Query 036681
Match_columns 159
No_of_seqs 170 out of 1325
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 04:27:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036681.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036681hhsearch_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 2.6E-44 5.5E-49 269.9 13.4 137 4-156 19-156 (187)
2 PLN03210 Resistant to P. syrin 100.0 1.7E-43 3.7E-48 327.1 14.9 157 1-159 1-158 (1153)
3 smart00255 TIR Toll - interleu 99.9 3.2E-26 7E-31 165.0 12.3 137 11-149 1-139 (140)
4 PF01582 TIR: TIR domain; Int 99.9 2E-27 4.2E-32 172.8 4.1 133 14-146 1-141 (141)
5 PF13676 TIR_2: TIR domain; PD 99.8 9.6E-21 2.1E-25 130.1 2.8 93 14-114 1-93 (102)
6 KOG3678 SARM protein (with ste 99.2 3E-11 6.5E-16 102.2 8.2 90 10-105 611-709 (832)
7 PF08937 DUF1863: MTH538 TIR-l 98.9 5.6E-09 1.2E-13 74.9 5.9 89 12-105 1-107 (130)
8 PF08357 SEFIR: SEFIR domain; 98.2 1.2E-05 2.5E-10 58.6 9.0 64 13-76 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.5 0.00042 9.1E-09 49.6 6.8 87 13-104 1-101 (125)
10 PF13271 DUF4062: Domain of un 96.1 0.033 7.2E-07 36.6 6.4 65 14-79 2-67 (83)
11 PF05014 Nuc_deoxyrib_tr: Nucl 95.0 0.35 7.5E-06 33.3 8.7 69 25-94 13-90 (113)
12 COG4916 Uncharacterized protei 94.5 0.046 1E-06 43.7 3.7 99 9-112 175-281 (329)
13 PF14359 DUF4406: Domain of un 90.7 2.5 5.5E-05 28.4 7.5 63 29-93 19-86 (92)
14 COG4271 Predicted nucleotide-b 87.0 2.1 4.5E-05 33.1 5.6 86 13-104 84-185 (233)
15 PF14258 DUF4350: Domain of un 85.0 6.7 0.00015 24.4 6.5 60 29-101 8-68 (70)
16 cd00860 ThrRS_anticodon ThrRS 84.4 6.4 0.00014 25.2 6.5 60 12-75 2-61 (91)
17 cd00738 HGTP_anticodon HGTP an 80.7 9.6 0.00021 24.4 6.3 59 12-74 2-63 (94)
18 PF03129 HGTP_anticodon: Antic 79.5 8.4 0.00018 25.0 5.7 47 25-74 15-61 (94)
19 COG4916 Uncharacterized protei 77.3 4 8.7E-05 32.9 4.1 96 11-109 6-107 (329)
20 cd00858 GlyRS_anticodon GlyRS 74.8 14 0.0003 25.6 6.0 62 10-76 25-88 (121)
21 cd02042 ParA ParA and ParB of 72.4 24 0.00053 23.1 7.0 64 14-77 3-74 (104)
22 PF02310 B12-binding: B12 bind 70.0 31 0.00067 23.3 7.4 57 28-89 17-74 (121)
23 cd02426 Pol_gamma_b_Cterm C-te 68.8 6.1 0.00013 28.0 3.0 32 25-56 43-78 (128)
24 cd07363 45_DOPA_Dioxygenase Th 67.9 25 0.00054 27.8 6.7 68 25-94 80-149 (253)
25 PF03720 UDPG_MGDP_dh_C: UDP-g 64.2 10 0.00022 25.7 3.4 55 20-74 11-76 (106)
26 COG0400 Predicted esterase [Ge 58.5 29 0.00063 26.8 5.3 55 9-64 144-200 (207)
27 PF10087 DUF2325: Uncharacteri 58.1 52 0.0011 21.8 6.2 55 26-81 10-65 (97)
28 PF09837 DUF2064: Uncharacteri 57.1 64 0.0014 22.5 8.0 84 9-102 8-94 (122)
29 PF09152 DUF1937: Domain of un 56.9 54 0.0012 23.1 5.9 65 29-93 30-108 (116)
30 cd01424 MGS_CPS_II Methylglyox 55.2 62 0.0013 21.7 6.3 61 13-75 2-76 (110)
31 cd00861 ProRS_anticodon_short 53.9 44 0.00096 21.3 5.0 48 25-75 17-64 (94)
32 TIGR00418 thrS threonyl-tRNA s 53.6 44 0.00096 29.4 6.3 61 10-74 469-529 (563)
33 cd07373 2A5CPDO_A The alpha su 53.4 99 0.0021 24.6 7.8 76 25-103 90-172 (271)
34 COG0529 CysC Adenylylsulfate k 53.1 6.3 0.00014 30.2 0.8 103 18-130 31-154 (197)
35 COG3613 Nucleoside 2-deoxyribo 52.1 80 0.0017 23.8 6.5 76 25-104 19-105 (172)
36 cd00859 HisRS_anticodon HisRS 51.2 57 0.0012 20.1 5.9 59 12-74 2-60 (91)
37 cd01423 MGS_CPS_I_III Methylgl 50.5 24 0.00053 24.1 3.4 29 14-44 3-31 (116)
38 PRK02551 flavoprotein NrdI; Pr 49.8 1E+02 0.0022 22.7 6.8 118 14-147 7-149 (154)
39 cd03364 TOPRIM_DnaG_primases T 49.0 29 0.00063 21.9 3.4 28 38-66 44-71 (79)
40 PLN03194 putative disease resi 48.7 1E+02 0.0022 23.6 6.7 64 37-104 24-88 (187)
41 COG1658 Small primase-like pro 48.3 49 0.0011 23.7 4.7 55 11-66 29-83 (127)
42 PRK09194 prolyl-tRNA synthetas 48.2 36 0.00078 30.2 4.9 62 10-75 467-531 (565)
43 PRK12325 prolyl-tRNA synthetas 46.2 45 0.00097 28.6 5.0 62 11-76 345-409 (439)
44 PRK02261 methylaspartate mutas 45.2 1.1E+02 0.0024 21.8 7.0 72 30-109 22-94 (137)
45 PF03437 BtpA: BtpA family; I 44.0 85 0.0018 25.1 5.9 110 29-145 131-253 (254)
46 cd00862 ProRS_anticodon_zinc P 43.9 68 0.0015 24.4 5.3 47 11-57 10-63 (202)
47 cd06340 PBP1_ABC_ligand_bindin 43.6 1.2E+02 0.0026 24.4 7.1 61 13-74 146-207 (347)
48 PRK14938 Ser-tRNA(Thr) hydrola 43.4 85 0.0019 26.8 6.1 59 11-73 274-332 (387)
49 KOG1136 Predicted cleavage and 42.1 37 0.00081 28.7 3.7 45 61-105 191-241 (501)
50 PF00875 DNA_photolyase: DNA p 41.9 78 0.0017 22.8 5.2 45 29-78 56-100 (165)
51 COG0710 AroD 3-dehydroquinate 41.4 1.1E+02 0.0023 24.2 6.1 69 25-97 78-146 (231)
52 KOG2792 Putative cytochrome C 40.5 36 0.00078 27.5 3.3 31 80-110 153-187 (280)
53 PRK03991 threonyl-tRNA synthet 40.2 49 0.0011 29.9 4.5 44 11-55 499-543 (613)
54 COG3845 ABC-type uncharacteriz 39.9 1.2E+02 0.0027 26.7 6.7 81 26-106 116-199 (501)
55 PF03358 FMN_red: NADPH-depend 39.9 1.3E+02 0.0028 21.0 7.6 78 25-105 17-114 (152)
56 cd00138 PLDc Phospholipase D. 39.7 1.1E+02 0.0024 21.8 5.7 25 50-74 18-42 (176)
57 cd06342 PBP1_ABC_LIVBP_like Ty 39.4 1.9E+02 0.0041 22.7 7.6 53 14-67 138-191 (334)
58 cd08584 PI-PLCc_GDPD_SF_unchar 39.4 85 0.0018 24.1 5.1 60 13-79 103-162 (192)
59 CHL00201 syh histidine-tRNA sy 39.3 94 0.002 26.5 6.0 60 11-74 325-384 (430)
60 cd00532 MGS-like MGS-like doma 39.0 1.1E+02 0.0024 20.7 5.3 60 14-75 2-77 (112)
61 COG1058 CinA Predicted nucleot 39.0 49 0.0011 26.5 3.9 41 27-69 22-65 (255)
62 cd02067 B12-binding B12 bindin 38.9 1.2E+02 0.0026 20.4 7.3 73 29-109 17-90 (119)
63 TIGR00334 5S_RNA_mat_M5 ribonu 38.7 88 0.0019 23.6 5.0 50 25-77 35-84 (174)
64 PRK08661 prolyl-tRNA synthetas 38.2 55 0.0012 28.4 4.4 46 11-56 287-339 (477)
65 PRK13364 protocatechuate 4,5-d 37.6 1.3E+02 0.0027 24.4 6.1 79 25-103 98-185 (278)
66 PRK14799 thrS threonyl-tRNA sy 37.1 1.1E+02 0.0023 27.3 6.1 60 11-74 438-497 (545)
67 PRK15057 UDP-glucose 6-dehydro 36.7 69 0.0015 27.1 4.7 50 21-70 311-365 (388)
68 PF00350 Dynamin_N: Dynamin fa 36.1 1.5E+02 0.0033 20.8 6.1 46 56-104 120-165 (168)
69 PF01990 ATP-synt_F: ATP synth 36.0 1.3E+02 0.0027 19.8 5.4 56 31-90 9-64 (95)
70 PRK00413 thrS threonyl-tRNA sy 35.8 1.1E+02 0.0024 27.3 6.1 60 11-74 539-598 (638)
71 cd06335 PBP1_ABC_ligand_bindin 35.5 2E+02 0.0043 23.1 7.1 52 14-66 141-193 (347)
72 PLN02530 histidine-tRNA ligase 35.4 1.3E+02 0.0029 26.1 6.4 61 10-74 400-460 (487)
73 COG0415 PhrB Deoxyribodipyrimi 35.4 1.3E+02 0.0028 26.3 6.2 82 29-119 58-143 (461)
74 PF13289 SIR2_2: SIR2-like dom 34.7 1.5E+02 0.0031 20.3 5.5 9 27-35 76-84 (143)
75 PF09419 PGP_phosphatase: Mito 34.3 1.1E+02 0.0023 22.9 4.8 67 34-105 35-111 (168)
76 cd01857 HSR1_MMR1 HSR1/MMR1. 34.2 1.5E+02 0.0033 20.5 5.6 20 57-76 4-23 (141)
77 COG1999 Uncharacterized protei 34.2 51 0.0011 25.3 3.2 76 64-139 66-146 (207)
78 PRK10628 LigB family dioxygena 34.1 2.1E+02 0.0046 22.7 6.8 78 16-97 62-141 (246)
79 PRK12305 thrS threonyl-tRNA sy 34.0 1.3E+02 0.0027 26.7 6.1 60 11-74 476-535 (575)
80 cd06352 PBP1_NPR_GC_like Ligan 33.8 1.1E+02 0.0025 24.8 5.5 52 14-66 140-195 (389)
81 cd04142 RRP22 RRP22 subfamily. 33.7 1.6E+02 0.0035 21.9 5.9 54 58-114 74-130 (198)
82 cd02072 Glm_B12_BD B12 binding 33.7 1.8E+02 0.0038 20.7 7.5 71 30-108 18-89 (128)
83 PF00009 GTP_EFTU: Elongation 33.5 1.8E+02 0.0039 21.2 6.1 40 49-88 77-117 (188)
84 COG1852 Uncharacterized conser 33.3 1.6E+02 0.0034 22.9 5.6 54 27-94 121-174 (209)
85 PF00762 Ferrochelatase: Ferro 33.0 1.9E+02 0.0042 23.7 6.6 65 26-92 73-144 (316)
86 cd03411 Ferrochelatase_N Ferro 32.6 1.9E+02 0.0042 20.9 7.3 67 25-93 71-144 (159)
87 TIGR02298 HpaD_Fe 3,4-dihydrox 31.5 2.7E+02 0.0058 22.4 7.1 77 25-103 96-178 (282)
88 PLN02449 ferrochelatase 31.3 2.7E+02 0.0059 24.5 7.5 79 26-106 164-252 (485)
89 cd01241 PH_Akt Akt pleckstrin 30.7 46 0.001 22.3 2.2 17 132-148 86-102 (102)
90 PF12146 Hydrolase_4: Putative 30.5 1.2E+02 0.0027 19.3 4.2 37 10-47 15-51 (79)
91 cd06366 PBP1_GABAb_receptor Li 30.3 2.4E+02 0.0051 22.5 6.8 50 14-64 138-190 (350)
92 COG0576 GrpE Molecular chapero 30.3 1.1E+02 0.0025 23.2 4.5 48 27-78 123-177 (193)
93 PF01976 DUF116: Protein of un 30.3 2.2E+02 0.0048 20.9 6.6 65 28-106 75-139 (158)
94 KOG4132 Uroporphyrinogen III s 30.3 92 0.002 24.8 4.0 51 29-79 146-200 (260)
95 PRK10569 NAD(P)H-dependent FMN 29.6 2.4E+02 0.0053 21.1 7.1 54 25-79 17-80 (191)
96 cd06361 PBP1_GPC6A_like Ligand 29.3 2.2E+02 0.0049 23.8 6.6 34 18-51 179-212 (403)
97 cd07371 2A5CPDO_AB The alpha a 29.2 2.9E+02 0.0063 21.9 7.9 85 16-103 79-169 (268)
98 TIGR00177 molyb_syn molybdenum 29.1 86 0.0019 22.3 3.6 45 26-71 27-73 (144)
99 KOG2948 Predicted metal-bindin 29.1 1.2E+02 0.0026 25.0 4.6 19 137-155 275-297 (327)
100 PRK07933 thymidylate kinase; V 29.0 1.5E+02 0.0033 22.6 5.1 30 15-44 2-33 (213)
101 COG1168 MalY Bifunctional PLP- 28.9 1.2E+02 0.0027 25.8 4.8 46 56-101 148-195 (388)
102 PF15409 PH_8: Pleckstrin homo 28.9 51 0.0011 22.0 2.1 16 132-147 73-88 (89)
103 COG0683 LivK ABC-type branched 28.8 3.3E+02 0.0071 22.3 8.1 66 13-78 150-215 (366)
104 cd06327 PBP1_SBP_like_1 Peripl 28.7 2.9E+02 0.0063 21.9 7.0 51 14-65 138-189 (334)
105 COG2342 Predicted extracellula 28.7 1.1E+02 0.0023 25.1 4.2 44 56-105 33-79 (300)
106 cd06379 PBP1_iGluR_NMDA_NR1 N- 28.7 2.4E+02 0.0052 23.0 6.6 42 25-67 168-214 (377)
107 cd06328 PBP1_SBP_like_2 Peripl 28.5 2.6E+02 0.0056 22.3 6.7 53 13-66 138-191 (333)
108 PRK12444 threonyl-tRNA synthet 28.4 1.9E+02 0.0041 26.1 6.3 61 10-74 540-601 (639)
109 cd06346 PBP1_ABC_ligand_bindin 28.3 2.3E+02 0.005 22.3 6.3 43 25-67 151-193 (312)
110 PF13662 Toprim_4: Toprim doma 28.1 55 0.0012 20.7 2.2 28 38-66 47-74 (81)
111 cd02070 corrinoid_protein_B12- 28.1 2.6E+02 0.0057 21.0 7.6 78 25-109 95-174 (201)
112 TIGR00409 proS_fam_II prolyl-t 28.0 56 0.0012 29.2 2.8 46 11-56 473-521 (568)
113 cd02951 SoxW SoxW family; SoxW 28.0 1.9E+02 0.0042 19.4 5.3 31 55-87 3-34 (125)
114 PF03618 Kinase-PPPase: Kinase 27.7 1.5E+02 0.0033 23.7 5.0 66 33-100 155-239 (255)
115 PF01113 DapB_N: Dihydrodipico 27.5 1.4E+02 0.003 20.6 4.3 9 12-20 68-76 (124)
116 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 27.0 2.1E+02 0.0046 19.9 5.4 29 50-78 59-88 (166)
117 PRK13660 hypothetical protein; 26.9 2.8E+02 0.0061 21.0 9.1 79 25-108 55-140 (182)
118 PF09441 Abp2: ARS binding pro 26.8 17 0.00038 27.1 -0.5 58 79-145 54-111 (175)
119 PRK09701 D-allose transporter 26.6 2.3E+02 0.0051 22.4 6.1 16 98-113 295-310 (311)
120 cd00154 Rab Rab family. Rab G 26.5 2E+02 0.0044 19.2 5.5 29 50-78 57-86 (159)
121 cd01251 PH_centaurin_alpha Cen 25.7 72 0.0016 21.4 2.5 18 133-150 85-102 (103)
122 cd05008 SIS_GlmS_GlmD_1 SIS (S 25.7 1.1E+02 0.0025 20.5 3.6 27 14-43 51-77 (126)
123 TIGR01501 MthylAspMutase methy 25.5 2.6E+02 0.0056 20.0 7.5 71 29-107 19-90 (134)
124 cd05014 SIS_Kpsf KpsF-like pro 25.4 2.2E+02 0.0047 19.1 5.4 70 25-104 12-81 (128)
125 cd06371 PBP1_sensory_GC_DEF_li 25.3 3.9E+02 0.0084 22.0 8.9 64 15-78 136-202 (382)
126 TIGR03026 NDP-sugDHase nucleot 25.2 1.2E+02 0.0027 25.4 4.4 57 16-72 321-384 (411)
127 PF05985 EutC: Ethanolamine am 25.1 1E+02 0.0022 24.5 3.5 46 25-75 123-173 (237)
128 PF02900 LigB: Catalytic LigB 25.0 2.2E+02 0.0047 22.4 5.5 78 25-104 96-180 (272)
129 PF08477 Miro: Miro-like prote 24.9 1.4E+02 0.0029 19.6 3.8 47 58-105 67-113 (119)
130 COG1737 RpiR Transcriptional r 24.9 3.2E+02 0.007 21.7 6.5 77 14-104 134-211 (281)
131 cd06349 PBP1_ABC_ligand_bindin 24.9 2.5E+02 0.0055 22.3 6.0 51 14-65 138-189 (340)
132 PRK14158 heat shock protein Gr 24.8 1.9E+02 0.0042 22.1 4.9 47 29-78 127-180 (194)
133 cd02069 methionine_synthase_B1 24.8 3.2E+02 0.007 20.9 6.8 76 25-109 101-178 (213)
134 cd06370 PBP1_Speract_GC_like L 24.6 1.6E+02 0.0035 24.4 4.9 27 25-51 150-176 (404)
135 cd01243 PH_MRCK MRCK (myotonic 24.5 55 0.0012 23.3 1.7 18 133-150 104-121 (122)
136 cd04795 SIS SIS domain. SIS (S 24.4 1.8E+02 0.0039 17.9 6.7 70 25-103 10-80 (87)
137 PTZ00445 p36-lilke protein; Pr 24.3 2.3E+02 0.0049 22.3 5.2 49 25-73 28-98 (219)
138 COG2077 Tpx Peroxiredoxin [Pos 24.1 60 0.0013 24.1 1.9 22 64-85 74-97 (158)
139 PRK13883 conjugal transfer pro 24.1 1.5E+02 0.0032 21.9 4.0 18 26-43 64-81 (151)
140 PLN02734 glycyl-tRNA synthetas 24.0 96 0.0021 28.5 3.6 47 8-55 569-616 (684)
141 TIGR03556 photolyase_8HDF deox 23.9 4.2E+02 0.009 22.9 7.4 45 29-78 58-102 (471)
142 cd01266 PH_Gab Gab (Grb2-assoc 23.9 73 0.0016 21.4 2.3 17 132-148 92-108 (108)
143 cd04141 Rit_Rin_Ric Rit/Rin/Ri 23.9 2.8E+02 0.006 19.8 6.7 63 50-114 58-121 (172)
144 cd04168 TetM_like Tet(M)-like 23.8 3.5E+02 0.0075 20.9 7.6 33 50-82 72-105 (237)
145 PF00319 SRF-TF: SRF-type tran 23.6 75 0.0016 18.8 2.0 16 60-75 28-43 (51)
146 cd05710 SIS_1 A subgroup of th 23.5 1.2E+02 0.0027 20.6 3.4 27 14-43 52-78 (120)
147 PRK14161 heat shock protein Gr 23.5 1.6E+02 0.0035 22.2 4.3 48 28-78 108-162 (178)
148 PF07283 TrbH: Conjugal transf 23.4 1.6E+02 0.0034 20.8 3.9 23 25-47 35-57 (121)
149 PF01269 Fibrillarin: Fibrilla 23.2 95 0.0021 24.5 3.0 25 78-106 106-130 (229)
150 PHA00407 phage lambda Rz1-like 23.2 46 0.001 21.7 1.0 22 134-155 25-51 (84)
151 KOG1191 Mitochondrial GTPase [ 23.2 3.3E+02 0.0071 24.3 6.5 40 37-76 313-360 (531)
152 PF01380 SIS: SIS domain SIS d 23.0 1.3E+02 0.0029 20.1 3.5 54 12-77 56-110 (131)
153 TIGR01166 cbiO cobalt transpor 23.0 3E+02 0.0066 20.0 6.4 76 31-106 108-186 (190)
154 cd01238 PH_Tec Tec pleckstrin 22.8 72 0.0016 21.5 2.1 15 133-147 92-106 (106)
155 PRK15482 transcriptional regul 22.8 3.2E+02 0.0069 21.6 6.1 70 25-104 147-216 (285)
156 cd06350 PBP1_GPCR_family_C_lik 22.8 3E+02 0.0065 21.8 6.0 42 25-66 174-217 (348)
157 cd00758 MoCF_BD MoCF_BD: molyb 22.6 1.4E+02 0.0031 20.8 3.7 44 26-69 19-63 (133)
158 PF09413 DUF2007: Domain of un 22.6 77 0.0017 19.2 2.0 22 26-47 10-31 (67)
159 COG0276 HemH Protoheme ferro-l 22.5 4.5E+02 0.0098 21.8 7.9 78 27-106 74-161 (320)
160 PF13483 Lactamase_B_3: Beta-l 22.4 2.6E+02 0.0057 19.8 5.2 50 49-103 110-162 (163)
161 cd03226 ABC_cobalt_CbiO_domain 22.4 3.3E+02 0.0071 20.1 6.0 77 30-106 106-185 (205)
162 TIGR00441 gmhA phosphoheptose 22.3 1.3E+02 0.0029 21.5 3.6 28 14-44 84-111 (154)
163 cd06358 PBP1_NHase Type I peri 22.3 4E+02 0.0087 21.1 7.1 55 13-67 134-188 (333)
164 PF13155 Toprim_2: Toprim-like 22.3 1.5E+02 0.0031 19.1 3.5 39 27-66 34-75 (96)
165 COG0125 Tmk Thymidylate kinase 22.1 2.1E+02 0.0045 22.0 4.7 97 14-111 4-140 (208)
166 cd01219 PH_FGD FGD (faciogenit 21.9 83 0.0018 21.0 2.2 18 132-149 83-100 (101)
167 PF03709 OKR_DC_1_N: Orn/Lys/A 21.8 2.7E+02 0.0058 18.9 7.1 71 26-108 4-75 (115)
168 KOG3573 Caspase, apoptotic cys 21.6 52 0.0011 26.6 1.3 28 14-41 230-257 (300)
169 PF02630 SCO1-SenC: SCO1/SenC; 21.6 66 0.0014 23.7 1.8 72 66-139 53-129 (174)
170 PF12076 Wax2_C: WAX2 C-termin 21.4 75 0.0016 23.7 2.0 83 26-114 9-92 (164)
171 PF02142 MGS: MGS-like domain 20.8 2.5E+02 0.0055 18.2 4.7 47 33-79 24-73 (95)
172 PF02337 Gag_p10: Retroviral G 20.8 91 0.002 20.9 2.1 20 25-44 8-27 (90)
173 smart00233 PH Pleckstrin homol 20.6 1E+02 0.0022 18.7 2.4 16 133-148 86-101 (102)
174 COG2130 Putative NADP-dependen 20.6 2.9E+02 0.0062 23.1 5.3 61 11-79 196-257 (340)
175 PF14528 LAGLIDADG_3: LAGLIDAD 20.6 1.2E+02 0.0027 18.7 2.7 31 13-45 21-51 (77)
176 TIGR02690 resist_ArsH arsenica 20.4 4.2E+02 0.009 20.6 6.5 54 25-79 43-104 (219)
177 PF12641 Flavodoxin_3: Flavodo 20.3 3.6E+02 0.0077 19.8 9.1 115 25-145 12-145 (160)
178 PRK08306 dipicolinate synthase 20.3 1.4E+02 0.003 24.1 3.6 52 20-74 9-65 (296)
179 KOG2534 DNA polymerase IV (fam 20.2 3.3E+02 0.0071 22.9 5.6 65 10-74 188-255 (353)
180 cd06367 PBP1_iGluR_NMDA N-term 20.2 3.9E+02 0.0085 21.5 6.3 28 14-41 139-166 (362)
181 cd01260 PH_CNK Connector enhan 20.1 91 0.002 20.2 2.1 16 132-147 81-96 (96)
182 TIGR00960 3a0501s02 Type II (G 20.1 3.1E+02 0.0066 20.4 5.3 77 30-106 118-197 (216)
183 PLN02908 threonyl-tRNA synthet 20.1 3E+02 0.0066 25.1 6.0 60 11-74 589-648 (686)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=2.6e-44 Score=269.92 Aligned_cols=137 Identities=35% Similarity=0.536 Sum_probs=125.2
Q ss_pred CCCCCCCeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCCcCChhH
Q 036681 4 ALSSSSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDYASSKWC 82 (159)
Q Consensus 4 ~~s~~~~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc 82 (159)
+||++..+|||||||+++|+|+.|+++|+.+|+++||++|+|+. +.+|+.+.++|.+||++|+++|+|+||+|+.|.||
T Consensus 19 ~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WC 98 (187)
T PLN03194 19 SSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFC 98 (187)
T ss_pred cCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhH
Confidence 35556678999999999999999999999999999999999998 99999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcccCceeeeEEEeeCCcccccccCcchhHHHhhhcccCCChhHHHHHHHHHHHhccccceecc
Q 036681 83 LNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLTEASLIVGLDSM 156 (159)
Q Consensus 83 ~~El~~~~~~~~~~~~~IiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~~~~~~~~~W~~al~~v~~~~g~~~~ 156 (159)
++||..++++.+ .||||||+|+|+||++|.. ...+.+++++||+||++|++++|++++
T Consensus 99 LdEL~~I~e~~~----~ViPIFY~VdPsdVr~q~~------------~~~~~e~v~~Wr~AL~~va~l~G~~~~ 156 (187)
T PLN03194 99 LHELALIMESKK----RVIPIFCDVKPSQLRVVDN------------GTCPDEEIRRFNWALEEAKYTVGLTFD 156 (187)
T ss_pred HHHHHHHHHcCC----EEEEEEecCCHHHhhcccc------------CCCCHHHHHHHHHHHHHHhccccccCC
Confidence 999999998743 8999999999999999732 112469999999999999999999875
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=1.7e-43 Score=327.12 Aligned_cols=157 Identities=41% Similarity=0.733 Sum_probs=148.6
Q ss_pred CCCCCCC-CCCeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCC
Q 036681 1 MGSALSS-SSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASS 79 (159)
Q Consensus 1 m~s~~s~-~~~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S 79 (159)
||||||+ +.++|||||||+++|+|+.|++||+.+|.++||.+|.|+++..|+.+.+++.+||++|+++|+|+|++|+.|
T Consensus 1 ~~~~~~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s 80 (1153)
T PLN03210 1 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASS 80 (1153)
T ss_pred CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccc
Confidence 7776554 569999999999999999999999999999999999988899999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHhhcccCceeeeEEEeeCCcccccccCcchhHHHhhhcccCCChhHHHHHHHHHHHhccccceeccCCC
Q 036681 80 KWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLTEASLIVGLDSMDFR 159 (159)
Q Consensus 80 ~wc~~El~~~~~~~~~~~~~IiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~~~~~~~~~W~~al~~v~~~~g~~~~~~~ 159 (159)
.||++||.++++|+++.+++||||||+|+|+||++|+|.||++|.+++++. +.|++++||+||++|++++|+++.+|+
T Consensus 81 ~wcl~el~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~--~~~~~~~w~~al~~~~~~~g~~~~~~~ 158 (1153)
T PLN03210 81 SWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNK--TEDEKIQWKQALTDVANILGYHSQNWP 158 (1153)
T ss_pred hHHHHHHHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhccc--chhHHHHHHHHHHHHhCcCceecCCCC
Confidence 999999999999999899999999999999999999999999999988764 478999999999999999999998875
No 3
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.94 E-value=3.2e-26 Score=165.01 Aligned_cols=137 Identities=38% Similarity=0.683 Sum_probs=114.7
Q ss_pred eecEEEeccC-CccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHH
Q 036681 11 KYDVFINFGG-GDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKI 89 (159)
Q Consensus 11 ~yDVFISy~~-~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~ 89 (159)
+|||||||++ ++....|+.+|...|...|+.+|.|+....|.... +|.++|++|+++|+|+||+|..|+||..|+..+
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 4999999999 34457899999999999999999998733333333 999999999999999999999999999999999
Q ss_pred HHhhcc-cCceeeeEEEeeCCcccccccCcchhHHHhhhcccCCChhHHHHHHHHHHHhcc
Q 036681 90 LECKGK-KGQIVIPVFYEVDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLTEASL 149 (159)
Q Consensus 90 ~~~~~~-~~~~IiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~~~~~~~~~W~~al~~v~~ 149 (159)
+++..+ ...+||||+++..|.++..+.+.++.++..+......+..+ +.|+.++..+.+
T Consensus 80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~~-~fW~~~~~~l~~ 139 (140)
T smart00255 80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDEKE-RFWKKALYAVPS 139 (140)
T ss_pred HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCchhH-HHHHHHHHHhcc
Confidence 988644 66799999999888889999999999998885555433333 789999987764
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=99.94 E-value=2e-27 Score=172.85 Aligned_cols=133 Identities=35% Similarity=0.568 Sum_probs=116.9
Q ss_pred EEEeccCCccchhHHHHHHHHhhcC--CceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHH
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDR--NVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKIL 90 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~--gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~ 90 (159)
|||||++.+.+++|+.+|...|+++ |+++|++++ +.+|..+.++|.++|++|+++|+|+|++|+.|.||+.|+..|+
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 8999999333689999999999999 999999998 9999999999999999999999999999999999999999999
Q ss_pred Hhhccc--CceeeeEEEeeCCcccc-cccCcchhHHHhhhcccCCC--hhHHHHHHHHHHH
Q 036681 91 ECKGKK--GQIVIPVFYEVDPSDVC-YQSGSFRDPFVMHEGQFQVH--PENVQKWRDGLTE 146 (159)
Q Consensus 91 ~~~~~~--~~~IiPV~~~v~p~~v~-~~~~~~~~~f~~~~~~~~~~--~~~~~~W~~al~~ 146 (159)
++.... ...|+|||+++.+.+++ .+.+.|+..|.........+ .+....|++++.+
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~~ 141 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRYH 141 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhcC
Confidence 997553 48999999999999999 78999999998888876544 5788999998763
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.81 E-value=9.6e-21 Score=130.05 Aligned_cols=93 Identities=31% Similarity=0.612 Sum_probs=77.6
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhh
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECK 93 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~ 93 (159)
|||||+++| ..++..|...|++.|+++|+|..+.+|+++.++|.++|++|+.+|+++||+|.+|+||..|+..|.+
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 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 899999999 3799999999999999999996699999999999999999999999999999999999999999954
Q ss_pred cccCceeeeEEEeeCCccccc
Q 036681 94 GKKGQIVIPVFYEVDPSDVCY 114 (159)
Q Consensus 94 ~~~~~~IiPV~~~v~p~~v~~ 114 (159)
.+..||||.+ ++.+++.
T Consensus 77 --~~~~iipv~~--~~~~~p~ 93 (102)
T PF13676_consen 77 --RGKPIIPVRL--DPCELPG 93 (102)
T ss_dssp --TSESEEEEEC--SGGGS-G
T ss_pred --CCCEEEEEEE--CCcCCCH
Confidence 3449999994 4555543
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.23 E-value=3e-11 Score=102.17 Aligned_cols=90 Identities=23% Similarity=0.433 Sum_probs=79.7
Q ss_pred CeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCCc--------CCh
Q 036681 10 CKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDYA--------SSK 80 (159)
Q Consensus 10 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~--------~S~ 80 (159)
+..||||||++.. ...+++.|.-.|+-+|++||+|-+ +..|.. .+.+.+.|..++.+|+|+||+.. .-+
T Consensus 611 kq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGKF-dssLlkni~aAkhFiLVLtP~sLDr~lnD~nCeD 688 (832)
T KOG3678|consen 611 KQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGKF-DSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCED 688 (832)
T ss_pred CCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhcccc-cHHHHHHHHhhheeEEEeCcchHHHHhccccHHH
Confidence 6799999998775 468999999999999999999998 988865 56899999999999999999975 358
Q ss_pred hHHHHHHHHHHhhcccCceeeeEEE
Q 036681 81 WCLNELLKILECKGKKGQIVIPVFY 105 (159)
Q Consensus 81 wc~~El~~~~~~~~~~~~~IiPV~~ 105 (159)
|...||..++++.+ .|||||-
T Consensus 689 WVHKEl~~Afe~~K----NIiPI~D 709 (832)
T KOG3678|consen 689 WVHKELKCAFEHQK----NIIPIFD 709 (832)
T ss_pred HHHHHHHHHHHhcC----Ceeeeec
Confidence 99999999999877 9999993
No 7
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=98.86 E-value=5.6e-09 Score=74.90 Aligned_cols=89 Identities=25% Similarity=0.427 Sum_probs=48.6
Q ss_pred ecEEEeccCCccchhHHHHHHHHhhcC-------CceE-Ee---------eCc-ccCcccchHHHHHHHHhcceEEEEee
Q 036681 12 YDVFINFGGGDTRDNFTSHLVAALHDR-------NVKT-FI---------DEE-IRRGDEISTAISDAIEASKISVIIFS 73 (159)
Q Consensus 12 yDVFISy~~~D~~~~fv~~L~~~L~~~-------gi~v-~~---------d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S 73 (159)
|.|||||++.|. ...+..|...+... .+.. +. +.. ......+...|.++|.+|+++|++++
T Consensus 1 ~~vFIS~~~~d~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDD-DWYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------TH-H-HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCc-HHHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 579999999984 23777777777653 2211 11 111 22344788999999999999999999
Q ss_pred cCCcCChhHHHHHHHHHHhhcccCceeeeEEE
Q 036681 74 EDYASSKWCLNELLKILECKGKKGQIVIPVFY 105 (159)
Q Consensus 74 ~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~ 105 (159)
++...|.|+..|+..+++.. ..||.|.+
T Consensus 80 ~~T~~s~wV~~EI~~A~~~~----~~Ii~V~~ 107 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALKKG----KPIIGVYL 107 (130)
T ss_dssp TT----HHHHHHHHHHTTT-------EEEEET
T ss_pred CCcccCcHHHHHHHHHHHCC----CCEEEEEC
Confidence 99999999999999998743 47888764
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=98.23 E-value=1.2e-05 Score=58.62 Aligned_cols=64 Identities=16% Similarity=0.308 Sum_probs=53.7
Q ss_pred cEEEeccCCccc-hhHHHHHHHHhhcC-CceEEeeCc-cc--CcccchHHHHHHHHhcceEEEEeecCC
Q 036681 13 DVFINFGGGDTR-DNFTSHLVAALHDR-NVKTFIDEE-IR--RGDEISTAISDAIEASKISVIIFSEDY 76 (159)
Q Consensus 13 DVFISy~~~D~~-~~fv~~L~~~L~~~-gi~v~~d~~-~~--~G~~~~~~i~~ai~~S~~~I~v~S~~~ 76 (159)
-|||||+..... ...|..|...|++. |+.|.+|.. .. ++..+..=+.+.+++++.+|+|.||.+
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 499999985542 46799999999999 999999998 63 377777778889999999999999654
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=97.52 E-value=0.00042 Score=49.56 Aligned_cols=87 Identities=18% Similarity=0.221 Sum_probs=66.1
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCCc-------------C
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDYA-------------S 78 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~-------------~ 78 (159)
.|||.|+ +| ...+..+...|+..|+.+..-.+ ...|..+.+.+.+.+.+++..|+++||+=. .
T Consensus 1 kVFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpDD~~~~~~~~~~~~~~a 77 (125)
T PF10137_consen 1 KVFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPDDIGYSRGEEEDLQPRA 77 (125)
T ss_pred CEEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEcccccccccCCcccccccc
Confidence 3899998 55 37888999999988988776666 899999999999999999999999998521 1
Q ss_pred ChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 79 SKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 79 S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
-.....|+..++.+. +..+++-+.
T Consensus 78 R~NVifE~G~f~g~L--Gr~rv~~l~ 101 (125)
T PF10137_consen 78 RQNVIFELGLFIGKL--GRERVFILV 101 (125)
T ss_pred ccceeehhhHHHhhc--CcceEEEEE
Confidence 234566888888653 223555444
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=96.05 E-value=0.033 Score=36.64 Aligned_cols=65 Identities=17% Similarity=0.153 Sum_probs=49.4
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCCcCC
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDYASS 79 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S 79 (159)
||||-.-.|. +.--..|.+.|.+.|..+..-+. -..+..-.+.+.+.|++|++.|.++...|-..
T Consensus 2 VFiSSt~~Dl-~~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~ 67 (83)
T PF13271_consen 2 VFISSTFRDL-KEERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSV 67 (83)
T ss_pred EEEecChhhH-HHHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCC
Confidence 8999888885 35557788888888877654443 23456666788999999999999999998653
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=94.96 E-value=0.35 Score=33.34 Aligned_cols=69 Identities=13% Similarity=0.040 Sum_probs=51.6
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc--cc---Ccc----cchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhc
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE--IR---RGD----EISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKG 94 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~--~~---~G~----~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~ 94 (159)
..+...+.+.|+.+|+.++...+ .. .+. .+...-.++|++|+++|+++.+.- .+.-+.-|+..|....+
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~algk 90 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALGK 90 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCCC
Confidence 57889999999999999988663 21 223 333444579999999999998755 67888999999987654
No 12
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=94.51 E-value=0.046 Score=43.65 Aligned_cols=99 Identities=14% Similarity=0.159 Sum_probs=68.6
Q ss_pred CCeecEEEeccCCccchhHHHHHHHHhhc--CCceEEeeCc----ccCcccchHHHHHHHH-hcceEEEEeecCCcCChh
Q 036681 9 SCKYDVFINFGGGDTRDNFTSHLVAALHD--RNVKTFIDEE----IRRGDEISTAISDAIE-ASKISVIIFSEDYASSKW 81 (159)
Q Consensus 9 ~~~yDVFISy~~~D~~~~fv~~L~~~L~~--~gi~v~~d~~----~~~G~~~~~~i~~ai~-~S~~~I~v~S~~~~~S~w 81 (159)
-+.||+=|||.++. ..+|+....+++. .-+..|+|-. +.+| ++.+-+...-. .|++.++++..+|....|
T Consensus 175 ~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~-sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K~~ 251 (329)
T COG4916 175 EKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPG-SLVSTLDPGYDIRCVVTTVFNTGSYICKST 251 (329)
T ss_pred ccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCc-cHHHhcccccCceEEEEEEEeCCceEEeee
Confidence 37899999999987 4899999999984 3466788865 3333 33333333333 589999999999999999
Q ss_pred HHHHHHHHHHhhcccCceeeeEEE-eeCCccc
Q 036681 82 CLNELLKILECKGKKGQIVIPVFY-EVDPSDV 112 (159)
Q Consensus 82 c~~El~~~~~~~~~~~~~IiPV~~-~v~p~~v 112 (159)
|.-|...+-.-. .-..+.||.| +++...+
T Consensus 252 c~~E~~~~r~~~--~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 252 CHIEGLEGRLNP--ILDTGFRIKYLYADNIAI 281 (329)
T ss_pred eccchhhccccc--cccccceEEEEecCCccc
Confidence 999887764321 2236777776 3444443
No 13
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=90.67 E-value=2.5 Score=28.38 Aligned_cols=63 Identities=8% Similarity=0.000 Sum_probs=45.1
Q ss_pred HHHHHHhhcCCceEEeeCcc--cCcccchHHH---HHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhh
Q 036681 29 SHLVAALHDRNVKTFIDEEI--RRGDEISTAI---SDAIEASKISVIIFSEDYASSKWCLNELLKILECK 93 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~--~~G~~~~~~i---~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~ 93 (159)
......|+..|+.|.-.-.+ ..|.++.+-+ ...|..|+.+++ =|++-+|.-|+-|...|.+..
T Consensus 19 ~~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~--l~gWe~S~GA~~E~~~A~~lG 86 (92)
T PF14359_consen 19 NAAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYM--LPGWENSRGARLEHELAKKLG 86 (92)
T ss_pred HHHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEE--cCCcccCcchHHHHHHHHHCC
Confidence 45778999999887654443 5666655433 355667885444 399999999999999997653
No 14
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=87.04 E-value=2.1 Score=33.15 Aligned_cols=86 Identities=16% Similarity=0.202 Sum_probs=61.3
Q ss_pred cEEEeccCCccchhHHHHHHHHhhc-CC-ceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCc--------C----
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHD-RN-VKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYA--------S---- 78 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~-~g-i~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~--------~---- 78 (159)
-|||-|+++ ..+.....+|.+ .- ..+|.|.-...|+.+.+.+.+-|.+++..|++.+|+=. .
T Consensus 84 kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDDkgy~~~~~~~k~~p 159 (233)
T COG4271 84 KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDDKGYRAVHSREKAFP 159 (233)
T ss_pred eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcccccccccchhhccc
Confidence 799999764 366666666654 33 45677776889999999999999999999999999843 1
Q ss_pred --ChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 79 --SKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 79 --S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
-.....||..++.+. ++.+|+-+.
T Consensus 160 raRqNVifELGm~mgrL--gRkrv~Il~ 185 (233)
T COG4271 160 RARQNVIFELGMFMGRL--GRKRVMILM 185 (233)
T ss_pred cccccchhhHhhHHhhc--ccceEEEEe
Confidence 122456787777653 334555444
No 15
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=85.03 E-value=6.7 Score=24.36 Aligned_cols=60 Identities=20% Similarity=0.194 Sum_probs=36.5
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCCh-hHHHHHHHHHHhhcccCceee
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSK-WCLNELLKILECKGKKGQIVI 101 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~-wc~~El~~~~~~~~~~~~~Ii 101 (159)
..++..|++.|+.+-.... ...++...+-++++++|.+.-+. --.++|...+ +.++..||
T Consensus 8 ~a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~~~~~~~l~~~v---~~G~~lvl 68 (70)
T PF14258_consen 8 YALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSEPEEAEALLEWV---EAGNTLVL 68 (70)
T ss_pred HHHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCchHHHHHHHHHH---HcCCEEEE
Confidence 4577788888998843221 12344558889999999966654 3334444444 34454443
No 16
>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=84.38 E-value=6.4 Score=25.20 Aligned_cols=60 Identities=10% Similarity=0.204 Sum_probs=38.6
Q ss_pred ecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecC
Q 036681 12 YDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSED 75 (159)
Q Consensus 12 yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~ 75 (159)
++|+|...+.+. ...+..+...|++.|+++-+|.. +..+...+..|-+.---.++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~---~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLR---NEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 687777665543 46788999999999999988764 2344555555544333344455443
No 17
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=80.67 E-value=9.6 Score=24.43 Aligned_cols=59 Identities=17% Similarity=0.228 Sum_probs=38.8
Q ss_pred ecEEEeccCC---ccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 12 YDVFINFGGG---DTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 12 yDVFISy~~~---D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
++|+|-..+. .. ...+..+...|+..|+.+-+|.. +..+...+..+-+.---.++++.+
T Consensus 2 ~~v~ii~~~~~~~~~-~~~a~~~~~~Lr~~g~~v~~~~~---~~~~~k~~~~a~~~g~~~~iiig~ 63 (94)
T cd00738 2 IDVAIVPLTDPRVEA-REYAQKLLNALLANGIRVLYDDR---ERKIGKKFREADLRGVPFAVVVGE 63 (94)
T ss_pred eEEEEEECCCCcHHH-HHHHHHHHHHHHHCCCEEEecCC---CcCHhHHHHHHHhCCCCEEEEECC
Confidence 5777765443 32 46788899999999999988663 345555555554443346666665
No 18
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=79.46 E-value=8.4 Score=25.04 Aligned_cols=47 Identities=17% Similarity=0.263 Sum_probs=31.7
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
..++.+|...|+++|+.+.+|.. +..+...+..|-..---.++|+.+
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~---~~~~~k~~~~a~~~g~p~~iiiG~ 61 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS---DKSLGKQIKYADKLGIPFIIIIGE 61 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS---SSTHHHHHHHHHHTTESEEEEEEH
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCchhHHHHHHhhcCCeEEEEECc
Confidence 46889999999999999999874 334444555555433335555543
No 19
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=77.30 E-value=4 Score=32.86 Aligned_cols=96 Identities=17% Similarity=0.389 Sum_probs=71.4
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc---ccCcccchHHHHHHH--HhcceEEEEeecCCcCChhHHHH
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE---IRRGDEISTAISDAI--EASKISVIIFSEDYASSKWCLNE 85 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~---~~~G~~~~~~i~~ai--~~S~~~I~v~S~~~~~S~wc~~E 85 (159)
++.+=+||.++| ..+++...+-|..+|+.+|+|.. -.-|.++-+- ...| +..-+.+.++|.+|-...|...|
T Consensus 6 ~~~~a~~f~~~d--~~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~~-~~e~~q~~~~~~~~f~~~~~~r~~~~~~~ 82 (329)
T COG4916 6 QFEIALSFAGED--REYVDRVANLLREAGVTVFYDIFEEANLWGKNLYDY-LSEIYQDKALFTIMFISEHYSRKMWTNHE 82 (329)
T ss_pred heeeeeeecCch--HHHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHHH-HHHHHhhhhHHHhhhhhccccCcCCCcHH
Confidence 566789999999 47999999999999999998753 2344454422 2222 24666788999999999999999
Q ss_pred HHHHHHhhc-ccCceeeeEEEeeCC
Q 036681 86 LLKILECKG-KKGQIVIPVFYEVDP 109 (159)
Q Consensus 86 l~~~~~~~~-~~~~~IiPV~~~v~p 109 (159)
++..+...+ +....++|-.++..|
T Consensus 83 ~~~~~a~~~~~~~~~~~~~~~~~~~ 107 (329)
T COG4916 83 RQAMQARAFQEHQEYILPARFDETP 107 (329)
T ss_pred HHHHHHHHhhhccEEehhhhhccCC
Confidence 988887654 455688888887555
No 20
>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=74.79 E-value=14 Score=25.58 Aligned_cols=62 Identities=10% Similarity=0.013 Sum_probs=42.1
Q ss_pred CeecEEEeccC--CccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCC
Q 036681 10 CKYDVFINFGG--GDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDY 76 (159)
Q Consensus 10 ~~yDVFISy~~--~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~ 76 (159)
..+||||-.-+ .+. ...+..|+..|+.+|++|-+|.. ..+...+..|-+.---.++++.++-
T Consensus 25 ap~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~~----~sl~kqlk~A~k~g~~~~iiiG~~e 88 (121)
T cd00858 25 APIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDDS----GSIGRRYARQDEIGTPFCVTVDFDT 88 (121)
T ss_pred CCcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeCC----CCHHHHHHHhHhcCCCEEEEECcCc
Confidence 45888887766 332 45778899999999999988763 3556666666554444566665543
No 21
>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=72.43 E-value=24 Score=23.11 Aligned_cols=64 Identities=19% Similarity=0.226 Sum_probs=42.2
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCc--------ccCcccchHHHHHHHHhcceEEEEeecCCc
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE--------IRRGDEISTAISDAIEASKISVIIFSEDYA 77 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~--------~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~ 77 (159)
+|.|..+.-.+..++.+|...|.++|.++.+-+- +..+..+......++..|+..|+++.++..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~~ 74 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSPL 74 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCHH
Confidence 4666665555567889999999989988765321 112223344455788888888888877643
No 22
>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=70.00 E-value=31 Score=23.27 Aligned_cols=57 Identities=16% Similarity=0.127 Sum_probs=36.8
Q ss_pred HHHHHHHhhcCCceEE-eeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHH
Q 036681 28 TSHLVAALHDRNVKTF-IDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKI 89 (159)
Q Consensus 28 v~~L~~~L~~~gi~v~-~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~ 89 (159)
...|...|+++|+.+- +|-...+ +++.+.+.+.+.-++.+|-.+..+..-..++...
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~~-----~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~ 74 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVPP-----EELVEALRAERPDVVGISVSMTPNLPEAKRLARA 74 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-H-----HHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCeEEEECCCCCH-----HHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHH
Confidence 4678889999999984 4443222 6788888888877788876554433333344444
No 23
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=68.83 E-value=6.1 Score=28.04 Aligned_cols=32 Identities=6% Similarity=0.070 Sum_probs=25.6
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc-c---cCcccchH
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE-I---RRGDEIST 56 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~-~---~~G~~~~~ 56 (159)
...+..|++.|+..|+.|+.|.+ - .+|..+.+
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~~ 78 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLDK 78 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHHh
Confidence 57889999999999999999887 3 46665543
No 24
>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=67.94 E-value=25 Score=27.77 Aligned_cols=68 Identities=13% Similarity=0.108 Sum_probs=50.2
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc--ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhc
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE--IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKG 94 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~--~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~ 94 (159)
..++.+|.+.|..+|+.+-.+.. +.-|--+. +.-...+.++-|+.+|.+...+.....+|..+++..+
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 48999999999999998865543 55554433 2223345688899999888877888889999998754
No 25
>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=64.21 E-value=10 Score=25.68 Aligned_cols=55 Identities=16% Similarity=0.346 Sum_probs=34.4
Q ss_pred CCccchhHHHHHHHHhhcCCceEEeeCc-ccC----------cccchHHHHHHHHhcceEEEEeec
Q 036681 20 GGDTRDNFTSHLVAALHDRNVKTFIDEE-IRR----------GDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 20 ~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~----------G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
..|.|++-+-.|.+.|.++|+.|...+- +.. |-...+.+.++++.++++|+....
T Consensus 11 ~~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~h 76 (106)
T PF03720_consen 11 TDDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATDH 76 (106)
T ss_dssp SS--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS--
T ss_pred CcccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEecC
Confidence 3577889999999999999999876543 221 222334678889999976665543
No 26
>COG0400 Predicted esterase [General function prediction only]
Probab=58.51 E-value=29 Score=26.76 Aligned_cols=55 Identities=15% Similarity=0.146 Sum_probs=41.9
Q ss_pred CCeecEEEeccCCcc--chhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHh
Q 036681 9 SCKYDVFINFGGGDT--RDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEA 64 (159)
Q Consensus 9 ~~~yDVFISy~~~D~--~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~ 64 (159)
....-|||+|-..|. -.....+|.+.|+..|..|.... ...|-.+..+-.+++++
T Consensus 144 ~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~~ 200 (207)
T COG0400 144 LAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAARS 200 (207)
T ss_pred cCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHHH
Confidence 366779999988886 35678999999999999998765 45677777655555543
No 27
>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=58.15 E-value=52 Score=21.76 Aligned_cols=55 Identities=9% Similarity=0.165 Sum_probs=34.6
Q ss_pred hHHHHHHHHhhcCCceEEeeCcccCc-ccchHHHHHHHHhcceEEEEeecCCcCChh
Q 036681 26 NFTSHLVAALHDRNVKTFIDEEIRRG-DEISTAISDAIEASKISVIIFSEDYASSKW 81 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~ai~~S~~~I~v~S~~~~~S~w 81 (159)
.....+.+.+++.|...-.. .-..| ..-...|...|.+++++|++.+--.-...|
T Consensus 10 ~~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~ 65 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMW 65 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHH
Confidence 34667888899999886554 11112 222235888999999988888444333333
No 28
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=57.13 E-value=64 Score=22.54 Aligned_cols=84 Identities=13% Similarity=0.249 Sum_probs=42.5
Q ss_pred CCeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhc---ceEEEEeecCCcCChhHHHH
Q 036681 9 SCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEAS---KISVIIFSEDYASSKWCLNE 85 (159)
Q Consensus 9 ~~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S---~~~I~v~S~~~~~S~wc~~E 85 (159)
...+|++|.|.....+ .....+ ....++.++ .+.|.++-+.+.++++.. .-.|+++..+.-. -+...
T Consensus 8 ~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~----~Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P~--l~~~~ 77 (122)
T PF09837_consen 8 ADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFF----PQQGGDLGERMANAFQQAARGYEPVVLIGSDCPD--LTPDD 77 (122)
T ss_dssp TSSSEEEEEE----TT-HHHHHH---HH-TTSEEE----E--SSSHHHHHHHHHHHHHTT-SEEEEE-SS-TT----HHH
T ss_pred CCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEe----ecCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCC--CCHHH
Confidence 3568999999887743 333322 445566666 356777776676666655 2256666555432 34456
Q ss_pred HHHHHHhhcccCceeee
Q 036681 86 LLKILECKGKKGQIVIP 102 (159)
Q Consensus 86 l~~~~~~~~~~~~~IiP 102 (159)
|..+.+..+....++-|
T Consensus 78 l~~A~~~L~~~d~VlgP 94 (122)
T PF09837_consen 78 LEQAFEALQRHDVVLGP 94 (122)
T ss_dssp HHHHHHHTTT-SEEEEE
T ss_pred HHHHHHHhccCCEEEee
Confidence 66776665544445555
No 29
>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=56.91 E-value=54 Score=23.10 Aligned_cols=65 Identities=12% Similarity=0.009 Sum_probs=40.2
Q ss_pred HHHHHHhhcCCceEEeeC---c------c-----cCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhh
Q 036681 29 SHLVAALHDRNVKTFIDE---E------I-----RRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECK 93 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~---~------~-----~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~ 93 (159)
.+....|-+.|+.+|-.- + + ..+.-|.+--..-++.|+-.|++-.|.+..|.-...|+..+.+..
T Consensus 30 ~r~aa~l~~~G~~~fSpv~~sH~~~~~~~~~~~~~~~~~W~~~d~~~L~~c~~lvV~~i~GW~~S~Gi~~Ei~~a~~~~ 108 (116)
T PF09152_consen 30 NRVAAELLKAGHAAFSPVVMSHPINFELLGDDDPLIQKLWEDWDRPFLDACDELVVLDIPGWDDSEGIWAEIEAAEEMG 108 (116)
T ss_dssp HHHHHHHHHTT-EEEEHHHHHHHHHCCGTTS-HHHHHHHHHHHHHHHHHH-SEEEE---TTGGG-HHHHHHHHHHHHTT
T ss_pred HHHHHHHHhcCCeeEeccccccccchhcccccCcchhHHHHHHhHHHHHhcceeEEecCCCccccccHHHHHHHHHHcC
Confidence 344455666999888741 1 1 122334444445567899999999999999999999999998764
No 30
>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=55.19 E-value=62 Score=21.74 Aligned_cols=61 Identities=23% Similarity=0.328 Sum_probs=35.5
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc----cc-Ccc---------cchHHHHHHHHhcceEEEEeecC
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE----IR-RGD---------EISTAISDAIEASKISVIIFSED 75 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~----~~-~G~---------~~~~~i~~ai~~S~~~I~v~S~~ 75 (159)
.||+|.+..|. .. ...+...|.+.|++++--.. +. .|- .-.+++.+.|++-.+-++|-.|+
T Consensus 2 ~vl~s~~~~~k-~~-~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDK-PE-AVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcH-hH-HHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 38999988773 33 44677888888888864211 00 010 01245666666666666666554
No 31
>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=53.87 E-value=44 Score=21.35 Aligned_cols=48 Identities=17% Similarity=0.248 Sum_probs=30.6
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecC
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSED 75 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~ 75 (159)
...+..|...|+..|+++.+|.+ +..+...+..|-..---.++++.++
T Consensus 17 ~~~a~~la~~Lr~~g~~v~~d~~---~~~l~k~i~~a~~~g~~~~iiiG~~ 64 (94)
T cd00861 17 QELAEKLYAELQAAGVDVLLDDR---NERPGVKFADADLIGIPYRIVVGKK 64 (94)
T ss_pred HHHHHHHHHHHHHCCCEEEEECC---CCCcccchhHHHhcCCCEEEEECCc
Confidence 46788999999999999999875 2233444444444333355555544
No 32
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=53.58 E-value=44 Score=29.40 Aligned_cols=61 Identities=8% Similarity=0.204 Sum_probs=41.9
Q ss_pred CeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 10 CKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 10 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
...||+|-.-+++. ...+..|...|+++|++|-+|.. +..+...+..|-+.---.++|+.+
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~---~~sl~~q~k~A~~~g~~~~iiiG~ 529 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR---NERLGKKIREAQKQKIPYMLVVGD 529 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEch
Confidence 45788887766543 47889999999999999998863 445566666665543335555554
No 33
>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=53.41 E-value=99 Score=24.65 Aligned_cols=76 Identities=16% Similarity=0.156 Sum_probs=51.5
Q ss_pred hhHHHHHHHHhhcCCceEE-eeCc---ccCcccchHHHHHHH-H-hcceEEEEeecCCcCChhHHHHHHHHHHh-hcccC
Q 036681 25 DNFTSHLVAALHDRNVKTF-IDEE---IRRGDEISTAISDAI-E-ASKISVIIFSEDYASSKWCLNELLKILEC-KGKKG 97 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~-~d~~---~~~G~~~~~~i~~ai-~-~S~~~I~v~S~~~~~S~wc~~El~~~~~~-~~~~~ 97 (159)
.+++..|.+.|.+.|+.+- .+.. +.-|--.. ..-+ . ..++-|+.+|.+...+.....+|.+++.+ .++.+
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 5899999999999999985 5552 33443332 2223 2 46777888888887777778899998885 33334
Q ss_pred ceeeeE
Q 036681 98 QIVIPV 103 (159)
Q Consensus 98 ~~IiPV 103 (159)
.+|+-|
T Consensus 167 ~rV~iI 172 (271)
T cd07373 167 KRVAVV 172 (271)
T ss_pred CeEEEE
Confidence 566544
No 34
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=53.06 E-value=6.3 Score=30.18 Aligned_cols=103 Identities=15% Similarity=0.231 Sum_probs=54.4
Q ss_pred ccCCccchhHHHHHHHHhhcCCceEEe-eCc-ccCcc------cc---hHHHH------HHHHhcceE--EEEeecCCcC
Q 036681 18 FGGGDTRDNFTSHLVAALHDRNVKTFI-DEE-IRRGD------EI---STAIS------DAIEASKIS--VIIFSEDYAS 78 (159)
Q Consensus 18 y~~~D~~~~fv~~L~~~L~~~gi~v~~-d~~-~~~G~------~~---~~~i~------~ai~~S~~~--I~v~S~~~~~ 78 (159)
-|+.. +...+..|.+.|...|+.+++ |.+ +..|= .- .++|. +-+.++-+. +.++||--
T Consensus 31 LSGsG-KSTiA~ale~~L~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~iviva~ISP~r-- 107 (197)
T COG0529 31 LSGSG-KSTIANALEEKLFAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGLIVIVAFISPYR-- 107 (197)
T ss_pred CCCCC-HHHHHHHHHHHHHHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCeEEEEEeeCccH--
Confidence 34444 358999999999999999976 544 43321 11 11222 222233322 22344422
Q ss_pred ChhHHHHHHHHHHhhcccCceeeeEEEee--CCcccccccCcchhHHHhhhccc
Q 036681 79 SKWCLNELLKILECKGKKGQIVIPVFYEV--DPSDVCYQSGSFRDPFVMHEGQF 130 (159)
Q Consensus 79 S~wc~~El~~~~~~~~~~~~~IiPV~~~v--~p~~v~~~~~~~~~~f~~~~~~~ 130 (159)
.+-..+.+... ....|-||.+. .-|+=|+..|.|.+|.+-....|
T Consensus 108 -----~~R~~aR~~~~--~~~FiEVyV~~pl~vce~RDpKGLYkKAr~GeI~~f 154 (197)
T COG0529 108 -----EDRQMARELLG--EGEFIEVYVDTPLEVCERRDPKGLYKKARAGEIKNF 154 (197)
T ss_pred -----HHHHHHHHHhC--cCceEEEEeCCCHHHHHhcCchHHHHHHHcCCCCCC
Confidence 11222222221 12788888763 33455677888888877654443
No 35
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=52.09 E-value=80 Score=23.82 Aligned_cols=76 Identities=13% Similarity=0.002 Sum_probs=53.1
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc-------ccC---cccchHHHHHHHHhcceEEEEeecCC-cCChhHHHHHHHHHHhh
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE-------IRR---GDEISTAISDAIEASKISVIIFSEDY-ASSKWCLNELLKILECK 93 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~-------~~~---G~~~~~~i~~ai~~S~~~I~v~S~~~-~~S~wc~~El~~~~~~~ 93 (159)
.+..+.|...|.+.|+.++.... ..| +..|.+.-.+.|.+|+++|+++.+-= ...+-...|+..+....
T Consensus 19 i~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~Alg 98 (172)
T COG3613 19 IELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAIALG 98 (172)
T ss_pred HHHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHHHcC
Confidence 35678888999999999887522 222 22344455678999999999997654 22345677999998765
Q ss_pred cccCceeeeEE
Q 036681 94 GKKGQIVIPVF 104 (159)
Q Consensus 94 ~~~~~~IiPV~ 104 (159)
+ .+++.+
T Consensus 99 K----Pv~~~~ 105 (172)
T COG3613 99 K----PVYAYR 105 (172)
T ss_pred C----ceEEEe
Confidence 5 666665
No 36
>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=51.18 E-value=57 Score=20.14 Aligned_cols=59 Identities=22% Similarity=0.234 Sum_probs=35.0
Q ss_pred ecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 12 YDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 12 yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
.||+|...+.+. ..-+..+...|++.|++|.++.. +..+...+..+-...-..++++.+
T Consensus 2 ~~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~~---~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 2 VDVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDYG---GRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred CcEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEecC---CCCHHHHHHHHHHcCCCEEEEEcH
Confidence 367777655432 34578889999999999987553 123344444444333334555554
No 37
>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=50.45 E-value=24 Score=24.09 Aligned_cols=29 Identities=14% Similarity=0.130 Sum_probs=22.2
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEe
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFI 44 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~ 44 (159)
||||.+..|. .-...+...|...|++++-
T Consensus 3 vlisv~~~dk--~~~~~~a~~l~~~G~~i~a 31 (116)
T cd01423 3 ILISIGSYSK--PELLPTAQKLSKLGYKLYA 31 (116)
T ss_pred EEEecCcccc--hhHHHHHHHHHHCCCEEEE
Confidence 8999998873 3444777888889998864
No 38
>PRK02551 flavoprotein NrdI; Provisional
Probab=49.76 E-value=1e+02 Score=22.68 Aligned_cols=118 Identities=14% Similarity=0.271 Sum_probs=61.4
Q ss_pred EEEeccCCccchhHHHHHHHHhhcC--CceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCC-cCC--------hhH
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDR--NVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDY-ASS--------KWC 82 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~--gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~-~~S--------~wc 82 (159)
+|.|-++.- +.||..|...+.++ ++.+.. +...+-+.++-. .+. ..--.+++.|.| ... .|.
T Consensus 7 ~Y~S~TGNt--~rFv~kL~~~~~~~~~~~~~~~---i~~~~~i~~~~~-~~~-~~~p~vli~pTY~~gG~~~~~~~~~~v 79 (154)
T PRK02551 7 VYISLSGNT--RSFVKRLSDYLATQHKDIEVNP---INIKDLIHETTD-FFP-ETEPFVAFLPTYLEGGNGIDNGDVEIL 79 (154)
T ss_pred EEEeCChhH--HHHHHHHhcHHhhcccccccee---cccccccCcccc-ccc-cCCCEEEEEeeecCCCCCcccCccccc
Confidence 577766553 58999997666442 343321 222222211000 011 122344666777 222 566
Q ss_pred HHHHHHHHHhhcccCceeeeEEEeeCCcccccccCcchhHHHhhhccc--------------CCChhHHHHHHHHHHHh
Q 036681 83 LNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFVMHEGQF--------------QVHPENVQKWRDGLTEA 147 (159)
Q Consensus 83 ~~El~~~~~~~~~~~~~IiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~--------------~~~~~~~~~W~~al~~v 147 (159)
-+.+...+..... ...+.-|+ -....+||+.|......+ +.+.+++++-++.|.+.
T Consensus 80 p~~v~dFL~~~~N-~~~~~gVi--------gsGNrNfg~~F~~aa~~ia~~~~vP~L~~fEl~GT~~Dv~~v~~~~~~~ 149 (154)
T PRK02551 80 TTPLGDFIAYHDN-AKRCLGII--------GSGNRNFNNQYCLTAKQYAKRFGFPMLADFELRGTPSDIERIAAIIAEL 149 (154)
T ss_pred hHHHHHHHcchhh-hhheEEEE--------eecccHHHHHHHHHHHHHHHHcCCCEEEEeeccCCHHHHHHHHHHHHHH
Confidence 6677777643322 33555554 223556888888764432 44567777777666654
No 39
>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=49.03 E-value=29 Score=21.92 Aligned_cols=28 Identities=11% Similarity=0.131 Sum_probs=13.2
Q ss_pred CCceEEeeCcccCcccchHHHHHHHHhcc
Q 036681 38 RNVKTFIDEEIRRGDEISTAISDAIEASK 66 (159)
Q Consensus 38 ~gi~v~~d~~~~~G~~~~~~i~~ai~~S~ 66 (159)
+.+.+++|.+ .+|.....++.+.+..-.
T Consensus 44 ~~vii~~D~D-~aG~~a~~~~~~~l~~~g 71 (79)
T cd03364 44 KEVILAFDGD-EAGQKAALRALELLLKLG 71 (79)
T ss_pred CeEEEEECCC-HHHHHHHHHHHHHHHHCC
Confidence 3455555553 445444444444444433
No 40
>PLN03194 putative disease resistance protein; Provisional
Probab=48.66 E-value=1e+02 Score=23.61 Aligned_cols=64 Identities=13% Similarity=0.241 Sum_probs=47.1
Q ss_pred cCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 37 DRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 37 ~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
...+.||+..+ -.....+..-|.++++...+.+++-........--..+|..+++..+ ..|.||
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSr----i~IvVf 88 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCK----VGVAVF 88 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCe----EEEEEE
Confidence 36789999876 44455788899999999998888766555555555567888876644 778887
No 41
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=48.27 E-value=49 Score=23.65 Aligned_cols=55 Identities=18% Similarity=0.263 Sum_probs=39.0
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcc
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASK 66 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~ 66 (159)
..++|+-..+.=....++..|..++..+|+.++.|-+ .+|+.+...|.+.+.++.
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~ 83 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAK 83 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccc
Confidence 3456665544322246788888888888888888874 678888888888887743
No 42
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=48.20 E-value=36 Score=30.18 Aligned_cols=62 Identities=18% Similarity=0.288 Sum_probs=40.6
Q ss_pred CeecEEEeccC--CccchhHHHHHHHHhhcCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecC
Q 036681 10 CKYDVFINFGG--GDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSED 75 (159)
Q Consensus 10 ~~yDVFISy~~--~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~ 75 (159)
-.++|+|---. .+.-...+..|+..|+..|+++.+|++ -.+|..+.+.- +.... .++++.++
T Consensus 467 aP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~~ad---~~GiP-~~iiiG~~ 531 (565)
T PRK09194 467 APFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFADAD---LIGIP-HRIVVGDR 531 (565)
T ss_pred CCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHHHHH---hcCCC-EEEEEcCc
Confidence 34888887543 222356889999999999999999987 56666555322 22334 44555554
No 43
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=46.20 E-value=45 Score=28.63 Aligned_cols=62 Identities=21% Similarity=0.157 Sum_probs=39.0
Q ss_pred eecEEEeccC--CccchhHHHHHHHHhhcCCceEEeeCc-ccCcccchHHHHHHHHhcceEEEEeecCC
Q 036681 11 KYDVFINFGG--GDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEISTAISDAIEASKISVIIFSEDY 76 (159)
Q Consensus 11 ~yDVFISy~~--~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~ 76 (159)
.++|.|---. .+.....+..|+..|+..|++|.+|.+ -.+|..+.+.- ..... .++|+.++-
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~ki~~a~---~~giP-~~iiVG~~e 409 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAKFATMD---LIGLP-WQIIVGPKG 409 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHHHHHHH---HcCCC-EEEEECCcc
Confidence 4788776542 222356889999999999999999886 54554444221 22333 555565543
No 44
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=45.22 E-value=1.1e+02 Score=21.79 Aligned_cols=72 Identities=18% Similarity=0.068 Sum_probs=45.5
Q ss_pred HHHHHhhcCCceEEeeCcccCcccch-HHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEeeC
Q 036681 30 HLVAALHDRNVKTFIDEEIRRGDEIS-TAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVD 108 (159)
Q Consensus 30 ~L~~~L~~~gi~v~~d~~~~~G~~~~-~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~v~ 108 (159)
-+...|+.+|+.|.. -|.+.+ +++.+++.+.+.-++.+|--...+.--..++...++.. +..=++|+++-.
T Consensus 22 iv~~~lr~~G~eVi~-----LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~~~---~~~~~~i~vGG~ 93 (137)
T PRK02261 22 ILDRALTEAGFEVIN-----LGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDCRGLREKCIEA---GLGDILLYVGGN 93 (137)
T ss_pred HHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHHHHHHHHHhc---CCCCCeEEEECC
Confidence 344566889999954 555443 68888888888888888765555544445555555433 111257888654
Q ss_pred C
Q 036681 109 P 109 (159)
Q Consensus 109 p 109 (159)
+
T Consensus 94 ~ 94 (137)
T PRK02261 94 L 94 (137)
T ss_pred C
Confidence 3
No 45
>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=43.97 E-value=85 Score=25.12 Aligned_cols=110 Identities=18% Similarity=0.240 Sum_probs=65.8
Q ss_pred HHHHHHhhcCCceEEeeCc-----ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeE
Q 036681 29 SHLVAALHDRNVKTFIDEE-----IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPV 103 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~-----~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV 103 (159)
-.++..|... +++|-|-. -..+.++.+....+++.+..=-+++|-.-...+=-.+++..+-+.. . +||
T Consensus 131 ~r~R~~l~a~-v~ilaDV~~kh~~~l~~~~~~~~~~~a~~~~~aDaviVtG~~TG~~~~~~~l~~vr~~~-----~-~PV 203 (254)
T PF03437_consen 131 LRYRKRLGAD-VKILADVHVKHSSPLATRDLEEAAKDAVERGGADAVIVTGKATGEPPDPEKLKRVREAV-----P-VPV 203 (254)
T ss_pred HHHHHHcCCC-eEEEeeechhhcccCCCCCHHHHHHHHHHhcCCCEEEECCcccCCCCCHHHHHHHHhcC-----C-CCE
Confidence 3444555555 89988754 2234567767777777777766777766554433444555443321 2 999
Q ss_pred EE--eeCCcccccccC----cc-hhHHHhhhc-ccCCChhHHHHHHHHHH
Q 036681 104 FY--EVDPSDVCYQSG----SF-RDPFVMHEG-QFQVHPENVQKWRDGLT 145 (159)
Q Consensus 104 ~~--~v~p~~v~~~~~----~~-~~~f~~~~~-~~~~~~~~~~~W~~al~ 145 (159)
|. +++++.+..+.. .. |-.|++... .-+.+.+++.+..+++.
T Consensus 204 lvGSGvt~~Ni~~~l~~ADG~IVGS~~K~~G~~~n~VD~~Rv~~fm~~v~ 253 (254)
T PF03437_consen 204 LVGSGVTPENIAEYLSYADGAIVGSYFKKDGKWENPVDPERVRRFMEAVK 253 (254)
T ss_pred EEecCCCHHHHHHHHHhCCEEEEeeeeeeCCEeCCcCCHHHHHHHHHHhh
Confidence 99 488888766432 11 334444332 12456889998888765
No 46
>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=43.91 E-value=68 Score=24.42 Aligned_cols=47 Identities=15% Similarity=0.104 Sum_probs=33.4
Q ss_pred eecEEEeccCCc-----cchhHHHHHHHHhhcCCceEEeeCc-c-cCcccchHH
Q 036681 11 KYDVFINFGGGD-----TRDNFTSHLVAALHDRNVKTFIDEE-I-RRGDEISTA 57 (159)
Q Consensus 11 ~yDVFISy~~~D-----~~~~fv~~L~~~L~~~gi~v~~d~~-~-~~G~~~~~~ 57 (159)
.++|+|---..+ .-...+..|...|+..|+++.+|.+ - .+|..+...
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~a 63 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDW 63 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHH
Confidence 367776643222 0246789999999999999999986 4 788776643
No 47
>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=43.63 E-value=1.2e+02 Score=24.39 Aligned_cols=61 Identities=8% Similarity=0.085 Sum_probs=36.3
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcc-cchHHHHHHHHhcceEEEEeec
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGD-EISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
.|.+-|...+-....+..+...+++.|+.+-....+.+++ ++.. +...|..++.-++++.-
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~-~i~~l~~~~~d~v~~~~ 207 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTS-EVLKLKAANPDAILPAS 207 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHH-HHHHHHhcCCCEEEEcc
Confidence 3556564333235677778888888998887555455553 4444 44456655555555543
No 48
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=43.37 E-value=85 Score=26.76 Aligned_cols=59 Identities=20% Similarity=0.168 Sum_probs=39.2
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEee
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFS 73 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S 73 (159)
.++|+|-.-+++. ...+..|...|+++|+++.+|.. +..+...+..|-+.---.++++.
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~---srSLgKQiK~AdK~GaPfvIIIG 332 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL---DDSLGNKIRRAGTEWIPFVIIIG 332 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEC
Confidence 4777776655553 46788999999999999998763 34555566666553333444444
No 49
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=42.13 E-value=37 Score=28.67 Aligned_cols=45 Identities=36% Similarity=0.698 Sum_probs=32.7
Q ss_pred HHHhcceEEEEeecCCc----CChhHHH-HHHHHH-HhhcccCceeeeEEE
Q 036681 61 AIEASKISVIIFSEDYA----SSKWCLN-ELLKIL-ECKGKKGQIVIPVFY 105 (159)
Q Consensus 61 ai~~S~~~I~v~S~~~~----~S~wc~~-El~~~~-~~~~~~~~~IiPV~~ 105 (159)
-|..++--+++--..|+ .|..|++ |+.++. +|-..++.++||||-
T Consensus 191 ~id~~rpdlLIsESTYattiRdskr~rERdFLk~VhecVa~GGkvlIPvFA 241 (501)
T KOG1136|consen 191 WIDKCRPDLLISESTYATTIRDSKRCRERDFLKKVHECVARGGKVLIPVFA 241 (501)
T ss_pred hhccccCceEEeeccceeeeccccchhHHHHHHHHHHHHhcCCeEEEEeee
Confidence 45667777766666676 4888987 666655 555678899999994
No 50
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=41.87 E-value=78 Score=22.80 Aligned_cols=45 Identities=18% Similarity=0.420 Sum_probs=29.9
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcC
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYAS 78 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~ 78 (159)
..|...|++.|+.+.+ ..|+. .+.+.+-+++..+..+++...|..
T Consensus 56 ~~L~~~L~~~g~~L~v----~~g~~-~~~l~~l~~~~~~~~V~~~~~~~~ 100 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLV----LRGDP-EEVLPELAKEYGATAVYFNEEYTP 100 (165)
T ss_dssp HHHHHHHHHTTS-EEE----EESSH-HHHHHHHHHHHTESEEEEE---SH
T ss_pred HHHHHHHHhcCcceEE----Eecch-HHHHHHHHHhcCcCeeEeccccCH
Confidence 5677888889998774 45553 346666777888999999988876
No 51
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=41.39 E-value=1.1e+02 Score=24.20 Aligned_cols=69 Identities=16% Similarity=0.153 Sum_probs=45.5
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccC
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKG 97 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~ 97 (159)
+.....|....+.+| .-++|-++..+.....++...-.+-. +|+|-|...+.+..+|+...+.++...+
T Consensus 78 ~~~i~ll~~la~~~~-~d~iDiEl~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~km~~~~ 146 (231)
T COG0710 78 EEYIELLKKLAELNG-PDYIDIELSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDKMESLG 146 (231)
T ss_pred HHHHHHHHHHHhhcC-CCEEEEEccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHHHHhhC
Confidence 456666766666666 67888884333332233333333333 8899999999999999999998875433
No 52
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=40.47 E-value=36 Score=27.50 Aligned_cols=31 Identities=35% Similarity=0.592 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHHh---h-cccCceeeeEEEeeCCc
Q 036681 80 KWCLNELLKILEC---K-GKKGQIVIPVFYEVDPS 110 (159)
Q Consensus 80 ~wc~~El~~~~~~---~-~~~~~~IiPV~~~v~p~ 110 (159)
+-|-+||.++... . ...+..++|||.-++|.
T Consensus 153 DICPdELeKm~~~Vd~i~~~~~~~~~PlFIsvDPe 187 (280)
T KOG2792|consen 153 DICPDELEKMSAVVDEIEAKPGLPPVPLFISVDPE 187 (280)
T ss_pred CcChHHHHHHHHHHHHHhccCCCCccceEEEeCcc
Confidence 4588888776554 2 23456777999999995
No 53
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=40.21 E-value=49 Score=29.88 Aligned_cols=44 Identities=11% Similarity=0.157 Sum_probs=32.2
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc-ccCcccch
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEIS 55 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~ 55 (159)
.++|+|---+++ ....+..|++.|+.+|++|.+|.+ -..|..+.
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgkKir 543 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGKKIR 543 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHH
Confidence 478877665444 357899999999999999999886 44444433
No 54
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=39.91 E-value=1.2e+02 Score=26.67 Aligned_cols=81 Identities=14% Similarity=0.119 Sum_probs=66.4
Q ss_pred hHHHHHHHHhhcCCceEEeeCc---ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeee
Q 036681 26 NFTSHLVAALHDRNVKTFIDEE---IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIP 102 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~---~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiP 102 (159)
.....+...-++.|+.+=.|.. +..|+.-.-||.+++-.-.-++++--|..+-++--.+||-.++++.+..+..||-
T Consensus 116 ~~~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLyr~a~iLILDEPTaVLTP~E~~~lf~~l~~l~~~G~tIi~ 195 (501)
T COG3845 116 QARARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALYRGARLLILDEPTAVLTPQEADELFEILRRLAAEGKTIIF 195 (501)
T ss_pred HHHHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEE
Confidence 3444554444678998877765 8889888889999999887788888899999999999999999988888889998
Q ss_pred EEEe
Q 036681 103 VFYE 106 (159)
Q Consensus 103 V~~~ 106 (159)
|-++
T Consensus 196 ITHK 199 (501)
T COG3845 196 ITHK 199 (501)
T ss_pred Eecc
Confidence 8875
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=39.89 E-value=1.3e+02 Score=21.04 Aligned_cols=78 Identities=14% Similarity=0.164 Sum_probs=46.5
Q ss_pred hhHHHHHHHHhhcCCceEEe-eCc-c-cC-----------cccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHH
Q 036681 25 DNFTSHLVAALHDRNVKTFI-DEE-I-RR-----------GDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKIL 90 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~-d~~-~-~~-----------G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~ 90 (159)
..+++.+.+.|++.|+.+-+ +-. . .| -.+-..++.+.+.+++ .|++.||.|..+.= -.+..++
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD-~iI~~sP~y~~~~s--~~lK~~l 93 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEAD-GIIFASPVYNGSVS--GQLKNFL 93 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSS-EEEEEEEEBTTBE---HHHHHHH
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCC-eEEEeecEEcCcCC--hhhhHHH
Confidence 57888999999888876522 222 2 11 1223457788899999 77888999886532 2334444
Q ss_pred Hhh------cccCceeeeEEE
Q 036681 91 ECK------GKKGQIVIPVFY 105 (159)
Q Consensus 91 ~~~------~~~~~~IiPV~~ 105 (159)
++. .-.+..+.+|-.
T Consensus 94 D~~~~~~~~~~~~K~~~~i~~ 114 (152)
T PF03358_consen 94 DRLSCWFRRALRGKPVAIIAV 114 (152)
T ss_dssp HTHHHTHTTTTTTSEEEEEEE
T ss_pred HHhccccccccCCCEEEEEEE
Confidence 432 123445666543
No 56
>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=39.72 E-value=1.1e+02 Score=21.83 Aligned_cols=25 Identities=32% Similarity=0.248 Sum_probs=11.9
Q ss_pred CcccchHHHHHHHHhcceEEEEeec
Q 036681 50 RGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 50 ~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
.++.+.+.+.+.|.+++..|.+.++
T Consensus 18 ~~~~~~~~i~~~I~~A~~~I~i~~~ 42 (176)
T cd00138 18 GGRSDLDALLEAISNAKKSIYIASF 42 (176)
T ss_pred CcchHHHHHHHHHHhhheEEEEEEe
Confidence 3344444444555555544444444
No 57
>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=39.42 E-value=1.9e+02 Score=22.74 Aligned_cols=53 Identities=21% Similarity=0.164 Sum_probs=31.5
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCc-ccchHHHHHHHHhcce
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRG-DEISTAISDAIEASKI 67 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~ai~~S~~ 67 (159)
|.+-|...+-....+..+...|+..|+++-....+.+| .++.. +...|+++..
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~-~l~~i~~~~~ 191 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFSA-ILTKIKAANP 191 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHHH-HHHHHHhcCC
Confidence 44445444433567778888888889887655545555 44544 4445555433
No 58
>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=39.36 E-value=85 Score=24.06 Aligned_cols=60 Identities=7% Similarity=-0.043 Sum_probs=39.3
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCC
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASS 79 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S 79 (159)
.+|++.|..+.. .++-.|+.. -=-||+|. -.+..+..++.+.+.+...-|+++||.--.-
T Consensus 103 ~i~tr~Se~E~~-~~~~~~~~~----~~~VW~D~--f~~~~~~~~~~~~~~~~~~~~c~VSpELh~~ 162 (192)
T cd08584 103 RTATRVSEYEPI-PTALSLYEK----ADWVWIDS--FTSLWLDNDLILKLLKAGKKICLVSPELHGR 162 (192)
T ss_pred eeEEeecccccc-hHHHHhhcc----ccEEEEec--ccccCCCHHHHHHHHHCCcEEEEECHHHcCC
Confidence 477777665543 222222222 22389988 3446777788888888899999999987653
No 59
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=39.34 E-value=94 Score=26.52 Aligned_cols=60 Identities=20% Similarity=0.264 Sum_probs=40.6
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
..||+|.+-+.+. ...+-.+.+.|+++|+++-+|.. +..+...+..|-+.--..++|+.+
T Consensus 325 ~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~~---~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 325 SIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDLS---SSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEeeC---CCCHHHHHHHHHHcCCCEEEEEec
Confidence 4689998855543 45678899999999999877542 344566666665544445666655
No 60
>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=39.03 E-value=1.1e+02 Score=20.70 Aligned_cols=60 Identities=20% Similarity=0.287 Sum_probs=36.3
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCc--------------ccCccc-chHHHHHHHHh-cceEEEEeecC
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE--------------IRRGDE-ISTAISDAIEA-SKISVIIFSED 75 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~--------------~~~G~~-~~~~i~~ai~~-S~~~I~v~S~~ 75 (159)
||||-+..|. .-...+...|...|+.++--.. +..+.. -.+++.+.|.+ -++-++|..|+
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 7888887763 3344677777788887753210 111100 12467777777 77777777665
No 61
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=39.02 E-value=49 Score=26.50 Aligned_cols=41 Identities=22% Similarity=0.261 Sum_probs=27.6
Q ss_pred HHHHHHHHhhcCCceEEeeCcccCccc---chHHHHHHHHhcceEE
Q 036681 27 FTSHLVAALHDRNVKTFIDEEIRRGDE---ISTAISDAIEASKISV 69 (159)
Q Consensus 27 fv~~L~~~L~~~gi~v~~d~~~~~G~~---~~~~i~~ai~~S~~~I 69 (159)
=+.+|.+.|...|+.+..-. ..||+ |.+.+..++++++++|
T Consensus 22 Na~~la~~L~~~G~~v~~~~--~VgD~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 22 NAAFLADELTELGVDLARIT--TVGDNPDRIVEALREASERADVVI 65 (255)
T ss_pred hHHHHHHHHHhcCceEEEEE--ecCCCHHHHHHHHHHHHhCCCEEE
Confidence 36789999999999987544 34544 4556666666755443
No 62
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=38.90 E-value=1.2e+02 Score=20.42 Aligned_cols=73 Identities=19% Similarity=0.186 Sum_probs=42.1
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccc-hHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEee
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEI-STAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEV 107 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~-~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~v 107 (159)
.-+...|+.+|+.|.. .|.+. .+++.+++.+.+.-++.+|-......--..++...++.. ..-=++|+++-
T Consensus 17 ~~~~~~l~~~G~~V~~-----lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~---~~~~~~i~vGG 88 (119)
T cd02067 17 NIVARALRDAGFEVID-----LGVDVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEA---GLDDIPVLVGG 88 (119)
T ss_pred HHHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHc---CCCCCeEEEEC
Confidence 3455667889999943 22222 347788888888888888766444333334444444432 11135566654
Q ss_pred CC
Q 036681 108 DP 109 (159)
Q Consensus 108 ~p 109 (159)
.+
T Consensus 89 ~~ 90 (119)
T cd02067 89 AI 90 (119)
T ss_pred CC
Confidence 33
No 63
>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=38.71 E-value=88 Score=23.62 Aligned_cols=50 Identities=16% Similarity=0.237 Sum_probs=38.4
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCc
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYA 77 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~ 77 (159)
......|..+.+.+|+.+|.|.+ .+|+.|...|.+.+-++..+ .++..++
T Consensus 35 ~~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~kha--fi~~~~a 84 (174)
T TIGR00334 35 DETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENC--FIPKHLA 84 (174)
T ss_pred HHHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEE--eeeHHhc
Confidence 45677888888899999999985 78999999999988777643 3444443
No 64
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=38.16 E-value=55 Score=28.44 Aligned_cols=46 Identities=13% Similarity=0.156 Sum_probs=32.5
Q ss_pred eecEEEecc--C---CccchhHHHHHHHHhhcCCceEEeeC-c-ccCcccchH
Q 036681 11 KYDVFINFG--G---GDTRDNFTSHLVAALHDRNVKTFIDE-E-IRRGDEIST 56 (159)
Q Consensus 11 ~yDVFISy~--~---~D~~~~fv~~L~~~L~~~gi~v~~d~-~-~~~G~~~~~ 56 (159)
.++|+|--- . .+.-...+..|...|+..|++|-+|. . ..+|..+..
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~~~ 339 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKFNE 339 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHH
Confidence 478877643 1 12224678999999999999999998 4 666665543
No 65
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=37.60 E-value=1.3e+02 Score=24.35 Aligned_cols=79 Identities=9% Similarity=0.055 Sum_probs=46.1
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc--ccCcccchHHHHHHHHhcceEEEEeecCCcC----ChhHHHHHHHHHHhhcc---
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE--IRRGDEISTAISDAIEASKISVIIFSEDYAS----SKWCLNELLKILECKGK--- 95 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~--~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~----S~wc~~El~~~~~~~~~--- 95 (159)
..++.+|.+.|.+.|+.+-...+ +..|--..-.+...=.+..+-|+-++-+... +.....+|..++....+
T Consensus 98 ~~lA~~i~~~l~~~gid~~~~~~~~lDHG~~vPL~~l~~~~d~~~pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~~~~ 177 (278)
T PRK13364 98 TELSWHIIESLVEEEFDITTCQEMLVDHAFTLPLELFWPGRDYPVKVVPVCINTVQHPLPSARRCYKLGQAIGRAIASWP 177 (278)
T ss_pred HHHHHHHHHHHHHcCCCeecccCCCCCcchhhhHHHhCcccCCCCCEEEEEeeccCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence 57999999999999998866544 5555544422221101122334444444433 66777788888877522
Q ss_pred cCceeeeE
Q 036681 96 KGQIVIPV 103 (159)
Q Consensus 96 ~~~~IiPV 103 (159)
.+.+|.-|
T Consensus 178 ~d~rV~iI 185 (278)
T PRK13364 178 SDERVVVI 185 (278)
T ss_pred CCCCEEEE
Confidence 34455533
No 66
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=37.07 E-value=1.1e+02 Score=27.30 Aligned_cols=60 Identities=15% Similarity=0.299 Sum_probs=39.0
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
..+|+|-.-+++. ...+..+...|+++|++|-+|.. +..+...+..|-..---.++|+.+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~---~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA---GETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECh
Confidence 4688877655443 46788999999999999998874 344555555554432334555543
No 67
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=36.67 E-value=69 Score=27.07 Aligned_cols=50 Identities=8% Similarity=0.234 Sum_probs=37.3
Q ss_pred CccchhHHHHHHHHhhcCCceEEeeCc-ccC----cccchHHHHHHHHhcceEEE
Q 036681 21 GDTRDNFTSHLVAALHDRNVKTFIDEE-IRR----GDEISTAISDAIEASKISVI 70 (159)
Q Consensus 21 ~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~----G~~~~~~i~~ai~~S~~~I~ 70 (159)
.|.|+.-+-.|.+.|..+|..|-..+- +.. |-.+.+++..+++.++.+|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 477888888999999999988765443 322 45567788889999997655
No 68
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=36.07 E-value=1.5e+02 Score=20.79 Aligned_cols=46 Identities=4% Similarity=0.086 Sum_probs=29.6
Q ss_pred HHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 56 TAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 56 ~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
..+.+.+..++++|+|++.+- .+...+.....+..+....++|-|+
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 557788899999999997666 4444455555555444444555553
No 69
>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=36.02 E-value=1.3e+02 Score=19.80 Aligned_cols=56 Identities=20% Similarity=0.265 Sum_probs=38.7
Q ss_pred HHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHH
Q 036681 31 LVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKIL 90 (159)
Q Consensus 31 L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~ 90 (159)
+..-++-.|+..+... ...+.....+.+.+++-++.|++++.++... -.+++....
T Consensus 9 ~v~gFrLaGv~~~~~~--~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~--~~~~l~~~~ 64 (95)
T PF01990_consen 9 TVLGFRLAGVEGVYVN--TDPEEAEEALKELLKDEDVGIIIITEDLAEK--IRDELDEYR 64 (95)
T ss_dssp HHHHHHHTTSEEEEES--HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTT--HHHHHHHHH
T ss_pred HHHHHHHcCCCCccCC--CCHHHHHHHHHHHhcCCCccEEEeeHHHHHH--HHHHHHHHH
Confidence 3455677899888754 1334556677788889999999999988774 334454443
No 70
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=35.76 E-value=1.1e+02 Score=27.35 Aligned_cols=60 Identities=10% Similarity=0.165 Sum_probs=39.9
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
..||+|-.-++.. ...+..|...|+++|++|-+|.. +..+...+..|-..---.++|+.+
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kki~~A~~~g~~~~iiiG~ 598 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDLR---NEKIGYKIREAQLQKVPYMLVVGD 598 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEECC---CCCHhHHHHHhhccCCCEEEEEcc
Confidence 4688887655443 46788999999999999988864 344555555554443335556654
No 71
>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=35.47 E-value=2e+02 Score=23.15 Aligned_cols=52 Identities=19% Similarity=0.195 Sum_probs=27.6
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCc-ccchHHHHHHHHhcc
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRG-DEISTAISDAIEASK 66 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~ai~~S~ 66 (159)
|.|-|...+-....+..+.+.|++.|+.+-....+.++ .++...+. .|+++.
T Consensus 141 v~ii~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~s~~i~-~i~~~~ 193 (347)
T cd06335 141 VALLLDNTGWGRSNRKDLTAALAARGLKPVAVEWFNWGDKDMTAQLL-RAKAAG 193 (347)
T ss_pred EEEEeccCchhhhHHHHHHHHHHHcCCeeEEEeeecCCCccHHHHHH-HHHhCC
Confidence 44444433333456777777777778776544434444 34444443 344333
No 72
>PLN02530 histidine-tRNA ligase
Probab=35.43 E-value=1.3e+02 Score=26.11 Aligned_cols=61 Identities=8% Similarity=0.055 Sum_probs=42.0
Q ss_pred CeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 10 CKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 10 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
...||+|.+-.++. ...+..+...|+++|+++-++.. +..+...+..|-+.--..|+++.+
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 44789998865553 46788899999999999977642 234556666666654446666654
No 73
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=35.39 E-value=1.3e+02 Score=26.29 Aligned_cols=82 Identities=20% Similarity=0.402 Sum_probs=49.2
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhh-cccCceeeeEEEe-
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECK-GKKGQIVIPVFYE- 106 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~-~~~~~~IiPV~~~- 106 (159)
..|.+.|.+.|+.+++ ..|+... .+.+-+++..+..++....| ..| ..+...++... .+.+ .+.-.|.+
T Consensus 58 ~~L~~~L~~~gi~L~v----~~~~~~~-~l~~~~~~~~~~~v~~n~~~--~~~-~~~rD~al~~~l~~~g-i~~~~~~d~ 128 (461)
T COG0415 58 QALQQSLAELGIPLLV----REGDPEQ-VLPELAKQLAATTVFWNRDY--EEW-ERQRDAALAQPLTEVG-IAVHSFWDA 128 (461)
T ss_pred HHHHHHHHHcCCceEE----EeCCHHH-HHHHHHHHhCcceEEeeeee--chh-HHHHHHHHHHHHHhcC-ceEEEeccc
Confidence 4678888899999985 5566443 56666666667778887888 233 33444444332 2223 22223433
Q ss_pred --eCCcccccccCcc
Q 036681 107 --VDPSDVCYQSGSF 119 (159)
Q Consensus 107 --v~p~~v~~~~~~~ 119 (159)
..|.+++.+.+..
T Consensus 129 ~l~~p~~~~t~~~~~ 143 (461)
T COG0415 129 LLHEPGEVRTGSGEP 143 (461)
T ss_pred cccCHhhccCCCCCC
Confidence 6787888776643
No 74
>PF13289 SIR2_2: SIR2-like domain
Probab=34.67 E-value=1.5e+02 Score=20.32 Aligned_cols=9 Identities=33% Similarity=0.512 Sum_probs=4.1
Q ss_pred HHHHHHHHh
Q 036681 27 FTSHLVAAL 35 (159)
Q Consensus 27 fv~~L~~~L 35 (159)
+-..|...|
T Consensus 76 ~~~~l~~~l 84 (143)
T PF13289_consen 76 FPNFLRSLL 84 (143)
T ss_pred HHHHHHHHH
Confidence 444444444
No 75
>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=34.26 E-value=1.1e+02 Score=22.93 Aligned_cols=67 Identities=28% Similarity=0.328 Sum_probs=42.3
Q ss_pred HhhcCCceEEe-eCc--c-cCc-ccchHHHHHHHHhcce-----EEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeE
Q 036681 34 ALHDRNVKTFI-DEE--I-RRG-DEISTAISDAIEASKI-----SVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPV 103 (159)
Q Consensus 34 ~L~~~gi~v~~-d~~--~-~~G-~~~~~~i~~ai~~S~~-----~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV 103 (159)
.|.+.||+..+ |.+ + .|+ +.+.+++.+.+++++. -|+|+|-+.-+++--..+-..++++. .=|||
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~~-----lgIpv 109 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEKA-----LGIPV 109 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHHh-----hCCcE
Confidence 38899999654 544 4 455 5667888888887763 48999988766653323334444332 22888
Q ss_pred EE
Q 036681 104 FY 105 (159)
Q Consensus 104 ~~ 105 (159)
+.
T Consensus 110 l~ 111 (168)
T PF09419_consen 110 LR 111 (168)
T ss_pred EE
Confidence 74
No 76
>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=34.23 E-value=1.5e+02 Score=20.55 Aligned_cols=20 Identities=25% Similarity=0.257 Sum_probs=12.5
Q ss_pred HHHHHHHhcceEEEEeecCC
Q 036681 57 AISDAIEASKISVIIFSEDY 76 (159)
Q Consensus 57 ~i~~ai~~S~~~I~v~S~~~ 76 (159)
++.++|++++++++|+...-
T Consensus 4 ~~~~~i~~aD~vl~ViD~~~ 23 (141)
T cd01857 4 QLWRVVERSDIVVQIVDARN 23 (141)
T ss_pred HHHHHHhhCCEEEEEEEccC
Confidence 45666666776666666443
No 77
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=34.20 E-value=51 Score=25.29 Aligned_cols=76 Identities=24% Similarity=0.263 Sum_probs=42.7
Q ss_pred hcceEEEEeecCCcC--ChhHHHHHHHHHHhhc-ccCceeeeEEEeeCCcc-cccccCcchh-HHHhhhcccCCChhHHH
Q 036681 64 ASKISVIIFSEDYAS--SKWCLNELLKILECKG-KKGQIVIPVFYEVDPSD-VCYQSGSFRD-PFVMHEGQFQVHPENVQ 138 (159)
Q Consensus 64 ~S~~~I~v~S~~~~~--S~wc~~El~~~~~~~~-~~~~~IiPV~~~v~p~~-v~~~~~~~~~-~f~~~~~~~~~~~~~~~ 138 (159)
.-+..|+.+.=.+.. -++.+.+|...++... ..+..|-+||.-++|.. .++....|+. .|.......+.+.+.++
T Consensus 66 ~Gk~~lv~FgyT~CpdVCP~~l~~l~~~~~~l~~~~~~~v~vv~itvDPerDtp~~lk~Y~~~~~~~~~~~ltg~~~~~~ 145 (207)
T COG1999 66 KGKPSLVFFGYTHCPDVCPTTLAELKALLKKLGEGEGDDVQVVFITVDPERDTPEVLKKYAELNFDPRWIGLTGTPEQIE 145 (207)
T ss_pred CCCEEEEEeecCCCCccChHHHHHHHHHHHHhccccCCCEEEEEEEECCCCCCHHHHHHHhcccCCCCeeeeeCCHHHHH
Confidence 445566666422222 1333445666666654 55678888888898974 5556666776 55444444444344444
Q ss_pred H
Q 036681 139 K 139 (159)
Q Consensus 139 ~ 139 (159)
+
T Consensus 146 ~ 146 (207)
T COG1999 146 E 146 (207)
T ss_pred H
Confidence 3
No 78
>PRK10628 LigB family dioxygenase; Provisional
Probab=34.08 E-value=2.1e+02 Score=22.73 Aligned_cols=78 Identities=15% Similarity=0.111 Sum_probs=55.8
Q ss_pred EeccCCccchhHHHHHHHHhhcCCceEEeeC-c-ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhh
Q 036681 16 INFGGGDTRDNFTSHLVAALHDRNVKTFIDE-E-IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECK 93 (159)
Q Consensus 16 ISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~-~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~ 93 (159)
|.|..... ..++..+.+.|+..|+.+ -+. + +.-|.-.. +...--++++-|+-+|-+...+.-...+|.++++..
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 67765554 479999999999888832 222 4 66665433 344455788889999988877888888999999876
Q ss_pred cccC
Q 036681 94 GKKG 97 (159)
Q Consensus 94 ~~~~ 97 (159)
++.+
T Consensus 138 R~~g 141 (246)
T PRK10628 138 RDEG 141 (246)
T ss_pred ccCC
Confidence 5444
No 79
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=33.99 E-value=1.3e+02 Score=26.66 Aligned_cols=60 Identities=10% Similarity=0.223 Sum_probs=38.4
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
.+||+|---+++. ...+..|.+.|++.|++|-+|.+ +..+...+..|-..---.++|+.+
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~---~~~l~kk~~~A~~~g~p~~iivG~ 535 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTS---NERLNKKIRNAQKQKIPYMLVVGD 535 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHhcCCCEEEEEec
Confidence 4678886654432 46788999999999999988774 234444555554443334555544
No 80
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=33.84 E-value=1.1e+02 Score=24.83 Aligned_cols=52 Identities=12% Similarity=0.081 Sum_probs=30.5
Q ss_pred EEEeccCCc-cchhHHHHHHHHhhcCCceEEeeCcccCc---ccchHHHHHHHHhcc
Q 036681 14 VFINFGGGD-TRDNFTSHLVAALHDRNVKTFIDEEIRRG---DEISTAISDAIEASK 66 (159)
Q Consensus 14 VFISy~~~D-~~~~fv~~L~~~L~~~gi~v~~d~~~~~G---~~~~~~i~~ai~~S~ 66 (159)
|.|-|...+ -....+..+.+.|++.|+.+-....+.++ .++...+. .|+.+.
T Consensus 140 v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~-~i~~~~ 195 (389)
T cd06352 140 AVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQ-DIKRRS 195 (389)
T ss_pred EEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHH-Hhhhcc
Confidence 444444333 12466788888888889887654445555 45555554 444444
No 81
>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=33.70 E-value=1.6e+02 Score=21.94 Aligned_cols=54 Identities=7% Similarity=-0.009 Sum_probs=30.6
Q ss_pred HHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcc---cCceeeeEEEeeCCccccc
Q 036681 58 ISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGK---KGQIVIPVFYEVDPSDVCY 114 (159)
Q Consensus 58 i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~---~~~~IiPV~~~v~p~~v~~ 114 (159)
...+++.++++|+|++.+- ....+++...++.... ....-+|+++=....|+..
T Consensus 74 ~~~~~~~ad~iilv~D~~~---~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~ 130 (198)
T cd04142 74 RFRGLRNSRAFILVYDICS---PDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR 130 (198)
T ss_pred HHhhhccCCEEEEEEECCC---HHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence 4567899999999999763 4444444433332111 0112356666556666643
No 82
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=33.68 E-value=1.8e+02 Score=20.74 Aligned_cols=71 Identities=15% Similarity=0.099 Sum_probs=46.6
Q ss_pred HHHHHhhcCCceEEeeCcccCcccch-HHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEeeC
Q 036681 30 HLVAALHDRNVKTFIDEEIRRGDEIS-TAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVD 108 (159)
Q Consensus 30 ~L~~~L~~~gi~v~~d~~~~~G~~~~-~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~v~ 108 (159)
-+...|+.+|+.|. ..|.+.+ +++.++..+-+.-++.+|.-..+..--+.++...++.. +.+=+||+.+-.
T Consensus 18 iv~~~L~~~GfeVi-----dLG~~v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~---gl~~v~vivGG~ 89 (128)
T cd02072 18 ILDHAFTEAGFNVV-----NLGVLSPQEEFIDAAIETDADAILVSSLYGHGEIDCKGLREKCDEA---GLKDILLYVGGN 89 (128)
T ss_pred HHHHHHHHCCCEEE-----ECCCCCCHHHHHHHHHHcCCCEEEEeccccCCHHHHHHHHHHHHHC---CCCCCeEEEECC
Confidence 34456789999995 4454443 56777777778888888877666655556666666442 222288998643
No 83
>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=33.51 E-value=1.8e+02 Score=21.19 Aligned_cols=40 Identities=8% Similarity=0.176 Sum_probs=28.5
Q ss_pred cCcc-cchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHH
Q 036681 49 RRGD-EISTAISDAIEASKISVIIFSEDYASSKWCLNELLK 88 (159)
Q Consensus 49 ~~G~-~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~ 88 (159)
.||. ++..+...++..++.+|+|++..---.....+-+..
T Consensus 77 tPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~ 117 (188)
T PF00009_consen 77 TPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKI 117 (188)
T ss_dssp ESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHH
T ss_pred cccccceeecccceecccccceeeeeccccccccccccccc
Confidence 4774 566788899999999999999876554444333333
No 84
>COG1852 Uncharacterized conserved protein [Function unknown]
Probab=33.30 E-value=1.6e+02 Score=22.88 Aligned_cols=54 Identities=19% Similarity=0.233 Sum_probs=42.8
Q ss_pred HHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhc
Q 036681 27 FTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKG 94 (159)
Q Consensus 27 fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~ 94 (159)
.+..+.+.=++.|+++| +.||..+...|.+. ...+.++.|- |..||...++...
T Consensus 121 vi~ei~e~ae~~gykvf----IvpGgs~vkkIlKe-~k~e~vlgVA---------C~~eL~~~m~~ls 174 (209)
T COG1852 121 VIGEIKEIAEKYGYKVF----IVPGGSFVKKILKE-EKPEAVLGVA---------CYRELNEGMEALS 174 (209)
T ss_pred ehHHHHHHHHHhCcEEE----EecChHHHHHHHhh-cCCceEEEEe---------ehHHHHHHHHHhc
Confidence 35667788888999988 68999888888876 6667666665 9999999998754
No 85
>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=33.01 E-value=1.9e+02 Score=23.68 Aligned_cols=65 Identities=22% Similarity=0.323 Sum_probs=32.6
Q ss_pred hHHHHHHHHhhcCC--ceEEeeCcccCcccchHHHHHHHH---hcceEEEEeecCCcCC--hhHHHHHHHHHHh
Q 036681 26 NFTSHLVAALHDRN--VKTFIDEEIRRGDEISTAISDAIE---ASKISVIIFSEDYASS--KWCLNELLKILEC 92 (159)
Q Consensus 26 ~fv~~L~~~L~~~g--i~v~~d~~~~~G~~~~~~i~~ai~---~S~~~I~v~S~~~~~S--~wc~~El~~~~~~ 92 (159)
..+..|.+.|...| +.|++. +.-|.+..++..+.+. -.+++++.+.|.|..+ .-+.+++..++..
T Consensus 73 ~qa~~l~~~L~~~~~~~~V~~a--mry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS~~ttgs~~~~~~~~~~~ 144 (316)
T PF00762_consen 73 RQAEALQQRLDERGVDVEVYYA--MRYGPPSIEDALEELKADGVDRIVVLPLYPQYSSSTTGSYLDEVERALKK 144 (316)
T ss_dssp HHHHHHHHHHHHH-EEEEEEEE--ESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--TTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCeeEEEE--eccCCCCHHHHHHHHHHcCCCeEEEEeCCCchhHhhHHHHHHHHHHHHHh
Confidence 45566666666553 334333 3444444444444444 2455666777887743 3345566655544
No 86
>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=32.64 E-value=1.9e+02 Score=20.88 Aligned_cols=67 Identities=22% Similarity=0.326 Sum_probs=39.4
Q ss_pred hhHHHHHHHHhhcCC--ceEEeeCcccCcccchHHHHHHH-Hh--cceEEEEeecCCcCC--hhHHHHHHHHHHhh
Q 036681 25 DNFTSHLVAALHDRN--VKTFIDEEIRRGDEISTAISDAI-EA--SKISVIIFSEDYASS--KWCLNELLKILECK 93 (159)
Q Consensus 25 ~~fv~~L~~~L~~~g--i~v~~d~~~~~G~~~~~~i~~ai-~~--S~~~I~v~S~~~~~S--~wc~~El~~~~~~~ 93 (159)
+..+..|.+.|.+.+ +.+..- +.-|.+..++..+.+ +. .+++++-+.|.|..+ .-+.+++..++...
T Consensus 71 ~~q~~~l~~~L~~~~~~~~v~~a--mry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~~~ 144 (159)
T cd03411 71 RAQAEALEKALDERGIDVKVYLA--MRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALKKL 144 (159)
T ss_pred HHHHHHHHHHHhccCCCcEEEeh--HhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHHhc
Confidence 356677777776653 455444 334444444433333 33 566777888888744 44677777776543
No 87
>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase. This enzyme catalyzes the ring-opening step in the degradation of 4-hydroxyphenylacetate.
Probab=31.50 E-value=2.7e+02 Score=22.38 Aligned_cols=77 Identities=10% Similarity=0.027 Sum_probs=50.1
Q ss_pred hhHHHHHHHHhhcCCceEEe--eC-c-ccCcccchHHHHHHHHhcceEEEEeecC-CcCChhHHHHHHHHHHhh-cccCc
Q 036681 25 DNFTSHLVAALHDRNVKTFI--DE-E-IRRGDEISTAISDAIEASKISVIIFSED-YASSKWCLNELLKILECK-GKKGQ 98 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~--d~-~-~~~G~~~~~~i~~ai~~S~~~I~v~S~~-~~~S~wc~~El~~~~~~~-~~~~~ 98 (159)
..++..|.+.|...|+.+-. +. . +.-|.-+.-... -.+.++-|+.+|.+ ...+..-..+|..++... ++.+.
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 48999999999999998752 22 2 555554442222 23567778888876 445677777888888775 22344
Q ss_pred eeeeE
Q 036681 99 IVIPV 103 (159)
Q Consensus 99 ~IiPV 103 (159)
+|+-|
T Consensus 174 rV~iI 178 (282)
T TIGR02298 174 RVAVL 178 (282)
T ss_pred CEEEE
Confidence 55433
No 88
>PLN02449 ferrochelatase
Probab=31.29 E-value=2.7e+02 Score=24.50 Aligned_cols=79 Identities=23% Similarity=0.309 Sum_probs=46.6
Q ss_pred hHHHHHHHHhhcCC--ceEEeeCcccCcccchHHHHHHHHh---cceEEEEeecCCcCC--hhHHHHHHHHHHhhcc---
Q 036681 26 NFTSHLVAALHDRN--VKTFIDEEIRRGDEISTAISDAIEA---SKISVIIFSEDYASS--KWCLNELLKILECKGK--- 95 (159)
Q Consensus 26 ~fv~~L~~~L~~~g--i~v~~d~~~~~G~~~~~~i~~ai~~---S~~~I~v~S~~~~~S--~wc~~El~~~~~~~~~--- 95 (159)
..+..|.+.|.+.| +.|++..+ -|.+..++..+.+.+ .+++++-+-|.|..+ .-+.+++..++.....
T Consensus 164 ~Qa~~Lq~~L~~~~~~~~V~~aMR--Y~~P~iedal~~l~~~G~~~iVvLPLYPQyS~sTtgSs~~~l~~~~~~~~~~~~ 241 (485)
T PLN02449 164 EQAEALAKALEAKNLPAKVYVGMR--YWHPFTEEAIDQIKADGITKLVVLPLYPQFSISTSGSSLRLLESIFREDEYLVN 241 (485)
T ss_pred HHHHHHHHHHhccCCCeEEEEhhh--cCCCCHHHHHHHHHhcCCCeEEEEECCcccccccHHHHHHHHHHHHhhcccccC
Confidence 45667777787665 56666544 344555555555553 456777788887643 4456677766654321
Q ss_pred cCceeeeEEEe
Q 036681 96 KGQIVIPVFYE 106 (159)
Q Consensus 96 ~~~~IiPV~~~ 106 (159)
...++||=+|+
T Consensus 242 ~~~~~I~~~~~ 252 (485)
T PLN02449 242 MQHTVIPSWYQ 252 (485)
T ss_pred CeeEEeccccC
Confidence 13456666654
No 89
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=30.69 E-value=46 Score=22.29 Aligned_cols=17 Identities=18% Similarity=0.540 Sum_probs=14.2
Q ss_pred CChhHHHHHHHHHHHhc
Q 036681 132 VHPENVQKWRDGLTEAS 148 (159)
Q Consensus 132 ~~~~~~~~W~~al~~v~ 148 (159)
.++++.++|..||..|+
T Consensus 86 ~s~ee~~eWi~ai~~v~ 102 (102)
T cd01241 86 ESPEEREEWIHAIQTVA 102 (102)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 35789999999998874
No 90
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=30.54 E-value=1.2e+02 Score=19.25 Aligned_cols=37 Identities=24% Similarity=0.255 Sum_probs=27.1
Q ss_pred CeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc
Q 036681 10 CKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE 47 (159)
Q Consensus 10 ~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~ 47 (159)
.+--|+|+|--.+- ...-.+|.+.|.++|+.|+.-+.
T Consensus 15 ~k~~v~i~HG~~eh-~~ry~~~a~~L~~~G~~V~~~D~ 51 (79)
T PF12146_consen 15 PKAVVVIVHGFGEH-SGRYAHLAEFLAEQGYAVFAYDH 51 (79)
T ss_pred CCEEEEEeCCcHHH-HHHHHHHHHHHHhCCCEEEEECC
Confidence 35678999865543 34456888999999999987543
No 91
>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=30.35 E-value=2.4e+02 Score=22.54 Aligned_cols=50 Identities=18% Similarity=0.256 Sum_probs=29.8
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCc---ccchHHHHHHHHh
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRG---DEISTAISDAIEA 64 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G---~~~~~~i~~ai~~ 64 (159)
|.+-|...+-....+..+.+.|++.|+.+-....+.+| .++...+ ..|+.
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l-~~i~~ 190 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDAL-KKLKE 190 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHH-HHHhc
Confidence 44445443323456778888888888887655556665 3455444 44544
No 92
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=30.30 E-value=1.1e+02 Score=23.25 Aligned_cols=48 Identities=17% Similarity=0.318 Sum_probs=36.5
Q ss_pred HHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHh-------cceEEEEeecCCcC
Q 036681 27 FTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEA-------SKISVIIFSEDYAS 78 (159)
Q Consensus 27 fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~-------S~~~I~v~S~~~~~ 78 (159)
....|...|.+.|+..+- ..|+.+.+++.+|+.. ...++-|+.++|.-
T Consensus 123 ~~~~l~~~L~k~Gv~~i~----~~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l 177 (193)
T COG0576 123 TLDQLLDALEKLGVEEIG----PEGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKL 177 (193)
T ss_pred HHHHHHHHHHHCCCEEeC----CCCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeee
Confidence 346778888999998752 2499999999999874 33577788888854
No 93
>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=30.28 E-value=2.2e+02 Score=20.90 Aligned_cols=65 Identities=17% Similarity=0.217 Sum_probs=44.1
Q ss_pred HHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEe
Q 036681 28 TSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYE 106 (159)
Q Consensus 28 v~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~ 106 (159)
+..|.+..++.|+++++ .+|..+...+.+..+ -+..|.|- |..+|...+......+..++-|+.+
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----ATGGTLARKIIKEYR-PKAIIGVA---------CERDLISGIQDLKPLGIPVQGVLLD 139 (158)
T ss_pred hhHHHHHHHHcCCEEEE----EcChHHHHHHHHHhC-CCEEEEEe---------chHHHHHHHHHHhhcCCCeeEEEeC
Confidence 66777888899999994 667666554443333 22444444 9999999998766556667667654
No 94
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=30.28 E-value=92 Score=24.81 Aligned_cols=51 Identities=20% Similarity=0.186 Sum_probs=33.0
Q ss_pred HHHHHHhhcCCceE--EeeCcccCcccchHHHHHHHHhcc--eEEEEeecCCcCC
Q 036681 29 SHLVAALHDRNVKT--FIDEEIRRGDEISTAISDAIEASK--ISVIIFSEDYASS 79 (159)
Q Consensus 29 ~~L~~~L~~~gi~v--~~d~~~~~G~~~~~~i~~ai~~S~--~~I~v~S~~~~~S 79 (159)
+.|...|..+||+| +.-.+-..=.++..++.++++.+. -.|++|||.-++|
T Consensus 146 dil~kkL~~~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~ 200 (260)
T KOG4132|consen 146 DILPKKLHDKGIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKS 200 (260)
T ss_pred HHHHHHHHhCCceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHH
Confidence 46778888999876 211111111234457888888763 4899999998764
No 95
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=29.63 E-value=2.4e+02 Score=21.13 Aligned_cols=54 Identities=9% Similarity=0.131 Sum_probs=36.2
Q ss_pred hhHHHHHHHHhhcCCceE-EeeCc-ccCc--------ccchHHHHHHHHhcceEEEEeecCCcCC
Q 036681 25 DNFTSHLVAALHDRNVKT-FIDEE-IRRG--------DEISTAISDAIEASKISVIIFSEDYASS 79 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v-~~d~~-~~~G--------~~~~~~i~~ai~~S~~~I~v~S~~~~~S 79 (159)
...+..+.+.|.+.|..+ .+|-. +.++ .+-..++.+.|++++ .|++.||-|..|
T Consensus 17 ~~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD-~iIi~tP~Y~~s 80 (191)
T PRK10569 17 SALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQAD-GLIVATPVYKAS 80 (191)
T ss_pred HHHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCC-EEEEECCccCCC
Confidence 356677777888888776 33433 3331 223347778888999 778889999765
No 96
>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=29.30 E-value=2.2e+02 Score=23.79 Aligned_cols=34 Identities=9% Similarity=0.045 Sum_probs=19.5
Q ss_pred ccCCccchhHHHHHHHHhhcCCceEEeeCcccCc
Q 036681 18 FGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRG 51 (159)
Q Consensus 18 y~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G 51 (159)
|...|-.+..+..+.+.|+++|+.+-....+.++
T Consensus 179 ~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~ 212 (403)
T cd06361 179 ITDDDYGRSALETFIIQAEANGVCIAFKEILPAS 212 (403)
T ss_pred EecCchHHHHHHHHHHHHHHCCeEEEEEEEecCc
Confidence 3333333566777777888888766443334443
No 97
>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=29.16 E-value=2.9e+02 Score=21.88 Aligned_cols=85 Identities=11% Similarity=0.064 Sum_probs=51.3
Q ss_pred EeccCCccchhHHHHHHHHhhcCCceEEe--eCc--ccCcccchHHHHHHHHhcceEEEEeecCC-cCChhHHHHHHHHH
Q 036681 16 INFGGGDTRDNFTSHLVAALHDRNVKTFI--DEE--IRRGDEISTAISDAIEASKISVIIFSEDY-ASSKWCLNELLKIL 90 (159)
Q Consensus 16 ISy~~~D~~~~fv~~L~~~L~~~gi~v~~--d~~--~~~G~~~~~~i~~ai~~S~~~I~v~S~~~-~~S~wc~~El~~~~ 90 (159)
+.|.-... .+++..|.+.|+..|+.+-. +.. +.-|--..-... -.+.++-++.+|-+. ..+..-..+|.+++
T Consensus 79 ~~y~~~g~-~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l--~p~~~ipvV~vs~~~~~~~~~~~~~lG~al 155 (268)
T cd07371 79 LDYSINVD-VELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLM--RPGTDIPPVVISANNLYLSGEETEGEMDLA 155 (268)
T ss_pred eeecCCCC-HHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHh--cCCCCCCeEEEEecCcCCCHHHHHHHHHHH
Confidence 44443332 58999999999999998865 222 455554442222 134566667776433 35677777888888
Q ss_pred Hhh-cccCceeeeE
Q 036681 91 ECK-GKKGQIVIPV 103 (159)
Q Consensus 91 ~~~-~~~~~~IiPV 103 (159)
.+. ++.+.+|+-|
T Consensus 156 ~~~l~~~~~rv~iI 169 (268)
T cd07371 156 GKATRDAGKRVAVL 169 (268)
T ss_pred HHHHHHcCCcEEEE
Confidence 642 3334455544
No 98
>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=29.15 E-value=86 Score=22.32 Aligned_cols=45 Identities=16% Similarity=0.182 Sum_probs=26.8
Q ss_pred hHHHHHHHHhhcCCceEEeeCcccCc--ccchHHHHHHHHhcceEEEE
Q 036681 26 NFTSHLVAALHDRNVKTFIDEEIRRG--DEISTAISDAIEASKISVII 71 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~~~~G--~~~~~~i~~ai~~S~~~I~v 71 (159)
.....|...|++.|+.+..-. +.+. +.+.+.+.+++++++++|..
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~-~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLG-IVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEe-ecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 445678888999998876432 2222 23455566666666655544
No 99
>KOG2948 consensus Predicted metal-binding protein [General function prediction only]
Probab=29.08 E-value=1.2e+02 Score=24.99 Aligned_cols=19 Identities=37% Similarity=0.489 Sum_probs=15.7
Q ss_pred HHHHH----HHHHHhccccceec
Q 036681 137 VQKWR----DGLTEASLIVGLDS 155 (159)
Q Consensus 137 ~~~W~----~al~~v~~~~g~~~ 155 (159)
-..|| +.|.++++|+|+.|
T Consensus 275 p~~WRGLrdeeLs~~SgIpgc~F 297 (327)
T KOG2948|consen 275 PEPWRGLRDEELSEVSGIPGCIF 297 (327)
T ss_pred chhhccccchhhhhhcCCCCeEE
Confidence 34587 88999999999876
No 100
>PRK07933 thymidylate kinase; Validated
Probab=28.98 E-value=1.5e+02 Score=22.57 Aligned_cols=30 Identities=30% Similarity=0.344 Sum_probs=22.9
Q ss_pred EEeccCCcc--chhHHHHHHHHhhcCCceEEe
Q 036681 15 FINFGGGDT--RDNFTSHLVAALHDRNVKTFI 44 (159)
Q Consensus 15 FISy~~~D~--~~~fv~~L~~~L~~~gi~v~~ 44 (159)
||.+-|-|. +...+..|.+.|+.+|++|..
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~ 33 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVAT 33 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEE
Confidence 677766553 367889999999999988764
No 101
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=28.90 E-value=1.2e+02 Score=25.77 Aligned_cols=46 Identities=26% Similarity=0.310 Sum_probs=34.4
Q ss_pred HHHHHHHHhcc-eEEEEeecCC-cCChhHHHHHHHHHHhhcccCceee
Q 036681 56 TAISDAIEASK-ISVIIFSEDY-ASSKWCLNELLKILECKGKKGQIVI 101 (159)
Q Consensus 56 ~~i~~ai~~S~-~~I~v~S~~~-~~S~wc~~El~~~~~~~~~~~~~Ii 101 (159)
+.+.+++.+.+ ...++.+|+= ...-|..+||.++.+-....+.+||
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 5666677764 4678999999999987655554444
No 102
>PF15409 PH_8: Pleckstrin homology domain
Probab=28.88 E-value=51 Score=22.00 Aligned_cols=16 Identities=31% Similarity=0.626 Sum_probs=13.4
Q ss_pred CChhHHHHHHHHHHHh
Q 036681 132 VHPENVQKWRDGLTEA 147 (159)
Q Consensus 132 ~~~~~~~~W~~al~~v 147 (159)
.+++..+.|..||..+
T Consensus 73 ~s~~~f~~Wv~aL~~a 88 (89)
T PF15409_consen 73 KSQEDFQRWVSALQKA 88 (89)
T ss_pred CCHHHHHHHHHHHHhc
Confidence 3578999999999875
No 103
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=28.76 E-value=3.3e+02 Score=22.32 Aligned_cols=66 Identities=17% Similarity=0.108 Sum_probs=41.0
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcC
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYAS 78 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~ 78 (159)
-|+|-|....-.+.+...+.+.|+.+|..+-.+....|++.-...+...|..+..-++++......
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~ 215 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPD 215 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCcc
Confidence 366666555445788899999999999974333335555533445666666665555555544433
No 104
>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=28.71 E-value=2.9e+02 Score=21.90 Aligned_cols=51 Identities=12% Similarity=0.033 Sum_probs=29.4
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCc-ccchHHHHHHHHhc
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRG-DEISTAISDAIEAS 65 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~ai~~S 65 (159)
|.|-|...+-.+.++..+...|++.|+.+-......++ .++...+.+ |..+
T Consensus 138 v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~-l~~~ 189 (334)
T cd06327 138 WFFLTADYAFGHSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLLQ-AQAS 189 (334)
T ss_pred EEEEecchHHhHHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHHH-HHhC
Confidence 44444333323467778888888889887655544444 455544444 4443
No 105
>COG2342 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]
Probab=28.67 E-value=1.1e+02 Score=25.14 Aligned_cols=44 Identities=25% Similarity=0.529 Sum_probs=34.1
Q ss_pred HHHHHHHHhcceEEEEeecCCc---CChhHHHHHHHHHHhhcccCceeeeEEE
Q 036681 56 TAISDAIEASKISVIIFSEDYA---SSKWCLNELLKILECKGKKGQIVIPVFY 105 (159)
Q Consensus 56 ~~i~~ai~~S~~~I~v~S~~~~---~S~wc~~El~~~~~~~~~~~~~IiPV~~ 105 (159)
+.=..+|.+++--++|+-|++. ..+|..+||.+..+ ++ ++||=|
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 4456788999999999999765 67899999988742 33 777766
No 106
>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=28.65 E-value=2.4e+02 Score=23.00 Aligned_cols=42 Identities=12% Similarity=0.190 Sum_probs=21.3
Q ss_pred hhHHHHHHHHhhcCCc----eEEeeCcccCcc-cchHHHHHHHHhcce
Q 036681 25 DNFTSHLVAALHDRNV----KTFIDEEIRRGD-EISTAISDAIEASKI 67 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi----~v~~d~~~~~G~-~~~~~i~~ai~~S~~ 67 (159)
...+..+.+.|++.|+ .+-....+.+|+ ++. .+.+.|+.++.
T Consensus 168 ~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d~~-~~l~~ik~~~~ 214 (377)
T cd06379 168 RAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVT-SLLQEAKELTS 214 (377)
T ss_pred hHHHHHHHHHHHhcCCccceeeeEEEecCCchhhHH-HHHHHHhhcCC
Confidence 3466677777777777 433333344443 333 33344554333
No 107
>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=28.45 E-value=2.6e+02 Score=22.35 Aligned_cols=53 Identities=8% Similarity=-0.040 Sum_probs=34.3
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcc-cchHHHHHHHHhcc
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGD-EISTAISDAIEASK 66 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~ai~~S~ 66 (159)
.|.+-|...+-.+.+...+.+.|+++|+.+-......+|. ++...+. .|+.+.
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 3555565444345778888899999999987655566675 4555544 444443
No 108
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=28.40 E-value=1.9e+02 Score=26.08 Aligned_cols=61 Identities=11% Similarity=0.138 Sum_probs=40.4
Q ss_pred CeecEEEeccCC-ccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 10 CKYDVFINFGGG-DTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 10 ~~yDVFISy~~~-D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
...+|+|-.-++ +. ...+..|...|+++|++|-+|.. +..+...+..|-+.---.++++.+
T Consensus 540 ap~qV~Ii~~~~~~~-~~~a~~la~~LR~~Gi~veid~~---~~sl~kq~k~A~k~g~~~~iiiG~ 601 (639)
T PRK12444 540 APVQVKVIPVSNAVH-VQYADEVADKLAQAGIRVERDER---DEKLGYKIREAQMQKIPYVLVIGD 601 (639)
T ss_pred CCceEEEEEcccHHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEEcc
Confidence 357887776554 22 46788999999999999998764 345555666655443335555554
No 109
>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=28.28 E-value=2.3e+02 Score=22.32 Aligned_cols=43 Identities=9% Similarity=-0.055 Sum_probs=23.6
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcce
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKI 67 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~ 67 (159)
...+..+...|++.|+.+--...+.+|+.=...+...|+.++.
T Consensus 151 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~p 193 (312)
T cd06346 151 VGLADAFTKAFEALGGTVTNVVAHEEGKSSYSSEVAAAAAGGP 193 (312)
T ss_pred hHHHHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcCC
Confidence 4556667777777787765444455554322334444444443
No 110
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=28.10 E-value=55 Score=20.72 Aligned_cols=28 Identities=14% Similarity=0.312 Sum_probs=16.9
Q ss_pred CCceEEeeCcccCcccchHHHHHHHHhcc
Q 036681 38 RNVKTFIDEEIRRGDEISTAISDAIEASK 66 (159)
Q Consensus 38 ~gi~v~~d~~~~~G~~~~~~i~~ai~~S~ 66 (159)
..+-+++|.+ .+|+.....+.+.+....
T Consensus 47 ~~Vii~~D~D-~~G~~~a~~i~~~l~~~g 74 (81)
T PF13662_consen 47 KEVIIAFDND-KAGEKAAQKIAKKLLPLG 74 (81)
T ss_dssp SEEEEEEESS-HHHHHHHHHHHHHHG---
T ss_pred ceEEEEeCcC-HHHHHHHHHHHHHHHhhc
Confidence 5566777764 477777777776665433
No 111
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=28.09 E-value=2.6e+02 Score=20.98 Aligned_cols=78 Identities=13% Similarity=0.187 Sum_probs=48.2
Q ss_pred hhHHHHH-HHHhhcCCceEEeeCcccCcccc-hHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeee
Q 036681 25 DNFTSHL-VAALHDRNVKTFIDEEIRRGDEI-STAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIP 102 (159)
Q Consensus 25 ~~fv~~L-~~~L~~~gi~v~~d~~~~~G~~~-~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiP 102 (159)
+.+-..+ ...|+.+|+.|.. -|.+. .+++.+++.+-+.-++.+|-......-...++...++.. ....=+|
T Consensus 95 H~lG~~~v~~~l~~~G~~vi~-----lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~~lr~~--~~~~~~~ 167 (201)
T cd02070 95 HDIGKNLVATMLEANGFEVID-----LGRDVPPEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIEALKEA--GLRDKVK 167 (201)
T ss_pred chHHHHHHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHC--CCCcCCe
Confidence 4554333 4456889999843 34443 358888899888888888876666544445555555432 1223577
Q ss_pred EEEeeCC
Q 036681 103 VFYEVDP 109 (159)
Q Consensus 103 V~~~v~p 109 (159)
|+.+..+
T Consensus 168 i~vGG~~ 174 (201)
T cd02070 168 VMVGGAP 174 (201)
T ss_pred EEEECCc
Confidence 8876443
No 112
>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=28.03 E-value=56 Score=29.19 Aligned_cols=46 Identities=24% Similarity=0.383 Sum_probs=33.1
Q ss_pred eecEEEecc-CCc-cchhHHHHHHHHhhcCCceEEeeCc-ccCcccchH
Q 036681 11 KYDVFINFG-GGD-TRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEIST 56 (159)
Q Consensus 11 ~yDVFISy~-~~D-~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~~ 56 (159)
.|+|=|--- ..| .....+..|++.|+..|+.|.+|++ -.+|..+.+
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~d 521 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFAD 521 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHHh
Confidence 366654432 222 2356889999999999999999998 677777664
No 113
>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=27.98 E-value=1.9e+02 Score=19.43 Aligned_cols=31 Identities=16% Similarity=0.252 Sum_probs=20.9
Q ss_pred hHHHHHHHHhc-ceEEEEeecCCcCChhHHHHHH
Q 036681 55 STAISDAIEAS-KISVIIFSEDYASSKWCLNELL 87 (159)
Q Consensus 55 ~~~i~~ai~~S-~~~I~v~S~~~~~S~wc~~El~ 87 (159)
.+++.+|+++. +.+++.+..... .+|.....
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 45788888888 777777765443 57766443
No 114
>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=27.68 E-value=1.5e+02 Score=23.70 Aligned_cols=66 Identities=17% Similarity=0.075 Sum_probs=41.4
Q ss_pred HHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEee-------------------cCCcCChhHHHHHHHHHHhh
Q 036681 33 AALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFS-------------------EDYASSKWCLNELLKILECK 93 (159)
Q Consensus 33 ~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S-------------------~~~~~S~wc~~El~~~~~~~ 93 (159)
-.|..+|++|---- +.||..++++|.+. ...+++=+.++ .+|+.-.-|.+||..|-+-.
T Consensus 155 ~YLA~~G~KvAN~P-Lvpe~~lP~~L~~~-~~~ki~GLtidp~~L~~IR~~Rl~~lg~~~s~Ya~~~~i~~El~~A~~l~ 232 (255)
T PF03618_consen 155 MYLANKGYKVANVP-LVPEVPLPEELFEV-DPKKIFGLTIDPERLIEIRRERLKSLGLDDSSYADLERIEEELEYAERLF 232 (255)
T ss_pred HHHHhcCcceeecC-cCCCCCCCHHHHhC-CCCcEEEEECCHHHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 34445788763211 56676666666543 44555555444 46888899999999998876
Q ss_pred cccCcee
Q 036681 94 GKKGQIV 100 (159)
Q Consensus 94 ~~~~~~I 100 (159)
+..+..+
T Consensus 233 ~~~~~pv 239 (255)
T PF03618_consen 233 RKLGCPV 239 (255)
T ss_pred HHcCCCE
Confidence 5444333
No 115
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=27.49 E-value=1.4e+02 Score=20.65 Aligned_cols=9 Identities=44% Similarity=0.685 Sum_probs=3.7
Q ss_pred ecEEEeccC
Q 036681 12 YDVFINFGG 20 (159)
Q Consensus 12 yDVFISy~~ 20 (159)
.||-|-|+.
T Consensus 68 ~DVvIDfT~ 76 (124)
T PF01113_consen 68 ADVVIDFTN 76 (124)
T ss_dssp -SEEEEES-
T ss_pred CCEEEEcCC
Confidence 455555543
No 116
>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=26.95 E-value=2.1e+02 Score=19.88 Aligned_cols=29 Identities=17% Similarity=0.227 Sum_probs=19.5
Q ss_pred Cccc-chHHHHHHHHhcceEEEEeecCCcC
Q 036681 50 RGDE-ISTAISDAIEASKISVIIFSEDYAS 78 (159)
Q Consensus 50 ~G~~-~~~~i~~ai~~S~~~I~v~S~~~~~ 78 (159)
||.. +.......++.++.+|+|++..-..
T Consensus 59 ~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~ 88 (166)
T cd01869 59 AGQERFRTITSSYYRGAHGIIIVYDVTDQE 88 (166)
T ss_pred CCcHhHHHHHHHHhCcCCEEEEEEECcCHH
Confidence 6643 3334456677899999999876443
No 117
>PRK13660 hypothetical protein; Provisional
Probab=26.88 E-value=2.8e+02 Score=20.96 Aligned_cols=79 Identities=14% Similarity=0.143 Sum_probs=45.0
Q ss_pred hhHHHHHHHHhhcC--CceEEeeCc-ccCcccchHHH---HHHH-HhcceEEEEeecCCcCChhHHHHHHHHHHhhcccC
Q 036681 25 DNFTSHLVAALHDR--NVKTFIDEE-IRRGDEISTAI---SDAI-EASKISVIIFSEDYASSKWCLNELLKILECKGKKG 97 (159)
Q Consensus 25 ~~fv~~L~~~L~~~--gi~v~~d~~-~~~G~~~~~~i---~~ai-~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~ 97 (159)
+-++.++.-.|+.. ++++-.--- ..-|++|.+.- ...| ..++ .+.++|+.+-.|++|+..-...|=. ..
T Consensus 55 d~wAaEvvl~LK~~yp~lkL~~~~PF~~q~~~W~e~~q~~y~~i~~~aD-~v~~vs~~~y~~p~q~~~rn~fmv~---~s 130 (182)
T PRK13660 55 ELWAAEVVLELKEEYPDLKLAVITPFEEHGENWNEANQEKLANILKQAD-FVKSISKRPYESPAQFRQYNQFMLE---HT 130 (182)
T ss_pred HHHHHHHHHHHHhhCCCeEEEEEeCccchhhcCCHHHHHHHHHHHHhCC-EEEEecCCCCCChHHHHHHHHHHHH---cc
Confidence 34555666666554 444433222 34566665432 2344 5666 5666799999999999877666532 22
Q ss_pred ceeeeEEEeeC
Q 036681 98 QIVIPVFYEVD 108 (159)
Q Consensus 98 ~~IiPV~~~v~ 108 (159)
..+|-| ||.+
T Consensus 131 d~~i~~-YD~e 140 (182)
T PRK13660 131 DGALLV-YDEE 140 (182)
T ss_pred CeEEEE-EcCC
Confidence 355544 4533
No 118
>PF09441 Abp2: ARS binding protein 2; InterPro: IPR018562 This DNA-binding protein binds to the autonomously replicating sequence (ARS) binding element. It may play a role in regulating the cell cycle response to stress signals [].
Probab=26.76 E-value=17 Score=27.08 Aligned_cols=58 Identities=22% Similarity=0.309 Sum_probs=31.6
Q ss_pred ChhHHHHHHHHHHhhcccCceeeeEEEeeCCcccccccCcchhHHHhhhcccCCChhHHHHHHHHHH
Q 036681 79 SKWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLT 145 (159)
Q Consensus 79 S~wc~~El~~~~~~~~~~~~~IiPV~~~v~p~~v~~~~~~~~~~f~~~~~~~~~~~~~~~~W~~al~ 145 (159)
|.|.+.||..-++.++-+.=.=+.+.++|+|-++.+... .+++....=.+++|+.|..
T Consensus 54 s~~~Lf~LI~k~~~keikTW~~La~~LGVepp~~ek~qS---------tQKvqQYaVRLKRWM~aMH 111 (175)
T PF09441_consen 54 STFTLFELIRKLESKEIKTWAQLALELGVEPPDPEKGQS---------TQKVQQYAVRLKRWMRAMH 111 (175)
T ss_pred hHHHHHHHHHHHhhhhHhHHHHHHHHhCCCCCCcccccc---------hHHHHHHHHHHHHHHHHhh
Confidence 467777776666554322223344556888888765321 1111112356778987754
No 119
>PRK09701 D-allose transporter subunit; Provisional
Probab=26.65 E-value=2.3e+02 Score=22.38 Aligned_cols=16 Identities=31% Similarity=0.117 Sum_probs=10.2
Q ss_pred ceeeeEEEeeCCcccc
Q 036681 98 QIVIPVFYEVDPSDVC 113 (159)
Q Consensus 98 ~~IiPV~~~v~p~~v~ 113 (159)
.-+.|-+..+++..|+
T Consensus 295 ~~~~~~~~~~~~~~~~ 310 (311)
T PRK09701 295 LDKAPEFKLVDSILVT 310 (311)
T ss_pred cccCCceeeeeeeecc
Confidence 3466666667776664
No 120
>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=26.50 E-value=2e+02 Score=19.22 Aligned_cols=29 Identities=3% Similarity=0.180 Sum_probs=20.8
Q ss_pred Ccc-cchHHHHHHHHhcceEEEEeecCCcC
Q 036681 50 RGD-EISTAISDAIEASKISVIIFSEDYAS 78 (159)
Q Consensus 50 ~G~-~~~~~i~~ai~~S~~~I~v~S~~~~~ 78 (159)
||. .+.......+++++.+|+|++..-..
T Consensus 57 ~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~ 86 (159)
T cd00154 57 AGQERFRSITPSYYRGAHGAILVYDITNRE 86 (159)
T ss_pred CChHHHHHHHHHHhcCCCEEEEEEECCCHH
Confidence 553 34445667888999999999986533
No 121
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specifici
Probab=25.70 E-value=72 Score=21.40 Aligned_cols=18 Identities=6% Similarity=0.228 Sum_probs=15.2
Q ss_pred ChhHHHHHHHHHHHhccc
Q 036681 133 HPENVQKWRDGLTEASLI 150 (159)
Q Consensus 133 ~~~~~~~W~~al~~v~~~ 150 (159)
++++.++|.+||..|-+.
T Consensus 85 s~~e~~~Wi~ai~~v~~~ 102 (103)
T cd01251 85 TEQDRREWIAAFQNVLSR 102 (103)
T ss_pred CHHHHHHHHHHHHHHhcC
Confidence 478899999999998664
No 122
>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=25.66 E-value=1.1e+02 Score=20.53 Aligned_cols=27 Identities=19% Similarity=0.175 Sum_probs=15.9
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEE
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTF 43 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~ 43 (159)
++||+++.. ..+....+.++++|.++.
T Consensus 51 I~iS~sG~t---~e~~~~~~~a~~~g~~vi 77 (126)
T cd05008 51 IAISQSGET---ADTLAALRLAKEKGAKTV 77 (126)
T ss_pred EEEeCCcCC---HHHHHHHHHHHHcCCeEE
Confidence 466666665 234455566667776654
No 123
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=25.53 E-value=2.6e+02 Score=20.03 Aligned_cols=71 Identities=15% Similarity=0.061 Sum_probs=45.9
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccc-hHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEee
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEI-STAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEV 107 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~-~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~v 107 (159)
.-+...|+.+|+.|.. .|-.. .+++.++..+-+.-++.+|--.....--+.++...++. .+..-++|+.+-
T Consensus 19 ~iv~~~l~~~GfeVi~-----LG~~v~~e~~v~aa~~~~adiVglS~l~~~~~~~~~~~~~~l~~---~gl~~~~vivGG 90 (134)
T TIGR01501 19 KILDHAFTNAGFNVVN-----LGVLSPQEEFIKAAIETKADAILVSSLYGHGEIDCKGLRQKCDE---AGLEGILLYVGG 90 (134)
T ss_pred HHHHHHHHHCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEecccccCHHHHHHHHHHHHH---CCCCCCEEEecC
Confidence 3455677899999964 44333 35777888887888888887666655455666655544 233335677754
No 124
>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=25.40 E-value=2.2e+02 Score=19.14 Aligned_cols=70 Identities=17% Similarity=0.274 Sum_probs=38.3
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
...+..+...|.+.|+.+..-. +++.+... ...+.. +-+++++|..=.+ .|+..+++..++.+..||-|-
T Consensus 12 ~~~a~~~~~~l~~~g~~~~~~~---~~~~~~~~-~~~~~~-~d~vi~iS~sG~t-----~~~~~~~~~a~~~g~~vi~iT 81 (128)
T cd05014 12 GHIARKIAATLSSTGTPAFFLH---PTEALHGD-LGMVTP-GDVVIAISNSGET-----DELLNLLPHLKRRGAPIIAIT 81 (128)
T ss_pred HHHHHHHHHHhhcCCCceEEcc---cchhhccc-cCcCCC-CCEEEEEeCCCCC-----HHHHHHHHHHHHCCCeEEEEe
Confidence 4677888888988888776532 22222111 112333 3355555544322 466666666555566666664
No 125
>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=25.32 E-value=3.9e+02 Score=22.01 Aligned_cols=64 Identities=8% Similarity=0.078 Sum_probs=35.7
Q ss_pred EEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhc---ceEEEEeecCCcC
Q 036681 15 FINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEAS---KISVIIFSEDYAS 78 (159)
Q Consensus 15 FISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S---~~~I~v~S~~~~~ 78 (159)
.|-|...+-.......|.+.|++.|+.+-....+.+++.-...+.+.|+.+ +++|++....+..
T Consensus 136 aii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~~ 202 (382)
T cd06371 136 AIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLIG 202 (382)
T ss_pred EEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeeccccC
Confidence 333443332235678888889889987665444555543333555556653 4555544444443
No 126
>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=25.18 E-value=1.2e+02 Score=25.45 Aligned_cols=57 Identities=14% Similarity=0.304 Sum_probs=37.5
Q ss_pred Eecc--CCccchhHHHHHHHHhhcCCceEEeeCc-ccCccc----chHHHHHHHHhcceEEEEe
Q 036681 16 INFG--GGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDE----ISTAISDAIEASKISVIIF 72 (159)
Q Consensus 16 ISy~--~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~----~~~~i~~ai~~S~~~I~v~ 72 (159)
++|. ..|.|+.-+-.|.+.|.++|..|...+- ...... ..+.+.+++++++.+|+.-
T Consensus 321 lafK~~t~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t 384 (411)
T TIGR03026 321 LAFKPNTDDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILT 384 (411)
T ss_pred eEecCCCCccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEec
Confidence 3554 3466888888999999999998876554 322211 1245667888888666554
No 127
>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=25.08 E-value=1e+02 Score=24.50 Aligned_cols=46 Identities=20% Similarity=0.402 Sum_probs=30.1
Q ss_pred hhHHHHHHHHhhcCCceE---EeeCc--ccCcccchHHHHHHHHhcceEEEEeecC
Q 036681 25 DNFTSHLVAALHDRNVKT---FIDEE--IRRGDEISTAISDAIEASKISVIIFSED 75 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v---~~d~~--~~~G~~~~~~i~~ai~~S~~~I~v~S~~ 75 (159)
..|...|.+.|...|+++ ++-.. ...|+.+.+ .+ +++++|+++.+.
T Consensus 123 ~~~l~~L~~~L~~~g~~~ap~~~v~~gRVa~gD~Ige----~L-~a~~vv~LIGER 173 (237)
T PF05985_consen 123 APLLPALLPGLKSAGWSVAPPVLVRQGRVALGDEIGE----AL-GARVVVVLIGER 173 (237)
T ss_dssp HHHHHHHHHHHHTTTS-B---EEEET--TTHHHHHHH----HH-T-SEEEEEEE--
T ss_pred HHHHHHHHHHHHhcCCCcCCeEEEeeceeehhHHHHH----Hh-CCCEEEEEEeCC
Confidence 578899999999988864 44333 666666553 33 788888888743
No 128
>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=24.98 E-value=2.2e+02 Score=22.40 Aligned_cols=78 Identities=13% Similarity=0.089 Sum_probs=47.1
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc--ccCcccchHHHHHHHHhcceEEEEeecCC----cCChhHHHHHHHHHHhhc-ccC
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE--IRRGDEISTAISDAIEASKISVIIFSEDY----ASSKWCLNELLKILECKG-KKG 97 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~--~~~G~~~~~~i~~ai~~S~~~I~v~S~~~----~~S~wc~~El~~~~~~~~-~~~ 97 (159)
..++.+|.+.|.+.|+.+-.+.+ +.-|.-.. +.-.-.+.++-|+-+|-+. ..+.--..+|..++.... ..+
T Consensus 96 ~~la~~i~~~l~~~g~~~~~~~~~~lDHG~~vP--L~~l~p~~~~Pvv~is~~~~~~p~~~~~~~~~lG~aL~~~~~~~~ 173 (272)
T PF02900_consen 96 PELAERIAEHLRKAGFDVAASPERGLDHGVWVP--LYFLFPDADIPVVPISINSFAPPSPSPERHYRLGRALRKARESSD 173 (272)
T ss_dssp HHHHHHHHHHHHHTTS-EEECSS--B-HHHHHH--HHHHCTT-SSEEEEEEEETSSS-TS-HHHHHHHHHHHHHHHHTSG
T ss_pred HHHHHHHHHHHHhcCCCEEeccCcCCcccccee--eeecccccCcceeeeEeecccccCCCHHHHHHHHHHHHHHHHhcC
Confidence 58999999999999998644433 55555433 2222235567777777666 566666678888887753 224
Q ss_pred ceeeeEE
Q 036681 98 QIVIPVF 104 (159)
Q Consensus 98 ~~IiPV~ 104 (159)
.+|.-|-
T Consensus 174 ~rv~vi~ 180 (272)
T PF02900_consen 174 ERVAVIA 180 (272)
T ss_dssp GCEEEEE
T ss_pred CCEEEEE
Confidence 4555443
No 129
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=24.86 E-value=1.4e+02 Score=19.62 Aligned_cols=47 Identities=19% Similarity=0.261 Sum_probs=25.9
Q ss_pred HHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEE
Q 036681 58 ISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFY 105 (159)
Q Consensus 58 i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~ 105 (159)
....+..++.+|+|++..-..|-.-..++...+...+..... +||++
T Consensus 67 ~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~-~piil 113 (119)
T PF08477_consen 67 HQFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKN-IPIIL 113 (119)
T ss_dssp SHHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSC-SEEEE
T ss_pred ccchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCC-CCEEE
Confidence 344589999999999866443333333343334433221222 77654
No 130
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=24.86 E-value=3.2e+02 Score=21.74 Aligned_cols=77 Identities=18% Similarity=0.257 Sum_probs=45.7
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEee-cCCcCChhHHHHHHHHHHh
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFS-EDYASSKWCLNELLKILEC 92 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S-~~~~~S~wc~~El~~~~~~ 92 (159)
+|+..... ...+..+...|.+-|+++..-.. ..........+..-++ ++++| ..|. .|+..+++.
T Consensus 134 ~~~G~g~S---~~vA~~~~~~l~~ig~~~~~~~d----~~~~~~~~~~~~~~Dv-~i~iS~sG~t------~e~i~~a~~ 199 (281)
T COG1737 134 YFFGLGSS---GLVASDLAYKLMRIGLNVVALSD----THGQLMQLALLTPGDV-VIAISFSGYT------REIVEAAEL 199 (281)
T ss_pred EEEEechh---HHHHHHHHHHHHHcCCceeEecc----hHHHHHHHHhCCCCCE-EEEEeCCCCc------HHHHHHHHH
Confidence 34444433 36889999999999999875332 2222122333444444 44444 3333 477777777
Q ss_pred hcccCceeeeEE
Q 036681 93 KGKKGQIVIPVF 104 (159)
Q Consensus 93 ~~~~~~~IiPV~ 104 (159)
.++.+..||-|-
T Consensus 200 ak~~ga~vIaiT 211 (281)
T COG1737 200 AKERGAKVIAIT 211 (281)
T ss_pred HHHCCCcEEEEc
Confidence 777777777765
No 131
>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=24.85 E-value=2.5e+02 Score=22.27 Aligned_cols=51 Identities=16% Similarity=0.084 Sum_probs=28.0
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcc-cchHHHHHHHHhc
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGD-EISTAISDAIEAS 65 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~ai~~S 65 (159)
|.|-|...+-...+...+...|++.|+.+-......+|. ++.. ....|..+
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~~-~v~~l~~~ 189 (340)
T cd06349 138 VAILSVNTDWGRTSADIFVKAAEKLGGQVVAHEEYVPGEKDFRP-TITRLRDA 189 (340)
T ss_pred EEEEecCChHhHHHHHHHHHHHHHcCCEEEEEEEeCCCCCcHHH-HHHHHHhc
Confidence 555555444334566777777777787766433344443 3443 33444444
No 132
>PRK14158 heat shock protein GrpE; Provisional
Probab=24.83 E-value=1.9e+02 Score=22.13 Aligned_cols=47 Identities=21% Similarity=0.314 Sum_probs=35.0
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHh-------cceEEEEeecCCcC
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEA-------SKISVIIFSEDYAS 78 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~-------S~~~I~v~S~~~~~ 78 (159)
..|...|++.|+...- -..|+.+.+++-+||.. ...++-|+.+.|.-
T Consensus 127 k~l~~vLek~Gv~~I~---~~~G~~FDP~~HEAv~~~~~~~~~~gtVv~v~qkGY~l 180 (194)
T PRK14158 127 SMLLSTLKKFGVTPVE---AEKGTPFDPAYHQAMCQVESAEQEPNTVVAVFQKGYLL 180 (194)
T ss_pred HHHHHHHHHCCCEEec---CCCCCCCChHHhhhheeecCCCCCcCEEEEEeeCCcEe
Confidence 5567888899998731 01499999999999953 35677888888854
No 133
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=24.75 E-value=3.2e+02 Score=20.93 Aligned_cols=76 Identities=18% Similarity=0.179 Sum_probs=46.9
Q ss_pred hhHHHHHH-HHhhcCCceEEeeCcccCcccc-hHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeee
Q 036681 25 DNFTSHLV-AALHDRNVKTFIDEEIRRGDEI-STAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIP 102 (159)
Q Consensus 25 ~~fv~~L~-~~L~~~gi~v~~d~~~~~G~~~-~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiP 102 (159)
+..-..|. ..|+.+|+.|.. -|.+. .+.+.+++.+.+.-++.+|--.....--+.++...++. .+. =+|
T Consensus 101 HdiG~~iv~~~l~~~G~~Vi~-----LG~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~~~~~i~~L~~---~~~-~~~ 171 (213)
T cd02069 101 HDIGKNLVGVILSNNGYEVID-----LGVMVPIEKILEAAKEHKADIIGLSGLLVPSLDEMVEVAEEMNR---RGI-KIP 171 (213)
T ss_pred hHHHHHHHHHHHHhCCCEEEE-----CCCCCCHHHHHHHHHHcCCCEEEEccchhccHHHHHHHHHHHHh---cCC-CCe
Confidence 34444443 445889999954 45444 45888999999998888886665544444444444433 222 566
Q ss_pred EEEeeCC
Q 036681 103 VFYEVDP 109 (159)
Q Consensus 103 V~~~v~p 109 (159)
|+++..|
T Consensus 172 i~vGG~~ 178 (213)
T cd02069 172 LLIGGAA 178 (213)
T ss_pred EEEEChh
Confidence 7776444
No 134
>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=24.56 E-value=1.6e+02 Score=24.36 Aligned_cols=27 Identities=15% Similarity=-0.071 Sum_probs=18.0
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCc
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRG 51 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G 51 (159)
...+..+.+.|++.|+.+-....+.++
T Consensus 150 ~~~~~~~~~~~~~~g~~iv~~~~~~~~ 176 (404)
T cd06370 150 SSVFETLKEEAELRNITISHVEYYADF 176 (404)
T ss_pred HHHHHHHHHHHHHcCCEEEEEEEECCC
Confidence 456677777777788877654445555
No 135
>cd01243 PH_MRCK MRCK (myotonic dystrophy-related Cdc42-binding kinase) pleckstrin homology (PH) domain. MRCK (myotonic dystrophy-related Cdc42-binding kinase) pleckstrin homology (PH) domain. MRCK consists of a serine/threonine kinase domain, a cysteine rich (C1) region, a PH domain and a p21 binding motif. It has been shown to promote cytoskeletal reorganization, which affects many biological processes. The MRCK PH domain is responsible for its targeting to cell to cell junctions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=24.48 E-value=55 Score=23.26 Aligned_cols=18 Identities=33% Similarity=0.516 Sum_probs=14.4
Q ss_pred ChhHHHHHHHHHHHhccc
Q 036681 133 HPENVQKWRDGLTEASLI 150 (159)
Q Consensus 133 ~~~~~~~W~~al~~v~~~ 150 (159)
++.+.++|..||.++-.|
T Consensus 104 s~~eK~kWV~aL~~l~~~ 121 (122)
T cd01243 104 TEEEKSKWVGALSELHKI 121 (122)
T ss_pred CchHHHHHHHHHHHHHhh
Confidence 357899999999987543
No 136
>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=24.45 E-value=1.8e+02 Score=17.86 Aligned_cols=70 Identities=19% Similarity=0.137 Sum_probs=38.0
Q ss_pred hhHHHHHHHHhhcC-CceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeE
Q 036681 25 DNFTSHLVAALHDR-NVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPV 103 (159)
Q Consensus 25 ~~fv~~L~~~L~~~-gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV 103 (159)
..++..+...|.+. |+++..... +. ......-..-+.+-+++++|..=-+ .|+..+++..++.+..+|-|
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 46788888888888 988875332 11 1111111223455566666644322 35555665555555555544
No 137
>PTZ00445 p36-lilke protein; Provisional
Probab=24.33 E-value=2.3e+02 Score=22.28 Aligned_cols=49 Identities=12% Similarity=0.187 Sum_probs=29.9
Q ss_pred hhHHHHHHHHhhcCCceEEe-e--CcccC-------------------cccchHHHHHHHHhcceEEEEee
Q 036681 25 DNFTSHLVAALHDRNVKTFI-D--EEIRR-------------------GDEISTAISDAIEASKISVIIFS 73 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~-d--~~~~~-------------------G~~~~~~i~~ai~~S~~~I~v~S 73 (159)
.+-+..+.+.|++.||++.. | ..+.+ +.+-...+..++.++.+.|+|++
T Consensus 28 ~~~~~~~v~~L~~~GIk~Va~D~DnTlI~~HsgG~~~~~~~~~~~~~~~tpefk~~~~~l~~~~I~v~VVT 98 (219)
T PTZ00445 28 HESADKFVDLLNECGIKVIASDFDLTMITKHSGGYIDPDNDDIRVLTSVTPDFKILGKRLKNSNIKISVVT 98 (219)
T ss_pred HHHHHHHHHHHHHcCCeEEEecchhhhhhhhcccccCCCcchhhhhccCCHHHHHHHHHHHHCCCeEEEEE
Confidence 35677788889999999754 3 22322 11112345677777776666655
No 138
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=24.13 E-value=60 Score=24.07 Aligned_cols=22 Identities=27% Similarity=0.514 Sum_probs=17.2
Q ss_pred hcceEEEEeecC--CcCChhHHHH
Q 036681 64 ASKISVIIFSED--YASSKWCLNE 85 (159)
Q Consensus 64 ~S~~~I~v~S~~--~~~S~wc~~E 85 (159)
-....++++|-+ |+++.||..|
T Consensus 74 ~~~~~Vl~IS~DLPFAq~RfC~ae 97 (158)
T COG2077 74 LGNTVVLCISMDLPFAQKRFCGAE 97 (158)
T ss_pred cCCcEEEEEeCCChhHHhhhhhhc
Confidence 344778888887 7899999764
No 139
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=24.10 E-value=1.5e+02 Score=21.88 Aligned_cols=18 Identities=33% Similarity=0.482 Sum_probs=9.3
Q ss_pred hHHHHHHHHhhcCCceEE
Q 036681 26 NFTSHLVAALHDRNVKTF 43 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~ 43 (159)
.|...|...|+++||-|-
T Consensus 64 ~Fg~aL~~aLR~~GYaV~ 81 (151)
T PRK13883 64 AFGQALVKALRDKGYALL 81 (151)
T ss_pred HHHHHHHHHHHHcCeEEE
Confidence 455555555555555444
No 140
>PLN02734 glycyl-tRNA synthetase
Probab=24.05 E-value=96 Score=28.50 Aligned_cols=47 Identities=15% Similarity=0.148 Sum_probs=33.6
Q ss_pred CCCeecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCc-ccCcccch
Q 036681 8 SSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEE-IRRGDEIS 55 (159)
Q Consensus 8 ~~~~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~-~~~G~~~~ 55 (159)
.|++..|+.--.+++ ....+..|+..|++.|+++-+|.. -..|..+.
T Consensus 569 AP~qVaIlPL~~~ee-~~~~A~eLa~~LR~~GIrVelDd~~~SIGKRyr 616 (684)
T PLN02734 569 APIKCTVFPLVQNQQ-LNAVAKVISKELTAAGISHKIDITGTSIGKRYA 616 (684)
T ss_pred CCcEEEEEEecCChH-HHHHHHHHHHHHHhCCCEEEEECCCCCHhHHHH
Confidence 467778876544333 357899999999999999999875 44444443
No 141
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=23.95 E-value=4.2e+02 Score=22.93 Aligned_cols=45 Identities=13% Similarity=0.228 Sum_probs=32.5
Q ss_pred HHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcC
Q 036681 29 SHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYAS 78 (159)
Q Consensus 29 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~ 78 (159)
..|...|+..|+.+++ ..|+.. +.+.+-++...+.-|++...|..
T Consensus 58 ~~L~~~L~~~G~~L~v----~~G~p~-~vl~~l~~~~~~~~V~~~~~~~~ 102 (471)
T TIGR03556 58 QELQQRYQQAGSQLLI----LQGDPV-QLIPQLAQQLGAKAVYWNLDVEP 102 (471)
T ss_pred HHHHHHHHHCCCCeEE----EECCHH-HHHHHHHHHcCCCEEEEecccCH
Confidence 5577788888998875 345543 35566667778899999888865
No 142
>cd01266 PH_Gab Gab (Grb2-associated binder) pleckstrin homology (PH) domain. Gab (Grb2-associated binder) pleckstrin homology (PH) domain. The Gab subfamily includes several Gab proteins, Drosophila DOS and C. elegans SOC-1. They are scaffolding adaptor proteins, which possess N-terminal PH domains and a C-terminus with proline-rich regions and multiple phosphorylation sites. Following activation of growth factor receptors, Gab proteins are tyrosine phosphorylated and activate PI3K, which generates 3-phosphoinositide lipids. By binding to these lipids via the PH domain, Gab proteins remain in proximity to the receptor, leading to further signaling. While not all Gab proteins depend on the PH domain for recruitment, it is required for Gab activity. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display str
Probab=23.94 E-value=73 Score=21.44 Aligned_cols=17 Identities=12% Similarity=0.351 Sum_probs=14.4
Q ss_pred CChhHHHHHHHHHHHhc
Q 036681 132 VHPENVQKWRDGLTEAS 148 (159)
Q Consensus 132 ~~~~~~~~W~~al~~v~ 148 (159)
.+++..+.|..|+.+|+
T Consensus 92 ~s~ee~~~Wi~~I~~~~ 108 (108)
T cd01266 92 KNEEEMTLWVNCICKLC 108 (108)
T ss_pred CCHHHHHHHHHHHHhhC
Confidence 45789999999998874
No 143
>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=23.90 E-value=2.8e+02 Score=19.84 Aligned_cols=63 Identities=14% Similarity=0.080 Sum_probs=37.2
Q ss_pred Cccc-chHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEeeCCccccc
Q 036681 50 RGDE-ISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCY 114 (159)
Q Consensus 50 ~G~~-~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~v~p~~v~~ 114 (159)
+|.. +..-....+..++.+|+|++.+-..|--...++...+...... .=+|+++=...+|+..
T Consensus 58 ~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~--~~~piilvgNK~Dl~~ 121 (172)
T cd04141 58 AGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLT--EDIPLVLVGNKVDLES 121 (172)
T ss_pred CCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCC--CCCCEEEEEEChhhhh
Confidence 5543 3333346678999999999987766655555554444443211 2257666556666643
No 144
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=23.82 E-value=3.5e+02 Score=20.93 Aligned_cols=33 Identities=6% Similarity=0.139 Sum_probs=24.6
Q ss_pred Ccc-cchHHHHHHHHhcceEEEEeecCCcCChhH
Q 036681 50 RGD-EISTAISDAIEASKISVIIFSEDYASSKWC 82 (159)
Q Consensus 50 ~G~-~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc 82 (159)
||. .+..+...+++.++.+|+|++..-.-+.+.
T Consensus 72 PG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~ 105 (237)
T cd04168 72 PGHMDFIAEVERSLSVLDGAILVISAVEGVQAQT 105 (237)
T ss_pred CCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHH
Confidence 664 456678889999999999998765544443
No 145
>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=23.55 E-value=75 Score=18.85 Aligned_cols=16 Identities=25% Similarity=0.571 Sum_probs=12.6
Q ss_pred HHHHhcceEEEEeecC
Q 036681 60 DAIEASKISVIIFSED 75 (159)
Q Consensus 60 ~ai~~S~~~I~v~S~~ 75 (159)
.-+.+.+++++|+||+
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 4567899999999987
No 146
>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=23.54 E-value=1.2e+02 Score=20.62 Aligned_cols=27 Identities=7% Similarity=0.159 Sum_probs=17.2
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEE
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTF 43 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~ 43 (159)
++||++++. .-+....+.++++|.++.
T Consensus 52 I~iS~SG~t---~~~~~~~~~a~~~g~~vi 78 (120)
T cd05710 52 ILASHSGNT---KETVAAAKFAKEKGATVI 78 (120)
T ss_pred EEEeCCCCC---hHHHHHHHHHHHcCCeEE
Confidence 466777765 335555577777887654
No 147
>PRK14161 heat shock protein GrpE; Provisional
Probab=23.45 E-value=1.6e+02 Score=22.16 Aligned_cols=48 Identities=13% Similarity=0.257 Sum_probs=35.1
Q ss_pred HHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHh-------cceEEEEeecCCcC
Q 036681 28 TSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEA-------SKISVIIFSEDYAS 78 (159)
Q Consensus 28 v~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~-------S~~~I~v~S~~~~~ 78 (159)
...|...|++.|+...- -..|+.+.+.+-+||.. ...++-|+.++|.-
T Consensus 108 ~k~l~~vL~~~Gv~~I~---~~~G~~FDP~~HEAv~~~~~~~~~~gtVi~v~q~GY~l 162 (178)
T PRK14161 108 KDELDKVFHKHHIEEIK---PEIGSMFDYNLHNAISQIEHPDHAPNSIITLMQSGYKI 162 (178)
T ss_pred HHHHHHHHHHCCCEEec---CCCCCCCChHHhhhheeeCCCCCCcCEEEEEeeCCcEe
Confidence 35677888999998731 12499999999999875 24577788888853
No 148
>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=23.38 E-value=1.6e+02 Score=20.83 Aligned_cols=23 Identities=26% Similarity=0.355 Sum_probs=19.4
Q ss_pred hhHHHHHHHHhhcCCceEEeeCc
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEE 47 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~ 47 (159)
+.|...|.+.|+.+||-|--+..
T Consensus 35 d~Fg~aL~~~LR~~GYaV~e~~~ 57 (121)
T PF07283_consen 35 DPFGQALENALRAKGYAVIEDDP 57 (121)
T ss_pred ChHHHHHHHHHHhcCcEEEecCC
Confidence 48999999999999998876654
No 149
>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=23.24 E-value=95 Score=24.53 Aligned_cols=25 Identities=20% Similarity=0.401 Sum_probs=19.5
Q ss_pred CChhHHHHHHHHHHhhcccCceeeeEEEe
Q 036681 78 SSKWCLNELLKILECKGKKGQIVIPVFYE 106 (159)
Q Consensus 78 ~S~wc~~El~~~~~~~~~~~~~IiPV~~~ 106 (159)
-|+|++.+|....+++. .|+||+-|
T Consensus 106 fs~r~~rdL~~la~~R~----NIiPIl~D 130 (229)
T PF01269_consen 106 FSPRSMRDLLNLAKKRP----NIIPILED 130 (229)
T ss_dssp SSHHHHHHHHHHHHHST----TEEEEES-
T ss_pred ecchhHHHHHHHhccCC----ceeeeecc
Confidence 48899999997776554 99999955
No 150
>PHA00407 phage lambda Rz1-like protein
Probab=23.23 E-value=46 Score=21.69 Aligned_cols=22 Identities=23% Similarity=0.557 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHHH-----hccccceec
Q 036681 134 PENVQKWRDGLTE-----ASLIVGLDS 155 (159)
Q Consensus 134 ~~~~~~W~~al~~-----v~~~~g~~~ 155 (159)
..+.++|+.||-. |+.|+|+..
T Consensus 25 kktl~rwkaaLIGlllicv~tISGCaS 51 (84)
T PHA00407 25 KKTLRRWKAALIGLLLICVATISGCAS 51 (84)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence 5778999999754 677777654
No 151
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=23.23 E-value=3.3e+02 Score=24.28 Aligned_cols=40 Identities=15% Similarity=0.258 Sum_probs=28.0
Q ss_pred cCCceEEeeCc--ccC-cccchHH-----HHHHHHhcceEEEEeecCC
Q 036681 37 DRNVKTFIDEE--IRR-GDEISTA-----ISDAIEASKISVIIFSEDY 76 (159)
Q Consensus 37 ~~gi~v~~d~~--~~~-G~~~~~~-----i~~ai~~S~~~I~v~S~~~ 76 (159)
-+|++|.+-+. +.. +....+. -.++++.|+++++|+.+.+
T Consensus 313 ~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~ 360 (531)
T KOG1191|consen 313 VNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEE 360 (531)
T ss_pred cCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccc
Confidence 47999877555 544 3333322 3478889999999999966
No 152
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=23.03 E-value=1.3e+02 Score=20.13 Aligned_cols=54 Identities=11% Similarity=0.234 Sum_probs=30.7
Q ss_pred ecEEEeccCCccchhHHHHHHHHhhcCCceEEe-eCcccCcccchHHHHHHHHhcceEEEEeecCCc
Q 036681 12 YDVFINFGGGDTRDNFTSHLVAALHDRNVKTFI-DEEIRRGDEISTAISDAIEASKISVIIFSEDYA 77 (159)
Q Consensus 12 yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~-d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~ 77 (159)
.=++||+++.. ...+..+ ..++++|.++.. -. .++.++ -+.++..+.+-+....
T Consensus 56 ~vi~is~sg~~--~~~~~~~-~~ak~~g~~vi~iT~--~~~~~l-------~~~ad~~l~~~~~~~~ 110 (131)
T PF01380_consen 56 LVIIISYSGET--RELIELL-RFAKERGAPVILITS--NSESPL-------ARLADIVLYIPTGEES 110 (131)
T ss_dssp EEEEEESSSTT--HHHHHHH-HHHHHTTSEEEEEES--STTSHH-------HHHSSEEEEEESSCGS
T ss_pred eeEeeeccccc--hhhhhhh-HHHHhcCCeEEEEeC--CCCCch-------hhhCCEEEEecCCCcc
Confidence 33677877765 3555555 588888877632 11 122222 2456777776665544
No 153
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=23.01 E-value=3e+02 Score=19.99 Aligned_cols=76 Identities=14% Similarity=0.142 Sum_probs=50.6
Q ss_pred HHHHhhcCCceEEeeCc---ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEe
Q 036681 31 LVAALHDRNVKTFIDEE---IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYE 106 (159)
Q Consensus 31 L~~~L~~~gi~v~~d~~---~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~ 106 (159)
+...|+.-|+.-+.+.. +..|+.-.-.|..++-.-..++++--|...-..-..+++...+......+..||-|-++
T Consensus 108 ~~~~l~~~~l~~~~~~~~~~LS~G~~qrv~laral~~~p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tili~sH~ 186 (190)
T TIGR01166 108 VREALTAVGASGLRERPTHCLSGGEKKRVAIAGAVAMRPDVLLLDEPTAGLDPAGREQMLAILRRLRAEGMTVVISTHD 186 (190)
T ss_pred HHHHHHHcCchhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeec
Confidence 44455555766555554 66777777788888887777777777777777777778888777654335566655544
No 154
>cd01238 PH_Tec Tec pleckstrin homology (PH) domain. Tec pleckstrin homology (PH) domain. Proteins in the Tec family of cytoplasmic protein tyrosine kinases that includes Bruton's tyrosine kinase (BTK), BMX, IL2-inducible T-cell kinase (Itk) and Tec. These proteins generally have an N-terminal PH domain, followed by a Tek homology (TH) domain, a SH3 domain, a SH2 domain and a kinase domain. Tec PH domains tether these proteins to membranes following the activation of PI3K and its subsequent phosphorylation of phosphoinositides. The importance of PH domain membrane anchoring is confirmed by the discovery of a mutation of a critical arginine residue in the BTK PH domain, which causes X-linked agammaglobulinemia (XLA) in humans and a related disorder is mice. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few dis
Probab=22.79 E-value=72 Score=21.52 Aligned_cols=15 Identities=20% Similarity=0.461 Sum_probs=12.8
Q ss_pred ChhHHHHHHHHHHHh
Q 036681 133 HPENVQKWRDGLTEA 147 (159)
Q Consensus 133 ~~~~~~~W~~al~~v 147 (159)
++++.++|..||.+|
T Consensus 92 s~~er~~WI~ai~~~ 106 (106)
T cd01238 92 TEELRKRWIKALKQV 106 (106)
T ss_pred CHHHHHHHHHHHHhC
Confidence 478899999999875
No 155
>PRK15482 transcriptional regulator MurR; Provisional
Probab=22.78 E-value=3.2e+02 Score=21.57 Aligned_cols=70 Identities=16% Similarity=0.232 Sum_probs=39.5
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
...+..+...|.+-|+++..... ..........+..-+++|++--+.+. .|+..+++..++.+..||-|-
T Consensus 147 ~~~A~~l~~~l~~~g~~~~~~~d----~~~~~~~~~~~~~~Dv~i~iS~sg~t------~~~~~~~~~a~~~g~~iI~IT 216 (285)
T PRK15482 147 ALVGRDLSFKLMKIGYRVACEAD----THVQATVSQALKKGDVQIAISYSGSK------KEIVLCAEAARKQGATVIAIT 216 (285)
T ss_pred HHHHHHHHHHHHhCCCeeEEecc----HhHHHHHHhcCCCCCEEEEEeCCCCC------HHHHHHHHHHHHCCCEEEEEe
Confidence 46778888888888887755221 11122223345555554444334333 366666666666666776665
No 156
>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=22.76 E-value=3e+02 Score=21.78 Aligned_cols=42 Identities=19% Similarity=0.127 Sum_probs=24.5
Q ss_pred hhHHHHHHHHhhcCCceEEeeCcccCc--ccchHHHHHHHHhcc
Q 036681 25 DNFTSHLVAALHDRNVKTFIDEEIRRG--DEISTAISDAIEASK 66 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~d~~~~~G--~~~~~~i~~ai~~S~ 66 (159)
...+..+.+.+++.|+.+-....+.++ ..-...+.+.|+.+.
T Consensus 174 ~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~ 217 (348)
T cd06350 174 RSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSST 217 (348)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCC
Confidence 456777777777788776544435555 122234555666554
No 157
>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=22.65 E-value=1.4e+02 Score=20.75 Aligned_cols=44 Identities=18% Similarity=0.219 Sum_probs=25.4
Q ss_pred hHHHHHHHHhhcCCceEEeeCcccCc-ccchHHHHHHHHhcceEE
Q 036681 26 NFTSHLVAALHDRNVKTFIDEEIRRG-DEISTAISDAIEASKISV 69 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~ai~~S~~~I 69 (159)
.-...|...|++.|+.+-.-..+.-. +.+.+.+.+++++++++|
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvi 63 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVL 63 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEE
Confidence 44567778889999877432212111 234566666666666433
No 158
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=22.62 E-value=77 Score=19.19 Aligned_cols=22 Identities=14% Similarity=0.283 Sum_probs=14.4
Q ss_pred hHHHHHHHHhhcCCceEEeeCc
Q 036681 26 NFTSHLVAALHDRNVKTFIDEE 47 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~ 47 (159)
.-+..+...|+.+||.+++...
T Consensus 10 ~ea~~i~~~L~~~gI~~~v~~~ 31 (67)
T PF09413_consen 10 IEAELIKGLLEENGIPAFVKNE 31 (67)
T ss_dssp HHHHHHHHHHHHTT--EE--S-
T ss_pred HHHHHHHHHHHhCCCcEEEECC
Confidence 4578888999999999998765
No 159
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=22.52 E-value=4.5e+02 Score=21.81 Aligned_cols=78 Identities=23% Similarity=0.366 Sum_probs=47.1
Q ss_pred HHHHHHHHhhcC----CceEEeeCcccCcccchHHHHHHHHhc---ceEEEEeecCCcCCh--hHHHHHHHHHHhhcc-c
Q 036681 27 FTSHLVAALHDR----NVKTFIDEEIRRGDEISTAISDAIEAS---KISVIIFSEDYASSK--WCLNELLKILECKGK-K 96 (159)
Q Consensus 27 fv~~L~~~L~~~----gi~v~~d~~~~~G~~~~~~i~~ai~~S---~~~I~v~S~~~~~S~--wc~~El~~~~~~~~~-~ 96 (159)
....+.++|+++ .+.|++..+ -|.+..++..+.+... +++++.+.|.|..|. -..+++..++...+. .
T Consensus 74 ~T~~q~~~L~~~L~~~~~~V~~amr--y~~P~i~~~v~~l~~~gv~~iv~~pLyPqyS~sTt~s~~~~~~~al~~~~~~~ 151 (320)
T COG0276 74 ITRAQAAALEERLDLPDFKVYLAMR--YGPPFIEEAVEELKKDGVERIVVLPLYPQYSSSTTGSYVDELARALKELRGQP 151 (320)
T ss_pred HHHHHHHHHHHHhCCCCccEEEeec--CCCCcHHHHHHHHHHcCCCeEEEEECCcccccccHHHHHHHHHHHHHhcCCCC
Confidence 344444555433 466666554 4455555666666643 457788889987553 356688888876542 2
Q ss_pred CceeeeEEEe
Q 036681 97 GQIVIPVFYE 106 (159)
Q Consensus 97 ~~~IiPV~~~ 106 (159)
....||-||+
T Consensus 152 ~i~~I~~~~~ 161 (320)
T COG0276 152 KISTIPDYYD 161 (320)
T ss_pred ceEEecCccC
Confidence 4567777764
No 160
>PF13483 Lactamase_B_3: Beta-lactamase superfamily domain; PDB: 1VJN_B 3KL7_A.
Probab=22.41 E-value=2.6e+02 Score=19.78 Aligned_cols=50 Identities=16% Similarity=0.218 Sum_probs=23.8
Q ss_pred cCcccch---HHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeE
Q 036681 49 RRGDEIS---TAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPV 103 (159)
Q Consensus 49 ~~G~~~~---~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV 103 (159)
-.|+... .+...++...++.++-++..+..+. .|...+++.. +-+.|||+
T Consensus 110 ~~Gd~~~~~~~~~~~~~~~vDvl~~p~~g~~~~~~---~~a~~~~~~l--~pk~viP~ 162 (163)
T PF13483_consen 110 HAGDTGFPPDDEQLKQLGKVDVLFLPVGGPFTMGP---EEAAELAERL--KPKLVIPM 162 (163)
T ss_dssp E-TT--S---HHHHHHH-S-SEEEEE--TTTS--H---HHHHHHHHHC--T-SEEEEE
T ss_pred EECCCccCCCHHHHhcccCCCEEEecCCCCcccCH---HHHHHHHHHc--CCCEEEeC
Confidence 4555443 4556777889999888887444433 3444444432 34588886
No 161
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=22.39 E-value=3.3e+02 Score=20.11 Aligned_cols=77 Identities=14% Similarity=0.167 Sum_probs=53.4
Q ss_pred HHHHHhhcCCceEEeeCc---ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEe
Q 036681 30 HLVAALHDRNVKTFIDEE---IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYE 106 (159)
Q Consensus 30 ~L~~~L~~~gi~v~~d~~---~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~ 106 (159)
.+.+.|+.-|+.-+.+.. +..|+.-.-.|..++-.-.-++++=-|...-..-..+++...+......+..||-+-++
T Consensus 106 ~~~~~l~~~~l~~~~~~~~~~LS~G~~qrv~laral~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sH~ 185 (205)
T cd03226 106 QAETVLKDLDLYALKERHPLSLSGGQKQRLAIAAALLSGKDLLIFDEPTSGLDYKNMERVGELIRELAAQGKAVIVITHD 185 (205)
T ss_pred HHHHHHHHcCCchhcCCCchhCCHHHHHHHHHHHHHHhCCCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence 344556667777666654 67787777788888888777777777777777778888888887653335556655543
No 162
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=22.30 E-value=1.3e+02 Score=21.49 Aligned_cols=28 Identities=21% Similarity=0.271 Sum_probs=17.8
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCceEEe
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFI 44 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~v~~ 44 (159)
++||+++.. .-+..+.+.++++|.++..
T Consensus 84 i~iS~sG~t---~~~~~~~~~a~~~g~~ii~ 111 (154)
T TIGR00441 84 LGISTSGNS---KNVLKAIEAAKDKGMKTIT 111 (154)
T ss_pred EEEcCCCCC---HHHHHHHHHHHHCCCEEEE
Confidence 456666665 3455666777778877643
No 163
>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=22.29 E-value=4e+02 Score=21.10 Aligned_cols=55 Identities=11% Similarity=-0.057 Sum_probs=31.3
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcce
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKI 67 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~ 67 (159)
.|+|-+...+-.+..+..+...|++.|+.+--...+.++..-.......|++.+.
T Consensus 134 ~v~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~l~~~~p 188 (333)
T cd06358 134 RWYLIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLGTTDFTSVLERIAASGA 188 (333)
T ss_pred eEEEEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCChHHHHHHHHHHHHcCC
Confidence 3555554332223566777788888998876544466664333344445555543
No 164
>PF13155 Toprim_2: Toprim-like
Probab=22.28 E-value=1.5e+02 Score=19.07 Aligned_cols=39 Identities=8% Similarity=0.248 Sum_probs=26.5
Q ss_pred HHHHHHHHhhc---CCceEEeeCcccCcccchHHHHHHHHhcc
Q 036681 27 FTSHLVAALHD---RNVKTFIDEEIRRGDEISTAISDAIEASK 66 (159)
Q Consensus 27 fv~~L~~~L~~---~gi~v~~d~~~~~G~~~~~~i~~ai~~S~ 66 (159)
....+...|++ +.|.+++|.. .+|......+.+.+....
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 34456666643 3467777774 788888888888887764
No 165
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=22.11 E-value=2.1e+02 Score=22.03 Aligned_cols=97 Identities=19% Similarity=0.281 Sum_probs=57.0
Q ss_pred EEEeccCCcc--chhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHh---------------------------
Q 036681 14 VFINFGGGDT--RDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEA--------------------------- 64 (159)
Q Consensus 14 VFISy~~~D~--~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~--------------------------- 64 (159)
.||.+-|-|. +.+.+..|++.|+.+|+.|.+-.+ +.|.++...|.+.+.+
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~trE-P~~~~ige~iR~~ll~~~~~~~~~~e~lLfaadR~~h~~~~i~ 82 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTRE-PGGTPIGEKIRELLLNGEEKLSPKAEALLFAADRAQHLEEVIK 82 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC-CCCChHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4888866663 357889999999999998876553 2222222222222221
Q ss_pred --cceEEEEeecCCcCChhHHH--------HHHHHHHhh-cccCceeeeEEEeeCCcc
Q 036681 65 --SKISVIIFSEDYASSKWCLN--------ELLKILECK-GKKGQIVIPVFYEVDPSD 111 (159)
Q Consensus 65 --S~~~I~v~S~~~~~S~wc~~--------El~~~~~~~-~~~~~~IiPV~~~v~p~~ 111 (159)
-.-.-+|++..|.-|..+.+ +....+... ..+-..=+.++++++|..
T Consensus 83 pal~~g~vVI~DRy~~Ss~AYQg~~~~~~~~~~~~l~~~~~~~~~PD~ti~Ldv~~e~ 140 (208)
T COG0125 83 PALKEGKVVICDRYVDSSLAYQGGGRGLDLDWVLALNEFAPGGLKPDLTLYLDVPPEV 140 (208)
T ss_pred HhhcCCCEEEECCcccHHHHhhhhccCCCHHHHHHHHHhccCCCCCCEEEEEeCCHHH
Confidence 11124788888888877665 333333222 112235566788988875
No 166
>cd01219 PH_FGD FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD (faciogenital dysplasia protein) pleckstrin homology (PH) domain. FGD has a RhoGEF (DH) domain, followed by a PH domain, a FYVE domain and a C-terminal PH domain. FGD is a guanine nucleotide exchange factor that activates the Rho GTPase Cdc42. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=21.85 E-value=83 Score=20.96 Aligned_cols=18 Identities=6% Similarity=0.130 Sum_probs=14.9
Q ss_pred CChhHHHHHHHHHHHhcc
Q 036681 132 VHPENVQKWRDGLTEASL 149 (159)
Q Consensus 132 ~~~~~~~~W~~al~~v~~ 149 (159)
.++++..+|.+||..+.+
T Consensus 83 ~s~eEk~~W~~ai~~~i~ 100 (101)
T cd01219 83 RTQKEKNDWVQAIFSIID 100 (101)
T ss_pred CCHHHHHHHHHHHHHHhh
Confidence 357899999999998753
No 167
>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=21.82 E-value=2.7e+02 Score=18.94 Aligned_cols=71 Identities=23% Similarity=0.285 Sum_probs=42.1
Q ss_pred hHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHH-hcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEE
Q 036681 26 NFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIE-ASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVF 104 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~-~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~ 104 (159)
..+..|..+|++.|+.+..-.. .+.....++ .+++..+|+|=+ ....-...++...++.. ..=||||
T Consensus 4 a~~~~l~~~L~~~~~~vv~~~~-------~dd~~~~i~~~~~i~avvi~~d-~~~~~~~~~ll~~i~~~----~~~iPVF 71 (115)
T PF03709_consen 4 AASRELAEALEQRGREVVDADS-------TDDALAIIESFTDIAAVVISWD-GEEEDEAQELLDKIRER----NFGIPVF 71 (115)
T ss_dssp HHHHHHHHHHHHTTTEEEEESS-------HHHHHHHHHCTTTEEEEEEECH-HHHHHHHHHHHHHHHHH----STT-EEE
T ss_pred HHHHHHHHHHHHCCCEEEEeCC-------hHHHHHHHHhCCCeeEEEEEcc-cccchhHHHHHHHHHHh----CCCCCEE
Confidence 3567899999999998865332 223444455 599999999866 11111222333333332 2668999
Q ss_pred EeeC
Q 036681 105 YEVD 108 (159)
Q Consensus 105 ~~v~ 108 (159)
+-.+
T Consensus 72 l~~~ 75 (115)
T PF03709_consen 72 LLAE 75 (115)
T ss_dssp EEES
T ss_pred EEec
Confidence 8655
No 168
>KOG3573 consensus Caspase, apoptotic cysteine protease [Cell cycle control, cell division, chromosome partitioning]
Probab=21.64 E-value=52 Score=26.59 Aligned_cols=28 Identities=11% Similarity=0.211 Sum_probs=20.6
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCce
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVK 41 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~ 41 (159)
=|+||++.+...+|+..|++.|++++-+
T Consensus 230 g~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 230 GYVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred CceeeecCCCceeeHHHHHHHHHHhcch
Confidence 3555666666678999999999877655
No 169
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=21.58 E-value=66 Score=23.73 Aligned_cols=72 Identities=22% Similarity=0.311 Sum_probs=38.9
Q ss_pred ceEEEEeecCCcC-ChhHH---HHHHHHHHhhcccCceeeeEEEeeCCc-ccccccCcchhHHHhhhcccCCChhHHHH
Q 036681 66 KISVIIFSEDYAS-SKWCL---NELLKILECKGKKGQIVIPVFYEVDPS-DVCYQSGSFRDPFVMHEGQFQVHPENVQK 139 (159)
Q Consensus 66 ~~~I~v~S~~~~~-S~wc~---~El~~~~~~~~~~~~~IiPV~~~v~p~-~v~~~~~~~~~~f~~~~~~~~~~~~~~~~ 139 (159)
+..++.+ .|.+ ..-|- .+|..+.+...+.+..+-+|+.-++|. |-+.....|.+.|.......+.+.+.+++
T Consensus 53 k~~lv~F--~yT~CpdvCp~~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg~~~~i~~ 129 (174)
T PF02630_consen 53 KWVLVFF--GYTRCPDVCPTTLANLSQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLTGSREEIEE 129 (174)
T ss_dssp SEEEEEE--E-TTSSSHHHHHHHHHHHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEEEEHHHHHH
T ss_pred CeEEEEE--EEcCCCccCHHHHHHHHHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeEeCHHHHHH
Confidence 4444444 3332 23464 355555555433355788888889997 55556666777775443333333344433
No 170
>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=21.37 E-value=75 Score=23.74 Aligned_cols=83 Identities=20% Similarity=0.243 Sum_probs=52.6
Q ss_pred hHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHh-hcccCceeeeEE
Q 036681 26 NFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILEC-KGKKGQIVIPVF 104 (159)
Q Consensus 26 ~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~-~~~~~~~IiPV~ 104 (159)
..+..+..+|-++|++|-+-. ..-.+.|...+....-.-+++|.+|....|-.-+-....++ ....+..++|.-
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-----KERYESLKSEAPEECQSNLVQSTSYQAKTWLVGDGLTEEEQKWAPKGTHFIPFS 83 (164)
T ss_pred HHHHHHHHHHHhcCCEEEEec-----HHHHHHHHHHcCHHhhccEEeecCCCceeEEeCCCCCHHHHhcCCCCCEEeecc
Confidence 678889999999999997632 22234566556555556677788888888855433333333 345677888864
Q ss_pred EeeCCccccc
Q 036681 105 YEVDPSDVCY 114 (159)
Q Consensus 105 ~~v~p~~v~~ 114 (159)
- -.|..+|.
T Consensus 84 q-fP~~~~Rk 92 (164)
T PF12076_consen 84 Q-FPPKKVRK 92 (164)
T ss_pred C-CCcHHHhC
Confidence 2 23444544
No 171
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=20.82 E-value=2.5e+02 Score=18.22 Aligned_cols=47 Identities=21% Similarity=0.229 Sum_probs=25.5
Q ss_pred HHhhcCCceEEeeCc-ccCcccch--HHHHHHHHhcceEEEEeecCCcCC
Q 036681 33 AALHDRNVKTFIDEE-IRRGDEIS--TAISDAIEASKISVIIFSEDYASS 79 (159)
Q Consensus 33 ~~L~~~gi~v~~d~~-~~~G~~~~--~~i~~ai~~S~~~I~v~S~~~~~S 79 (159)
+.|+.+|+.+.--.+ +..|+... .++.+.|++-.+-++|..|.-...
T Consensus 24 ~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~ 73 (95)
T PF02142_consen 24 KFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSD 73 (95)
T ss_dssp HHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHH
T ss_pred HHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCcc
Confidence 566778888433222 33331111 258888998888888888776543
No 172
>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=20.78 E-value=91 Score=20.91 Aligned_cols=20 Identities=25% Similarity=0.336 Sum_probs=14.2
Q ss_pred hhHHHHHHHHhhcCCceEEe
Q 036681 25 DNFTSHLVAALHDRNVKTFI 44 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v~~ 44 (159)
..|+..|...|+.+|+++-.
T Consensus 8 ~~fv~~Lk~lLk~rGi~v~~ 27 (90)
T PF02337_consen 8 QPFVSILKHLLKERGIRVKK 27 (90)
T ss_dssp HHHHHHHHHHHHCCT----H
T ss_pred hHHHHHHHHHHHHcCeeecH
Confidence 37999999999999998843
No 173
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=20.63 E-value=1e+02 Score=18.75 Aligned_cols=16 Identities=31% Similarity=0.578 Sum_probs=13.7
Q ss_pred ChhHHHHHHHHHHHhc
Q 036681 133 HPENVQKWRDGLTEAS 148 (159)
Q Consensus 133 ~~~~~~~W~~al~~v~ 148 (159)
+.+..++|..+|..+.
T Consensus 86 s~~~~~~W~~~i~~~~ 101 (102)
T smart00233 86 SEEEREEWVDALRKAI 101 (102)
T ss_pred CHHHHHHHHHHHHHhh
Confidence 5789999999998765
No 174
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=20.60 E-value=2.9e+02 Score=23.14 Aligned_cols=61 Identities=20% Similarity=0.376 Sum_probs=40.3
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHH-hcceEEEEeecCCcCC
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIE-ASKISVIIFSEDYASS 79 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~-~S~~~I~v~S~~~~~S 79 (159)
-||+-|.|+.+| |...|.++ --+||.+++|. .|.++.+.....+. ..|+.++=.=..|.+.
T Consensus 196 GfD~~idyk~~d----~~~~L~~a-~P~GIDvyfeN---VGg~v~DAv~~~ln~~aRi~~CG~IS~YN~~ 257 (340)
T COG2130 196 GFDAGIDYKAED----FAQALKEA-CPKGIDVYFEN---VGGEVLDAVLPLLNLFARIPVCGAISQYNAP 257 (340)
T ss_pred CCceeeecCccc----HHHHHHHH-CCCCeEEEEEc---CCchHHHHHHHhhccccceeeeeehhhcCCC
Confidence 489999998765 66566333 33899999976 56666666666665 5666655444556543
No 175
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=20.55 E-value=1.2e+02 Score=18.66 Aligned_cols=31 Identities=16% Similarity=0.147 Sum_probs=22.4
Q ss_pred cEEEeccCCccchhHHHHHHHHhhcCCceEEee
Q 036681 13 DVFINFGGGDTRDNFTSHLVAALHDRNVKTFID 45 (159)
Q Consensus 13 DVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d 45 (159)
.+.|++...+ +.++..+...|.+-||..-+.
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 4577777776 589999999999999987554
No 176
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=20.45 E-value=4.2e+02 Score=20.60 Aligned_cols=54 Identities=11% Similarity=0.059 Sum_probs=33.6
Q ss_pred hhHHHHHHHHhhcCCceE-EeeCc-c--cCcc----cchHHHHHHHHhcceEEEEeecCCcCC
Q 036681 25 DNFTSHLVAALHDRNVKT-FIDEE-I--RRGD----EISTAISDAIEASKISVIIFSEDYASS 79 (159)
Q Consensus 25 ~~fv~~L~~~L~~~gi~v-~~d~~-~--~~G~----~~~~~i~~ai~~S~~~I~v~S~~~~~S 79 (159)
..++..+.+.|...|..+ .+|-. + ...+ +-...+.+.|+.++ .+++.||.|..|
T Consensus 43 ~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~~~p~v~~l~~~v~~AD-gvii~TPEYn~s 104 (219)
T TIGR02690 43 RLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHADHPKVRELRQLSEWSE-GQVWCSPERHGA 104 (219)
T ss_pred HHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcccCHHHHHHHHHHHhCC-EEEEeCCccccC
Confidence 456677777777667766 33332 2 1111 11135667788887 778889999876
No 177
>PF12641 Flavodoxin_3: Flavodoxin domain
Probab=20.30 E-value=3.6e+02 Score=19.77 Aligned_cols=115 Identities=11% Similarity=0.193 Sum_probs=53.9
Q ss_pred hhHHHHHHHHhhcC-------------Cce-EEeeCcccCcc--cchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHH
Q 036681 25 DNFTSHLVAALHDR-------------NVK-TFIDEEIRRGD--EISTAISDAIEASKISVIIFSEDYASSKWCLNELLK 88 (159)
Q Consensus 25 ~~fv~~L~~~L~~~-------------gi~-v~~d~~~~~G~--~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~ 88 (159)
+.++..+++.|... .+. +|+-.++..|. .-..+....|..-+++++--.-.+..|.+...=+..
T Consensus 12 kkvA~aI~~~l~~~~~~~~~~~~~~~~~yD~i~lG~w~d~G~~d~~~~~fl~~l~~KkV~lF~T~G~~~~s~~~~~~~~~ 91 (160)
T PF12641_consen 12 KKVAEAIAEALGAKDIVSVEEPPEDLEDYDLIFLGFWIDKGTPDKDMKEFLKKLKGKKVALFGTAGAGPDSEYAKKILKN 91 (160)
T ss_pred HHHHHHHHHHCCCceeEeccccccCCCCCCEEEEEcCccCCCCCHHHHHHHHHccCCeEEEEEecCCCCchHHHHHHHHH
Confidence 57889999888761 121 12222222231 112244455666555555444445567665544444
Q ss_pred HHHhhcccCceeeeEEEeeCCcccccccCcchhHHHhh---hcccCCChhHHHHHHHHHH
Q 036681 89 ILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFVMH---EGQFQVHPENVQKWRDGLT 145 (159)
Q Consensus 89 ~~~~~~~~~~~IiPV~~~v~p~~v~~~~~~~~~~f~~~---~~~~~~~~~~~~~W~~al~ 145 (159)
+-..... +..++--|.- +-.+... .-+.+..+ ........+.+.+|.+|++
T Consensus 92 ~~~~~~~-~~~~lg~f~C--qGk~~~~---~~e~~~~~~~~~~~~~~~~~~~~~~~~a~~ 145 (160)
T PF12641_consen 92 VEALLPK-GNEILGTFMC--QGKMDPK---VIEKYKKMLPKNPPHAMTPERLARFDEAAS 145 (160)
T ss_pred HHHhhcc-CCeecceEEe--CCcCCHH---HHHHHHhccCCCCCCcccHHHHHHHHHHhc
Confidence 3333322 3577777752 1111111 11112221 1112234778888888865
No 178
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=20.26 E-value=1.4e+02 Score=24.10 Aligned_cols=52 Identities=21% Similarity=0.353 Sum_probs=36.9
Q ss_pred CCccchhHHHHHHHHhhcCCceEEe---e-Cc-ccCcccchHHHHHHHHhcceEEEEeec
Q 036681 20 GGDTRDNFTSHLVAALHDRNVKTFI---D-EE-IRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 20 ~~D~~~~fv~~L~~~L~~~gi~v~~---d-~~-~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
+-|.|+ -.+.+.|.+.|+.|.. + .. -.+|-.+.+...+++.+++++|.++.+
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 456543 3567888899999875 2 22 356777765667789999999998654
No 179
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=20.20 E-value=3.3e+02 Score=22.85 Aligned_cols=65 Identities=14% Similarity=0.188 Sum_probs=42.7
Q ss_pred CeecEEEeccCCcc-chhHHHHHHHHhhcCCceEEeeCcccCccc-chHHHHHHHHhcc-eEEEEeec
Q 036681 10 CKYDVFINFGGGDT-RDNFTSHLVAALHDRNVKTFIDEEIRRGDE-ISTAISDAIEASK-ISVIIFSE 74 (159)
Q Consensus 10 ~~yDVFISy~~~D~-~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~-~~~~i~~ai~~S~-~~I~v~S~ 74 (159)
...|+-|.+.+... .......|...|++.|+..+++....-|+. ....+..++..-. ...++..|
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 45788888864432 456778999999999999999887333433 3344555555444 45555555
No 180
>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=20.17 E-value=3.9e+02 Score=21.48 Aligned_cols=28 Identities=11% Similarity=0.095 Sum_probs=17.2
Q ss_pred EEEeccCCccchhHHHHHHHHhhcCCce
Q 036681 14 VFINFGGGDTRDNFTSHLVAALHDRNVK 41 (159)
Q Consensus 14 VFISy~~~D~~~~fv~~L~~~L~~~gi~ 41 (159)
|-+=|...|-.+.++..+.+.|++.|+.
T Consensus 139 vaii~~~~~~g~~~~~~l~~~l~~~g~~ 166 (362)
T cd06367 139 FSVVTSRDPGYRDFLDRVETTLEESFVG 166 (362)
T ss_pred EEEEEEcCcccHHHHHHHHHHHHhcccc
Confidence 3333444443356777788888877765
No 181
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=20.14 E-value=91 Score=20.20 Aligned_cols=16 Identities=19% Similarity=0.472 Sum_probs=12.8
Q ss_pred CChhHHHHHHHHHHHh
Q 036681 132 VHPENVQKWRDGLTEA 147 (159)
Q Consensus 132 ~~~~~~~~W~~al~~v 147 (159)
.+++..++|..||..+
T Consensus 81 ~s~~e~~~Wi~ai~~~ 96 (96)
T cd01260 81 ETLDDLSQWVNHLITA 96 (96)
T ss_pred CCHHHHHHHHHHHHhC
Confidence 3578999999999753
No 182
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=20.10 E-value=3.1e+02 Score=20.41 Aligned_cols=77 Identities=14% Similarity=0.148 Sum_probs=53.3
Q ss_pred HHHHHhhcCCceEEeeCc---ccCcccchHHHHHHHHhcceEEEEeecCCcCChhHHHHHHHHHHhhcccCceeeeEEEe
Q 036681 30 HLVAALHDRNVKTFIDEE---IRRGDEISTAISDAIEASKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYE 106 (159)
Q Consensus 30 ~L~~~L~~~gi~v~~d~~---~~~G~~~~~~i~~ai~~S~~~I~v~S~~~~~S~wc~~El~~~~~~~~~~~~~IiPV~~~ 106 (159)
.+.+.|+.-|+.-+.+.. +..|+.-.-.|..++-.-.-++++=-|...-......++...+......+..||-|-++
T Consensus 118 ~~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~laral~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~vsH~ 197 (216)
T TIGR00960 118 RVSAALEKVGLEGKAHALPMQLSGGEQQRVAIARAIVHKPPLLLADEPTGNLDPELSRDIMRLFEEFNRRGTTVLVATHD 197 (216)
T ss_pred HHHHHHHHcCChhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcCCHHHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence 345556666776555543 66787777788888888777777777777777778888888887653335566666544
No 183
>PLN02908 threonyl-tRNA synthetase
Probab=20.06 E-value=3e+02 Score=25.12 Aligned_cols=60 Identities=13% Similarity=0.175 Sum_probs=40.1
Q ss_pred eecEEEeccCCccchhHHHHHHHHhhcCCceEEeeCcccCcccchHHHHHHHHhcceEEEEeec
Q 036681 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFSE 74 (159)
Q Consensus 11 ~yDVFISy~~~D~~~~fv~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~ai~~S~~~I~v~S~ 74 (159)
..+|+|-.-+.+. ...+..+.+.|+++|++|-+|.. +..+...+..|-..---.++|+.+
T Consensus 589 p~qv~Vipv~~~~-~~~A~~va~~LR~~Gi~vevd~~---~~~l~kkir~A~~~g~~~viivG~ 648 (686)
T PLN02908 589 PRQAIVVPISEKS-QDYAEEVRAQLHAAGFYVDVDVT---DRKIQKKVREAQLAQYNYILVVGE 648 (686)
T ss_pred CceEEEEEECHHH-HHHHHHHHHHHHHCCCEEEEECC---CCCHHHHHHHHHHcCCCEEEEECc
Confidence 4677776655443 46788999999999999988753 455666666665543335555543
Done!