T Consensus 186 ~~~~~~~~~~~~~~gi~I~~~~~i~~ 211 (469)
T cd06365 186 EQFLSDLREEMQRNGICLAFVEKIPV 211 (469)
T ss_pred HHHHHHHHHHHHHCCeEEEEEEEecC
Confidence 34556677777777766544333433
No 190
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate 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
Probab=23.60 E-value=2.2e+02 Score=18.66 Aligned_cols=21 Identities=0% Similarity=-0.070 Sum_probs=13.9
Q ss_pred HHHHHHHhcCeEEEEecCCcc
Q 041158 59 SLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 59 ~i~~~i~~s~~~I~v~S~~~~ 79 (118)
.....+..++.++++++-+-.
T Consensus 65 ~~~~~~~~~~~~i~v~d~~~~ 85 (161)
T cd04117 65 ITKQYYRRAQGIFLVYDISSE 85 (161)
T ss_pred hHHHHhcCCcEEEEEEECCCH
Confidence 344456678888888875543
No 191
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=23.55 E-value=97 Score=20.00 Aligned_cols=30 Identities=10% Similarity=0.199 Sum_probs=22.9
Q ss_pred eeeEEEEeeeccC----ccchHHHHHHHHccCCc
Q 041158 13 KHGIFLSFRGEDT----RDNFTSHLYSALCHNNI 42 (118)
Q Consensus 13 ~~dVFISys~~D~----~~~fv~~L~~~L~~~Gi 42 (118)
.-|+-|++...+. ...+...|.+.|++.|+
T Consensus 42 DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~ 75 (112)
T PF14792_consen 42 DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGF 75 (112)
T ss_dssp SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTS
T ss_pred CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCe
Confidence 5688888865543 24788999999999885
No 192
>PF07283 TrbH: Conjugal transfer protein TrbH; InterPro: IPR010837 This entry represents TrbH, a bacterial conjugal transfer protein approximately 150 residues long. TrbH contains a putative membrane lipoprotein lipid attachment site [].
Probab=23.35 E-value=1.3e+02 Score=20.10 Aligned_cols=22 Identities=27% Similarity=0.311 Sum_probs=19.0
Q ss_pred cchHHHHHHHHccCCcceEEeC
Q 041158 27 DNFTSHLYSALCHNNIETFIDN 48 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~ 48 (118)
..|...|.+.|+.+|+-|--+.
T Consensus 35 d~Fg~aL~~~LR~~GYaV~e~~ 56 (121)
T PF07283_consen 35 DPFGQALENALRAKGYAVIEDD 56 (121)
T ss_pred ChHHHHHHHHHHhcCcEEEecC
Confidence 3799999999999999887654
No 193
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=23.33 E-value=2.7e+02 Score=19.58 Aligned_cols=78 Identities=12% Similarity=0.129 Sum_probs=43.5
Q ss_pred chHHHHHHHHccCCcceE-EeCC-CCCC--------ccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhh--
Q 041158 28 NFTSHLYSALCHNNIETF-IDND-LKRG--------DEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK-- 95 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~-~d~~-~~~G--------~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~-- 95 (118)
..+..+.+.|...|..+- +|-. +.++ ..-...+.+.|++++. |++.||.|..|---. |..++++.
T Consensus 18 ~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~-iIi~tP~Y~~s~pg~--LKn~iD~l~~ 94 (191)
T PRK10569 18 ALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADG-LIVATPVYKASFSGA--LKTLLDLLPE 94 (191)
T ss_pred HHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCE-EEEECCccCCCCCHH--HHHHHHhCCh
Confidence 456677777777887764 3432 3332 1122466677888885 667899998753332 22222211
Q ss_pred -hhCCCEEEEEEee
Q 041158 96 -HVYGQIVIPVFCR 108 (118)
Q Consensus 96 -~~~~~~iiPI~~~ 108 (118)
.-.++.+.||--.
T Consensus 95 ~~l~~K~v~iiat~ 108 (191)
T PRK10569 95 RALEHKVVLPLATG 108 (191)
T ss_pred hhhCCCEEEEEEec
Confidence 1135577777544
No 194
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=23.29 E-value=2.2e+02 Score=20.21 Aligned_cols=60 Identities=15% Similarity=0.018 Sum_probs=38.8
Q ss_pred cchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEeecCCCCccc
Q 041158 55 EISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCRVDPSHVRW 116 (118)
Q Consensus 55 ~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~v~p~~v~~ 116 (118)
.+...-..-++..+.+++|+|=+-..|--....+...+...+ +..-+|+.+-..+.|+..
T Consensus 63 ~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~--~~~~~PivlVGNK~Dl~~ 122 (196)
T KOG0395|consen 63 EFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVK--GRDDVPIILVGNKCDLER 122 (196)
T ss_pred cChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhh--CcCCCCEEEEEEcccchh
Confidence 344344446888899999999888777666665555442222 222399998777776643
No 195
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=23.28 E-value=72 Score=21.61 Aligned_cols=49 Identities=18% Similarity=0.323 Sum_probs=32.7
Q ss_pred hHHHHHHHHccCCcceEE-eCC-------CCCCccchHHHHHHHHhcCeEEEEecCC
Q 041158 29 FTSHLYSALCHNNIETFI-DND-------LKRGDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 29 fv~~L~~~L~~~Gi~v~~-d~~-------~~~G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
.-..+...|.+.|++++. |.. ...|-...+...++++++++++.++...
T Consensus 12 mG~~~a~~L~~~g~~v~~~d~~~~~~~~~~~~g~~~~~s~~e~~~~~dvvi~~v~~~ 68 (163)
T PF03446_consen 12 MGSAMARNLAKAGYEVTVYDRSPEKAEALAEAGAEVADSPAEAAEQADVVILCVPDD 68 (163)
T ss_dssp HHHHHHHHHHHTTTEEEEEESSHHHHHHHHHTTEEEESSHHHHHHHBSEEEE-SSSH
T ss_pred HHHHHHHHHHhcCCeEEeeccchhhhhhhHHhhhhhhhhhhhHhhcccceEeecccc
Confidence 445677777888988865 432 1235555667888999999888776653
No 196
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=23.23 E-value=2.2e+02 Score=18.51 Aligned_cols=28 Identities=11% Similarity=0.116 Sum_probs=16.9
Q ss_pred CC-ccchHHHHHHHHhcCeEEEEecCCcc
Q 041158 52 RG-DEISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 52 ~G-~~~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
+| +.+.......++.++.+|++++.+-.
T Consensus 59 ~G~~~~~~~~~~~~~~~~~ii~v~d~~~~ 87 (166)
T cd01869 59 AGQERFRTITSSYYRGAHGIIIVYDVTDQ 87 (166)
T ss_pred CCcHhHHHHHHHHhCcCCEEEEEEECcCH
Confidence 44 33333334456678888888877543
No 197
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=23.17 E-value=2.6e+02 Score=22.15 Aligned_cols=65 Identities=9% Similarity=0.022 Sum_probs=40.4
Q ss_pred CeeeEEEEeeec-cCccchHHHHHHHHccCCcceEEeCC-CCCCccchHHHHHHHHhcC-eEEEEecC
Q 041158 12 NKHGIFLSFRGE-DTRDNFTSHLYSALCHNNIETFIDND-LKRGDEISQSLLDTIEAST-ISIIIFSE 76 (118)
Q Consensus 12 ~~~dVFISys~~-D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~~~~i~~~i~~s~-~~I~v~S~ 76 (118)
-.-|+-|.+.+. ++.......|...|++.|+-.+++.. -..+......+..++..-. .+.++..|
T Consensus 188 gDvD~LithP~~~s~~~~~~~~l~~~le~~g~il~~~~~~S~~Ek~~l~~~~s~~~~~~~~mgv~~LP 255 (353)
T KOG2534|consen 188 GDVDFLITHPGSTSTEAKLLQLLMILLEKKGLLLYYDQLHSCGEKLRLPSRKSALDHFKKFMGVFRLP 255 (353)
T ss_pred CCeeEEEeCCCCCchhhhHHHHHHHHHHhcCeEEEEeeeccccccccccchhhhHhhhhhEEEEEEcC
Confidence 356788888543 22446778889999999998888775 3333323334444444433 55666666
No 198
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=23.12 E-value=2.7e+02 Score=20.68 Aligned_cols=69 Identities=14% Similarity=0.080 Sum_probs=42.9
Q ss_pred eEEEEeeeccCc-cchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHH
Q 041158 15 GIFLSFRGEDTR-DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDE 87 (118)
Q Consensus 15 dVFISys~~D~~-~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~E 87 (118)
=+||=+++.|.. ..++++.+++|+..|..+-- +.....-.+.|.+-+.+.+++.| =.-|.+.==|+++|
T Consensus 35 i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~~---L~l~~~~~~~Ie~~l~~~d~IyV-gGGNTF~LL~~lke 104 (224)
T COG3340 35 IAFIPTASVDSEDDFYVEKVRNALAKLGLEVSE---LHLSKPPLAAIENKLMKADIIYV-GGGNTFNLLQELKE 104 (224)
T ss_pred EEEEecCccccchHHHHHHHHHHHHHcCCeeee---eeccCCCHHHHHHhhhhccEEEE-CCchHHHHHHHHHH
Confidence 369999887753 34889999999999986632 44444444567666777776543 33333333344444
No 199
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=23.09 E-value=1.2e+02 Score=19.81 Aligned_cols=42 Identities=17% Similarity=0.145 Sum_probs=23.9
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC-ccchHHHHHHHHhcCe
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTI 69 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~ 69 (118)
.....|.+.|++.|..+..-.-+... +.+.+.+.+++.++++
T Consensus 18 ~~~~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dl 60 (135)
T smart00852 18 SNGPALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADL 60 (135)
T ss_pred CcHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCE
Confidence 45567888899999876432212211 2344555555555554
No 200
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=22.94 E-value=1.5e+02 Score=18.48 Aligned_cols=53 Identities=15% Similarity=0.349 Sum_probs=31.1
Q ss_pred EEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEec
Q 041158 17 FLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFS 75 (118)
Q Consensus 17 FISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S 75 (118)
++..........|...|...|...... -...+.+.+.+.+.+.+.+..++|+.
T Consensus 42 ~~~~~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~l~~~~~~~l~~~~~~~lviD 94 (131)
T PF13401_consen 42 YVNCPSSRTPRDFAQEILEALGLPLKS------RQTSDELRSLLIDALDRRRVVLLVID 94 (131)
T ss_dssp EEEHHHHSSHHHHHHHHHHHHT-SSSS------TS-HHHHHHHHHHHHHHCTEEEEEEE
T ss_pred EEEeCCCCCHHHHHHHHHHHhCccccc------cCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence 555544444457888888888754333 12234455788888888888444443
No 201
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=22.90 E-value=85 Score=21.89 Aligned_cols=29 Identities=7% Similarity=0.201 Sum_probs=22.1
Q ss_pred EEEeeeccCccchHHHHHHHHccCCcceEE
Q 041158 17 FLSFRGEDTRDNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 17 FISys~~D~~~~fv~~L~~~L~~~Gi~v~~ 46 (118)
|+.|++.- ...++++|...|..+|++|-.
T Consensus 7 ivG~k~SG-KTTLie~lv~~L~~~G~rVa~ 35 (161)
T COG1763 7 IVGYKNSG-KTTLIEKLVRKLKARGYRVAT 35 (161)
T ss_pred EEecCCCC-hhhHHHHHHHHHHhCCcEEEE
Confidence 55665432 247999999999999999875
No 202
>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=22.87 E-value=1.7e+02 Score=20.86 Aligned_cols=53 Identities=17% Similarity=0.303 Sum_probs=33.6
Q ss_pred eeEEEEeeeccCccchHHHHHHHHccC-CcceEEeCCCCCCccchHHHHHHHHhcCeEEE
Q 041158 14 HGIFLSFRGEDTRDNFTSHLYSALCHN-NIETFIDNDLKRGDEISQSLLDTIEASTISII 72 (118)
Q Consensus 14 ~dVFISys~~D~~~~fv~~L~~~L~~~-Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~ 72 (118)
.=+||...+.|. ..++....++|+.. |+.+-.-..+. .+...+.|.+++.+++
T Consensus 33 ~i~~IptAs~~~-~~~~~~~~~a~~~l~G~~~~~~~~~~-----~~~~~~~l~~ad~I~l 86 (212)
T cd03146 33 KVLFVPTASGDR-DEYTARFYAAFESLRGVEVSHLHLFD-----TEDPLDALLEADVIYV 86 (212)
T ss_pred eEEEECCCCCCH-HHHHHHHHHHHhhccCcEEEEEeccC-----cccHHHHHhcCCEEEE
Confidence 346888877654 36888899999988 88665322122 2344566677776554
No 203
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=22.83 E-value=93 Score=19.94 Aligned_cols=31 Identities=10% Similarity=0.010 Sum_probs=19.0
Q ss_pred eeeE--EEEeeeccCccchHHHHHHHHccCCcceEE
Q 041158 13 KHGI--FLSFRGEDTRDNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 13 ~~dV--FISys~~D~~~~fv~~L~~~L~~~Gi~v~~ 46 (118)
+-|+ +||++++. .-+....+.++++|.++..
T Consensus 47 ~~dl~I~iS~SG~t---~~~~~~~~~a~~~g~~vi~ 79 (120)
T cd05710 47 EKSVVILASHSGNT---KETVAAAKFAKEKGATVIG 79 (120)
T ss_pred CCcEEEEEeCCCCC---hHHHHHHHHHHHcCCeEEE
Confidence 3465 55555553 3556666777778877643
No 204
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=22.81 E-value=89 Score=21.08 Aligned_cols=65 Identities=14% Similarity=0.076 Sum_probs=35.7
Q ss_pred CeeeE--EEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHH
Q 041158 12 NKHGI--FLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELL 89 (118)
Q Consensus 12 ~~~dV--FISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~ 89 (118)
.+-|+ +||+++.. .-+..+.+.++++|.++..=-. .++..+. +.|++.+.+-+.+. --.+|+.
T Consensus 78 ~~~D~~i~iS~sG~t---~~~~~~~~~a~~~g~~ii~iT~-~~~s~l~-------~~ad~~l~~~~~~~----~~~~~~~ 142 (154)
T TIGR00441 78 QKGDVLLGISTSGNS---KNVLKAIEAAKDKGMKTITLAG-KDGGKMA-------GLADIELRVPHFYT----PRIQEIH 142 (154)
T ss_pred CCCCEEEEEcCCCCC---HHHHHHHHHHHHCCCEEEEEeC-CCCCchh-------hhCCEEEEeCCCCc----HHHHHHH
Confidence 34455 56666653 4677777888888988764110 1222222 35777666555433 3445655
Q ss_pred HH
Q 041158 90 KI 91 (118)
Q Consensus 90 ~~ 91 (118)
.+
T Consensus 143 ~~ 144 (154)
T TIGR00441 143 IK 144 (154)
T ss_pred HH
Confidence 44
No 205
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=22.79 E-value=2.8e+02 Score=19.44 Aligned_cols=62 Identities=10% Similarity=0.121 Sum_probs=35.3
Q ss_pred cchHHHHHHHHcc-CCcceEE-eC-CCCCCc-------------cchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHH
Q 041158 27 DNFTSHLYSALCH-NNIETFI-DN-DLKRGD-------------EISQSLLDTIEASTISIIIFSERYASSGWCLDELLK 90 (118)
Q Consensus 27 ~~fv~~L~~~L~~-~Gi~v~~-d~-~~~~G~-------------~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~ 90 (118)
+..+..+.+.++. .|..+-+ +- +..+++ ... . .+.+.+++ .|++-||.|..+. ...+..
T Consensus 16 ~~lA~~ia~g~~~~~G~ev~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~-~~~l~~aD-~ii~gsPty~g~~--~~~lk~ 90 (200)
T PRK03767 16 ETMAEAVAEGAREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAPVA-T-PDELADYD-AIIFGTPTRFGNM--AGQMRN 90 (200)
T ss_pred HHHHHHHHHHHhhcCCcEEEEEeccccCCHHHHHhcCCCcccCCCcc-C-HHHHHhCC-EEEEEecccCCCc--hHHHHH
Confidence 4688888888887 8876643 21 111111 011 1 45677888 5788899987532 224444
Q ss_pred HHH
Q 041158 91 ILE 93 (118)
Q Consensus 91 ~~~ 93 (118)
+++
T Consensus 91 fld 93 (200)
T PRK03767 91 FLD 93 (200)
T ss_pred HHH
Confidence 444
No 206
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=22.70 E-value=1.1e+02 Score=23.11 Aligned_cols=52 Identities=21% Similarity=0.224 Sum_probs=35.7
Q ss_pred eccCccchHHHHHHHHccCCcceEE----eCC-CCCCccchHHHHHHHHhcCeEEEEecC
Q 041158 22 GEDTRDNFTSHLYSALCHNNIETFI----DND-LKRGDEISQSLLDTIEASTISIIIFSE 76 (118)
Q Consensus 22 ~~D~~~~fv~~L~~~L~~~Gi~v~~----d~~-~~~G~~~~~~i~~~i~~s~~~I~v~S~ 76 (118)
+.|.|+ -.+.+.|.+.|+.|++ |.. -..|-.+.+...+++.+++++|.++.+
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 455442 2577888889998875 222 356666655556789999999988554
No 207
>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional
Probab=22.68 E-value=86 Score=26.45 Aligned_cols=29 Identities=14% Similarity=0.361 Sum_probs=22.5
Q ss_pred EEEeeeccCccchHHHHHHHHccCCcceEE
Q 041158 17 FLSFRGEDTRDNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 17 FISys~~D~~~~fv~~L~~~L~~~Gi~v~~ 46 (118)
|+.|++..+ ..++.+|...|.++|++|-.
T Consensus 15 ivG~s~sGK-TTlie~li~~L~~~G~rVav 43 (597)
T PRK14491 15 FCAYSGTGK-TTLLEQLIPELNQRGLRLAV 43 (597)
T ss_pred EEcCCCCCH-HHHHHHHHHHHHhCCceEEE
Confidence 666654432 47999999999999998864
No 208
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=22.65 E-value=2.2e+02 Score=18.24 Aligned_cols=41 Identities=20% Similarity=0.223 Sum_probs=25.0
Q ss_pred HHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 36 ALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 36 ~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
-++..|+.+|.- ...+...+.+.+ +.+-++.|++++.+...
T Consensus 17 GFrLaGi~~~~v---~~~ee~~~~i~~-l~~~d~gII~Ite~~a~ 57 (104)
T PRK01395 17 PFKALGIDVFPV---IDEQEAINTLRK-LAMEDYGIIYITEQIAA 57 (104)
T ss_pred HHHHcCCeeEEe---cChHHHHHHHHH-HhcCCcEEEEEcHHHHH
Confidence 345668877652 233444444444 44567899999888765
No 209
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=22.56 E-value=70 Score=17.94 Aligned_cols=16 Identities=25% Similarity=0.517 Sum_probs=12.3
Q ss_pred HHHHhcCeEEEEecCC
Q 041158 62 DTIEASTISIIIFSER 77 (118)
Q Consensus 62 ~~i~~s~~~I~v~S~~ 77 (118)
.-+.++++.++++||+
T Consensus 28 s~LC~~~v~~iv~~~~ 43 (51)
T PF00319_consen 28 STLCGVDVALIVFSPD 43 (51)
T ss_dssp HHHHT-EEEEEEEETT
T ss_pred eeecCCeEEEEEECCC
Confidence 3567889999999987
No 210
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=22.51 E-value=65 Score=22.59 Aligned_cols=22 Identities=18% Similarity=0.326 Sum_probs=16.7
Q ss_pred cCeEEEEecCC--ccCchhhHHHH
Q 041158 67 STISIIIFSER--YASSGWCLDEL 88 (118)
Q Consensus 67 s~~~I~v~S~~--~~~S~wc~~El 88 (118)
....++++|.+ |.++.||..|=
T Consensus 75 ~~~~Vl~IS~DLPFAq~RfC~aeG 98 (158)
T COG2077 75 GNTVVLCISMDLPFAQKRFCGAEG 98 (158)
T ss_pred CCcEEEEEeCCChhHHhhhhhhcC
Confidence 44667778877 78999998763
No 211
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=22.47 E-value=3.3e+02 Score=22.11 Aligned_cols=64 Identities=11% Similarity=0.005 Sum_probs=41.8
Q ss_pred CCCeeeEEEEeeecc-CccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 10 NSNKHGIFLSFRGED-TRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 10 ~~~~~dVFISys~~D-~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
....++|+|-.-+++ .....+..|.+.|++. ++|.+|.. ..+...+..|-..---.++++.++-
T Consensus 360 ~lAP~qV~Iipi~~~~e~~~~A~~la~~LR~~-irVelD~~----~slgkkir~A~~~Gip~~IIIG~~E 424 (456)
T PRK04173 360 ALAPVKVAVLPLVKKEKLSEKAREIYAELRKD-FNVDYDDS----GSIGKRYRRQDEIGTPFCITVDFDT 424 (456)
T ss_pred cCCCCEEEEEEecCcHHHHHHHHHHHHHHHhc-CEEEEeCC----CCHHHHHHHHHHcCCCEEEEECCch
Confidence 345678887665442 1246889999999999 99999832 2455566665544444566666554
No 212
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=22.43 E-value=2.8e+02 Score=19.41 Aligned_cols=13 Identities=31% Similarity=0.171 Sum_probs=5.0
Q ss_pred HHHHHHHccCCcc
Q 041158 31 SHLYSALCHNNIE 43 (118)
Q Consensus 31 ~~L~~~L~~~Gi~ 43 (118)
..+...++..|+.
T Consensus 158 ~~~~~~~~~~~~~ 170 (298)
T cd06269 158 ELLEEELEKNGIC 170 (298)
T ss_pred HHHHHHHHHCCee
Confidence 3333333333433
No 213
>PF00563 EAL: EAL domain; InterPro: IPR001633 This domain is found in diverse bacterial signalling proteins. It is called EAL after its conserved residues. The EAL domain is a good candidate for a diguanylate phosphodiesterase function []. The domain contains many conserved acidic residues that could participate in metal binding and might form the phosphodiesterase active site. It often but not always occurs along with IPR000014 from INTERPRO and IPR000160 from INTERPRO domains that are also found in many signalling proteins.; PDB: 3PJU_A 3PJX_A 3PJW_A 3PJT_B 3KZP_B 3U2E_B 3S83_A 2R6O_B 3N3T_B 3GG1_A ....
Probab=22.18 E-value=2.7e+02 Score=19.17 Aligned_cols=62 Identities=15% Similarity=0.160 Sum_probs=28.6
Q ss_pred HccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccC---chhhHHHHHHHHHhhhhCCCEEE
Q 041158 37 LCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS---SGWCLDELLKILECKHVYGQIVI 103 (118)
Q Consensus 37 L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~---S~wc~~El~~~~~~~~~~~~~ii 103 (118)
|+..|+++++|+ +..|..- .+.+..-..-.+-+++.+.. +++-..=+..+....++.+..+|
T Consensus 143 l~~~G~~i~ld~-~g~~~~~----~~~l~~l~~~~ikld~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vi 207 (236)
T PF00563_consen 143 LRSLGFRIALDD-FGSGSSS----LEYLASLPPDYIKLDGSLVRDLSDEEAQSLLQSLINLAKSLGIKVI 207 (236)
T ss_dssp HHHCT-EEEEEE-ETSTCGC----HHHHHHHCGSEEEEEHHGHTTTTSHHHHHHHHHHHHHHHHTT-EEE
T ss_pred HHhcCceeEeee-ccCCcch----hhhhhhcccccceeecccccccchhhHHHHHHHHHHHhhccccccc
Confidence 666777777765 3222221 11233334445666666653 33443344444454555454443
No 214
>PF04748 Polysacc_deac_2: Divergent polysaccharide deacetylase; InterPro: IPR006837 This is a family of uncharacterised proteins that includes YibQ.; PDB: 2QV5_A 2NLY_A.
Probab=22.14 E-value=1.3e+02 Score=21.73 Aligned_cols=58 Identities=26% Similarity=0.327 Sum_probs=27.4
Q ss_pred ceEEeCCCCCCccchHHHHHHHHhcC---eEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEE
Q 041158 43 ETFIDNDLKRGDEISQSLLDTIEAST---ISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPV 105 (118)
Q Consensus 43 ~v~~d~~~~~G~~~~~~i~~~i~~s~---~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI 105 (118)
.+|+|.. ..-+.+..++.+++..++ ..|+|-.|.-. +.+=|.......++.+..++||
T Consensus 148 dvfLD~~-~~~~~I~~ql~~~~~~A~~~G~aI~Igh~~p~----Tl~~L~~~~~~l~~~gi~lVpv 208 (213)
T PF04748_consen 148 DVFLDND-QDEAAIRRQLDQAARIARKQGSAIAIGHPRPE----TLEALEEWLPELEAQGIELVPV 208 (213)
T ss_dssp SEETTST--SHHHHHHHHHHHHHHHHCCSEEEEEEE-SCC----HHHHHHHHHHHHHHCTEEE--H
T ss_pred ceecCCC-CCHHHHHHHHHHHHHhhhhcCcEEEEEcCCHH----HHHHHHHHHhHHhhCCEEEEEh
Confidence 4555554 333445566666665444 34555444433 3333444444444567777775
No 215
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=22.13 E-value=3.9e+02 Score=20.96 Aligned_cols=58 Identities=12% Similarity=0.137 Sum_probs=38.2
Q ss_pred eccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccC
Q 041158 22 GEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 22 ~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
+++.....++.|...++..|++|.--. ...+.++...+.....+.+++.+..++.-.+
T Consensus 169 ~E~ns~~l~eelk~~A~~~Gl~vve~~-v~~~ndi~~a~~~l~g~~d~i~~p~dn~i~s 226 (322)
T COG2984 169 GEANSVSLVEELKKEARKAGLEVVEAA-VTSVNDIPRAVQALLGKVDVIYIPTDNLIVS 226 (322)
T ss_pred CCcccHHHHHHHHHHHHHCCCEEEEEe-cCcccccHHHHHHhcCCCcEEEEecchHHHH
Confidence 444455678999999999999996422 5556666655555556777766655554433
No 216
>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=22.10 E-value=1.7e+02 Score=22.13 Aligned_cols=40 Identities=15% Similarity=0.140 Sum_probs=28.7
Q ss_pred CCCeeeEEEEeeeccCcc-----------------------chHHHHHHHHccCCcceEEeCC
Q 041158 10 NSNKHGIFLSFRGEDTRD-----------------------NFTSHLYSALCHNNIETFIDND 49 (118)
Q Consensus 10 ~~~~~dVFISys~~D~~~-----------------------~fv~~L~~~L~~~Gi~v~~d~~ 49 (118)
...+..|+|=|.|.++.. .....|.+.|+++||.|-.|..
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 456778888776655321 1336799999999999988876
No 217
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=21.93 E-value=1.7e+02 Score=21.61 Aligned_cols=36 Identities=19% Similarity=0.346 Sum_probs=26.8
Q ss_pred CCCeeeEEEEeee-ccCccchHHHHHHHHccCCcceE
Q 041158 10 NSNKHGIFLSFRG-EDTRDNFTSHLYSALCHNNIETF 45 (118)
Q Consensus 10 ~~~~~dVFISys~-~D~~~~fv~~L~~~L~~~Gi~v~ 45 (118)
...+.-||++.+. .|..-.+-..|...|..+|+++-
T Consensus 18 ~~~~rtVyv~vrNTSd~~~~l~~~i~~~L~~kGY~vv 54 (215)
T PF05818_consen 18 APSQRTVYVQVRNTSDKDINLESQIISALQAKGYQVV 54 (215)
T ss_pred CcccceEEEEEecCCCCccchHHHHHHHHHHCCCEEe
Confidence 3456789999964 33323578899999999999774
No 218
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. 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 featur
Probab=21.91 E-value=2.5e+02 Score=18.52 Aligned_cols=19 Identities=0% Similarity=0.058 Sum_probs=13.8
Q ss_pred HHHHHHhcCeEEEEecCCc
Q 041158 60 LLDTIEASTISIIIFSERY 78 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~ 78 (118)
.....+.++.+|++++.+-
T Consensus 70 ~~~~~~~~d~il~v~d~~~ 88 (168)
T cd01866 70 TRSYYRGAAGALLVYDITR 88 (168)
T ss_pred HHHHhccCCEEEEEEECCC
Confidence 3446677888888888773
No 219
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=21.81 E-value=2.6e+02 Score=21.74 Aligned_cols=61 Identities=16% Similarity=0.204 Sum_probs=35.6
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 76 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~ 76 (118)
...||+|.+-+.+. ..-+.++...|.+.|++|-++-. ...+..++..+-..--..++++.+
T Consensus 321 ~~~~vlV~~~~~~~-~~~~~~i~~~Lr~~gi~v~~~~~---~~~l~k~~~~a~~~g~~~~i~ig~ 381 (397)
T TIGR00442 321 SSPDVYVVPLGEEA-ELEALKLAQKLRKAGIRVEVDLG---GRKLKKQLKYADKLGARFAVILGE 381 (397)
T ss_pred CCCcEEEEEeCHHH-HHHHHHHHHHHHhCCCeEEEeCC---CCCHHHHHHHHHHcCCCEEEEECh
Confidence 45788886644322 23577899999999999866432 233444555554433234444444
No 220
>PLN02837 threonine-tRNA ligase
Probab=21.77 E-value=3e+02 Score=23.29 Aligned_cols=62 Identities=3% Similarity=0.020 Sum_probs=37.5
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCc
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~ 78 (118)
...+|.|-.-+++ ....+..|.+.|++.|++|-++.. +.+..++..+-..---.++++.++-
T Consensus 515 aP~qV~IIpi~~~-~~~~A~~Ia~~Lr~~GirVev~~~----~slgkkir~A~~~gip~~IiIG~~E 576 (614)
T PLN02837 515 APVQARVLPVTDN-ELEYCKEVVAKLKAKGIRAEVCHG----ERLPKLIRNAETQKIPLMAVVGPKE 576 (614)
T ss_pred CCccEEEEEeChH-HHHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHHHHcCCCEEEEEcchh
Confidence 4567665543332 246889999999999999987532 3344455554333333555565543
No 221
>PRK13355 bifunctional HTH-domain containing protein/aminotransferase; Provisional
Probab=21.72 E-value=2.6e+02 Score=22.73 Aligned_cols=42 Identities=14% Similarity=0.199 Sum_probs=27.6
Q ss_pred HHHHHHHHhcCeEEEEecCCccC-chhhHHHHHHHHHhhhhCC
Q 041158 58 QSLLDTIEASTISIIIFSERYAS-SGWCLDELLKILECKHVYG 99 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~~-S~wc~~El~~~~~~~~~~~ 99 (118)
+.+.+++..-...|++.+|+--. .-|..+|+..+++..++.+
T Consensus 272 ~~l~~~~~~~~k~i~i~nP~NPTG~v~~~~~l~~i~~~a~~~~ 314 (517)
T PRK13355 272 DDIRSKITSRTKAIVIINPNNPTGALYPREVLQQIVDIAREHQ 314 (517)
T ss_pred HHHHHhcCcCceEEEEECCCCCCCcCcCHHHHHHHHHHHHHcC
Confidence 46666665545678888987543 3466777888777665544
No 222
>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=21.72 E-value=61 Score=17.74 Aligned_cols=16 Identities=13% Similarity=0.144 Sum_probs=13.1
Q ss_pred HHHHHHHHccCCcceE
Q 041158 30 TSHLYSALCHNNIETF 45 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~ 45 (118)
...+.+.|+.+|+.++
T Consensus 50 ~~~~~~~L~~~G~~v~ 65 (65)
T cd04882 50 IEKAIEVLQERGVELV 65 (65)
T ss_pred HHHHHHHHHHCCceEC
Confidence 6688899999998764
No 223
>PF13155 Toprim_2: Toprim-like
Probab=21.66 E-value=96 Score=18.72 Aligned_cols=39 Identities=21% Similarity=0.249 Sum_probs=26.4
Q ss_pred hHHHHHHHHccC---CcceEEeCCCCCCccchHHHHHHHHhcC
Q 041158 29 FTSHLYSALCHN---NIETFIDNDLKRGDEISQSLLDTIEAST 68 (118)
Q Consensus 29 fv~~L~~~L~~~---Gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 68 (118)
....+...|+.. .+.+++|.+ +.|......+.+.+....
T Consensus 34 ~~~~~~~~l~~~~~~~i~l~~DnD-~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 34 SEKQQIKFLKENPYKKIVLAFDND-EAGRKAAEKLQKELKEEG 75 (96)
T ss_pred HHHHHHHHHHhCCCCcEEEEeCCC-HHHHHHHHHHHHHHHhhC
Confidence 455677777433 366667765 778888888887777654
No 224
>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=21.61 E-value=2.7e+02 Score=18.93 Aligned_cols=30 Identities=10% Similarity=0.334 Sum_probs=21.1
Q ss_pred CCCc-cchHHHHHHHHhcCeEEEEecCCccC
Q 041158 51 KRGD-EISQSLLDTIEASTISIIIFSERYAS 80 (118)
Q Consensus 51 ~~G~-~~~~~i~~~i~~s~~~I~v~S~~~~~ 80 (118)
.||. .+..+...++..++.+|+|++.+---
T Consensus 77 tPG~~~f~~~~~~~~~~~D~ailvVda~~g~ 107 (188)
T PF00009_consen 77 TPGHEDFIKEMIRGLRQADIAILVVDANDGI 107 (188)
T ss_dssp ESSSHHHHHHHHHHHTTSSEEEEEEETTTBS
T ss_pred cccccceeecccceecccccceeeeeccccc
Confidence 3664 45567777888888888888876443
No 225
>cd02742 GH20_hexosaminidase Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. These enzymes are broadly distributed in microorganisms, plants and animals, and play roles in various key physiological and pathological processes. These processes include cell structural integrity, energy storage, cellular signaling, fertilization, pathogen defense, viral penetration, the development of carcinomas, inflammatory events and lysosomal storage disorders. The GH20 enzymes include the eukaryotic beta-N-acetylhexosaminidases A and B, the bacterial chitobiases, dispersin B, and lacto-N-biosidase. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by the solvent or the enzyme, but by the substrate itself.
Probab=21.29 E-value=1.4e+02 Score=22.66 Aligned_cols=29 Identities=24% Similarity=0.283 Sum_probs=24.8
Q ss_pred ccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 78 YASSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 78 ~~~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
.....+..+|+..+++..++++..|||-+
T Consensus 64 ~~~~~yT~~di~elv~yA~~rgI~viPEi 92 (303)
T cd02742 64 SPGGFYTYAQLKDIIEYAAARGIEVIPEI 92 (303)
T ss_pred CCCCeECHHHHHHHHHHHHHcCCEEEEec
Confidence 33457899999999999999999999975
No 226
>PF00728 Glyco_hydro_20: Glycosyl hydrolase family 20, catalytic domain; InterPro: IPR015883 Glycoside hydrolase family 20 GH20 from CAZY comprises enzymes with several known activities; beta-hexosaminidase (3.2.1.52 from EC); lacto-N-biosidase (3.2.1.140 from EC). Carbonyl oxygen of the C-2 acetamido group of the substrate acts as the catalytic nucleophile/base in this family of enzymes. In the brain and other tissues, beta-hexosaminidase A degrades GM2 gangliosides; specifically, the enzyme hydrolyses terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides. There are 3 forms of beta-hexosaminidase: hexosaminidase A is a trimer, with one alpha, one beta-A and one beta-B chain; hexosaminidase B is a tetramer of two beta-A and two beta-B chains; and hexosaminidase S is a homodimer of alpha chains. The two beta chains are derived from the cleavage of a precursor. Mutations in the beta-chain lead to Sandhoff disease, a lysosomal storage disorder characterised by accumulation of GM2 ganglioside [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 3RPM_A 1C7T_A 1QBA_A 1QBB_A 1C7S_A 3RCN_A 2YL8_A 2YL6_A 2YLL_A 2YL5_C ....
Probab=21.19 E-value=1.3e+02 Score=22.81 Aligned_cols=25 Identities=16% Similarity=0.287 Sum_probs=22.0
Q ss_pred hhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 82 GWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 82 ~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
.+...|+..+++..++++..|||-+
T Consensus 69 ~yT~~di~~lv~yA~~~gI~VIPei 93 (351)
T PF00728_consen 69 YYTKEDIRELVAYAKERGIEVIPEI 93 (351)
T ss_dssp EBEHHHHHHHHHHHHHTT-EEEEEE
T ss_pred cCCHHHHHHHHHHHHHcCCceeeec
Confidence 6889999999999999999999975
No 227
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=21.08 E-value=2.4e+02 Score=18.11 Aligned_cols=22 Identities=14% Similarity=0.203 Sum_probs=13.8
Q ss_pred chHHHHHHHHhcCeEEEEecCC
Q 041158 56 ISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 56 ~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
+.......++.++.++++++-.
T Consensus 64 ~~~~~~~~~~~~~~~v~v~d~~ 85 (162)
T cd04106 64 FDAITKAYYRGAQACILVFSTT 85 (162)
T ss_pred HHHhHHHHhcCCCEEEEEEECC
Confidence 3333344667788888888754
No 228
>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=21.04 E-value=1.5e+02 Score=23.36 Aligned_cols=18 Identities=17% Similarity=0.272 Sum_probs=12.8
Q ss_pred cchHHHHHHHHccCCcce
Q 041158 27 DNFTSHLYSALCHNNIET 44 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v 44 (118)
-.|...|.+.|+.+|+.+
T Consensus 184 LHFt~~ll~~l~~kGv~~ 201 (344)
T TIGR00113 184 LHFSEELLEKLKAKGVQY 201 (344)
T ss_pred cCCCHHHHHHHHHCCCeE
Confidence 357777778887777754
No 229
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=21.03 E-value=2.4e+02 Score=19.40 Aligned_cols=49 Identities=16% Similarity=0.050 Sum_probs=26.4
Q ss_pred HHHhcCeEEEEecCCccCchhhHHHH-HHHHHhhhhCCCEEEEEEeecCCCCcc
Q 041158 63 TIEASTISIIIFSERYASSGWCLDEL-LKILECKHVYGQIVIPVFCRVDPSHVR 115 (118)
Q Consensus 63 ~i~~s~~~I~v~S~~~~~S~wc~~El-~~~~~~~~~~~~~iiPI~~~v~p~~v~ 115 (118)
.++.++.+|++++-+ ++...+++ ....+..++... -+|+++-..+.|++
T Consensus 73 ~~~~ad~~ilvyDit---~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~ 122 (182)
T cd04172 73 SYPDSDAVLICFDIS---RPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLR 122 (182)
T ss_pred hcCCCCEEEEEEECC---CHHHHHHHHHHHHHHHHHHCC-CCCEEEEeEChhhh
Confidence 567889999999954 44444444 232222221111 25666655565554
No 230
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=20.99 E-value=2e+02 Score=20.97 Aligned_cols=62 Identities=19% Similarity=0.206 Sum_probs=35.7
Q ss_pred HHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHH----hcCeE-EEEecCCccC-------chhhHHHHHHHH
Q 041158 30 TSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIE----ASTIS-IIIFSERYAS-------SGWCLDELLKIL 92 (118)
Q Consensus 30 v~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~----~s~~~-I~v~S~~~~~-------S~wc~~El~~~~ 92 (118)
+..|...|++.|+.|....++. .+.+.+.+.+..+ ..+.+ ++++|....+ ...-++++...+
T Consensus 34 ~~~l~~~f~~lgF~V~~~~nlt-~~~~~~~l~~f~~~~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f 107 (243)
T cd00032 34 AENLTKLFESLGYEVEVKNNLT-AEEILEELKEFASPDHSDSDSFVCVILSHGEEGGIYGTDGDVVPIDEITSLF 107 (243)
T ss_pred HHHHHHHHHHCCCEEEEeCCCC-HHHHHHHHHHHHhccCCCCCeeEEEECCCCCCCEEEEecCcEEEHHHHHHhh
Confidence 6789999999999998766542 3334444444432 33444 5555555432 234455655544
No 231
>cd06565 GH20_GcnA-like Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine residues from 4-methylumbelliferylated (4MU) substrates, as well as cleaving NAG from chito-oligosaccharides (i.e. NAG polymers). In contrast, sulfated forms of the substrate are unable to be cleaved and act instead as mild competitive inhibitors. Additionally, the enzyme is known to be poisoned by several first-row transition metals as well as by mercury. GcnA forms a homodimer with subunits comprised of three domains, an N-terminal zincin-like domain, this central catalytic GH20 domain, and a C-terminal alpha helical domain. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=20.93 E-value=1.2e+02 Score=23.03 Aligned_cols=27 Identities=22% Similarity=0.362 Sum_probs=23.9
Q ss_pred CchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 80 SSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 80 ~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
...+..+|+..+.+..++++..|||-+
T Consensus 54 ~~~yT~~ei~ei~~yA~~~gI~vIPei 80 (301)
T cd06565 54 RGAYTKEEIREIDDYAAELGIEVIPLI 80 (301)
T ss_pred CCCcCHHHHHHHHHHHHHcCCEEEecC
Confidence 566899999999999999999999964
No 232
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=20.89 E-value=2.6e+02 Score=18.38 Aligned_cols=35 Identities=11% Similarity=0.177 Sum_probs=23.7
Q ss_pred CCCc-cchHHHHHHHHhcCeEEEEecCCccCchhhH
Q 041158 51 KRGD-EISQSLLDTIEASTISIIIFSERYASSGWCL 85 (118)
Q Consensus 51 ~~G~-~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~ 85 (118)
.||. .+.......+..++.+++|++...-.+.+..
T Consensus 69 tpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~ 104 (189)
T cd00881 69 TPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTR 104 (189)
T ss_pred CCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHH
Confidence 3553 3445566788899999999987765544433
No 233
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=20.89 E-value=2.6e+02 Score=18.62 Aligned_cols=16 Identities=19% Similarity=0.046 Sum_probs=7.1
Q ss_pred HHHHHHHccCCcceEE
Q 041158 31 SHLYSALCHNNIETFI 46 (118)
Q Consensus 31 ~~L~~~L~~~Gi~v~~ 46 (118)
.+|...|+++|.+|.+
T Consensus 92 ~~l~~~L~~~G~~v~~ 107 (130)
T PF12965_consen 92 KRLGKLLKEAGCKVKI 107 (130)
T ss_pred HHHHHHHHHCCCEEEE
Confidence 3344444444444433
No 234
>PTZ00099 rab6; Provisional
Probab=20.87 E-value=2.4e+02 Score=19.28 Aligned_cols=19 Identities=16% Similarity=0.314 Sum_probs=13.1
Q ss_pred HHHHHHhcCeEEEEecCCc
Q 041158 60 LLDTIEASTISIIIFSERY 78 (118)
Q Consensus 60 i~~~i~~s~~~I~v~S~~~ 78 (118)
....++.++.+|+|++-+-
T Consensus 46 ~~~~~~~ad~~ilv~D~t~ 64 (176)
T PTZ00099 46 IPSYIRDSAAAIVVYDITN 64 (176)
T ss_pred cHHHhCCCcEEEEEEECCC
Confidence 3445678888888888444
No 235
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=20.85 E-value=1.6e+02 Score=20.42 Aligned_cols=44 Identities=20% Similarity=0.243 Sum_probs=24.6
Q ss_pred chHHHHHHHHccCCcceEEeCCCCCC-ccchHHHHHHHHhcCeEE
Q 041158 28 NFTSHLYSALCHNNIETFIDNDLKRG-DEISQSLLDTIEASTISI 71 (118)
Q Consensus 28 ~fv~~L~~~L~~~Gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~~I 71 (118)
.....|.+.|...|+.+-.-.-+... +.+.+.+.+++..++++|
T Consensus 19 ~n~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~dlVI 63 (170)
T cd00885 19 TNAAFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERADLVI 63 (170)
T ss_pred hHHHHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCCEEE
Confidence 46678899999999887432112111 224455555555555433
No 236
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=20.78 E-value=3.4e+02 Score=22.53 Aligned_cols=66 Identities=18% Similarity=0.266 Sum_probs=39.2
Q ss_pred ceEEeCCC--CCCccchHHHHHHHH-hcCeEEEEecCCccC----chhhHHHHHHHHHhhhhCCCEEEEEEeecCC
Q 041158 43 ETFIDNDL--KRGDEISQSLLDTIE-ASTISIIIFSERYAS----SGWCLDELLKILECKHVYGQIVIPVFCRVDP 111 (118)
Q Consensus 43 ~v~~d~~~--~~G~~~~~~i~~~i~-~s~~~I~v~S~~~~~----S~wc~~El~~~~~~~~~~~~~iiPI~~~v~p 111 (118)
.+|+|..+ .....+. -.+.|. +|++.|+|.+..... ..|...|...+-+. ++.+.+.|.|+=..+|
T Consensus 120 TPW~d~~IPF~~AAeiG--T~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eL-k~~~kPfiivlN~~dp 192 (492)
T TIGR02836 120 TPWYDYEIPFEEAAEIG--TRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEEL-KELNKPFIILLNSTHP 192 (492)
T ss_pred CCcccccCchhhhhhhh--HHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHH-HhcCCCEEEEEECcCC
Confidence 46777763 3333332 455778 899999998755422 34565666555443 3456677766655554
No 237
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.70 E-value=3.4e+02 Score=22.27 Aligned_cols=54 Identities=17% Similarity=0.202 Sum_probs=41.6
Q ss_pred CCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 50 LKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 50 ~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
+..|-.|...+.--+++++..|+++.|+=+. .-.|+..+++..+.+...|--|+
T Consensus 165 isR~ydF~~v~~WFaeR~D~IiLlfD~hKLD---IsdEf~~vi~aLkG~EdkiRVVL 218 (532)
T KOG1954|consen 165 ISRGYDFTGVLEWFAERVDRIILLFDAHKLD---ISDEFKRVIDALKGHEDKIRVVL 218 (532)
T ss_pred ccccCChHHHHHHHHHhccEEEEEechhhcc---ccHHHHHHHHHhhCCcceeEEEe
Confidence 6778889999999999999999999999776 44688887776665544444443
No 238
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=20.69 E-value=2.4e+02 Score=21.93 Aligned_cols=32 Identities=13% Similarity=0.218 Sum_probs=23.4
Q ss_pred CCCccchHHHHHHHHhcCeEEEEecCCccCch
Q 041158 51 KRGDEISQSLLDTIEASTISIIIFSERYASSG 82 (118)
Q Consensus 51 ~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~ 82 (118)
.|.....+.+.++++.-=..+++++..|...+
T Consensus 96 VPa~~v~dai~Ea~~aGI~~~ViiteGfpe~d 127 (317)
T PTZ00187 96 VPPPHAASAIIEAIEAEIPLVVCITEGIPQHD 127 (317)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEEECCCCchhh
Confidence 45666677788888776677888888886644
No 239
>PRK11064 wecC UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional
Probab=20.64 E-value=1.8e+02 Score=23.19 Aligned_cols=60 Identities=15% Similarity=0.283 Sum_probs=37.7
Q ss_pred EEeee--ccCccchHHHHHHHHccCC-cceEEeCC-CCC------CccchHHHHHHHHhcCeEEEEecCC
Q 041158 18 LSFRG--EDTRDNFTSHLYSALCHNN-IETFIDND-LKR------GDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 18 ISys~--~D~~~~fv~~L~~~L~~~G-i~v~~d~~-~~~------G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
++|.. .|.+.+=+..|.+.|.++| ..|-..+- +.. +......+.++++.++.+|+.....
T Consensus 328 lafK~~t~d~r~Sp~~~l~~~L~~~gg~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~ad~vvi~t~~~ 397 (415)
T PRK11064 328 LAFKPNIDDLRESPAMEIAELIAQWHSGETLVVEPNIHQLPKKLDGLVTLVSLDEALATADVLVMLVDHS 397 (415)
T ss_pred eEECCCCcchhhChHHHHHHHHHhcCCcEEEEECCCCCchhhhccCceeeCCHHHHHhCCCEEEECCCCH
Confidence 46743 4556777889999999886 77765432 321 1111245677888888877655443
No 240
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=20.61 E-value=3.7e+02 Score=21.32 Aligned_cols=59 Identities=12% Similarity=0.193 Sum_probs=37.1
Q ss_pred CeeeEEEEeeeccCccchHHHHHHHHcc-CCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecC
Q 041158 12 NKHGIFLSFRGEDTRDNFTSHLYSALCH-NNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSE 76 (118)
Q Consensus 12 ~~~dVFISys~~D~~~~fv~~L~~~L~~-~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~ 76 (118)
...||+|-+-+.. .-+..+...|.+ .|++|-+|-. ...+...+..|-+.--..++++.+
T Consensus 337 ~~~dvlI~~~~~~---~~a~~ia~~Lr~~~Gi~ve~~~~---~~~l~~~i~~A~~~g~~~iviig~ 396 (423)
T PRK12420 337 STADVFIIPLGTE---LQCLQIAQQLRSTTGLKVELELA---GRKLKKALNYANKENIPYVLIIGE 396 (423)
T ss_pred CCceEEEEEcCCH---HHHHHHHHHHHhhcCCeEEEecC---CcCHHHHHHHHHHcCCCEEEEECh
Confidence 3568988774322 347788999999 9999977642 234455565554433335555555
No 241
>PRK09004 FMN-binding protein MioC; Provisional
Probab=20.59 E-value=2.2e+02 Score=19.05 Aligned_cols=20 Identities=20% Similarity=0.182 Sum_probs=16.6
Q ss_pred cchHHHHHHHHccCCcceEE
Q 041158 27 DNFTSHLYSALCHNNIETFI 46 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~ 46 (118)
..+|.+|.+.|...|+.+-+
T Consensus 16 e~~A~~l~~~~~~~g~~~~~ 35 (146)
T PRK09004 16 EYVADHLAEKLEEAGFSTET 35 (146)
T ss_pred HHHHHHHHHHHHHcCCceEE
Confidence 57999999999988887654
No 242
>PF11495 Regulator_TrmB: Archaeal transcriptional regulator TrmB; InterPro: IPR021586 TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus []. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif []. ; PDB: 3QPH_A 2F5T_X.
Probab=20.58 E-value=3.4e+02 Score=19.58 Aligned_cols=52 Identities=23% Similarity=0.124 Sum_probs=27.8
Q ss_pred CCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhhhhCCCEEEEEEee
Q 041158 52 RGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECKHVYGQIVIPVFCR 108 (118)
Q Consensus 52 ~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~iiPI~~~ 108 (118)
.-+.+.+.+.+.|++|+.-|.+.-+ +..+.++...+....++|-.|.-+.+.
T Consensus 7 g~~~I~~~i~elI~~Ae~eI~is~~-----~~~l~~l~~~L~~a~~rGV~V~li~~~ 58 (233)
T PF11495_consen 7 GRETILERIRELIENAESEIYISIP-----PEFLEELRDELEEAVDRGVKVKLIVFG 58 (233)
T ss_dssp SHHHHHHHHHHHHHC-SSEEEEEE------GGGHHHHHHHHHHHHHTT-EEEEEESS
T ss_pred CHHHHHHHHHHHHHHhheEEEEEcC-----HHHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 3345666777777777766555433 233445555555444556666655554
No 243
>cd06568 GH20_SpHex_like A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the active site plays a critical role in substrate-assisted catalysis by orienting the 2-acetamido group and stabilizing the transition state. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself. Proteins belonging to this subgroup lack the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases.
Probab=20.53 E-value=1.2e+02 Score=23.45 Aligned_cols=27 Identities=11% Similarity=0.154 Sum_probs=23.6
Q ss_pred CchhhHHHHHHHHHhhhhCCCEEEEEE
Q 041158 80 SSGWCLDELLKILECKHVYGQIVIPVF 106 (118)
Q Consensus 80 ~S~wc~~El~~~~~~~~~~~~~iiPI~ 106 (118)
..-+..+|+..+++..++++..|||-+
T Consensus 69 ~~~YT~~di~elv~yA~~rgI~vIPEi 95 (329)
T cd06568 69 GGYYTQEDYKDIVAYAAERHITVVPEI 95 (329)
T ss_pred CCcCCHHHHHHHHHHHHHcCCEEEEec
Confidence 346889999999999999999999975
No 244
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. 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.
Probab=20.52 E-value=2.8e+02 Score=18.66 Aligned_cols=20 Identities=0% Similarity=-0.089 Sum_probs=14.7
Q ss_pred HHHHHHHhcCeEEEEecCCc
Q 041158 59 SLLDTIEASTISIIIFSERY 78 (118)
Q Consensus 59 ~i~~~i~~s~~~I~v~S~~~ 78 (118)
.....++.++.+|++++.+-
T Consensus 65 ~~~~~~~~~d~iilv~d~~~ 84 (188)
T cd04125 65 LNNSYYRGAHGYLLVYDVTD 84 (188)
T ss_pred hHHHHccCCCEEEEEEECcC
Confidence 34456778899999998754
No 245
>PLN02734 glycyl-tRNA synthetase
Probab=20.48 E-value=99 Score=26.75 Aligned_cols=43 Identities=16% Similarity=0.168 Sum_probs=28.4
Q ss_pred eeeEEEEeeeccCccchHHHHHHHHccCCcceEEeCC-CCCCccc
Q 041158 13 KHGIFLSFRGEDTRDNFTSHLYSALCHNNIETFIDND-LKRGDEI 56 (118)
Q Consensus 13 ~~dVFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~-~~~G~~~ 56 (118)
+..|+.--.. +.....+..|...|++.|+++.+|.. -..|..+
T Consensus 572 qVaIlPL~~~-ee~~~~A~eLa~~LR~~GIrVelDd~~~SIGKRy 615 (684)
T PLN02734 572 KCTVFPLVQN-QQLNAVAKVISKELTAAGISHKIDITGTSIGKRY 615 (684)
T ss_pred EEEEEEecCC-hHHHHHHHHHHHHHHhCCCEEEEECCCCCHhHHH
Confidence 3445543222 22346889999999999999999875 4444443
No 246
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=20.40 E-value=3.4e+02 Score=21.04 Aligned_cols=24 Identities=13% Similarity=0.265 Sum_probs=18.0
Q ss_pred chHHHHHHHHhcCeEEEEecCCcc
Q 041158 56 ISQSLLDTIEASTISIIIFSERYA 79 (118)
Q Consensus 56 ~~~~i~~~i~~s~~~I~v~S~~~~ 79 (118)
+.....+.+++|+++|+|++-.-.
T Consensus 226 Lg~~flrhie~a~vlI~ViD~s~~ 249 (335)
T PRK12299 226 LGHRFLKHIERTRLLLHLVDIEAV 249 (335)
T ss_pred HHHHHHHHhhhcCEEEEEEcCCCC
Confidence 455667788899999999886543
No 247
>PRK13793 nicotinamide-nucleotide adenylyltransferase; Provisional
Probab=20.32 E-value=3.1e+02 Score=19.78 Aligned_cols=20 Identities=15% Similarity=0.426 Sum_probs=10.4
Q ss_pred cCeEEEEecCCccCchhhHH
Q 041158 67 STISIIIFSERYASSGWCLD 86 (118)
Q Consensus 67 s~~~I~v~S~~~~~S~wc~~ 86 (118)
+++.++-+-..|.++.|...
T Consensus 70 ~rv~~ipi~D~~~~~~Wv~~ 89 (196)
T PRK13793 70 KRIRFVHVVDVYNDEKWVKQ 89 (196)
T ss_pred ceEEEEecCCccchhHHHHH
Confidence 45555555444555555543
No 248
>PLN02231 alanine transaminase
Probab=20.29 E-value=3.6e+02 Score=22.32 Aligned_cols=44 Identities=11% Similarity=0.157 Sum_probs=27.5
Q ss_pred HHHHHHHHhc------CeEEEEecCC-ccCchhhHHHHHHHHHhhhhCCCE
Q 041158 58 QSLLDTIEAS------TISIIIFSER-YASSGWCLDELLKILECKHVYGQI 101 (118)
Q Consensus 58 ~~i~~~i~~s------~~~I~v~S~~-~~~S~wc~~El~~~~~~~~~~~~~ 101 (118)
+.+.++++.. ..+|++++|+ =-..-|..+|+..+++..++.+..
T Consensus 256 ~~Le~~l~~~~~~~~~~k~ivl~nP~NPTG~vls~e~l~~Iv~~a~~~~l~ 306 (534)
T PLN02231 256 SELKKQLEDARSKGITVRALVVINPGNPTGQVLAEENQRDIVEFCKQEGLV 306 (534)
T ss_pred HHHHHHHHHHhhcCCCeEEEEEeCCCCCCCcCCCHHHHHHHHHHHHHcCCE
Confidence 4666677652 3456777874 334567778888888766654433
No 249
>PRK06348 aspartate aminotransferase; Provisional
Probab=20.25 E-value=3e+02 Score=21.13 Aligned_cols=42 Identities=21% Similarity=0.220 Sum_probs=26.1
Q ss_pred HHHHHHHHhcCeEEEEecCCcc-CchhhHHHHHHHHHhhhhCC
Q 041158 58 QSLLDTIEASTISIIIFSERYA-SSGWCLDELLKILECKHVYG 99 (118)
Q Consensus 58 ~~i~~~i~~s~~~I~v~S~~~~-~S~wc~~El~~~~~~~~~~~ 99 (118)
+.+.+++..-..+|++.+|+-- ...+..+|+..+++..++.+
T Consensus 153 ~~l~~~~~~~~~~v~l~~p~NPtG~~~s~~~~~~l~~~a~~~~ 195 (384)
T PRK06348 153 KKLEALITSKTKAIILNSPNNPTGAVFSKETLEEIAKIAIEYD 195 (384)
T ss_pred HHHHHhhCcCccEEEEeCCCCCCCcCCCHHHHHHHHHHHHHCC
Confidence 4566666544455666688753 45566778888777655444
No 250
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=20.17 E-value=1.1e+02 Score=21.50 Aligned_cols=53 Identities=13% Similarity=0.126 Sum_probs=31.7
Q ss_pred CeeeE--EEEeeeccCccchHHHHHHHHccCCcceEEeCCCCC--CccchHHHHHHHHhcCeEEEEecCC
Q 041158 12 NKHGI--FLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKR--GDEISQSLLDTIEASTISIIIFSER 77 (118)
Q Consensus 12 ~~~dV--FISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~--G~~~~~~i~~~i~~s~~~I~v~S~~ 77 (118)
.+-|+ +||++++. .-+....+.++++|.++.. +.. +..+. +.|+..|.+-++.
T Consensus 110 ~~~Dv~I~iS~SG~t---~~~i~~~~~ak~~g~~iI~---iT~~~~s~l~-------~~ad~~l~~~~~~ 166 (192)
T PRK00414 110 REGDVLLGISTSGNS---GNIIKAIEAARAKGMKVIT---LTGKDGGKMA-------GLADIEIRVPHFG 166 (192)
T ss_pred CCCCEEEEEeCCCCC---HHHHHHHHHHHHCCCeEEE---EeCCCCChhH-------HhCCEEEEeCCCC
Confidence 34455 56666654 4666777788888988765 221 22222 3577777766643
No 251
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=20.15 E-value=3.9e+02 Score=20.20 Aligned_cols=66 Identities=6% Similarity=0.063 Sum_probs=40.8
Q ss_pred cchHHHHHHHHccCCcceEEeCC--CCCCccchHHHHHHHH-hc--CeEEEEecCCccC----chhhHHHHHHHHHhh
Q 041158 27 DNFTSHLYSALCHNNIETFIDND--LKRGDEISQSLLDTIE-AS--TISIIIFSERYAS----SGWCLDELLKILECK 95 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~--~~~G~~~~~~i~~~i~-~s--~~~I~v~S~~~~~----S~wc~~El~~~~~~~ 95 (118)
..++.+|.+.|.+.|+.+-...+ +-.|--..-. -+. +. .+=|+-++-|... +.....+|..++...
T Consensus 98 ~~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vPL~---~l~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~ 172 (278)
T PRK13364 98 TELSWHIIESLVEEEFDITTCQEMLVDHAFTLPLE---LFWPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRA 172 (278)
T ss_pred HHHHHHHHHHHHHcCCCeecccCCCCCcchhhhHH---HhCcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHH
Confidence 46899999999999998876543 4455443322 222 22 2334444444444 677778998888654
No 252
>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=20.13 E-value=2.8e+02 Score=18.42 Aligned_cols=86 Identities=12% Similarity=0.077 Sum_probs=48.0
Q ss_pred EEEEeeeccCccchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEecCCccCchhhHHHHHHHHHhh
Q 041158 16 IFLSFRGEDTRDNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFSERYASSGWCLDELLKILECK 95 (118)
Q Consensus 16 VFISys~~D~~~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S~~~~~S~wc~~El~~~~~~~ 95 (118)
|++.=-+.|..+.=++-+...|+..|+.|-.- .++.-.+++.++..+.+.-++++|--.-.. ...+..+.+..
T Consensus 5 v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~l----g~~~s~e~~v~aa~e~~adii~iSsl~~~~---~~~~~~~~~~L 77 (132)
T TIGR00640 5 ILVAKMGQDGHDRGAKVIATAYADLGFDVDVG----PLFQTPEEIARQAVEADVHVVGVSSLAGGH---LTLVPALRKEL 77 (132)
T ss_pred EEEEeeCCCccHHHHHHHHHHHHhCCcEEEEC----CCCCCHHHHHHHHHHcCCCEEEEcCchhhh---HHHHHHHHHHH
Confidence 44544445543222344566688999999531 122234567777777788777777665443 33333444433
Q ss_pred hhCCCEEEEEEee
Q 041158 96 HVYGQIVIPVFCR 108 (118)
Q Consensus 96 ~~~~~~iiPI~~~ 108 (118)
++.+..-+||+..
T Consensus 78 ~~~g~~~i~vivG 90 (132)
T TIGR00640 78 DKLGRPDILVVVG 90 (132)
T ss_pred HhcCCCCCEEEEe
Confidence 3433335778875
No 253
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=20.10 E-value=1.6e+02 Score=18.99 Aligned_cols=44 Identities=14% Similarity=0.228 Sum_probs=26.3
Q ss_pred cchHHHHHHHHccCCcceEEeCCCCCCccchHHHHHHHHhcCeEEEEec
Q 041158 27 DNFTSHLYSALCHNNIETFIDNDLKRGDEISQSLLDTIEASTISIIIFS 75 (118)
Q Consensus 27 ~~fv~~L~~~L~~~Gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~I~v~S 75 (118)
..+|..|.+.|+++|+.+-+-. +. ..... ...+...+.+|++.|
T Consensus 11 e~~A~~ia~~l~~~g~~~~~~~-~~---~~~~~-~~~~~~~~~~i~~~s 54 (143)
T PF00258_consen 11 EKMAEAIAEGLRERGVEVRVVD-LD---DFDDS-PSDLSEYDLLIFGVS 54 (143)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEE-GG---GSCHH-HHHHCTTSEEEEEEE
T ss_pred HHHHHHHHHHHHHcCCceeeec-hh---hhhhh-hhhhhhhceeeEeec
Confidence 4799999999999998654321 11 11111 345566666655555
No 254
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=20.07 E-value=4.3e+02 Score=20.64 Aligned_cols=66 Identities=18% Similarity=0.351 Sum_probs=40.3
Q ss_pred CcceEEeCCCCCCccchHHHHHHHHhcC---eEEEEecCCccCc--hhhHHHHHHHHHhhhh-CCCEEEEEEee
Q 041158 41 NIETFIDNDLKRGDEISQSLLDTIEAST---ISIIIFSERYASS--GWCLDELLKILECKHV-YGQIVIPVFCR 108 (118)
Q Consensus 41 Gi~v~~d~~~~~G~~~~~~i~~~i~~s~---~~I~v~S~~~~~S--~wc~~El~~~~~~~~~-~~~~iiPI~~~ 108 (118)
.+.|++. ++.|..+.++..+.+.... ++++.+.|.|-.+ .-..+++..+++..+. .....||-||+
T Consensus 90 ~~~V~~a--mry~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~~al~~~~~~~~i~~I~~~~~ 161 (320)
T COG0276 90 DFKVYLA--MRYGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELARALKELRGQPKISTIPDYYD 161 (320)
T ss_pred CccEEEe--ecCCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHHHHHHhcCCCCceEEecCccC
Confidence 3555554 5667777666666666533 5777888888753 3345677776653332 34566666664
Done!