Query 037311
Match_columns 93
No_of_seqs 135 out of 1053
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 10:56:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037311.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037311hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 100.0 1E-32 2.3E-37 182.1 10.6 91 3-93 19-110 (187)
2 PLN03210 Resistant to P. syrin 99.9 3.4E-27 7.4E-32 188.2 10.3 93 1-93 1-95 (1153)
3 PF01582 TIR: TIR domain; Int 99.9 3.7E-23 8.1E-28 131.4 2.9 80 13-92 1-83 (141)
4 smart00255 TIR Toll - interleu 99.9 1.9E-21 4.1E-26 122.3 8.5 81 10-91 1-82 (140)
5 PF13676 TIR_2: TIR domain; PD 99.8 1.1E-21 2.3E-26 118.2 -0.4 77 13-91 1-77 (102)
6 KOG3678 SARM protein (with ste 99.3 2.2E-11 4.7E-16 90.8 7.9 85 7-93 609-702 (832)
7 PF08937 DUF1863: MTH538 TIR-l 99.1 4E-10 8.7E-15 70.8 6.1 81 11-92 1-99 (130)
8 PF08357 SEFIR: SEFIR domain; 98.8 2.8E-08 6.1E-13 63.4 6.2 64 12-75 2-70 (150)
9 PF10137 TIR-like: Predicted n 97.9 8.6E-05 1.9E-09 46.7 7.3 76 12-90 1-90 (125)
10 PF13271 DUF4062: Domain of un 96.3 0.041 8.9E-07 31.8 7.0 65 12-77 1-66 (83)
11 PF05014 Nuc_deoxyrib_tr: Nucl 95.7 0.16 3.5E-06 30.7 8.0 68 24-92 13-89 (113)
12 COG4271 Predicted nucleotide-b 93.9 0.44 9.4E-06 32.6 6.8 60 12-75 84-145 (233)
13 COG4916 Uncharacterized protei 93.4 0.08 1.7E-06 37.4 2.7 81 6-89 173-260 (329)
14 cd00860 ThrRS_anticodon ThrRS 92.4 1.1 2.3E-05 25.4 6.3 60 11-74 2-61 (91)
15 COG0400 Predicted esterase [Ge 90.4 1.4 3E-05 29.9 6.0 58 5-63 141-200 (207)
16 cd00738 HGTP_anticodon HGTP an 88.5 3 6.6E-05 23.5 6.1 61 11-75 2-65 (94)
17 PF03720 UDPG_MGDP_dh_C: UDP-g 87.0 1 2.2E-05 27.0 3.3 53 20-72 12-75 (106)
18 PF14359 DUF4406: Domain of un 86.7 4.8 0.0001 23.8 8.1 65 24-91 16-85 (92)
19 PF03129 HGTP_anticodon: Antic 86.0 3.4 7.4E-05 23.6 5.1 46 24-72 15-60 (94)
20 cd00858 GlyRS_anticodon GlyRS 85.9 4.7 0.0001 24.5 5.9 62 9-74 25-87 (121)
21 cd02042 ParA ParA and ParB of 83.1 6.9 0.00015 22.6 6.8 61 13-75 3-73 (104)
22 cd02426 Pol_gamma_b_Cterm C-te 83.0 2 4.3E-05 26.8 3.3 31 24-54 43-77 (128)
23 TIGR00418 thrS threonyl-tRNA s 75.4 18 0.00039 27.8 7.0 63 8-74 468-530 (563)
24 PRK15057 UDP-glucose 6-dehydro 74.9 7.9 0.00017 28.6 4.8 56 15-70 304-366 (388)
25 cd00861 ProRS_anticodon_short 74.3 13 0.00029 21.0 4.8 46 25-74 18-64 (94)
26 CHL00201 syh histidine-tRNA sy 72.1 18 0.0004 26.9 6.2 61 9-73 324-384 (430)
27 cd00859 HisRS_anticodon HisRS 71.9 14 0.00031 20.2 5.8 57 12-72 3-59 (91)
28 COG2130 Putative NADP-dependen 70.9 17 0.00037 26.6 5.5 49 9-65 195-243 (340)
29 PF10087 DUF2325: Uncharacteri 70.6 19 0.0004 21.0 5.4 59 26-87 11-72 (97)
30 PF04244 DPRP: Deoxyribodipyri 70.3 32 0.0007 23.6 6.8 53 25-79 78-132 (224)
31 PRK14938 Ser-tRNA(Thr) hydrola 68.6 24 0.00052 26.4 6.0 60 10-73 274-333 (387)
32 cd01423 MGS_CPS_I_III Methylgl 68.5 9.8 0.00021 22.9 3.5 60 13-74 3-80 (116)
33 TIGR03026 NDP-sugDHase nucleot 68.0 15 0.00034 27.0 5.0 58 15-72 321-385 (411)
34 COG1058 CinA Predicted nucleot 67.1 16 0.00034 25.8 4.6 40 27-68 23-65 (255)
35 PF03358 FMN_red: NADPH-depend 66.3 28 0.00061 21.5 7.1 54 24-78 17-84 (152)
36 cd00138 PLDc Phospholipase D. 65.4 20 0.00044 22.6 4.7 51 25-75 21-77 (176)
37 cd01424 MGS_CPS_II Methylglyox 65.0 25 0.00055 20.8 4.8 61 12-74 2-76 (110)
38 PRK09194 prolyl-tRNA synthetas 64.6 34 0.00073 26.5 6.4 64 8-75 466-532 (565)
39 PRK12325 prolyl-tRNA synthetas 64.3 39 0.00085 25.3 6.6 62 10-75 345-409 (439)
40 PLN02530 histidine-tRNA ligase 63.8 33 0.00072 26.1 6.2 61 9-73 400-460 (487)
41 COG3613 Nucleoside 2-deoxyribo 63.5 26 0.00055 23.4 4.9 65 25-89 20-95 (172)
42 cd03364 TOPRIM_DnaG_primases T 63.0 13 0.00028 20.7 3.1 34 37-71 44-77 (79)
43 PLN03194 putative disease resi 63.0 33 0.00072 23.1 5.4 56 36-91 24-80 (187)
44 PRK14799 thrS threonyl-tRNA sy 61.1 53 0.0012 25.6 6.9 60 10-73 438-497 (545)
45 COG1852 Uncharacterized conser 60.1 43 0.00093 22.9 5.5 51 27-91 122-172 (209)
46 PF11201 DUF2982: Protein of u 59.2 12 0.00027 24.3 2.8 27 8-34 123-150 (152)
47 PF06856 DUF1251: Protein of u 58.4 7.2 0.00016 24.4 1.5 62 4-80 54-119 (120)
48 cd06350 PBP1_GPCR_family_C_lik 58.4 54 0.0012 22.8 6.2 42 24-65 174-217 (348)
49 PF05818 TraT: Enterobacterial 57.7 24 0.00052 24.3 4.1 40 5-44 16-56 (215)
50 COG0289 DapB Dihydrodipicolina 57.5 67 0.0015 22.9 6.5 71 8-87 67-138 (266)
51 PRK00413 thrS threonyl-tRNA sy 57.5 43 0.00092 26.2 6.0 61 10-74 539-599 (638)
52 COG0683 LivK ABC-type branched 56.6 72 0.0016 22.9 8.5 74 12-85 150-223 (366)
53 PRK14495 putative molybdopteri 56.1 59 0.0013 24.9 6.2 29 14-43 6-34 (452)
54 PF09886 DUF2113: Uncharacteri 55.8 61 0.0013 21.9 5.9 53 21-90 128-183 (188)
55 PF00258 Flavodoxin_1: Flavodo 55.6 31 0.00067 21.1 4.1 42 24-72 11-54 (143)
56 PF01113 DapB_N: Dihydrodipico 55.4 46 0.00099 20.3 5.4 56 10-75 67-124 (124)
57 cd06342 PBP1_ABC_LIVBP_like Ty 55.1 67 0.0014 22.1 7.7 51 13-64 138-189 (334)
58 PF14258 DUF4350: Domain of un 54.9 33 0.00071 18.5 5.8 52 29-90 9-61 (70)
59 cd06386 PBP1_NPR_C_like Ligand 54.8 75 0.0016 23.0 6.6 43 27-70 157-200 (387)
60 cd07363 45_DOPA_Dioxygenase Th 54.6 69 0.0015 22.1 6.5 65 24-90 80-146 (253)
61 PF11074 DUF2779: Domain of un 54.6 10 0.00023 23.8 1.8 24 14-37 48-71 (130)
62 cd06340 PBP1_ABC_ligand_bindin 54.4 74 0.0016 22.4 7.4 60 12-72 146-206 (347)
63 PRK12305 thrS threonyl-tRNA sy 54.0 77 0.0017 24.5 6.8 60 10-73 476-535 (575)
64 cd06352 PBP1_NPR_GC_like Ligan 53.8 55 0.0012 23.3 5.7 46 24-70 152-200 (389)
65 PRK12444 threonyl-tRNA synthet 53.6 82 0.0018 24.8 7.0 63 9-74 540-602 (639)
66 cd06366 PBP1_GABAb_receptor Li 53.3 76 0.0016 22.2 6.9 59 13-72 138-201 (350)
67 PF02230 Abhydrolase_2: Phosph 52.9 58 0.0013 21.4 5.4 51 10-61 155-208 (216)
68 PRK11064 wecC UDP-N-acetyl-D-m 52.2 29 0.00062 25.8 4.1 66 15-80 328-404 (415)
69 TIGR00409 proS_fam_II prolyl-t 52.0 18 0.00038 28.3 3.1 31 24-54 489-520 (568)
70 TIGR00177 molyb_syn molybdenum 51.9 40 0.00086 21.1 4.3 45 25-70 27-73 (144)
71 PF10609 ParA: ParA/MinD ATPas 51.8 46 0.001 19.3 5.0 42 46-88 7-49 (81)
72 PRK03991 threonyl-tRNA synthet 51.5 48 0.001 26.2 5.3 60 10-74 499-559 (613)
73 PF03481 SUA5: Putative GTP-bi 51.5 53 0.0011 20.1 4.7 54 10-64 67-123 (125)
74 cd00862 ProRS_anticodon_zinc P 51.0 16 0.00035 24.4 2.4 47 9-55 9-62 (202)
75 PRK06893 DNA replication initi 50.2 53 0.0011 22.1 4.9 65 13-81 71-140 (229)
76 COG0710 AroD 3-dehydroquinate 50.0 55 0.0012 22.7 5.0 63 25-91 79-141 (231)
77 PRK10569 NAD(P)H-dependent FMN 49.4 75 0.0016 21.0 6.5 53 25-78 18-80 (191)
78 PRK13660 hypothetical protein; 49.2 78 0.0017 21.1 7.5 28 61-89 99-126 (182)
79 cd06370 PBP1_Speract_GC_like L 49.0 58 0.0013 23.6 5.2 27 24-50 150-176 (404)
80 cd02038 FleN-like FleN is a me 48.9 62 0.0013 19.9 7.0 53 25-77 15-80 (139)
81 cd06335 PBP1_ABC_ligand_bindin 48.0 95 0.0021 21.8 7.2 18 25-42 153-170 (347)
82 cd06361 PBP1_GPC6A_like Ligand 47.6 1.1E+02 0.0024 22.4 6.8 34 17-50 179-212 (403)
83 PF02310 B12-binding: B12 bind 47.5 57 0.0012 19.1 6.5 57 27-88 17-74 (121)
84 PF00994 MoCF_biosynth: Probab 47.5 67 0.0014 19.9 4.8 61 25-85 17-78 (144)
85 PF13155 Toprim_2: Toprim-like 47.2 26 0.00057 19.9 2.7 48 13-65 25-75 (96)
86 PF09837 DUF2064: Uncharacteri 46.2 69 0.0015 19.7 8.3 62 6-75 6-71 (122)
87 cd06379 PBP1_iGluR_NMDA_NR1 N- 46.1 1.1E+02 0.0023 21.9 6.5 39 24-63 168-211 (377)
88 PF02337 Gag_p10: Retroviral G 46.0 20 0.00044 21.3 2.0 21 24-44 8-28 (90)
89 PLN02908 threonyl-tRNA synthet 45.0 87 0.0019 25.0 6.0 60 10-73 589-648 (686)
90 PF07429 Glyco_transf_56: 4-al 44.8 32 0.00069 25.5 3.3 47 30-78 300-348 (360)
91 TIGR00408 proS_fam_I prolyl-tR 44.3 85 0.0019 23.9 5.6 61 10-74 282-348 (472)
92 cd06269 PBP1_glutamate_recepto 44.0 93 0.002 20.5 6.5 53 13-65 143-195 (298)
93 KOG4132 Uroporphyrinogen III s 43.9 63 0.0014 22.8 4.4 51 28-78 146-200 (260)
94 PF13662 Toprim_4: Toprim doma 43.0 19 0.00041 20.1 1.6 31 33-64 41-73 (81)
95 PF00762 Ferrochelatase: Ferro 42.7 1.3E+02 0.0027 21.7 6.5 66 25-90 73-143 (316)
96 PF05985 EutC: Ethanolamine am 42.5 47 0.001 23.2 3.7 45 24-73 123-172 (237)
97 PRK08661 prolyl-tRNA synthetas 42.2 1.4E+02 0.0031 22.7 6.6 61 10-74 287-354 (477)
98 PLN02775 Probable dihydrodipic 41.9 1.3E+02 0.0028 21.6 7.2 70 9-88 78-149 (286)
99 PRK06703 flavodoxin; Provision 41.9 85 0.0018 19.5 5.5 22 24-45 16-37 (151)
100 cd06371 PBP1_sensory_GC_DEF_li 41.8 1.3E+02 0.0029 21.7 8.4 63 14-76 136-201 (382)
101 PLN02734 glycyl-tRNA synthetas 41.7 42 0.00092 27.0 3.8 46 5-51 567-613 (684)
102 cd06365 PBP1_Pheromone_recepto 41.5 1.4E+02 0.003 22.4 6.4 28 23-50 185-212 (469)
103 cd03111 CpaE_like This protein 41.4 74 0.0016 18.6 5.9 53 25-77 15-78 (106)
104 cd03028 GRX_PICOT_like Glutare 40.8 33 0.00072 19.6 2.4 21 60-82 4-24 (90)
105 COG0677 WecC UDP-N-acetyl-D-ma 40.8 1E+02 0.0022 23.6 5.4 59 15-73 330-398 (436)
106 PLN02353 probable UDP-glucose 40.6 99 0.0021 23.7 5.5 31 15-45 332-364 (473)
107 cd05565 PTS_IIB_lactose PTS_II 40.0 63 0.0014 19.3 3.6 42 25-75 15-57 (99)
108 cd00885 cinA Competence-damage 39.8 94 0.002 20.2 4.7 43 25-68 19-63 (170)
109 cd07373 2A5CPDO_A The alpha su 39.2 1.3E+02 0.0029 20.9 6.6 64 24-90 90-159 (271)
110 COG0576 GrpE Molecular chapero 39.0 70 0.0015 21.4 4.0 48 27-78 124-178 (193)
111 cd00758 MoCF_BD MoCF_BD: molyb 38.9 88 0.0019 19.2 4.3 45 25-69 19-64 (133)
112 TIGR03567 FMN_reduc_SsuE FMN r 38.9 1E+02 0.0023 19.7 6.0 53 25-78 17-79 (171)
113 PRK14976 5'-3' exonuclease; Pr 38.8 1E+02 0.0022 21.8 5.1 68 6-74 66-138 (281)
114 PF14528 LAGLIDADG_3: LAGLIDAD 38.7 59 0.0013 17.7 3.2 32 12-45 21-52 (77)
115 PF04244 DPRP: Deoxyribodipyri 38.6 92 0.002 21.4 4.6 48 27-74 51-101 (224)
116 PRK07933 thymidylate kinase; V 38.6 1.1E+02 0.0024 20.4 5.0 31 14-44 2-34 (213)
117 cd03146 GAT1_Peptidase_E Type 38.4 1.2E+02 0.0026 20.2 5.2 52 12-69 34-86 (212)
118 cd00419 Ferrochelatase_C Ferro 38.2 76 0.0016 19.8 3.9 61 25-85 45-112 (135)
119 TIGR00646 MG010 DNA primase-re 38.2 1.1E+02 0.0023 21.2 4.9 50 12-61 156-205 (218)
120 PF09413 DUF2007: Domain of un 38.2 41 0.00088 18.0 2.4 21 25-45 10-30 (67)
121 TIGR01753 flav_short flavodoxi 37.8 91 0.002 18.6 4.6 53 13-77 4-58 (140)
122 PRK13883 conjugal transfer pro 37.7 92 0.002 20.3 4.3 32 11-45 53-84 (151)
123 PF07283 TrbH: Conjugal transf 37.6 96 0.0021 19.4 4.2 21 25-45 36-56 (121)
124 PF09152 DUF1937: Domain of un 37.5 1E+02 0.0022 19.2 4.3 61 32-92 34-108 (116)
125 COG1168 MalY Bifunctional PLP- 36.9 66 0.0014 24.2 3.9 38 55-92 148-187 (388)
126 KOG3573 Caspase, apoptotic cys 36.8 23 0.00051 25.0 1.6 29 12-40 229-257 (300)
127 cd04885 ACT_ThrD-I Tandem C-te 36.7 51 0.0011 17.7 2.7 30 10-41 37-66 (68)
128 PF02602 HEM4: Uroporphyrinoge 36.7 56 0.0012 21.5 3.4 43 29-72 131-175 (231)
129 COG0125 Tmk Thymidylate kinase 36.6 1.3E+02 0.0029 20.3 5.2 33 13-45 4-38 (208)
130 cd06367 PBP1_iGluR_NMDA N-term 36.4 1.5E+02 0.0033 20.9 5.9 28 13-40 139-166 (362)
131 PRK11263 cardiolipin synthase 36.2 1.1E+02 0.0023 23.0 5.0 39 51-89 205-243 (411)
132 cd00532 MGS-like MGS-like doma 36.1 67 0.0014 19.1 3.3 60 13-74 2-77 (112)
133 smart00852 MoCF_biosynth Proba 36.1 1E+02 0.0022 18.8 4.4 43 26-68 19-62 (135)
134 PRK14158 heat shock protein Gr 36.0 1.1E+02 0.0023 20.8 4.5 47 28-77 127-180 (194)
135 PF02739 5_3_exonuc_N: 5'-3' e 35.7 1.1E+02 0.0025 19.8 4.6 66 8-74 64-134 (169)
136 cd06578 HemD Uroporphyrinogen- 35.5 89 0.0019 20.3 4.2 48 28-76 135-185 (239)
137 TIGR00389 glyS_dimeric glycyl- 34.9 2.1E+02 0.0046 22.5 6.5 62 9-74 456-518 (551)
138 cd05212 NAD_bind_m-THF_DH_Cycl 34.9 1.2E+02 0.0026 19.2 4.9 49 26-81 40-90 (140)
139 cd05008 SIS_GlmS_GlmD_1 SIS (S 34.9 74 0.0016 18.8 3.4 49 13-72 51-99 (126)
140 cd00008 53EXOc 5'-3' exonuclea 34.8 1.3E+02 0.0028 20.6 4.9 68 6-74 61-133 (240)
141 cd04886 ACT_ThrD-II-like C-ter 34.7 70 0.0015 16.4 3.7 33 8-42 40-72 (73)
142 PF03045 DAN: DAN domain; Int 34.5 22 0.00047 22.0 1.0 29 53-82 3-31 (121)
143 cd08584 PI-PLCc_GDPD_SF_unchar 34.3 1.5E+02 0.0032 20.0 5.5 60 12-78 103-162 (192)
144 PF07859 Abhydrolase_3: alpha/ 34.1 92 0.002 19.9 4.0 37 9-45 165-201 (211)
145 PF01380 SIS: SIS domain SIS d 33.9 82 0.0018 18.5 3.5 53 13-76 58-110 (131)
146 KOG4594 Sequence-specific sing 33.8 38 0.00083 24.6 2.2 53 23-86 17-69 (354)
147 PF12146 Hydrolase_4: Putative 33.7 76 0.0016 17.8 3.1 36 9-45 15-50 (79)
148 PF01094 ANF_receptor: Recepto 33.6 82 0.0018 21.6 3.9 30 13-42 124-153 (348)
149 TIGR02130 dapB_plant dihydrodi 33.5 1.8E+02 0.0039 20.8 6.2 67 11-87 69-137 (275)
150 COG2077 Tpx Peroxiredoxin [Pos 33.5 34 0.00074 22.4 1.8 21 64-84 75-97 (158)
151 PTZ00344 pyridoxal kinase; Pro 33.4 1.5E+02 0.0032 20.8 5.2 66 25-90 60-134 (296)
152 cd00032 CASc Caspase, interleu 32.8 1.5E+02 0.0032 20.2 5.0 47 27-74 34-85 (243)
153 cd00518 H2MP Hydrogenase speci 32.7 1.2E+02 0.0027 18.6 4.3 45 25-72 14-59 (139)
154 COG0431 Predicted flavoprotein 32.5 1.4E+02 0.0031 19.4 6.5 54 24-78 17-81 (184)
155 cd05017 SIS_PGI_PMI_1 The memb 32.5 91 0.002 18.6 3.5 28 13-43 48-75 (119)
156 PRK15467 ethanolamine utilizat 32.5 78 0.0017 19.8 3.4 24 52-75 53-76 (158)
157 TIGR02690 resist_ArsH arsenica 32.1 1.7E+02 0.0037 20.0 6.9 72 6-78 22-104 (219)
158 PF01507 PAPS_reduct: Phosphoa 32.0 95 0.0021 19.3 3.7 32 12-45 1-33 (174)
159 PF00647 EF1G: Elongation fact 32.0 22 0.00047 21.8 0.7 29 17-45 23-51 (107)
160 COG3340 PepE Peptidase E [Amin 32.0 1.8E+02 0.0038 20.3 5.8 55 11-68 34-89 (224)
161 PRK14161 heat shock protein Gr 31.9 1.3E+02 0.0028 20.0 4.4 47 28-77 109-162 (178)
162 PRK07308 flavodoxin; Validated 31.8 1.3E+02 0.0028 18.6 4.9 43 24-76 16-60 (146)
163 cd06349 PBP1_ABC_ligand_bindin 31.7 1.8E+02 0.0039 20.2 6.1 31 13-43 138-168 (340)
164 PRK01642 cls cardiolipin synth 31.5 1.4E+02 0.003 22.8 5.0 37 53-89 319-355 (483)
165 PRK07524 hypothetical protein; 31.4 1.4E+02 0.0031 22.7 5.1 37 26-66 4-40 (535)
166 COG1763 MobB Molybdopterin-gua 31.2 78 0.0017 20.6 3.2 30 14-44 7-36 (161)
167 KOG3062 RNA polymerase II elon 31.1 2E+02 0.0043 20.5 5.6 59 17-78 11-87 (281)
168 cd05564 PTS_IIB_chitobiose_lic 31.1 82 0.0018 18.4 3.1 21 25-45 14-34 (96)
169 COG3980 spsG Spore coat polysa 30.7 2.2E+02 0.0047 20.9 6.5 55 9-66 157-211 (318)
170 TIGR00442 hisS histidyl-tRNA s 30.7 2.1E+02 0.0046 20.8 5.9 62 8-73 320-381 (397)
171 PF02367 UPF0079: Uncharacteri 30.6 1.4E+02 0.003 18.5 4.2 48 25-76 3-51 (123)
172 PRK09866 hypothetical protein; 30.5 98 0.0021 25.3 4.1 40 36-75 228-270 (741)
173 PF02878 PGM_PMM_I: Phosphoglu 30.5 98 0.0021 19.0 3.5 50 9-63 39-88 (137)
174 PRK12435 ferrochelatase; Provi 30.4 2.1E+02 0.0045 20.6 6.0 52 25-78 61-119 (311)
175 PRK05465 ethanolamine ammonia- 30.3 1.2E+02 0.0026 21.6 4.2 45 24-73 130-179 (260)
176 PRK08306 dipicolinate synthase 30.2 78 0.0017 22.4 3.3 45 29-73 16-65 (296)
177 PRK08155 acetolactate synthase 30.2 2.3E+02 0.005 21.8 6.1 37 25-65 14-50 (564)
178 cd00886 MogA_MoaB MogA_MoaB fa 30.1 1.5E+02 0.0032 18.7 4.6 43 25-67 20-65 (152)
179 PRK08105 flavodoxin; Provision 30.0 1.3E+02 0.0029 18.9 4.2 22 24-45 16-37 (149)
180 PF01656 CbiA: CobQ/CobB/MinD/ 30.0 1.1E+02 0.0024 19.3 3.8 36 14-49 3-39 (195)
181 PF01520 Amidase_3: N-acetylmu 29.9 1.5E+02 0.0032 18.7 5.4 47 24-70 27-74 (175)
182 COG0124 HisS Histidyl-tRNA syn 29.8 2.5E+02 0.0055 21.4 7.2 62 7-72 332-393 (429)
183 cd05710 SIS_1 A subgroup of th 29.8 1E+02 0.0022 18.4 3.5 50 13-73 52-101 (120)
184 PTZ00445 p36-lilke protein; Pr 29.8 1.9E+02 0.0042 20.0 5.2 21 25-45 29-49 (219)
185 PF00585 Thr_dehydrat_C: C-ter 29.7 85 0.0018 18.2 2.9 32 9-42 48-79 (91)
186 cd03411 Ferrochelatase_N Ferro 29.6 1.5E+02 0.0033 18.8 7.0 64 25-90 72-142 (159)
187 cd06346 PBP1_ABC_ligand_bindin 29.6 1.9E+02 0.0041 19.9 6.3 39 24-63 151-190 (312)
188 PF02776 TPP_enzyme_N: Thiamin 29.2 1.5E+02 0.0032 18.9 4.3 36 26-65 3-38 (172)
189 PLN02379 pfkB-type carbohydrat 29.1 2.3E+02 0.0049 20.6 5.7 58 13-72 181-239 (367)
190 COG1180 PflA Pyruvate-formate 29.0 1.4E+02 0.003 20.8 4.4 33 13-45 87-119 (260)
191 PF14926 DUF4498: Domain of un 29.0 43 0.00093 23.6 1.8 51 7-61 139-189 (247)
192 PF14792 DNA_pol_B_palm: DNA p 29.0 93 0.002 18.8 3.1 32 10-41 42-77 (112)
193 COG1777 Predicted transcriptio 28.9 82 0.0018 21.8 3.1 49 24-77 43-92 (217)
194 TIGR00288 conserved hypothetic 28.9 1.7E+02 0.0037 19.1 5.0 33 8-44 103-135 (160)
195 cd04795 SIS SIS domain. SIS (S 28.8 1E+02 0.0023 16.6 3.5 10 35-44 46-55 (87)
196 cd08170 GlyDH Glycerol dehydro 28.7 2.2E+02 0.0048 20.4 5.6 33 12-45 24-56 (351)
197 cd06385 PBP1_NPR_A Ligand-bind 28.4 1.6E+02 0.0035 21.2 4.8 19 27-45 165-183 (405)
198 PRK03673 hypothetical protein; 28.4 1.4E+02 0.003 22.4 4.5 43 26-68 22-65 (396)
199 COG2266 GTP:adenosylcobinamide 28.4 97 0.0021 20.7 3.3 27 49-75 25-52 (177)
200 PRK14154 heat shock protein Gr 27.9 1.2E+02 0.0027 20.7 3.8 47 28-77 141-194 (208)
201 TIGR00441 gmhA phosphoheptose 27.8 1.2E+02 0.0026 19.1 3.6 55 10-75 79-135 (154)
202 PRK10439 enterobactin/ferric e 27.8 2.3E+02 0.0051 21.1 5.6 8 38-45 349-356 (411)
203 PF00875 DNA_photolyase: DNA p 27.7 1.6E+02 0.0035 18.5 4.5 45 28-77 56-100 (165)
204 cd00154 Rab Rab family. Rab G 27.6 1.4E+02 0.003 17.6 4.1 25 51-75 60-84 (159)
205 cd06328 PBP1_SBP_like_2 Peripl 27.5 2.2E+02 0.0047 19.9 6.7 52 12-64 138-190 (333)
206 PF03205 MobB: Molybdopterin g 27.4 1.6E+02 0.0035 18.3 6.3 70 14-89 5-90 (140)
207 TIGR03297 Ppyr-DeCO2ase phosph 27.4 2.3E+02 0.0049 20.9 5.4 65 13-77 84-156 (361)
208 TIGR00347 bioD dethiobiotin sy 27.3 97 0.0021 19.4 3.2 31 14-44 1-32 (166)
209 PF13840 ACT_7: ACT domain ; P 27.3 70 0.0015 17.2 2.2 21 24-44 21-41 (65)
210 PF15221 LEP503: Lens epitheli 27.1 36 0.00078 18.4 0.9 45 30-86 16-60 (61)
211 PRK02797 4-alpha-L-fucosyltran 26.9 2.6E+02 0.0056 20.6 6.1 45 31-77 262-308 (322)
212 TIGR02867 spore_II_P stage II 26.9 81 0.0018 21.3 2.8 21 26-46 35-55 (196)
213 PRK13835 conjugal transfer pro 26.8 68 0.0015 20.8 2.3 22 24-45 68-89 (145)
214 PRK05752 uroporphyrinogen-III 26.7 2.1E+02 0.0046 19.4 5.0 46 29-74 144-192 (255)
215 PRK13762 tRNA-modifying enzyme 26.3 2.5E+02 0.0055 20.2 6.0 35 11-45 131-165 (322)
216 PRK09107 acetolactate synthase 26.3 1.9E+02 0.0042 22.5 5.1 36 25-64 12-47 (595)
217 COG0320 LipA Lipoate synthase 26.2 2.6E+02 0.0057 20.3 6.4 59 29-87 104-170 (306)
218 PRK01215 competence damage-ind 26.1 1.8E+02 0.004 20.4 4.6 45 25-69 23-68 (264)
219 COG0514 RecQ Superfamily II DN 26.1 1.9E+02 0.0041 23.1 5.0 54 32-86 75-128 (590)
220 PRK08811 uroporphyrinogen-III 26.1 1.9E+02 0.0042 20.1 4.7 50 25-76 28-81 (266)
221 PF04672 Methyltransf_19: S-ad 26.0 2.5E+02 0.0054 20.0 5.5 46 24-70 53-101 (267)
222 cd05014 SIS_Kpsf KpsF-like pro 25.9 1.3E+02 0.0028 17.7 3.4 28 13-43 52-79 (128)
223 PF00271 Helicase_C: Helicase 25.8 71 0.0015 17.1 2.1 22 29-50 24-46 (78)
224 COG4916 Uncharacterized protei 25.7 1.5E+02 0.0033 21.3 4.1 79 9-90 5-88 (329)
225 PRK05568 flavodoxin; Provision 25.7 1.6E+02 0.0035 17.8 6.7 55 13-77 7-61 (142)
226 cd06358 PBP1_NHase Type I peri 25.6 2.4E+02 0.0051 19.6 7.5 54 12-65 134-187 (333)
227 TIGR00434 cysH phosophoadenyly 25.5 1.4E+02 0.003 19.8 3.8 29 12-43 15-44 (212)
228 cd04882 ACT_Bt0572_2 C-termina 25.3 65 0.0014 16.5 1.8 16 27-42 50-65 (65)
229 PF03068 PAD: Protein-arginine 25.1 65 0.0014 24.2 2.3 36 6-43 24-59 (385)
230 PRK13862 putative crown gall t 25.1 1.2E+02 0.0025 20.4 3.2 29 4-35 75-103 (201)
231 COG0132 BioD Dethiobiotin synt 25.1 1.8E+02 0.0039 20.1 4.3 39 12-50 4-43 (223)
232 PF00107 ADH_zinc_N: Zinc-bind 25.1 1.5E+02 0.0033 17.3 4.3 54 11-70 35-88 (130)
233 COG1010 CobJ Precorrin-3B meth 25.0 2.6E+02 0.0055 19.8 5.4 38 55-92 146-183 (249)
234 PF00319 SRF-TF: SRF-type tran 24.9 60 0.0013 17.0 1.5 15 60-74 29-43 (51)
235 TIGR03127 RuMP_HxlB 6-phospho 24.9 1.3E+02 0.0028 19.2 3.5 52 13-75 77-128 (179)
236 PRK06965 acetolactate synthase 24.9 2.5E+02 0.0053 21.8 5.4 36 25-64 22-57 (587)
237 PRK09189 uroporphyrinogen-III 24.9 1.7E+02 0.0036 19.6 4.1 46 29-74 132-180 (240)
238 COG0529 CysC Adenylylsulfate k 24.8 81 0.0017 21.5 2.4 21 25-45 38-58 (197)
239 PRK13937 phosphoheptose isomer 24.8 1.4E+02 0.0031 19.5 3.7 51 13-74 111-161 (188)
240 PRK10646 ADP-binding protein; 24.6 97 0.0021 20.0 2.8 58 14-76 6-64 (153)
241 PRK09271 flavodoxin; Provision 24.6 1.9E+02 0.0041 18.2 5.4 29 13-43 6-34 (160)
242 cd02067 B12-binding B12 bindin 24.2 1.6E+02 0.0035 17.3 5.9 41 29-74 18-59 (119)
243 PRK11263 cardiolipin synthase 24.2 87 0.0019 23.4 2.8 38 25-62 18-59 (411)
244 PF09314 DUF1972: Domain of un 24.2 92 0.002 20.8 2.7 20 24-43 20-39 (185)
245 PRK07119 2-ketoisovalerate fer 24.1 2.9E+02 0.0063 20.2 6.3 67 13-89 250-319 (352)
246 cd05006 SIS_GmhA Phosphoheptos 24.1 1.4E+02 0.0031 19.0 3.5 60 13-87 106-165 (177)
247 cd06547 GH85_ENGase Endo-beta- 24.0 2E+02 0.0044 21.0 4.6 61 13-75 176-244 (339)
248 PRK11784 tRNA 2-selenouridine 24.0 2.9E+02 0.0064 20.2 5.6 51 23-73 192-246 (345)
249 PF05636 HIGH_NTase1: HIGH Nuc 24.0 1.3E+02 0.0029 22.4 3.7 28 60-87 26-60 (388)
250 cd04908 ACT_Bt0572_1 N-termina 24.0 76 0.0017 16.7 1.9 15 29-43 52-66 (66)
251 PF13401 AAA_22: AAA domain; P 23.9 1.6E+02 0.0035 17.1 4.0 12 55-66 77-88 (131)
252 PRK00414 gmhA phosphoheptose i 23.9 1.5E+02 0.0033 19.5 3.7 51 13-74 116-166 (192)
253 PF00465 Fe-ADH: Iron-containi 23.8 2.8E+02 0.0062 19.9 5.8 46 25-70 36-85 (366)
254 PF13899 Thioredoxin_7: Thiore 23.8 1.4E+02 0.003 16.4 3.2 21 52-72 5-25 (82)
255 TIGR02821 fghA_ester_D S-formy 23.8 2.5E+02 0.0053 19.2 5.2 34 11-44 212-248 (275)
256 TIGR03566 FMN_reduc_MsuE FMN r 23.8 1.4E+02 0.003 19.1 3.4 23 55-78 60-82 (174)
257 PF13091 PLDc_2: PLD-like doma 23.7 1.6E+02 0.0035 17.1 4.0 57 31-88 2-63 (126)
258 PLN02972 Histidyl-tRNA synthet 23.6 2.8E+02 0.0061 22.9 5.6 59 9-72 667-725 (763)
259 cd06327 PBP1_SBP_like_1 Peripl 23.5 2.6E+02 0.0056 19.4 7.0 36 24-59 149-185 (334)
260 PRK06276 acetolactate synthase 23.4 2.4E+02 0.0053 21.8 5.2 35 27-65 4-38 (586)
261 PRK11633 cell division protein 23.3 93 0.002 21.5 2.6 26 16-45 156-181 (226)
262 PRK14155 heat shock protein Gr 23.2 1.3E+02 0.0027 20.6 3.2 47 28-77 104-157 (208)
263 cd08190 HOT Hydroxyacid-oxoaci 23.2 3.2E+02 0.0069 20.3 5.6 59 12-70 25-87 (414)
264 TIGR00853 pts-lac PTS system, 23.2 1.5E+02 0.0032 17.3 3.2 42 25-75 18-60 (95)
265 COG0303 MoeA Molybdopterin bio 23.2 1.4E+02 0.003 22.5 3.7 42 10-54 242-285 (404)
266 PF06135 DUF965: Bacterial pro 22.8 74 0.0016 18.5 1.7 18 25-42 19-36 (79)
267 TIGR00176 mobB molybdopterin-g 22.7 1.2E+02 0.0027 19.2 3.0 31 14-45 4-34 (155)
268 PRK15182 Vi polysaccharide bio 22.7 2.3E+02 0.005 21.2 4.8 31 15-45 322-354 (425)
269 smart00490 HELICc helicase sup 22.6 1.3E+02 0.0028 15.6 4.2 8 80-87 66-73 (82)
270 COG4635 HemG Flavodoxin [Energ 22.6 1.4E+02 0.003 20.0 3.1 33 13-45 3-36 (175)
271 PRK02947 hypothetical protein; 22.6 1.5E+02 0.0032 20.4 3.5 33 10-45 106-140 (246)
272 PF07282 OrfB_Zn_ribbon: Putat 22.5 1.4E+02 0.003 15.9 3.0 27 54-81 5-31 (69)
273 COG4567 Response regulator con 22.4 99 0.0022 20.6 2.5 20 24-43 19-38 (182)
274 cd04893 ACT_GcvR_1 ACT domains 22.2 1.2E+02 0.0026 16.7 2.6 30 13-43 2-31 (77)
275 PLN02470 acetolactate synthase 22.2 3.1E+02 0.0068 21.2 5.6 36 25-64 14-49 (585)
276 COG1540 Uncharacterized protei 22.2 83 0.0018 22.2 2.2 19 24-42 231-249 (252)
277 PF00072 Response_reg: Respons 22.2 1.6E+02 0.0034 16.4 4.7 41 32-74 37-80 (112)
278 TIGR02469 CbiT precorrin-6Y C5 22.2 1.7E+02 0.0036 16.8 3.4 31 9-39 87-117 (124)
279 TIGR00334 5S_RNA_mat_M5 ribonu 22.2 2.3E+02 0.0049 18.9 4.2 43 24-67 35-77 (174)
280 PF13727 CoA_binding_3: CoA-bi 22.0 2E+02 0.0043 17.6 3.9 40 29-69 132-172 (175)
281 PF10105 DUF2344: Uncharacteri 21.9 1.8E+02 0.0038 19.3 3.7 41 25-65 19-61 (187)
282 PF00128 Alpha-amylase: Alpha 21.9 92 0.002 21.0 2.4 19 27-45 54-72 (316)
283 PF02142 MGS: MGS-like domain 21.8 1.7E+02 0.0037 16.7 3.3 45 32-76 24-71 (95)
284 PF03807 F420_oxidored: NADP o 21.8 1.3E+02 0.0029 16.7 2.8 52 9-77 24-75 (96)
285 COG1658 Small primase-like pro 21.8 2.2E+02 0.0048 17.9 4.8 54 11-65 30-83 (127)
286 PRK07710 acetolactate synthase 21.7 2.6E+02 0.0057 21.5 5.0 38 25-66 17-54 (571)
287 TIGR00200 cinA_nterm competenc 21.6 2.1E+02 0.0045 21.6 4.3 45 25-69 20-65 (413)
288 PRK14151 heat shock protein Gr 21.6 2.2E+02 0.0048 18.8 4.1 45 28-76 109-160 (176)
289 PRK14139 heat shock protein Gr 21.5 1.7E+02 0.0037 19.6 3.5 46 28-77 118-169 (185)
290 PRK06048 acetolactate synthase 21.4 3E+02 0.0065 21.2 5.3 38 25-66 9-46 (561)
291 PRK06725 acetolactate synthase 21.4 2.7E+02 0.0058 21.6 5.0 37 25-65 16-52 (570)
292 TIGR01093 aroD 3-dehydroquinat 21.4 2.7E+02 0.0058 18.7 5.0 49 42-91 95-143 (228)
293 PRK10076 pyruvate formate lyas 21.4 2.7E+02 0.0059 18.8 6.4 33 13-45 42-74 (213)
294 PRK08099 bifunctional DNA-bind 21.3 1.6E+02 0.0034 22.0 3.6 37 22-62 352-388 (399)
295 PRK09004 FMN-binding protein M 21.2 2.2E+02 0.0049 17.8 5.2 21 24-44 16-36 (146)
296 PRK04537 ATP-dependent RNA hel 21.2 2E+02 0.0043 22.5 4.3 47 25-73 268-315 (572)
297 KOG4764 Uncharacterized conser 21.1 82 0.0018 17.8 1.6 17 24-40 52-68 (70)
298 COG3439 Uncharacterized conser 21.1 2.3E+02 0.0051 18.0 5.4 21 25-45 23-43 (137)
299 TIGR00597 rad10 DNA repair pro 21.1 2.2E+02 0.0047 17.6 6.5 72 11-90 39-112 (112)
300 PF03603 DNA_III_psi: DNA poly 21.0 2E+02 0.0044 17.9 3.7 52 32-88 7-60 (128)
301 PF01990 ATP-synt_F: ATP synth 21.0 1.7E+02 0.0038 16.8 3.2 37 25-63 29-66 (95)
302 PF10649 DUF2478: Protein of u 20.9 1.8E+02 0.0038 19.0 3.4 29 14-42 3-31 (159)
303 PRK05473 hypothetical protein; 20.8 84 0.0018 18.5 1.7 18 25-42 22-39 (86)
304 PRK08978 acetolactate synthase 20.8 3.2E+02 0.007 20.9 5.4 35 27-65 4-38 (548)
305 PHA02518 ParA-like protein; Pr 20.8 2.4E+02 0.0052 18.0 5.9 29 46-76 83-111 (211)
306 CHL00175 minD septum-site dete 20.8 2.9E+02 0.0063 18.9 5.6 45 29-76 117-161 (281)
307 PF00326 Peptidase_S9: Prolyl 20.7 1.9E+02 0.0041 18.6 3.7 36 9-44 143-180 (213)
308 PRK09428 pssA phosphatidylseri 20.7 3.4E+02 0.0074 20.7 5.4 40 51-90 250-289 (451)
309 cd04870 ACT_PSP_1 CT domains f 20.7 1.4E+02 0.003 16.2 2.6 27 15-42 2-28 (75)
310 PF06747 CHCH: CHCH domain; I 20.6 52 0.0011 15.2 0.7 12 81-92 1-12 (35)
311 smart00115 CASc Caspase, inter 20.6 2.9E+02 0.0063 18.8 5.5 47 27-74 32-84 (241)
312 PF03446 NAD_binding_2: NAD bi 20.5 1E+02 0.0022 19.5 2.3 45 29-73 15-67 (163)
313 PRK03094 hypothetical protein; 20.5 91 0.002 18.1 1.8 15 28-42 11-25 (80)
314 PF11071 DUF2872: Protein of u 20.5 1E+02 0.0022 19.8 2.2 21 57-77 66-86 (141)
315 cd07371 2A5CPDO_AB The alpha a 20.5 3.1E+02 0.0067 19.1 6.4 64 24-89 87-155 (268)
316 PRK12452 cardiolipin synthetas 20.4 2.4E+02 0.0052 21.7 4.6 36 52-87 344-379 (509)
317 COG1855 ATPase (PilT family) [ 20.4 1.8E+02 0.004 22.9 3.9 53 24-76 277-334 (604)
318 cd02953 DsbDgamma DsbD gamma f 20.4 1.5E+02 0.0032 16.8 2.8 17 56-72 3-19 (104)
319 PF03479 DUF296: Domain of unk 20.3 55 0.0012 19.9 0.9 21 46-66 7-27 (120)
320 cd07039 TPP_PYR_POX Pyrimidine 20.2 2.5E+02 0.0054 17.9 5.1 33 27-63 3-35 (164)
321 PRK00090 bioD dithiobiotin syn 20.1 2.1E+02 0.0046 18.7 3.9 33 13-45 2-35 (222)
322 PRK07525 sulfoacetaldehyde ace 20.1 2.7E+02 0.0058 21.6 4.8 38 25-66 7-44 (588)
323 PRK13936 phosphoheptose isomer 20.0 1.8E+02 0.0039 19.2 3.5 58 10-75 111-170 (197)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=1e-32 Score=182.12 Aligned_cols=91 Identities=36% Similarity=0.661 Sum_probs=87.3
Q ss_pred CCCCCCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHH
Q 037311 3 SFSRNNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWC 81 (93)
Q Consensus 3 ~s~~~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc 81 (93)
+|++..++|||||||+++|+|++|+.+|+.+|+++||++|+|+ ++++|+.+.+.|.++|++|++.|+|+||+|+.|+||
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 3678899999999999999999999999999999999999999 999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcC
Q 037311 82 LDEFAEILECKK 93 (93)
Q Consensus 82 ~~El~~~~~~~~ 93 (93)
++||+.+++|.+
T Consensus 99 LdEL~~I~e~~~ 110 (187)
T PLN03194 99 LHELALIMESKK 110 (187)
T ss_pred HHHHHHHHHcCC
Confidence 999999999853
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.94 E-value=3.4e-27 Score=188.16 Aligned_cols=93 Identities=47% Similarity=0.811 Sum_probs=88.7
Q ss_pred CCC--CCCCCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 1 MAS--FSRNNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 1 m~~--s~~~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
||+ |++..++|||||||+++|+|+.|++||+.+|.++||++|.|++++.|+.+..++.+||++|++.|+|+|++|+.|
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 565 567899999999999999999999999999999999999988999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcC
Q 037311 79 RWCLDEFAEILECKK 93 (93)
Q Consensus 79 ~wc~~El~~~~~~~~ 93 (93)
.||++||+++++|++
T Consensus 81 ~wcl~el~~i~~~~~ 95 (1153)
T PLN03210 81 SWCLNELLEIVRCKE 95 (1153)
T ss_pred hHHHHHHHHHHHhhh
Confidence 999999999999974
No 3
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.87 E-value=3.7e-23 Score=131.44 Aligned_cols=80 Identities=35% Similarity=0.652 Sum_probs=73.1
Q ss_pred EEEecccCcCChhHHHHHHHHHhcC--CceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHH
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQ--NIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEIL 89 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~--gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~ 89 (93)
|||||++.+.++.|+.+|..+|+++ |+++|+++ |+.+|..+.++|.++|++|+++|+|+|++|+.|+||+.|+..|+
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 8999999433468999999999999 99999999 99999999999999999999999999999999999999999999
Q ss_pred hhc
Q 037311 90 ECK 92 (93)
Q Consensus 90 ~~~ 92 (93)
++.
T Consensus 81 ~~~ 83 (141)
T PF01582_consen 81 ERL 83 (141)
T ss_dssp HHH
T ss_pred hhc
Confidence 874
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.86 E-value=1.9e-21 Score=122.34 Aligned_cols=81 Identities=42% Similarity=0.795 Sum_probs=69.8
Q ss_pred cccEEEeccc-CcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHH
Q 037311 10 KYDVFVSFRG-EDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEI 88 (93)
Q Consensus 10 ~ydVFISy~~-~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~ 88 (93)
.|||||||++ ++..+.|+.+|...|...|+.+|.|+....|..+. +|.++|++|+++|+|+||+|+.|+||..|+..+
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 5899999999 34457899999999999999999997333333333 999999999999999999999999999999999
Q ss_pred Hhh
Q 037311 89 LEC 91 (93)
Q Consensus 89 ~~~ 91 (93)
+++
T Consensus 80 ~~~ 82 (140)
T smart00255 80 LEN 82 (140)
T ss_pred HHH
Confidence 875
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.82 E-value=1.1e-21 Score=118.23 Aligned_cols=77 Identities=29% Similarity=0.576 Sum_probs=67.9
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhh
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILEC 91 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~ 91 (93)
|||||+++|. .++..|...|++.|+++|+|.++.+|+.+.+.|.++|++|+.+|+++||+|+.|+||..|+..|.+.
T Consensus 1 VFIS~~~~D~--~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~~ 77 (102)
T PF13676_consen 1 VFISYSSEDR--EFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWKR 77 (102)
T ss_dssp EEEEEEGGGC--CCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHCT
T ss_pred eEEEecCCcH--HHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHHC
Confidence 8999999994 6999999999999999999999999999999999999999999999999999999999999998653
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=99.26 E-value=2.2e-11 Score=90.82 Aligned_cols=85 Identities=26% Similarity=0.445 Sum_probs=73.9
Q ss_pred CCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCC--------
Q 037311 7 NNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYAS-------- 77 (93)
Q Consensus 7 ~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~-------- 77 (93)
-.++.||||||++.- ...+++-|+-.|.-+|++||+|. .+..|. +.+.+.+.|..++.+|+|+||+.+.
T Consensus 609 ~skq~DVFISYRRst-GnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nC 686 (832)
T KOG3678|consen 609 LSKQIDVFISYRRST-GNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNC 686 (832)
T ss_pred ccCCcceEEEeeccc-cHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccH
Confidence 457899999998864 36788888889999999999999 888884 6678999999999999999999763
Q ss_pred cHHHHHHHHHHHhhcC
Q 037311 78 SRWCLDEFAEILECKK 93 (93)
Q Consensus 78 S~wc~~El~~~~~~~~ 93 (93)
-+|...||..+++|+|
T Consensus 687 eDWVHKEl~~Afe~~K 702 (832)
T KOG3678|consen 687 EDWVHKELKCAFEHQK 702 (832)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 4788999999999986
No 7
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=99.08 E-value=4e-10 Score=70.83 Aligned_cols=81 Identities=21% Similarity=0.340 Sum_probs=43.7
Q ss_pred ccEEEecccCcCChhHHHHHHHHHhcC-------CceE----------Eeec-cCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALARQ-------NIQT----------FIDD-QLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~~~-------gi~v----------~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
|+|||||.+.|.. ..+..|...+... .+.. ..+. +....+.|...|.+.|+.|+++|++++
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5799999998842 3667777766652 2211 1122 223345789999999999999999999
Q ss_pred CCCCCcHHHHHHHHHHHhhc
Q 037311 73 EDYASSRWCLDEFAEILECK 92 (93)
Q Consensus 73 ~~y~~S~wc~~El~~~~~~~ 92 (93)
++-..|+|+..|+..+++..
T Consensus 80 ~~T~~s~wV~~EI~~A~~~~ 99 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALKKG 99 (130)
T ss_dssp TT----HHHHHHHHHHTTT-
T ss_pred CCcccCcHHHHHHHHHHHCC
Confidence 99999999999999998743
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=98.76 E-value=2.8e-08 Score=63.38 Aligned_cols=64 Identities=20% Similarity=0.378 Sum_probs=55.0
Q ss_pred cEEEecccCcC-ChhHHHHHHHHHhcC-CceEEeec-cCCC--CcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 12 DVFVSFRGEDI-RDNFTSHLYSALARQ-NIQTFIDD-QLNR--GDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 12 dVFISy~~~D~-~~~~~~~L~~~L~~~-gi~v~~d~-~~~~--G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
-|||||++... ....|..|.+.|++. |+.|.+|. +... +..+..-+.+.+++++.+|+|+||.+
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 49999999543 246789999999999 99999999 7744 77888899999999999999999765
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=97.92 E-value=8.6e-05 Score=46.72 Aligned_cols=76 Identities=20% Similarity=0.271 Sum_probs=59.2
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCC-------------CCC
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSED-------------YAS 77 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~-------------y~~ 77 (93)
.|||.|+ +| ...+..+...|+..|+.+..=. ....|..+.+.+.+.+.+++..|+++||+ ...
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 4899998 44 2578889889998888766555 66999999999999999999999999985 223
Q ss_pred cHHHHHHHHHHHh
Q 037311 78 SRWCLDEFAEILE 90 (93)
Q Consensus 78 S~wc~~El~~~~~ 90 (93)
.+....|+..++.
T Consensus 78 R~NVifE~G~f~g 90 (125)
T PF10137_consen 78 RQNVIFELGLFIG 90 (125)
T ss_pred ccceeehhhHHHh
Confidence 3455667666553
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=96.33 E-value=0.041 Score=31.84 Aligned_cols=65 Identities=20% Similarity=0.261 Sum_probs=47.6
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccC-CCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQL-NRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~-~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
.||||=.-.|.. .--..|.+.+.+.|.....-+.+ ..+....+.+.+.|++|++.|.++-..|-.
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~ 66 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGS 66 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCC
Confidence 389998877752 44467777777777765554422 235666778999999999999999988853
No 11
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=95.73 E-value=0.16 Score=30.70 Aligned_cols=68 Identities=15% Similarity=0.105 Sum_probs=49.1
Q ss_pred hhHHHHHHHHHhcCCceEEeec--cCC---CC----cchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhhc
Q 037311 24 DNFTSHLYSALARQNIQTFIDD--QLN---RG----DEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILECK 92 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~--~~~---~G----~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~~ 92 (93)
..+...+.+.|++.|+.++... +.. .+ ..+.+.-.++|++|+++|+++++.- .++=+..|+..|....
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l~~~~-~d~Gt~~ElG~A~alg 89 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANLDGFR-PDSGTAFELGYAYALG 89 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEECSSS---HHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEECCCCC-CCCcHHHHHHHHHHCC
Confidence 4678899999999999888765 221 12 2344455668999999999998755 6677888898886543
No 12
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=93.93 E-value=0.44 Score=32.56 Aligned_cols=60 Identities=23% Similarity=0.315 Sum_probs=46.6
Q ss_pred cEEEecccCcCChhHHHHHHHHHh-cCCc-eEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALA-RQNI-QTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~-~~gi-~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
.|||-|++. ..+.....+|+ +-.. .+|.|.-+..|..+.+.+.+.+.+++..|++.+|+=
T Consensus 84 kvFvv~ghd----~iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~latPDD 145 (233)
T COG4271 84 KVFVVSGHD----AIARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLATPDD 145 (233)
T ss_pred eEEEEeccH----HHHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEecCcc
Confidence 899999774 35555555555 4344 466665778899999999999999999999999983
No 13
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=93.39 E-value=0.08 Score=37.45 Aligned_cols=81 Identities=20% Similarity=0.237 Sum_probs=58.5
Q ss_pred CCCCcccEEEecccCcCChhHHHHHHHHHhc--CCceEEeec----cCCCCcchHHHHHHHHH-hCCEEEEEEcCCCCCc
Q 037311 6 RNNKKYDVFVSFRGEDIRDNFTSHLYSALAR--QNIQTFIDD----QLNRGDEISESLVKAIK-ASAISVIIFSEDYASS 78 (93)
Q Consensus 6 ~~~~~ydVFISy~~~D~~~~~~~~L~~~L~~--~gi~v~~d~----~~~~G~~~~~~i~~~i~-~s~~~i~v~S~~y~~S 78 (93)
...+.||+=+||.++- +.+|+.....++. ..+..|.|- .+.+| ++.+.+...-+ .|+..++....+|..-
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~-sL~~~L~~~Y~~rC~~~~VF~~~~Y~~K 249 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPG-SLVSTLDPGYDIRCVVTTVFNTGSYICK 249 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCc-cHHHhcccccCceEEEEEEEeCCceEEe
Confidence 4568899999999975 3699888888884 456677774 33344 34434444433 4778888889999999
Q ss_pred HHHHHHHHHHH
Q 037311 79 RWCLDEFAEIL 89 (93)
Q Consensus 79 ~wc~~El~~~~ 89 (93)
.||.-|...+-
T Consensus 250 ~~c~~E~~~~r 260 (329)
T COG4916 250 STCHIEGLEGR 260 (329)
T ss_pred eeeccchhhcc
Confidence 99999876653
No 14
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=92.43 E-value=1.1 Score=25.38 Aligned_cols=60 Identities=10% Similarity=0.180 Sum_probs=38.3
Q ss_pred ccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
++|+|.....+. ...+..+...|++.|+++-+|. . +..+...+..+-+.--..++++.++
T Consensus 2 ~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~--~-~~~~~~~~~~a~~~g~~~~iiig~~ 61 (91)
T cd00860 2 VQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDL--R-NEKLGKKIREAQLQKIPYILVVGDK 61 (91)
T ss_pred eEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEEC--C-CCCHHHHHHHHHHcCCCEEEEECcc
Confidence 677776655433 3577789999999999999875 1 2345556666654444445555543
No 15
>COG0400 Predicted esterase [General function prediction only]
Probab=90.38 E-value=1.4 Score=29.93 Aligned_cols=58 Identities=16% Similarity=0.106 Sum_probs=45.4
Q ss_pred CCCCCcccEEEecccCcC--ChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh
Q 037311 5 SRNNKKYDVFVSFRGEDI--RDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA 63 (93)
Q Consensus 5 ~~~~~~ydVFISy~~~D~--~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~ 63 (93)
.++.....|||+|...|. ....+.+|.+.|+..|..|.... .+.|-.+..+-.+.+++
T Consensus 141 ~~~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~-~~~GH~i~~e~~~~~~~ 200 (207)
T COG0400 141 LPDLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW-HEGGHEIPPEELEAARS 200 (207)
T ss_pred ccccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE-ecCCCcCCHHHHHHHHH
Confidence 456788999999999987 35677899999999999999885 33777777666655543
No 16
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=88.51 E-value=3 Score=23.54 Aligned_cols=61 Identities=21% Similarity=0.295 Sum_probs=39.0
Q ss_pred ccEEEecccC---cCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 11 YDVFVSFRGE---DIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 11 ydVFISy~~~---D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
++|+|-.... .. ...+..+...|++.|+++-++. .+..+...+..+-+.--..++++.++-
T Consensus 2 ~~v~ii~~~~~~~~~-~~~a~~~~~~Lr~~g~~v~~~~---~~~~~~k~~~~a~~~g~~~~iiig~~e 65 (94)
T cd00738 2 IDVAIVPLTDPRVEA-REYAQKLLNALLANGIRVLYDD---RERKIGKKFREADLRGVPFAVVVGEDE 65 (94)
T ss_pred eEEEEEECCCCcHHH-HHHHHHHHHHHHHCCCEEEecC---CCcCHhHHHHHHHhCCCCEEEEECCCh
Confidence 5666665443 22 3577788899999999998875 234555566666554445666666543
No 17
>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=86.99 E-value=1 Score=26.97 Aligned_cols=53 Identities=21% Similarity=0.323 Sum_probs=34.0
Q ss_pred CcCChhHHHHHHHHHhcCCceEEeec-cCCCC----------cchHHHHHHHHHhCCEEEEEEc
Q 037311 20 EDIRDNFTSHLYSALARQNIQTFIDD-QLNRG----------DEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 20 ~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G----------~~~~~~i~~~i~~s~~~i~v~S 72 (93)
.|.|++-+..|.+.|.++|+.|...+ -+... -.+.+++.++++.++++|+...
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl~t~ 75 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVLATD 75 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEESS-
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEEEec
Confidence 57788888999999999999998876 33221 2223356788888888776655
No 18
>PF14359 DUF4406: Domain of unknown function (DUF4406)
Probab=86.66 E-value=4.8 Score=23.80 Aligned_cols=65 Identities=11% Similarity=0.064 Sum_probs=45.2
Q ss_pred hhHHHHHHHHHhcCCceEEeecc--CCCCcchHHHHHH---HHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhh
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQ--LNRGDEISESLVK---AIKASAISVIIFSEDYASSRWCLDEFAEILEC 91 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~--~~~G~~~~~~i~~---~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~ 91 (93)
..|. .....|++.|+.|.--.. ...|..+.+-+.. .+.+|+.++++ |++-.|.=|.-|...|...
T Consensus 16 ~~f~-~~a~~L~~~G~~vvnPa~~~~~~~~~~~~ym~~~l~~L~~cD~i~~l--~gWe~S~GA~~E~~~A~~l 85 (92)
T PF14359_consen 16 PAFN-AAAKRLRAKGYEVVNPAELGIPEGLSWEEYMRICLAMLSDCDAIYML--PGWENSRGARLEHELAKKL 85 (92)
T ss_pred HHHH-HHHHHHHHCCCEEeCchhhCCCCCCCHHHHHHHHHHHHHhCCEEEEc--CCcccCcchHHHHHHHHHC
Confidence 3443 466788899977664333 4677766654444 45577766554 9999999999999988754
No 19
>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=85.99 E-value=3.4 Score=23.65 Aligned_cols=46 Identities=20% Similarity=0.272 Sum_probs=30.9
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
..++.+|...|++.||++.+|. .+..+...+.++-..---+++++.
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~---~~~~~~k~~~~a~~~g~p~~iiiG 60 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDD---SDKSLGKQIKYADKLGIPFIIIIG 60 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEES---SSSTHHHHHHHHHHTTESEEEEEE
T ss_pred HHHHHHHHHHHHHCCCEEEEEC---CCCchhHHHHHHhhcCCeEEEEEC
Confidence 3678999999999999999986 334444566666544333444443
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=85.94 E-value=4.7 Score=24.53 Aligned_cols=62 Identities=13% Similarity=0.044 Sum_probs=41.6
Q ss_pred CcccEEEecccC-cCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 9 KKYDVFVSFRGE-DIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 9 ~~ydVFISy~~~-D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
..+||+|-..++ +.....+..|...|++.|+++-+|. . ..+...+..+-+.--..++++.++
T Consensus 25 ap~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~--~--~sl~kqlk~A~k~g~~~~iiiG~~ 87 (121)
T cd00858 25 APIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDD--S--GSIGRRYARQDEIGTPFCVTVDFD 87 (121)
T ss_pred CCcEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeC--C--CCHHHHHHHhHhcCCCEEEEECcC
Confidence 457888877652 1123566788999999999999874 2 466666766655555566666655
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=83.08 E-value=6.9 Score=22.63 Aligned_cols=61 Identities=16% Similarity=0.124 Sum_probs=41.9
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec-c---------CCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-Q---------LNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~---------~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
+|.|..+--.+-.++.+|...|.++|.++.+-+ | ..|+. .......+..|+.+|+++.+..
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~--~~~~~~~l~~ad~viv~~~~~~ 73 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSL--GLLTRNALAAADLVLIPVQPSP 73 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCC--CHHHHHHHHHCCEEEEeccCCH
Confidence 355655543334567888888988898877754 3 33432 3445588999999999998874
No 22
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=83.03 E-value=2 Score=26.84 Aligned_cols=31 Identities=6% Similarity=0.110 Sum_probs=24.5
Q ss_pred hhHHHHHHHHHhcCCceEEeec-cC---CCCcchH
Q 037311 24 DNFTSHLYSALARQNIQTFIDD-QL---NRGDEIS 54 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~-~~---~~G~~~~ 54 (93)
...+..|++.|++.|+++..|+ +- .+|..+.
T Consensus 43 ~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~~ 77 (128)
T cd02426 43 RDLCQGLKNELREAGLSVWPGYLETQHSSLEQLLD 77 (128)
T ss_pred HHHHHHHHHHHHHcCCEEEeccCcccccCHHHHHH
Confidence 4678899999999999999988 43 5665554
No 23
>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=75.35 E-value=18 Score=27.76 Aligned_cols=63 Identities=16% Similarity=0.239 Sum_probs=43.3
Q ss_pred CCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 8 NKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 8 ~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
....+|+|-.-.++. ...+..|...|++.|++|-+|. .+..+...+..|-+.--..++++.++
T Consensus 468 ~~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~---~~~sl~~q~k~A~~~g~~~~iiiG~~ 530 (563)
T TIGR00418 468 LAPVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDD---RNERLGKKIREAQKQKIPYMLVVGDK 530 (563)
T ss_pred CCCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEEC---CCCCHHHHHHHHHhcCCCEEEEEchh
Confidence 356788877655443 4678899999999999999985 23456666777755544455555544
No 24
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=74.94 E-value=7.9 Score=28.59 Aligned_cols=56 Identities=5% Similarity=0.217 Sum_probs=42.2
Q ss_pred Eeccc--CcCChhHHHHHHHHHhcCCceEEeec-cCCC----CcchHHHHHHHHHhCCEEEEE
Q 037311 15 VSFRG--EDIRDNFTSHLYSALARQNIQTFIDD-QLNR----GDEISESLVKAIKASAISVII 70 (93)
Q Consensus 15 ISy~~--~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~----G~~~~~~i~~~i~~s~~~i~v 70 (93)
++|.. .|.|++=+..|.+.|.++|..|...+ -+.. |-.+.+++.++++.++.+|+.
T Consensus 304 lafK~~t~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 366 (388)
T PRK15057 304 LIMKSGSDNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIISN 366 (388)
T ss_pred ceeCCCCCccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEEc
Confidence 35654 47788888899999999999988876 4332 345667888899999987664
No 25
>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=74.31 E-value=13 Score=20.97 Aligned_cols=46 Identities=17% Similarity=0.303 Sum_probs=29.9
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
..+..|...|+..|+++.+|. .-..| ..+..+-..--..++++.++
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~~~~l~----k~i~~a~~~g~~~~iiiG~~ 64 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDRNERPG----VKFADADLIGIPYRIVVGKK 64 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCcc----cchhHHHhcCCCEEEEECCc
Confidence 567889999999999999986 33444 44555544444445555544
No 26
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=72.10 E-value=18 Score=26.93 Aligned_cols=61 Identities=21% Similarity=0.291 Sum_probs=39.9
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
...||+|-+-..+. ...+-.+...|++.|+++-++. .+..+...+..+-+.--..++++.+
T Consensus 324 ~~~~v~v~~~~~~~-~~~a~~ia~~LR~~Gi~veid~---~~~~l~k~~k~A~~~~~~~viiiG~ 384 (430)
T CHL00201 324 QSIDVYIATQGLKA-QKKGWEIIQFLEKQNIKFELDL---SSSNFHKQIKQAGKKRAKACIILGD 384 (430)
T ss_pred CCCCEEEEEcCHHH-HHHHHHHHHHHHhCCCeEEEee---CCCCHHHHHHHHHHcCCCEEEEEec
Confidence 44789998855433 3566788899999999988764 2245666666665544344455543
No 27
>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=71.90 E-value=14 Score=20.17 Aligned_cols=57 Identities=25% Similarity=0.260 Sum_probs=33.0
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
||+|-...... ..-+..+...|+..|+++.++. . +..+...+..+-...-..++++.
T Consensus 3 ~v~i~~~~~~~-~~~a~~i~~~Lr~~g~~v~~~~--~-~~~~~~~~~~a~~~~~~~~i~i~ 59 (91)
T cd00859 3 DVYVVPLGEGA-LSEALELAEQLRDAGIKAEIDY--G-GRKLKKQFKYADRSGARFAVILG 59 (91)
T ss_pred cEEEEEcChHH-HHHHHHHHHHHHHCCCEEEEec--C-CCCHHHHHHHHHHcCCCEEEEEc
Confidence 67666544432 2456688899999999998764 1 12344445554443333444444
No 28
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=70.91 E-value=17 Score=26.63 Aligned_cols=49 Identities=22% Similarity=0.466 Sum_probs=33.3
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
-.||+-|.|..+| |...|.++-- .||.++++ ..|.++.+.....+....
T Consensus 195 lGfD~~idyk~~d----~~~~L~~a~P-~GIDvyfe---NVGg~v~DAv~~~ln~~a 243 (340)
T COG2130 195 LGFDAGIDYKAED----FAQALKEACP-KGIDVYFE---NVGGEVLDAVLPLLNLFA 243 (340)
T ss_pred cCCceeeecCccc----HHHHHHHHCC-CCeEEEEE---cCCchHHHHHHHhhcccc
Confidence 4689999997764 7766655433 79999998 455666666666655433
No 29
>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=70.62 E-value=19 Score=21.03 Aligned_cols=59 Identities=12% Similarity=0.130 Sum_probs=39.4
Q ss_pred HHHHHHHHHhcCCceEEee--c-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHH
Q 037311 26 FTSHLYSALARQNIQTFID--D-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAE 87 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d--~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~ 87 (93)
....+.+.+++.|...-.. + ...+. ...|...+.+++.+|++.+----...|...+..+
T Consensus 11 ~~~~~~~~~~~~G~~~~~hg~~~~~~~~---~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~ak 72 (97)
T PF10087_consen 11 RERRYKRILEKYGGKLIHHGRDGGDEKK---ASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAK 72 (97)
T ss_pred cHHHHHHHHHHcCCEEEEEecCCCCccc---hhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHH
Confidence 4567778888899886666 2 22222 1247888999999999887665566665555443
No 30
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=70.30 E-value=32 Score=23.61 Aligned_cols=53 Identities=19% Similarity=0.260 Sum_probs=21.1
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-CC-EEEEEEcCCCCCcH
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-SA-ISVIIFSEDYASSR 79 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-s~-~~i~v~S~~y~~S~ 79 (93)
.|...|...|++.|+....- ..||+.....-.+.+.+ .. -+.++-||+|+.+.
T Consensus 78 s~~~~L~~~~~~~~~~~~~~--~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~ 132 (224)
T PF04244_consen 78 SFEDALARALKQHGIDRLHV--MEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSR 132 (224)
T ss_dssp SHHHHHHHHHHHH----EEE--E--S-HHHHHHHHH----SSS-EEEE--TTSSS-H
T ss_pred cHHHHHHHHHHHcCCCEEEE--ECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCH
Confidence 56666666666655543332 35665544444444332 22 35566677787754
No 31
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=68.61 E-value=24 Score=26.41 Aligned_cols=60 Identities=22% Similarity=0.249 Sum_probs=39.6
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
.++|+|-.-+++. ...+..|...|++.|+++.+|. .+..+...+..+-+.--..++++.+
T Consensus 274 P~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl---~srSLgKQiK~AdK~GaPfvIIIGe 333 (387)
T PRK14938 274 PIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDD---LDDSLGNKIRRAGTEWIPFVIIIGE 333 (387)
T ss_pred cceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECc
Confidence 4577666555443 3577889999999999999975 2345666777766544444455443
No 32
>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=68.53 E-value=9.8 Score=22.88 Aligned_cols=60 Identities=10% Similarity=0.149 Sum_probs=35.6
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEee--------c-cC-------CC--CcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFID--------D-QL-------NR--GDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d--------~-~~-------~~--G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
||||.+..|. ..+ ..+...|.+.|++++-- + .+ .. |..-..++.+.|++-.+-++|-.|+
T Consensus 3 vlisv~~~dk-~~~-~~~a~~l~~~G~~i~aT~gTa~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~ 80 (116)
T cd01423 3 ILISIGSYSK-PEL-LPTAQKLSKLGYKLYATEGTADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPS 80 (116)
T ss_pred EEEecCcccc-hhH-HHHHHHHHHCCCEEEEccHHHHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCC
Confidence 7999988764 234 46667788888887542 1 11 00 1111156778888766666665554
No 33
>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=67.99 E-value=15 Score=26.99 Aligned_cols=58 Identities=17% Similarity=0.306 Sum_probs=40.5
Q ss_pred Eeccc--CcCChhHHHHHHHHHhcCCceEEeec-cCCCCcc----hHHHHHHHHHhCCEEEEEEc
Q 037311 15 VSFRG--EDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDE----ISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 15 ISy~~--~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~----~~~~i~~~i~~s~~~i~v~S 72 (93)
++|.. .|.|++=+..|.+.|.++|..|...+ -...... ..+.+.+++++++.+|+...
T Consensus 321 lafK~~t~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~~t~ 385 (411)
T TIGR03026 321 LAFKPNTDDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVILTD 385 (411)
T ss_pred eEecCCCCccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEEecC
Confidence 45655 47788888899999999999998887 4332211 11356678888888776654
No 34
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=67.06 E-value=16 Score=25.80 Aligned_cols=40 Identities=20% Similarity=0.253 Sum_probs=27.4
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCc---chHHHHHHHHHhCCEEE
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGD---EISESLVKAIKASAISV 68 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~---~~~~~i~~~i~~s~~~i 68 (93)
+.+|.+.|...|+.+.... -.|| .|.+.+..+.++++.+|
T Consensus 23 a~~la~~L~~~G~~v~~~~--~VgD~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 23 AAFLADELTELGVDLARIT--TVGDNPDRIVEALREASERADVVI 65 (255)
T ss_pred HHHHHHHHHhcCceEEEEE--ecCCCHHHHHHHHHHHHhCCCEEE
Confidence 5678899999999988764 3344 35556666666655544
No 35
>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=66.33 E-value=28 Score=21.47 Aligned_cols=54 Identities=13% Similarity=0.086 Sum_probs=35.2
Q ss_pred hhHHHHHHHHHhcCCceEEeec--cC-CC-----------CcchHHHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 24 DNFTSHLYSALARQNIQTFIDD--QL-NR-----------GDEISESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~--~~-~~-----------G~~~~~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
..+++.+.+.|++.|+.+-+=+ +. .| -.+-.+.+.+.+.+++.+| +.||.|..+
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~iI-~~sP~y~~~ 84 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEADGII-FASPVYNGS 84 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSSEEE-EEEEEBTTB
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCCeEE-EeecEEcCc
Confidence 4677888888888888764433 43 11 1223357788898998654 558887654
No 36
>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=65.45 E-value=20 Score=22.57 Aligned_cols=51 Identities=20% Similarity=0.220 Sum_probs=29.5
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCC-----CcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNR-----GDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~-----G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
.+...+.+.+.+..-.+++-. .+.+ +..+.+.|.++.++--.+-+++.+..
T Consensus 21 ~~~~~i~~~I~~A~~~I~i~~~~~~~~~~~~~~~l~~~L~~a~~rGv~V~il~~~~~ 77 (176)
T cd00138 21 SDLDALLEAISNAKKSIYIASFYLSPLITEYGPVILDALLAAARRGVKVRILVDEWS 77 (176)
T ss_pred hHHHHHHHHHHhhheEEEEEEeEecccccccchHHHHHHHHHHHCCCEEEEEEcccc
Confidence 455566666666555666665 5554 56676777777765333444444333
No 37
>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=65.01 E-value=25 Score=20.78 Aligned_cols=61 Identities=21% Similarity=0.283 Sum_probs=37.1
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeec---------cC-----CCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD---------QL-----NRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~---------~~-----~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
.|++|.+..|. .-...+...|.+.|++++--. .+ .....=..++.+.|++-.+-++|-.|+
T Consensus 2 ~vl~s~~~~~k--~~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~ 76 (110)
T cd01424 2 TVFISVADRDK--PEAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPS 76 (110)
T ss_pred eEEEEEEcCcH--hHHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCC
Confidence 37899987764 233466667777788776421 11 110001157888888888877777664
No 38
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=64.56 E-value=34 Score=26.53 Aligned_cols=64 Identities=17% Similarity=0.253 Sum_probs=40.3
Q ss_pred CCcccEEEeccc-C-cCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 8 NKKYDVFVSFRG-E-DIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 8 ~~~ydVFISy~~-~-D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
--.++|+|---. + +.....+..|+..|++.|+++-+|+ +-.+|..+. .+=..---.++++.++.
T Consensus 466 iaP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~~----~ad~~GiP~~iiiG~~e 532 (565)
T PRK09194 466 IAPFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKFA----DADLIGIPHRIVVGDRG 532 (565)
T ss_pred cCCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHHH----HHHhcCCCEEEEEcCcc
Confidence 345788877543 2 2224678899999999999999998 655665443 33222223455556553
No 39
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=64.28 E-value=39 Score=25.34 Aligned_cols=62 Identities=19% Similarity=0.182 Sum_probs=39.2
Q ss_pred cccEEEeccc--CcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 10 KYDVFVSFRG--EDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 10 ~ydVFISy~~--~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
.++|.|---. .+.....+..|...|++.|++|.+|. +-.+|. .+..+-..---.++|+.++-
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~----ki~~a~~~giP~~iiVG~~e 409 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGA----KFATMDLIGLPWQIIVGPKG 409 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhH----HHHHHHHcCCCEEEEECCcc
Confidence 4688776542 22234678899999999999999997 545554 44444333333555555554
No 40
>PLN02530 histidine-tRNA ligase
Probab=63.81 E-value=33 Score=26.09 Aligned_cols=61 Identities=13% Similarity=0.090 Sum_probs=41.1
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
...||+|-+-.++. ...+..+...|++.|+++-++. .. ..+...+..+-+.--..++++.+
T Consensus 400 ~~~dVlVi~~~~~~-~~~A~~ia~~LR~~Gi~vevd~--~~-~~l~k~ik~A~k~g~~~iviiG~ 460 (487)
T PLN02530 400 HQVDDVVFALDEDL-QGAAAGVASRLREKGRSVDLVL--EP-KKLKWVFKHAERIGAKRLVLVGA 460 (487)
T ss_pred CCCcEEEEEcChHH-HHHHHHHHHHHHHCCCeEEEec--CC-CCHHHHHHHHHHCCCCEEEEEch
Confidence 45689998855443 3567788899999999998764 22 44666677776654445555553
No 41
>COG3613 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]
Probab=63.49 E-value=26 Score=23.36 Aligned_cols=65 Identities=12% Similarity=0.089 Sum_probs=43.0
Q ss_pred hHHHHHHHHHhcCCceEEee------c-cCCC---CcchHHHHHHHHHhCCEEEEEEcCCC-CCcHHHHHHHHHHH
Q 037311 25 NFTSHLYSALARQNIQTFID------D-QLNR---GDEISESLVKAIKASAISVIIFSEDY-ASSRWCLDEFAEIL 89 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d------~-~~~~---G~~~~~~i~~~i~~s~~~i~v~S~~y-~~S~wc~~El~~~~ 89 (93)
...+.|.+.|.+.|+.++.- . +..| +..|.+.-.+.|.+|+++|+++.+-= ...+=...|+..++
T Consensus 20 ~~~d~lkall~~~gf~~~~P~d~~~~~~~~~p~~~a~~i~e~d~~~i~~aD~vla~ld~fr~~~DsGTa~E~GYa~ 95 (172)
T COG3613 20 ELRDELKALLLEAGFEVLSPFDEAEPIAETGPNETAEKIYEADIKLIDQADIVLANLDPFRPDPDSGTAFELGYAI 95 (172)
T ss_pred HHHHHHHHHHHHcCCeeeCcchhccCccccCccHHHHHHHHHHHHHHhhcCEEEEecCCCCCCCCCcchHHHHHHH
Confidence 46678888899999988875 1 2333 23355566677999999999998653 12233455666554
No 42
>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=63.04 E-value=13 Score=20.73 Aligned_cols=34 Identities=9% Similarity=0.218 Sum_probs=20.6
Q ss_pred CCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEE
Q 037311 37 QNIQTFIDDQLNRGDEISESLVKAIKASAISVIIF 71 (93)
Q Consensus 37 ~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~ 71 (93)
+.+-+++|.| .+|..-...+.+.+......+-++
T Consensus 44 ~~vii~~D~D-~aG~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 44 KEVILAFDGD-EAGQKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CeEEEEECCC-HHHHHHHHHHHHHHHHCCCeEEEE
Confidence 5666676654 567666666666666655444443
No 43
>PLN03194 putative disease resistance protein; Provisional
Probab=62.98 E-value=33 Score=23.10 Aligned_cols=56 Identities=9% Similarity=0.179 Sum_probs=42.0
Q ss_pred cCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhh
Q 037311 36 RQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILEC 91 (93)
Q Consensus 36 ~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~ 91 (93)
++.+.||+.- .-.....|...+.+++++..+.+++-......+.--..+|..+++.
T Consensus 24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIee 80 (187)
T PLN03194 24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRN 80 (187)
T ss_pred CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHh
Confidence 4688999986 4444567889999999999988888665666666556677777764
No 44
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=61.14 E-value=53 Score=25.60 Aligned_cols=60 Identities=15% Similarity=0.310 Sum_probs=39.7
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
..+|+|-.-.++. ...+..+...|++.|++|-+|. .+..+...+..+-..--..++|+.+
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~---~~~~lgkkir~A~k~gip~viIIG~ 497 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDY---AGETLSKRIKNAYDQGVPYILIVGK 497 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECh
Confidence 4678777654432 4678899999999999999985 2345556666664443344455544
No 45
>COG1852 Uncharacterized conserved protein [Function unknown]
Probab=60.06 E-value=43 Score=22.90 Aligned_cols=51 Identities=16% Similarity=0.297 Sum_probs=37.9
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhh
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILEC 91 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~ 91 (93)
+.++.+.-++.|+++|+ .||..+...|.+. ...+.++.|. |..||.++|+.
T Consensus 122 i~ei~e~ae~~gykvfI----vpGgs~vkkIlKe-~k~e~vlgVA---------C~~eL~~~m~~ 172 (209)
T COG1852 122 IGEIKEIAEKYGYKVFI----VPGGSFVKKILKE-EKPEAVLGVA---------CYRELNEGMEA 172 (209)
T ss_pred hHHHHHHHHHhCcEEEE----ecChHHHHHHHhh-cCCceEEEEe---------ehHHHHHHHHH
Confidence 34666777888999885 6888888888887 5566666553 88888888764
No 46
>PF11201 DUF2982: Protein of unknown function (DUF2982); InterPro: IPR021367 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=59.24 E-value=12 Score=24.33 Aligned_cols=27 Identities=22% Similarity=0.282 Sum_probs=19.6
Q ss_pred CCcccEEEecccCcCC-hhHHHHHHHHH
Q 037311 8 NKKYDVFVSFRGEDIR-DNFTSHLYSAL 34 (93)
Q Consensus 8 ~~~ydVFISy~~~D~~-~~~~~~L~~~L 34 (93)
...||+|||-+.=|.. ++|+..|.+-+
T Consensus 123 ~lGYdlfi~~~~LDR~~~eFv~Llr~~~ 150 (152)
T PF11201_consen 123 LLGYDLFIPASDLDRDPEEFVGLLRRYQ 150 (152)
T ss_pred hcCceEEeEhhhccCCHHHHHHHHHHHH
Confidence 4579999999886642 67887776543
No 47
>PF06856 DUF1251: Protein of unknown function (DUF1251); InterPro: IPR009661 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf17; it is a family of uncharacterised viral proteins.
Probab=58.42 E-value=7.2 Score=24.43 Aligned_cols=62 Identities=19% Similarity=0.307 Sum_probs=40.6
Q ss_pred CCCCCCcccEEEecccCcCC--hhHH-HHHHHHHhcC-CceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcH
Q 037311 4 FSRNNKKYDVFVSFRGEDIR--DNFT-SHLYSALARQ-NIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSR 79 (93)
Q Consensus 4 s~~~~~~ydVFISy~~~D~~--~~~~-~~L~~~L~~~-gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~ 79 (93)
....+-.||-|+++ .|+. ..|+ ..|.+..++. |.+| .++.++|++..++=+.+-+.++.+.
T Consensus 54 ~~~~~i~FDGF~d~--~DE~~T~PFvv~~L~~l~~~~~~l~V-------------r~ma~ame~~tvLkifINEAi~~~~ 118 (120)
T PF06856_consen 54 DKQRPIVFDGFPDE--DDEGKTVPFVVGPLNSLRENHAGLKV-------------RDMAKAMESQTVLKIFINEAIIPRR 118 (120)
T ss_pred CCCCceEECCCCCc--cccccccccEeehhhhhhhhhcCccH-------------HHHHHHhcCCcEEEEEEeeeEcccc
Confidence 44567788999998 4432 2344 4554443333 4443 3788999998888888888887776
Q ss_pred H
Q 037311 80 W 80 (93)
Q Consensus 80 w 80 (93)
|
T Consensus 119 ~ 119 (120)
T PF06856_consen 119 W 119 (120)
T ss_pred C
Confidence 6
No 48
>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=58.41 E-value=54 Score=22.78 Aligned_cols=42 Identities=19% Similarity=0.206 Sum_probs=24.8
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCC--cchHHHHHHHHHhCC
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRG--DEISESLVKAIKASA 65 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G--~~~~~~i~~~i~~s~ 65 (93)
...+..+.+.+++.|+.+-....+.++ ..-...+.+.|+.+.
T Consensus 174 ~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~ 217 (348)
T cd06350 174 RSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSST 217 (348)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCC
Confidence 456677777788888776544455554 222235555666554
No 49
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=57.74 E-value=24 Score=24.28 Aligned_cols=40 Identities=28% Similarity=0.306 Sum_probs=29.6
Q ss_pred CCCCCcccEEEecccC-cCChhHHHHHHHHHhcCCceEEee
Q 037311 5 SRNNKKYDVFVSFRGE-DIRDNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 5 ~~~~~~ydVFISy~~~-D~~~~~~~~L~~~L~~~gi~v~~d 44 (93)
++.+.+-=||++.+.. |..-.+-..|...|..+||++.-|
T Consensus 16 PV~~~~rtVyv~vrNTSd~~~~l~~~i~~~L~~kGY~vv~~ 56 (215)
T PF05818_consen 16 PVAPSQRTVYVQVRNTSDKDINLESQIISALQAKGYQVVDD 56 (215)
T ss_pred CCCcccceEEEEEecCCCCccchHHHHHHHHHHCCCEEecC
Confidence 4456777799998763 332357789999999999987643
No 50
>COG0289 DapB Dihydrodipicolinate reductase [Amino acid transport and metabolism]
Probab=57.55 E-value=67 Score=22.88 Aligned_cols=71 Identities=15% Similarity=0.201 Sum_probs=45.8
Q ss_pred CCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHH
Q 037311 8 NKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFA 86 (93)
Q Consensus 8 ~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~ 86 (93)
....||-|-|++.+ ....++ +...+.|+++.+-. .+.+-+ .+.|.++.++ +-+|++|||.-.-.-+..|.
T Consensus 67 ~~~~DV~IDFT~P~---~~~~~l-~~~~~~~~~lVIGTTGf~~e~--~~~l~~~a~~---v~vv~a~NfSiGvnll~~l~ 137 (266)
T COG0289 67 KADADVLIDFTTPE---ATLENL-EFALEHGKPLVIGTTGFTEEQ--LEKLREAAEK---VPVVIAPNFSLGVNLLFKLA 137 (266)
T ss_pred ccCCCEEEECCCch---hhHHHH-HHHHHcCCCeEEECCCCCHHH--HHHHHHHHhh---CCEEEeccchHHHHHHHHHH
Confidence 45779999999875 234444 44445778887765 443221 2344545444 77889999987777766664
Q ss_pred H
Q 037311 87 E 87 (93)
Q Consensus 87 ~ 87 (93)
+
T Consensus 138 ~ 138 (266)
T COG0289 138 E 138 (266)
T ss_pred H
Confidence 4
No 51
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=57.53 E-value=43 Score=26.16 Aligned_cols=61 Identities=13% Similarity=0.175 Sum_probs=40.8
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
..+|+|-.-+... ...+..|...|++.|++|-+|. .+..+...+..|-..--..++++.++
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~---~~~~l~kki~~A~~~g~~~~iiiG~~ 599 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDL---RNEKIGYKIREAQLQKVPYMLVVGDK 599 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEEC---CCCCHhHHHHHhhccCCCEEEEEcch
Confidence 4678877655433 4678899999999999999985 23445556666655444455666554
No 52
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=56.65 E-value=72 Score=22.94 Aligned_cols=74 Identities=15% Similarity=0.133 Sum_probs=43.9
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHH
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEF 85 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El 85 (93)
.|+|-|....-.+.++..+.+.|+..|.++-.+....|++.=...+...|..+..-++++........-..+++
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~ 223 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTDFSALVAKIKAAGPDAVLVGGYGPDAALFLRQA 223 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCChHHHHHHHHhcCCCEEEECCCCccchHHHHHH
Confidence 46666655544567888888888888887444335555543244666666666555555555555444444433
No 53
>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional
Probab=56.07 E-value=59 Score=24.93 Aligned_cols=29 Identities=10% Similarity=0.264 Sum_probs=23.2
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
++.|++... -+++.+|...|.++|++|-.
T Consensus 6 IvG~sgSGK-TTLiekLI~~L~~rG~rVav 34 (452)
T PRK14495 6 IIGWKDAGK-TGLVERLVAAIAARGFSVST 34 (452)
T ss_pred EEecCCCCH-HHHHHHHHHHHHhCCCeEEE
Confidence 566665443 57889999999999999988
No 54
>PF09886 DUF2113: Uncharacterized protein conserved in archaea (DUF2113); InterPro: IPR016762 There is currently no experimental data for members of this group or their homologues. Based on distant sequence similarity, they may be tentatively predicted to be nucleic acid-binding proteins, they are also likely to be linked to methanogenesis or a process closely connected to it.
Probab=55.85 E-value=61 Score=21.88 Aligned_cols=53 Identities=19% Similarity=0.349 Sum_probs=38.8
Q ss_pred cCChhHHHHHHHHHhc---CCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHh
Q 037311 21 DIRDNFTSHLYSALAR---QNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILE 90 (93)
Q Consensus 21 D~~~~~~~~L~~~L~~---~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~ 90 (93)
|.++.|...|+.++.+ .|++|-.+. -.-+.+++|.|++-+..+|- +|..+.++
T Consensus 128 Dp~~~l~~~v~da~~RI~PEGFRVr~~~----------------~~~~~f~~vASE~~i~~ewi-~~a~e~~~ 183 (188)
T PF09886_consen 128 DPSEDLKKKVYDAMFRIAPEGFRVRRHY----------------YEGNSFAFVASEETIKDEWI-EEAKEMIE 183 (188)
T ss_pred CcHHHHHHHHHHHHHHhCCCccEEeecc----------------ccCCeEEEEECCCCCCHHHH-HHHHHHHH
Confidence 4456788888888875 588887652 33457889999999999998 55555443
No 55
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=55.62 E-value=31 Score=21.06 Aligned_cols=42 Identities=7% Similarity=0.201 Sum_probs=28.6
Q ss_pred hhHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 24 DNFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
+.+|..|.+.|+++|+.+-+-. +.... ...+...+.+|++.|
T Consensus 11 e~~A~~ia~~l~~~g~~~~~~~~~~~~~~-------~~~~~~~~~~i~~~s 54 (143)
T PF00258_consen 11 EKMAEAIAEGLRERGVEVRVVDLDDFDDS-------PSDLSEYDLLIFGVS 54 (143)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEEGGGSCHH-------HHHHCTTSEEEEEEE
T ss_pred HHHHHHHHHHHHHcCCceeeechhhhhhh-------hhhhhhhceeeEeec
Confidence 4799999999999998755543 33211 445667777766666
No 56
>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=55.36 E-value=46 Score=20.28 Aligned_cols=56 Identities=16% Similarity=0.338 Sum_probs=30.7
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHh-CCEEEEEEcCCC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKA-SAISVIIFSEDY 75 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~-s~~~i~v~S~~y 75 (93)
..||-|-|+..+ ....++...++ .|+.+..-. .+ .++-.+.+++ ++.+=++++|||
T Consensus 67 ~~DVvIDfT~p~---~~~~~~~~~~~-~g~~~ViGTTG~------~~~~~~~l~~~a~~~~vl~a~Nf 124 (124)
T PF01113_consen 67 EADVVIDFTNPD---AVYDNLEYALK-HGVPLVIGTTGF------SDEQIDELEELAKKIPVLIAPNF 124 (124)
T ss_dssp H-SEEEEES-HH---HHHHHHHHHHH-HT-EEEEE-SSS------HHHHHHHHHHHTTTSEEEE-SSS
T ss_pred cCCEEEEcCChH---HhHHHHHHHHh-CCCCEEEECCCC------CHHHHHHHHHHhccCCEEEeCCC
Confidence 389999998654 34455544544 488877754 33 2222344444 555778888886
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=55.09 E-value=67 Score=22.10 Aligned_cols=51 Identities=16% Similarity=0.198 Sum_probs=29.8
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCC-cchHHHHHHHHHhC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRG-DEISESLVKAIKAS 64 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~~i~~s 64 (93)
|.+-|...+.....+..+...|++.|+++-....+.+| .++. .+...++++
T Consensus 138 v~~v~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~d~~-~~l~~i~~~ 189 (334)
T cd06342 138 VAIIDDKTAYGQGLADEFKKALKAAGGKVVAREGTTDGATDFS-AILTKIKAA 189 (334)
T ss_pred EEEEeCCcchhhHHHHHHHHHHHHcCCEEEEEecCCCCCccHH-HHHHHHHhc
Confidence 54545444433456677778888888877655455555 4454 344445554
No 58
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=54.95 E-value=33 Score=18.53 Aligned_cols=52 Identities=19% Similarity=0.201 Sum_probs=32.2
Q ss_pred HHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcH-HHHHHHHHHHh
Q 037311 29 HLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSR-WCLDEFAEILE 90 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~-wc~~El~~~~~ 90 (93)
.++..|++.|+.|-.... ..+.+.....++++++|.+.-+. -=.++|...++
T Consensus 9 a~~~~L~~~g~~v~~~~~----------~~~~l~~~~~tll~i~~~~~~~~~~~~~~l~~~v~ 61 (70)
T PF14258_consen 9 ALYQLLEEQGVKVERWRK----------PYEALEADDGTLLVIGPDLRLSEPEEAEALLEWVE 61 (70)
T ss_pred HHHHHHHHCCCeeEEecc----------cHHHhCCCCCEEEEEeCCCCCCchHHHHHHHHHHH
Confidence 466778888998764321 12244457888999999966553 44445554443
No 59
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=54.75 E-value=75 Score=22.98 Aligned_cols=43 Identities=19% Similarity=0.237 Sum_probs=24.6
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCc-chHHHHHHHHHhCCEEEEE
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGD-EISESLVKAIKASAISVII 70 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~~i~~s~~~i~v 70 (93)
+..|.+.|+..|+.+....-...++ ++. .+.+.++++..+|++
T Consensus 157 ~~~l~~~~~~~gi~v~~~~~~~~~~~d~~-~~l~~ik~~~rvii~ 200 (387)
T cd06386 157 LEGVHHVFQEEGYHMSIYPFDETKDLDLD-EIIRAIQASERVVIM 200 (387)
T ss_pred HHHHHHHHHhcCceEEEEecCCCCcccHH-HHHHHHHhcCcEEEE
Confidence 6778888888888876654222333 444 455555544443333
No 60
>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=54.64 E-value=69 Score=22.12 Aligned_cols=65 Identities=15% Similarity=0.132 Sum_probs=46.0
Q ss_pred hhHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHh
Q 037311 24 DNFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILE 90 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~ 90 (93)
.+++.+|.+.|.+.|+.+-... .+.-|.-+.=.. ...+.++=|+.+|.+...++.-..+|.+++.
T Consensus 80 ~eLa~~i~~~l~~~gi~~~~~~~~~lDHG~~vPL~~--~~p~~~iPvV~isi~~~~~~~~~~~lG~aL~ 146 (253)
T cd07363 80 PELAERVAELLKAAGIPARLDPERGLDHGAWVPLKL--MYPDADIPVVQLSLPASLDPAEHYALGRALA 146 (253)
T ss_pred HHHHHHHHHHHHhcCCCccccCCcCCcccHHHHHHH--HcCCCCCcEEEEEecCCCCHHHHHHHHHHHH
Confidence 4799999999999999887654 455554443222 2234577788888887767777778887775
No 61
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=54.57 E-value=10 Score=23.83 Aligned_cols=24 Identities=29% Similarity=0.416 Sum_probs=11.9
Q ss_pred EEecccCcCChhHHHHHHHHHhcC
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQ 37 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~ 37 (93)
|+.=.+.|.|+.++..|.+.+...
T Consensus 48 fL~~~~~DPr~~~~~~L~~~i~~~ 71 (130)
T PF11074_consen 48 FLADPGEDPRRELIEALIKAIGSI 71 (130)
T ss_pred HhccCCCCchHHHHHHHHHHhhhh
Confidence 344333455555555555555544
No 62
>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=54.39 E-value=74 Score=22.39 Aligned_cols=60 Identities=10% Similarity=0.118 Sum_probs=31.3
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCC-cchHHHHHHHHHhCCEEEEEEc
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRG-DEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~~i~v~S 72 (93)
.|.+-|...+-.+..+..+...+++.|+.|-....+.++ .++.. ....|.+++.=++++.
T Consensus 146 ~v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~-~i~~l~~~~~d~v~~~ 206 (347)
T cd06340 146 TVALVHEDTEFGTSVAEAIKKFAKERGFEIVEDISYPANARDLTS-EVLKLKAANPDAILPA 206 (347)
T ss_pred eEEEEecCchHhHHHHHHHHHHHHHcCCEEEEeeccCCCCcchHH-HHHHHHhcCCCEEEEc
Confidence 355555433322456667777777888877654445544 34443 4444555443333333
No 63
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=53.96 E-value=77 Score=24.48 Aligned_cols=60 Identities=10% Similarity=0.218 Sum_probs=39.5
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
.++|+|---+++. ...+..+...|++.||+|-+|. .+..+...+..|-..--..++++.+
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~---~~~~l~kk~~~A~~~g~p~~iivG~ 535 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDT---SNERLNKKIRNAQKQKIPYMLVVGD 535 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHhcCCCEEEEEec
Confidence 4678887654432 4578899999999999999986 1234556666665543344455444
No 64
>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=53.76 E-value=55 Score=23.30 Aligned_cols=46 Identities=20% Similarity=0.128 Sum_probs=25.4
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCC---cchHHHHHHHHHhCCEEEEE
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRG---DEISESLVKAIKASAISVII 70 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G---~~~~~~i~~~i~~s~~~i~v 70 (93)
...+..+.+.+++.|+.+-....+.++ .++...+ +.+..+..+|++
T Consensus 152 ~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~~vii~ 200 (389)
T cd06352 152 FFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEIL-QDIKRRSRIIIM 200 (389)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHH-HHhhhcceEEEE
Confidence 356677777787778776554444444 4454444 344444433333
No 65
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=53.59 E-value=82 Score=24.78 Aligned_cols=63 Identities=14% Similarity=0.198 Sum_probs=41.8
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
...+|+|-.-+++.....+..|...|++.|++|-+|. .+..+...+..|-+.--..++++.++
T Consensus 540 ap~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~---~~~sl~kq~k~A~k~g~~~~iiiG~~ 602 (639)
T PRK12444 540 APVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDE---RDEKLGYKIREAQMQKIPYVLVIGDK 602 (639)
T ss_pred CCceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEEcch
Confidence 4678877765541124678899999999999999985 23455566666655444455555543
No 66
>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=53.25 E-value=76 Score=22.20 Aligned_cols=59 Identities=25% Similarity=0.359 Sum_probs=32.5
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCC---cchHHHHHHHHHh--CCEEEEEEc
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRG---DEISESLVKAIKA--SAISVIIFS 72 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G---~~~~~~i~~~i~~--s~~~i~v~S 72 (93)
|.+-|...+-....+..+.+.|++.|+.+-....+.+| .++...+ ..|+. .+++++..+
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l-~~i~~~~~dvvi~~~~ 201 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDAL-KKLKEKDSRVIVVHFS 201 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHH-HHHhcCCCeEEEEECC
Confidence 44445443333456777888888888887655555555 3454433 34443 344444443
No 67
>PF02230 Abhydrolase_2: Phospholipase/Carboxylesterase; InterPro: IPR003140 This entry represents the alpha/beta hydrolase domain found in phospholipases [], carboxylesterases [] and thioesterases.; GO: 0016787 hydrolase activity; PDB: 3U0V_A 1AUR_A 1AUO_B 1FJ2_B 3CN9_A 3CN7_A.
Probab=52.92 E-value=58 Score=21.41 Aligned_cols=51 Identities=16% Similarity=0.182 Sum_probs=31.5
Q ss_pred cccEEEecccCcCC--hhHHHHHHHHHhcCCceEEeeccCC-CCcchHHHHHHHH
Q 037311 10 KYDVFVSFRGEDIR--DNFTSHLYSALARQNIQTFIDDQLN-RGDEISESLVKAI 61 (93)
Q Consensus 10 ~ydVFISy~~~D~~--~~~~~~L~~~L~~~gi~v~~d~~~~-~G~~~~~~i~~~i 61 (93)
...||+.|...|.- ...+..+.+.|++.|.++-+.. .. .|-.+..+-...+
T Consensus 155 ~~pi~~~hG~~D~vvp~~~~~~~~~~L~~~~~~v~~~~-~~g~gH~i~~~~~~~~ 208 (216)
T PF02230_consen 155 KTPILIIHGDEDPVVPFEWAEKTAEFLKAAGANVEFHE-YPGGGHEISPEELRDL 208 (216)
T ss_dssp TS-EEEEEETT-SSSTHHHHHHHHHHHHCTT-GEEEEE-ETT-SSS--HHHHHHH
T ss_pred CCcEEEEecCCCCcccHHHHHHHHHHHHhcCCCEEEEE-cCCCCCCCCHHHHHHH
Confidence 55799999999873 4567899999999999777664 22 4555554444333
No 68
>PRK11064 wecC UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional
Probab=52.23 E-value=29 Score=25.82 Aligned_cols=66 Identities=15% Similarity=0.300 Sum_probs=42.1
Q ss_pred Eeccc--CcCChhHHHHHHHHHhcCC-ceEEeec-cCCC------CcchHHHHHHHHHhCCEEEEEEcCC-CCCcHH
Q 037311 15 VSFRG--EDIRDNFTSHLYSALARQN-IQTFIDD-QLNR------GDEISESLVKAIKASAISVIIFSED-YASSRW 80 (93)
Q Consensus 15 ISy~~--~D~~~~~~~~L~~~L~~~g-i~v~~d~-~~~~------G~~~~~~i~~~i~~s~~~i~v~S~~-y~~S~w 80 (93)
++|.. .|.|++=+..|.+.|.++| ..|...+ -+.. +.....++.++++.++.+|+..... |..-+|
T Consensus 328 lafK~~t~d~r~Sp~~~l~~~L~~~gg~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~ad~vvi~t~~~~~~~~~~ 404 (415)
T PRK11064 328 LAFKPNIDDLRESPAMEIAELIAQWHSGETLVVEPNIHQLPKKLDGLVTLVSLDEALATADVLVMLVDHSQFKAING 404 (415)
T ss_pred eEECCCCcchhhChHHHHHHHHHhcCCcEEEEECCCCCchhhhccCceeeCCHHHHHhCCCEEEECCCCHHhccCCH
Confidence 46765 4678888889999999986 8888766 3321 1111245667888888876665432 544443
No 69
>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=52.03 E-value=18 Score=28.25 Aligned_cols=31 Identities=26% Similarity=0.505 Sum_probs=25.7
Q ss_pred hhHHHHHHHHHhcCCceEEeec-cCCCCcchH
Q 037311 24 DNFTSHLYSALARQNIQTFIDD-QLNRGDEIS 54 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~ 54 (93)
...+.+|++.|+..|++|.+|+ +-.+|..+.
T Consensus 489 ~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~ 520 (568)
T TIGR00409 489 QQLAEELYSELLAQGVDVLLDDRNERAGVKFA 520 (568)
T ss_pred HHHHHHHHHHHHhCCCEEEEECCCCCHHHHHH
Confidence 4678999999999999999998 766776554
No 70
>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=51.91 E-value=40 Score=21.13 Aligned_cols=45 Identities=18% Similarity=0.154 Sum_probs=26.5
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCC--cchHHHHHHHHHhCCEEEEE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRG--DEISESLVKAIKASAISVII 70 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G--~~~~~~i~~~i~~s~~~i~v 70 (93)
.....|.+.|++.|+.+..-. +.+. +.+.+.+.+++++++.+|..
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 344567788888998776532 1111 34555666666666665543
No 71
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=51.81 E-value=46 Score=19.29 Aligned_cols=42 Identities=7% Similarity=0.045 Sum_probs=25.4
Q ss_pred cCCCC-cchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHH
Q 037311 46 QLNRG-DEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEI 88 (93)
Q Consensus 46 ~~~~G-~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~ 88 (93)
|++|| .+..-.+.+.+. -.-.|+|-+|+-+...-+.+.+..+
T Consensus 7 D~PPGTgD~~l~~~~~~~-~~g~ivVTTPq~la~~dv~r~~~~~ 49 (81)
T PF10609_consen 7 DLPPGTGDEHLTLMQYLP-IDGAIVVTTPQELALADVRRAIDMF 49 (81)
T ss_dssp E--SCSSSHHHHHHHHH---SEEEEEE-CCC--HHHHHHHHHHH
T ss_pred eCCCCCCcHHHHHHHhCC-CCeEEEEeCCHHHHHHHHHHHHHHH
Confidence 78888 556667777777 6678899999988777666655443
No 72
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=51.52 E-value=48 Score=26.24 Aligned_cols=60 Identities=17% Similarity=0.177 Sum_probs=37.7
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
.++|+|---.++ ....+..+...|++.|++|.+|. +-. +...+.++-..---.++++-++
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~s----lgkKir~A~~~GiP~iIVIG~k 559 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDES----LGKKIRDAGKEWIPYVVVIGDK 559 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCC----HHHHHHHHHHcCCCEEEEECcc
Confidence 357766654433 24678899999999999999987 434 4445555543333344444443
No 73
>PF03481 SUA5: Putative GTP-binding controlling metal-binding; InterPro: IPR005145 The function of this domain is unknown, it is found in P32579 from SWISSPROT and its relatives. It is found C-terminal to the IPR006070 from INTERPRO.; PDB: 2EQA_A 3AJE_A 4E1B_A 2YV4_A.
Probab=51.48 E-value=53 Score=20.08 Aligned_cols=54 Identities=9% Similarity=0.224 Sum_probs=29.7
Q ss_pred cccEEEecccCcCChhHHHHHHHHHh---cCCceEEeeccCCCCcchHHHHHHHHHhC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALA---RQNIQTFIDDQLNRGDEISESLVKAIKAS 64 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~---~~gi~v~~d~~~~~G~~~~~~i~~~i~~s 64 (93)
.++.+++.+-.+..++.+..|+..|+ +.|+.+-+-+.++ ...+...|.+.+.++
T Consensus 67 ~~~~~~~l~~~~d~~~~A~~Lf~~LR~~D~~~~~~I~ie~~~-~~~~g~Ai~dRL~RA 123 (125)
T PF03481_consen 67 SFDIVYSLSLPGDPEEAARNLFAALRELDELGVDLILIEGPP-ETGLGLAIMDRLRRA 123 (125)
T ss_dssp CGSEEEEEESTTSHHHHHHHHHHHHHHHHHTT-SEEEEEEES-GCCCHHHHHHHHHHH
T ss_pred ccceEEEecCCCCHHHHHHHHHHHHHHHhhcCCCEEEEeeCC-CcCcHHHHHHHHHHh
Confidence 34566555443333689999999887 4577654443222 233334566555543
No 74
>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=51.00 E-value=16 Score=24.44 Aligned_cols=47 Identities=17% Similarity=0.159 Sum_probs=31.8
Q ss_pred CcccEEEecccCc--C---ChhHHHHHHHHHhcCCceEEeec-cC-CCCcchHH
Q 037311 9 KKYDVFVSFRGED--I---RDNFTSHLYSALARQNIQTFIDD-QL-NRGDEISE 55 (93)
Q Consensus 9 ~~ydVFISy~~~D--~---~~~~~~~L~~~L~~~gi~v~~d~-~~-~~G~~~~~ 55 (93)
-.++|+|---... . -...+..|...|+..|+++-+|. +- .+|..+..
T Consensus 9 AP~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ 62 (202)
T cd00862 9 APIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFND 62 (202)
T ss_pred cCceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHH
Confidence 3456666543222 0 23578899999999999999998 54 77766543
No 75
>PRK06893 DNA replication initiation factor; Validated
Probab=50.21 E-value=53 Score=22.14 Aligned_cols=65 Identities=18% Similarity=0.378 Sum_probs=34.7
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcc-hHHHH---HHHHHhCCEEEEEEcCCCCCcHHH
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDE-ISESL---VKAIKASAISVIIFSEDYASSRWC 81 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~-~~~~i---~~~i~~s~~~i~v~S~~y~~S~wc 81 (93)
+|++....+ .+...+.+.+++.. -+++|+ +...|+. +...+ .+.+.+....++|++.+...+.|-
T Consensus 71 ~y~~~~~~~---~~~~~~~~~~~~~d-lLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~ 140 (229)
T PRK06893 71 IYIPLSKSQ---YFSPAVLENLEQQD-LVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALS 140 (229)
T ss_pred EEeeHHHhh---hhhHHHHhhcccCC-EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHcc
Confidence 466664322 23334444444333 377888 6655543 33333 334445556677777777666663
No 76
>COG0710 AroD 3-dehydroquinate dehydratase [Amino acid transport and metabolism]
Probab=49.97 E-value=55 Score=22.72 Aligned_cols=63 Identities=19% Similarity=0.200 Sum_probs=37.6
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhh
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILEC 91 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~ 91 (93)
.....|....+.+| .-++|-++..+....+++...-.+.+ +|+|-|.+.+.+..+|+...+..
T Consensus 79 ~~i~ll~~la~~~~-~d~iDiEl~~~~~~~~~~~~~~~~~~---vI~SyH~F~~TP~~~~i~~~l~k 141 (231)
T COG0710 79 EYIELLKKLAELNG-PDYIDIELSSPEDDVKEIIKFAKKHG---VIVSYHDFEKTPPLEEIIERLDK 141 (231)
T ss_pred HHHHHHHHHHhhcC-CCEEEEEccCcchhHHHHHhccccCC---EEEEeccCCCCCcHHHHHHHHHH
Confidence 45555655555555 45555555444433334444333334 78898888888888888777653
No 77
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=49.36 E-value=75 Score=21.01 Aligned_cols=53 Identities=8% Similarity=0.083 Sum_probs=33.9
Q ss_pred hHHHHHHHHHhcCCceEEe-ec-cCCCC--------cchHHHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 25 NFTSHLYSALARQNIQTFI-DD-QLNRG--------DEISESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~-d~-~~~~G--------~~~~~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
..+..+.+.|.+.|..+-+ |- +++++ .+-...+.+.|++++.+ ++.||.|..|
T Consensus 18 ~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~i-Ii~tP~Y~~s 80 (191)
T PRK10569 18 ALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADGL-IVATPVYKAS 80 (191)
T ss_pred HHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCEE-EEECCccCCC
Confidence 4556777777778887743 43 55442 12334677788888865 5568888654
No 78
>PRK13660 hypothetical protein; Provisional
Probab=49.24 E-value=78 Score=21.14 Aligned_cols=28 Identities=11% Similarity=0.134 Sum_probs=20.2
Q ss_pred HHhCCEEEEEEcCCCCCcHHHHHHHHHHH
Q 037311 61 IKASAISVIIFSEDYASSRWCLDEFAEIL 89 (93)
Q Consensus 61 i~~s~~~i~v~S~~y~~S~wc~~El~~~~ 89 (93)
+.+++.++. +|+.|-.+++|+..-...|
T Consensus 99 ~~~aD~v~~-vs~~~y~~p~q~~~rn~fm 126 (182)
T PRK13660 99 LKQADFVKS-ISKRPYESPAQFRQYNQFM 126 (182)
T ss_pred HHhCCEEEE-ecCCCCCChHHHHHHHHHH
Confidence 456666554 4888999999998765554
No 79
>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=49.00 E-value=58 Score=23.62 Aligned_cols=27 Identities=11% Similarity=-0.073 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCC
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRG 50 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G 50 (93)
...+..+.+.|++.|+.+-....+.++
T Consensus 150 ~~~~~~~~~~~~~~g~~iv~~~~~~~~ 176 (404)
T cd06370 150 SSVFETLKEEAELRNITISHVEYYADF 176 (404)
T ss_pred HHHHHHHHHHHHHcCCEEEEEEEECCC
Confidence 356667777777778776644445454
No 80
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=48.90 E-value=62 Score=19.90 Aligned_cols=53 Identities=21% Similarity=0.294 Sum_probs=37.5
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCC------------cchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRG------------DEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G------------~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
.++..|...|..+|.++.+-+ |+..+ ..+.+.....+..|+.++++..|+...
T Consensus 15 ~~~~~~a~~~~~~~~~~~~vd~D~~~~~~~yd~VIiD~p~~~~~~~~~~l~~aD~vviv~~~~~~s 80 (139)
T cd02038 15 NISANLALALAKLGKRVLLLDADLGLANLDYDYIIIDTGAGISDNVLDFFLAADEVIVVTTPEPTS 80 (139)
T ss_pred HHHHHHHHHHHHCCCcEEEEECCCCCCCCCCCEEEEECCCCCCHHHHHHHHhCCeEEEEcCCChhH
Confidence 466788888888898766655 64311 123456678899999999999997543
No 81
>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=48.02 E-value=95 Score=21.82 Aligned_cols=18 Identities=22% Similarity=0.296 Sum_probs=9.8
Q ss_pred hHHHHHHHHHhcCCceEE
Q 037311 25 NFTSHLYSALARQNIQTF 42 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~ 42 (93)
..+..+.+.|++.|+.+-
T Consensus 153 ~~~~~~~~~~~~~G~~v~ 170 (347)
T cd06335 153 SNRKDLTAALAARGLKPV 170 (347)
T ss_pred hHHHHHHHHHHHcCCeeE
Confidence 445555555555555544
No 82
>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=47.57 E-value=1.1e+02 Score=22.42 Aligned_cols=34 Identities=6% Similarity=0.052 Sum_probs=21.1
Q ss_pred cccCcCChhHHHHHHHHHhcCCceEEeeccCCCC
Q 037311 17 FRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRG 50 (93)
Q Consensus 17 y~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G 50 (93)
|...|-.+..+..+.+.++++|+.+-..+.+.++
T Consensus 179 ~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~ 212 (403)
T cd06361 179 ITDDDYGRSALETFIIQAEANGVCIAFKEILPAS 212 (403)
T ss_pred EecCchHHHHHHHHHHHHHHCCeEEEEEEEecCc
Confidence 4444434567788888888888766544444443
No 83
>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=47.52 E-value=57 Score=19.14 Aligned_cols=57 Identities=21% Similarity=0.125 Sum_probs=34.6
Q ss_pred HHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHH
Q 037311 27 TSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEI 88 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~ 88 (93)
...|...|++.|+.+-+-+ +..+ +++.+.+.+.+--++.+|=.+...-.-..++...
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 3577788999999986544 4432 5777777776655566665444433334444444
No 84
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=47.48 E-value=67 Score=19.88 Aligned_cols=61 Identities=13% Similarity=0.116 Sum_probs=36.1
Q ss_pred hHHHHHHHHHhcCCceEEeeccCC-CCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHH
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLN-RGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEF 85 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~-~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El 85 (93)
.-...|.+.|++.|+.+..-.-+. .-+.+.+.+.+++++++.+|..=-=..-..++..+=+
T Consensus 17 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~VittGG~g~~~~D~t~~a~ 78 (144)
T PF00994_consen 17 SNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITTGGTGPGPDDVTPEAL 78 (144)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEESSSSSSTTCHHHHHH
T ss_pred hHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEcCCcCcccCCcccHHH
Confidence 455678888999999776543111 1145667777777888766655333333444444433
No 85
>PF13155 Toprim_2: Toprim-like
Probab=47.23 E-value=26 Score=19.94 Aligned_cols=48 Identities=19% Similarity=0.219 Sum_probs=29.2
Q ss_pred EEEecccCcCChhHHHHHHHHHhc---CCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALAR---QNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~---~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
+.++-.+. .....+...|++ +.|.+++|.| +.|......+.+.+....
T Consensus 25 ~~l~~~~~----~~~~~~~~~l~~~~~~~i~l~~DnD-~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 25 LSLAGGGT----LSEKQQIKFLKENPYKKIVLAFDND-EAGRKAAEKLQKELKEEG 75 (96)
T ss_pred EEEECCch----HHHHHHHHHHHhCCCCcEEEEeCCC-HHHHHHHHHHHHHHHhhC
Confidence 55555443 233455555543 3466666643 678888888888887764
No 86
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=46.23 E-value=69 Score=19.68 Aligned_cols=62 Identities=16% Similarity=0.217 Sum_probs=32.7
Q ss_pred CCCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhC----CEEEEEEcCCC
Q 037311 6 RNNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKAS----AISVIIFSEDY 75 (93)
Q Consensus 6 ~~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s----~~~i~v~S~~y 75 (93)
.....+|++|.|+....+ .....+ ....++.+.. +.|.++-+.+.++++.. ..+|+|=|.--
T Consensus 6 ~~~~~~~~~l~~~~~~~~-~~~~~~---~~~~~~~~~~----Q~g~dLG~Rm~~a~~~~~~g~~~vvliGsD~P 71 (122)
T PF09837_consen 6 AQADGADVVLAYTPDGDH-AAFRQL---WLPSGFSFFP----QQGGDLGERMANAFQQAARGYEPVVLIGSDCP 71 (122)
T ss_dssp --TSSSEEEEEE----TT-HHHHHH---HH-TTSEEEE------SSSHHHHHHHHHHHHHTT-SEEEEE-SS-T
T ss_pred ccCCCcCEEEEEcCCccH-HHHhcc---ccCCCCEEee----cCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCC
Confidence 355678999999987654 232222 3345666664 57778888888887765 55555544433
No 87
>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=46.06 E-value=1.1e+02 Score=21.87 Aligned_cols=39 Identities=15% Similarity=0.244 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHhcCCc----eEEeeccCCCCc-chHHHHHHHHHh
Q 037311 24 DNFTSHLYSALARQNI----QTFIDDQLNRGD-EISESLVKAIKA 63 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi----~v~~d~~~~~G~-~~~~~i~~~i~~ 63 (93)
...+..+.+.+++.|+ .+-....+.+|+ ++. .+.+.|+.
T Consensus 168 ~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d~~-~~l~~ik~ 211 (377)
T cd06379 168 RAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVT-SLLQEAKE 211 (377)
T ss_pred hHHHHHHHHHHHhcCCccceeeeEEEecCCchhhHH-HHHHHHhh
Confidence 3466677777777777 433332454443 333 33334444
No 88
>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=46.04 E-value=20 Score=21.25 Aligned_cols=21 Identities=24% Similarity=0.224 Sum_probs=14.8
Q ss_pred hhHHHHHHHHHhcCCceEEee
Q 037311 24 DNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d 44 (93)
..|+..|+..|+.+|+++-..
T Consensus 8 ~~fv~~Lk~lLk~rGi~v~~~ 28 (90)
T PF02337_consen 8 QPFVSILKHLLKERGIRVKKK 28 (90)
T ss_dssp HHHHHHHHHHHHCCT----HH
T ss_pred hHHHHHHHHHHHHcCeeecHH
Confidence 369999999999999988764
No 89
>PLN02908 threonyl-tRNA synthetase
Probab=45.01 E-value=87 Score=25.02 Aligned_cols=60 Identities=13% Similarity=0.145 Sum_probs=40.2
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
..+|+|-.-+.+. ...+..+.+.|+++|++|-+|. .+..+...+..|-..--..++|+-+
T Consensus 589 p~qv~Vipv~~~~-~~~A~~va~~LR~~Gi~vevd~---~~~~l~kkir~A~~~g~~~viivG~ 648 (686)
T PLN02908 589 PRQAIVVPISEKS-QDYAEEVRAQLHAAGFYVDVDV---TDRKIQKKVREAQLAQYNYILVVGE 648 (686)
T ss_pred CceEEEEEECHHH-HHHHHHHHHHHHHCCCEEEEEC---CCCCHHHHHHHHHHcCCCEEEEECc
Confidence 4577776655433 4678899999999999998874 3456666777765544444555543
No 90
>PF07429 Glyco_transf_56: 4-alpha-L-fucosyltransferase glycosyl transferase group 56; InterPro: IPR009993 This family contains the bacterial enzyme 4-alpha-L-fucosyltransferase (Fuc4NAc transferase) (approximately 360 residues long). This catalyses the synthesis of Fuc4NAc-ManNAcA-GlcNAc-PP-Und (lipid III) as part of the biosynthetic pathway of enterobacterial common antigen (ECA), a polysaccharide comprised of the trisaccharide repeat unit Fuc4NAc-ManNAcA-GlcNAc [].; GO: 0008417 fucosyltransferase activity, 0009246 enterobacterial common antigen biosynthetic process, 0009276 Gram-negative-bacterium-type cell wall
Probab=44.83 E-value=32 Score=25.53 Aligned_cols=47 Identities=13% Similarity=0.327 Sum_probs=29.5
Q ss_pred HHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCC-EEEEEEcCCCCCc
Q 037311 30 LYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASA-ISVIIFSEDYASS 78 (93)
Q Consensus 30 L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~-~~i~v~S~~y~~S 78 (93)
+...|.+.|+.|++.. ++. + ....+..+.+...+ ..|..++|||++.
T Consensus 300 ~~~~l~~~~ipVlf~~d~L~-~-~~v~ea~rql~~~dk~~iaFf~pny~~~ 348 (360)
T PF07429_consen 300 FWQDLKEQGIPVLFYGDELD-E-ALVREAQRQLANVDKQQIAFFAPNYLQG 348 (360)
T ss_pred HHHHHHhCCCeEEeccccCC-H-HHHHHHHHHHhhCcccceeeeCCchHHH
Confidence 4456677788887765 443 2 22234455555555 4688999999763
No 91
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=44.31 E-value=85 Score=23.87 Aligned_cols=61 Identities=13% Similarity=0.090 Sum_probs=37.5
Q ss_pred cccEEEec---ccC--cCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 10 KYDVFVSF---RGE--DIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 10 ~ydVFISy---~~~--D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
.++|+|-- ..+ +.....+..|...|++.|+++-+|. +-.+|. .+.++-..---.++++.++
T Consensus 282 P~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~gk----k~k~Ae~~GvP~~IiIG~~ 348 (472)
T TIGR00408 282 PIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPGR----KFYQWEIKGIPLRIEVGPN 348 (472)
T ss_pred cceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHH----HHHHHHHCCCCEEEEECcc
Confidence 47787764 221 1224678899999999999999987 545554 4444433333344455544
No 92
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=43.96 E-value=93 Score=20.51 Aligned_cols=53 Identities=21% Similarity=0.279 Sum_probs=22.8
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
|.+-|...+....+...+...+++.|+.+-....+.++..-...+.+.++.+.
T Consensus 143 v~~v~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~l~~l~~~~ 195 (298)
T cd06269 143 VGLVYSDDDYGRRLLELLEEELEKNGICVAFVESIPDGSEDIRRLLKELKSST 195 (298)
T ss_pred EEEEEecchhhHHHHHHHHHHHHHCCeeEEEEEEcCCCHHHHHHHHHHHHhcC
Confidence 33334333322344445555555555554443333333223334444455443
No 93
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=43.86 E-value=63 Score=22.76 Aligned_cols=51 Identities=16% Similarity=0.137 Sum_probs=33.8
Q ss_pred HHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCC--EEEEEEcCCCCCc
Q 037311 28 SHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASA--ISVIIFSEDYASS 78 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~--~~i~v~S~~y~~S 78 (93)
+.|...|..+||+|=--. +-+.=.++..++.++++.+. -+|++|||.-+.+
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 456678888999753322 22222345568889999874 4799999986553
No 94
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=42.97 E-value=19 Score=20.14 Aligned_cols=31 Identities=13% Similarity=0.358 Sum_probs=17.9
Q ss_pred HHhc--CCceEEeeccCCCCcchHHHHHHHHHhC
Q 037311 33 ALAR--QNIQTFIDDQLNRGDEISESLVKAIKAS 64 (93)
Q Consensus 33 ~L~~--~gi~v~~d~~~~~G~~~~~~i~~~i~~s 64 (93)
.+.. +.+-+++|.| .+|+.....+.+.+...
T Consensus 41 ~~~~~~~~Vii~~D~D-~~G~~~a~~i~~~l~~~ 73 (81)
T PF13662_consen 41 KLEKKVKEVIIAFDND-KAGEKAAQKIAKKLLPL 73 (81)
T ss_dssp HHH---SEEEEEEESS-HHHHHHHHHHHHHHG--
T ss_pred hhhccCceEEEEeCcC-HHHHHHHHHHHHHHHhh
Confidence 4444 5667777753 37777777777766543
No 95
>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=42.73 E-value=1.3e+02 Score=21.71 Aligned_cols=66 Identities=23% Similarity=0.262 Sum_probs=40.5
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh--C-CEEEEEEcCCCCCc--HHHHHHHHHHHh
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA--S-AISVIIFSEDYASS--RWCLDEFAEILE 90 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~--s-~~~i~v~S~~y~~S--~wc~~El~~~~~ 90 (93)
..+..|.+.|.+.|..+-...-+.-|.+..++..+.+.+ + +++++.+.|.|..+ .-+.+++..++.
T Consensus 73 ~qa~~l~~~L~~~~~~~~V~~amry~~P~i~~~l~~l~~~g~~~ivvlPLyPqyS~~ttgs~~~~~~~~~~ 143 (316)
T PF00762_consen 73 RQAEALQQRLDERGVDVEVYYAMRYGPPSIEDALEELKADGVDRIVVLPLYPQYSSSTTGSYLDEVERALK 143 (316)
T ss_dssp HHHHHHHHHHHHH-EEEEEEEEESSSSSBHHHHHHHHHHTT-SEEEEEESSSS--TTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCCeeEEEEeccCCCCHHHHHHHHHHcCCCeEEEEeCCCchhHhhHHHHHHHHHHHHH
Confidence 466777777777643222222567777777777777774 3 46788889999844 446667766654
No 96
>PF05985 EutC: Ethanolamine ammonia-lyase light chain (EutC); InterPro: IPR009246 This family consists of several bacterial ethanolamine ammonia-lyase light chain (EutC) sequences. Ethanolamine ammonia-lyase is a bacterial enzyme that catalyses the adenosylcobalamin-dependent conversion of certain vicinal amino alcohols to oxo compounds and ammonia [].; GO: 0008851 ethanolamine ammonia-lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3ABO_B 3ABR_B 3ABS_B 3ANY_B 3AO0_D 3ABQ_B.
Probab=42.54 E-value=47 Score=23.24 Aligned_cols=45 Identities=22% Similarity=0.431 Sum_probs=29.4
Q ss_pred hhHHHHHHHHHhcCCce----EEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 24 DNFTSHLYSALARQNIQ----TFIDD-QLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~----v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
..|...|...|...|++ ++... ....||.+-+ .+ +++.+|+++-+
T Consensus 123 ~~~l~~L~~~L~~~g~~~ap~~~v~~gRVa~gD~Ige----~L-~a~~vv~LIGE 172 (237)
T PF05985_consen 123 APLLPALLPGLKSAGWSVAPPVLVRQGRVALGDEIGE----AL-GARVVVVLIGE 172 (237)
T ss_dssp HHHHHHHHHHHHTTTS-B---EEEET--TTHHHHHHH----HH-T-SEEEEEEE-
T ss_pred HHHHHHHHHHHHhcCCCcCCeEEEeeceeehhHHHHH----Hh-CCCEEEEEEeC
Confidence 46788888999988885 34455 7777766654 33 88888888753
No 97
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=42.22 E-value=1.4e+02 Score=22.66 Aligned_cols=61 Identities=13% Similarity=0.040 Sum_probs=36.5
Q ss_pred cccEEEeccc-----CcCChhHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 10 KYDVFVSFRG-----EDIRDNFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 10 ~ydVFISy~~-----~D~~~~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
.++|+|---. .+.....+..|.+.|++.|++|-+|. +-.+|. .+.++-..---+++++.|.
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gk----K~~~ae~~GvP~~IiIG~~ 354 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGW----KFNEWELKGVPLRIEIGPR 354 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHH----HHHHHHHCCCCEEEEECcc
Confidence 5778776431 11224577899999999999999986 345554 3444433322344444443
No 98
>PLN02775 Probable dihydrodipicolinate reductase
Probab=41.88 E-value=1.3e+02 Score=21.62 Aligned_cols=70 Identities=9% Similarity=0.055 Sum_probs=46.2
Q ss_pred Cccc-EEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHH
Q 037311 9 KKYD-VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFA 86 (93)
Q Consensus 9 ~~yd-VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~ 86 (93)
...| |.|-|++.+ .+........+.|+.+.+-. .+..- ++ +.+.+++.+=++++|||.-.-.-+..+.
T Consensus 78 ~~~~~VvIDFT~P~----a~~~~~~~~~~~g~~~VvGTTG~~~e-----~l-~~~~~~~~i~vv~apNfSiGv~ll~~l~ 147 (286)
T PLN02775 78 EYPNLIVVDYTLPD----AVNDNAELYCKNGLPFVMGTTGGDRD-----RL-LKDVEESGVYAVIAPQMGKQVVAFQAAM 147 (286)
T ss_pred cCCCEEEEECCChH----HHHHHHHHHHHCCCCEEEECCCCCHH-----HH-HHHHhcCCccEEEECcccHHHHHHHHHH
Confidence 3578 999999876 33333344456788888775 44222 23 3455566778999999988777777665
Q ss_pred HH
Q 037311 87 EI 88 (93)
Q Consensus 87 ~~ 88 (93)
+.
T Consensus 148 ~~ 149 (286)
T PLN02775 148 EI 149 (286)
T ss_pred HH
Confidence 43
No 99
>PRK06703 flavodoxin; Provisional
Probab=41.87 E-value=85 Score=19.47 Aligned_cols=22 Identities=5% Similarity=0.223 Sum_probs=17.2
Q ss_pred hhHHHHHHHHHhcCCceEEeec
Q 037311 24 DNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
+.++..|.+.|+..|+.+-+.+
T Consensus 16 ~~iA~~ia~~l~~~g~~v~~~~ 37 (151)
T PRK06703 16 EDIADLIKVSLDAFDHEVVLQE 37 (151)
T ss_pred HHHHHHHHHHHHhcCCceEEEe
Confidence 5789999999998888765543
No 100
>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=41.83 E-value=1.3e+02 Score=21.68 Aligned_cols=63 Identities=11% Similarity=0.152 Sum_probs=34.4
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhC---CEEEEEEcCCCC
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKAS---AISVIIFSEDYA 76 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s---~~~i~v~S~~y~ 76 (93)
.|=|...+........|.+.|++.|+.+-....+.+++.=...+.+.|+.. +++|++....+.
T Consensus 136 aii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~~~~~~ 201 (382)
T cd06371 136 AIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDEKGAREALKKVRSADRVRVVIMCMHSVLI 201 (382)
T ss_pred EEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEeecccc
Confidence 333433332234577888888888987665444554543333555566653 344444444444
No 101
>PLN02734 glycyl-tRNA synthetase
Probab=41.74 E-value=42 Score=27.02 Aligned_cols=46 Identities=17% Similarity=0.119 Sum_probs=32.5
Q ss_pred CCCCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCc
Q 037311 5 SRNNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGD 51 (93)
Q Consensus 5 ~~~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~ 51 (93)
...|.+..|+.--..+ .....+..|+..|++.|+++-+|. +-..|.
T Consensus 567 ~IAP~qVaIlPL~~~e-e~~~~A~eLa~~LR~~GIrVelDd~~~SIGK 613 (684)
T PLN02734 567 LVAPIKCTVFPLVQNQ-QLNAVAKVISKELTAAGISHKIDITGTSIGK 613 (684)
T ss_pred ccCCcEEEEEEecCCh-HHHHHHHHHHHHHHhCCCEEEEECCCCCHhH
Confidence 3456777787664332 234688999999999999999986 444443
No 102
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=41.52 E-value=1.4e+02 Score=22.36 Aligned_cols=28 Identities=18% Similarity=0.265 Sum_probs=19.3
Q ss_pred ChhHHHHHHHHHhcCCceEEeeccCCCC
Q 037311 23 RDNFTSHLYSALARQNIQTFIDDQLNRG 50 (93)
Q Consensus 23 ~~~~~~~L~~~L~~~gi~v~~d~~~~~G 50 (93)
....+..|.+++++.|+.+-..+.+..+
T Consensus 185 g~~~~~~~~~~~~~~gi~I~~~~~i~~~ 212 (469)
T cd06365 185 GEQFLSDLREEMQRNGICLAFVEKIPVN 212 (469)
T ss_pred HHHHHHHHHHHHHHCCeEEEEEEEecCC
Confidence 3466788888888889877654444444
No 103
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=41.38 E-value=74 Score=18.65 Aligned_cols=53 Identities=23% Similarity=0.397 Sum_probs=36.8
Q ss_pred hHHHHHHHHHhcC-CceEEeec-cCCCCcc---------hHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 25 NFTSHLYSALARQ-NIQTFIDD-QLNRGDE---------ISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 25 ~~~~~L~~~L~~~-gi~v~~d~-~~~~G~~---------~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
..+..|..+|.+. |.++.+-+ |.+.|.+ +.......+..|+.+|+++.|+...
T Consensus 15 ~~~~~la~~~~~~~~~~~~l~d~d~~~~~D~IIiDtpp~~~~~~~~~l~~aD~vlvvv~~~~~s 78 (106)
T cd03111 15 TLAANLAVALAKEAGRRVLLVDLDLQFGDDYVVVDLGRSLDEVSLAALDQADRVFLVTQQDLPS 78 (106)
T ss_pred HHHHHHHHHHHhcCCCcEEEEECCCCCCCCEEEEeCCCCcCHHHHHHHHHcCeEEEEecCChHH
Confidence 3457888888876 98887765 5553322 2234456889999999999888654
No 104
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=40.82 E-value=33 Score=19.59 Aligned_cols=21 Identities=19% Similarity=0.422 Sum_probs=10.6
Q ss_pred HHHhCCEEEEEEcCCCCCcHHHH
Q 037311 60 AIKASAISVIIFSEDYASSRWCL 82 (93)
Q Consensus 60 ~i~~s~~~i~v~S~~y~~S~wc~ 82 (93)
.|++.++ +|+|+.+.+.+||.
T Consensus 4 ~i~~~~v--vvf~k~~~~~~~Cp 24 (90)
T cd03028 4 LIKENPV--VLFMKGTPEEPRCG 24 (90)
T ss_pred hhccCCE--EEEEcCCCCCCCCc
Confidence 3444444 44466555555554
No 105
>COG0677 WecC UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=40.81 E-value=1e+02 Score=23.56 Aligned_cols=59 Identities=19% Similarity=0.378 Sum_probs=41.2
Q ss_pred Eeccc--CcCChhHHHHHHHHHhcCCceEEeec-cCCC------CcchH-HHHHHHHHhCCEEEEEEcC
Q 037311 15 VSFRG--EDIRDNFTSHLYSALARQNIQTFIDD-QLNR------GDEIS-ESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 15 ISy~~--~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~------G~~~~-~~i~~~i~~s~~~i~v~S~ 73 (93)
+.|.+ .|.|+.=+-.|.+.|++.|..+...+ -... |.... ..+.++++.++.+|+....
T Consensus 330 layK~dvdD~ReSPa~~ii~~l~~~g~~v~~~DP~v~~~~~~~~~~~~~~~~~e~al~~~D~vVi~tDH 398 (436)
T COG0677 330 LAYKGDVDDLRESPALDIIELLEEWGGEVLVYDPYVKELPTREDGEGVTLAILEEALKDADAVVIATDH 398 (436)
T ss_pred eeecCCCcccccCchHHHHHHHHHhCCeEEEECCCCCcchhhhhccccchhhHHHHhccCCEEEEEecc
Confidence 45655 47787778889999999998877766 4332 33233 5677888889887766543
No 106
>PLN02353 probable UDP-glucose 6-dehydrogenase
Probab=40.56 E-value=99 Score=23.65 Aligned_cols=31 Identities=19% Similarity=0.263 Sum_probs=25.1
Q ss_pred Eeccc--CcCChhHHHHHHHHHhcCCceEEeec
Q 037311 15 VSFRG--EDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 15 ISy~~--~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
++|.. .|.|++=+..|.+.|.++|+.|-..+
T Consensus 332 lafK~~tdD~R~Spa~~li~~L~~~G~~V~~~D 364 (473)
T PLN02353 332 FAFKKDTGDTRETPAIDVCKGLLGDKAKLSIYD 364 (473)
T ss_pred eeecCCCCccccChHHHHHHHHHhCCCEEEEEC
Confidence 35654 47788888899999999999988876
No 107
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=40.02 E-value=63 Score=19.31 Aligned_cols=42 Identities=10% Similarity=0.090 Sum_probs=28.2
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
-++.++.+.++++|+.+-+.. .. .++.+.+.+.+ +++++|..
T Consensus 15 ~la~km~~~a~~~gi~~~i~a~~~-------~e~~~~~~~~D--vill~PQv 57 (99)
T cd05565 15 LLANALNKGAKERGVPLEAAAGAY-------GSHYDMIPDYD--LVILAPQM 57 (99)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeeH-------HHHHHhccCCC--EEEEcChH
Confidence 456899999999999876654 22 23444555555 66777764
No 108
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=39.79 E-value=94 Score=20.19 Aligned_cols=43 Identities=21% Similarity=0.290 Sum_probs=25.3
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCC--cchHHHHHHHHHhCCEEE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRG--DEISESLVKAIKASAISV 68 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G--~~~~~~i~~~i~~s~~~i 68 (93)
.....|...|.+.|+.+-.-. ..+. +.+.+.+.+++++++++|
T Consensus 19 ~n~~~l~~~L~~~G~~v~~~~-~v~Dd~~~I~~~l~~~~~~~dlVI 63 (170)
T cd00885 19 TNAAFLAKELAELGIEVYRVT-VVGDDEDRIAEALRRASERADLVI 63 (170)
T ss_pred hHHHHHHHHHHHCCCEEEEEE-EeCCCHHHHHHHHHHHHhCCCEEE
Confidence 456678888999999875432 1111 234555666665555443
No 109
>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=39.19 E-value=1.3e+02 Score=20.95 Aligned_cols=64 Identities=11% Similarity=0.198 Sum_probs=43.5
Q ss_pred hhHHHHHHHHHhcCCceEE-eec-c--CCCCcchHHHHHHHH--HhCCEEEEEEcCCCCCcHHHHHHHHHHHh
Q 037311 24 DNFTSHLYSALARQNIQTF-IDD-Q--LNRGDEISESLVKAI--KASAISVIIFSEDYASSRWCLDEFAEILE 90 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~-~d~-~--~~~G~~~~~~i~~~i--~~s~~~i~v~S~~y~~S~wc~~El~~~~~ 90 (93)
.+++..+.+.|.+.|+.+- .+. . +.-|.-+. ..-+ ...++=|+.+|.+...+..-..+|.+++.
T Consensus 90 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vP---L~~l~~~~~~iPvV~~s~~~~~~~~~~~~lG~al~ 159 (271)
T cd07373 90 TALAEACVTACPEHGVHARGVDYDGFPIDTGTITA---CTLMGIGTEALPLVVASNNLYHSGEITEKLGAIAA 159 (271)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCcchhHHH---HHHHcccCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 5799999999999999986 655 3 44554433 2223 24556566788777667777778877664
No 110
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=38.99 E-value=70 Score=21.44 Aligned_cols=48 Identities=17% Similarity=0.346 Sum_probs=36.7
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-------CCEEEEEEcCCCCCc
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-------SAISVIIFSEDYASS 78 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-------s~~~i~v~S~~y~~S 78 (93)
...|...|+..|+... .. .|+.|.+++-+|+.. ...++-|+.++|.-.
T Consensus 124 ~~~l~~~L~k~Gv~~i---~~-~Ge~FDP~~HeAv~~~~~~~~~~~tVv~v~qkGY~l~ 178 (193)
T COG0576 124 LDQLLDALEKLGVEEI---GP-EGEKFDPNLHEAVQRVESEDVEPNTVVEVLQKGYKLN 178 (193)
T ss_pred HHHHHHHHHHCCCEEe---CC-CCCCCCHHHhhheeeecCCCCCCCeEEEEeecCeeeC
Confidence 3677788888999765 23 699999999998875 347889999998643
No 111
>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=38.93 E-value=88 Score=19.17 Aligned_cols=45 Identities=13% Similarity=0.185 Sum_probs=25.2
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCC-cchHHHHHHHHHhCCEEEE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRG-DEISESLVKAIKASAISVI 69 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~~i~~s~~~i~ 69 (93)
.-...|.+.|++.|+.+-.-.-+... +.+.+.+.+++++++++|.
T Consensus 19 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvit 64 (133)
T cd00758 19 TNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLT 64 (133)
T ss_pred chHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEE
Confidence 34456777788889876443212111 3455666666666664443
No 112
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=38.90 E-value=1e+02 Score=19.66 Aligned_cols=53 Identities=15% Similarity=0.206 Sum_probs=30.9
Q ss_pred hHHHHHHHHHhcCCceE-Eeec-cCCCC--------cchHHHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 25 NFTSHLYSALARQNIQT-FIDD-QLNRG--------DEISESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v-~~d~-~~~~G--------~~~~~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
..+..+.+.|++.|..+ .+|- +++.. .+-...+.+.|.+++.+|+ .||.|..|
T Consensus 17 ~l~~~~~~~l~~~~~~~~~idl~~l~~~~~~~~~~~~~~~~~l~~~i~~AD~iI~-~sP~Y~~s 79 (171)
T TIGR03567 17 ALLRHVREALQEQGVEVDHLSVRDLPAEDLLFARFDSPAIKAATAQVAQADGVVV-ATPVYKAS 79 (171)
T ss_pred HHHHHHHHHHHHCCCeEEEEEecCCChHHhhhcCCCCHHHHHHHHHHHHCCEEEE-ECCcccCC
Confidence 45566777777767643 2332 33221 1223567778888887655 58887644
No 113
>PRK14976 5'-3' exonuclease; Provisional
Probab=38.81 E-value=1e+02 Score=21.81 Aligned_cols=68 Identities=19% Similarity=0.299 Sum_probs=41.1
Q ss_pred CCCCcccEEEecccCc--CChhH---HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 6 RNNKKYDVFVSFRGED--IRDNF---TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 6 ~~~~~ydVFISy~~~D--~~~~~---~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
...++.+.|-.|...- ..+.+ ...+.+.|+..||.++.-...+. |++...+.........-++|+|.+
T Consensus 66 ~~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EA-DDviatla~~~~~~g~~v~IvS~D 138 (281)
T PRK14976 66 RKTFRHQLYDEYKQGRKKTPESLISQIPLLKKILKLAGIKWEEQPGYEA-DDLIGSLAKKLSKQNITVLIYSSD 138 (281)
T ss_pred CCcccccccHHHhcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCH-HHHHHHHHHHHHHCCCeEEEEeCC
Confidence 4557888888885532 12233 34556677888998886433333 344446666666655566677765
No 114
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=38.65 E-value=59 Score=17.72 Aligned_cols=32 Identities=19% Similarity=0.253 Sum_probs=23.5
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.+.|+++..+ +.++..+...|.+.||..-+..
T Consensus 21 ~~~i~~~~~s--~~ll~~v~~lL~~lGi~~~i~~ 52 (77)
T PF14528_consen 21 SVRISISSKS--KELLEDVQKLLLRLGIKASIYE 52 (77)
T ss_dssp EEEEEEEES---HHHHHHHHHHHHHTT--EEEEE
T ss_pred EEEEEEEECC--HHHHHHHHHHHHHCCCeeEEEE
Confidence 5678887776 5799999999999999876653
No 115
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=38.59 E-value=92 Score=21.38 Aligned_cols=48 Identities=13% Similarity=0.258 Sum_probs=28.4
Q ss_pred HHHHHHHHhcCCceEEeec-cCCCC-cchHHHHHHHHHhCCE-EEEEEcCC
Q 037311 27 TSHLYSALARQNIQTFIDD-QLNRG-DEISESLVKAIKASAI-SVIIFSED 74 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~-~~~~G-~~~~~~i~~~i~~s~~-~i~v~S~~ 74 (93)
..|..++|+++|++|-+-. +=..+ ..+.+.|.+.+++... .|.++.|.
T Consensus 51 MRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~ 101 (224)
T PF04244_consen 51 MRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPG 101 (224)
T ss_dssp HHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S
T ss_pred HHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCC
Confidence 3677789999999999877 43333 4788899888887653 45555554
No 116
>PRK07933 thymidylate kinase; Validated
Probab=38.55 E-value=1.1e+02 Score=20.44 Aligned_cols=31 Identities=19% Similarity=0.230 Sum_probs=22.9
Q ss_pred EEecccCcC--ChhHHHHHHHHHhcCCceEEee
Q 037311 14 FVSFRGEDI--RDNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 14 FISy~~~D~--~~~~~~~L~~~L~~~gi~v~~d 44 (93)
||.+-+-|. .-+.+..|.+.|+.+|++|..-
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~ 34 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVATL 34 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 666666553 2468889999999999987754
No 117
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=38.44 E-value=1.2e+02 Score=20.24 Aligned_cols=52 Identities=17% Similarity=0.317 Sum_probs=32.8
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcC-CceEEeeccCCCCcchHHHHHHHHHhCCEEEE
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQ-NIQTFIDDQLNRGDEISESLVKAIKASAISVI 69 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~-gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~ 69 (93)
=+||.....|. .+++...+++|++. |+.+-.-..+. .++..+.|.+++.+++
T Consensus 34 i~~IptAs~~~-~~~~~~~~~a~~~l~G~~~~~~~~~~-----~~~~~~~l~~ad~I~l 86 (212)
T cd03146 34 VLFVPTASGDR-DEYTARFYAAFESLRGVEVSHLHLFD-----TEDPLDALLEADVIYV 86 (212)
T ss_pred EEEECCCCCCH-HHHHHHHHHHHhhccCcEEEEEeccC-----cccHHHHHhcCCEEEE
Confidence 35888877754 46788888899988 88765432111 2344556666666544
No 118
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=38.25 E-value=76 Score=19.82 Aligned_cols=61 Identities=13% Similarity=0.187 Sum_probs=32.8
Q ss_pred hHHHHHHHHHh--cCCceEEeeccCCCCcchHHHHHHHHH----hCCEEEEEEcCCCCCcHH-HHHHH
Q 037311 25 NFTSHLYSALA--RQNIQTFIDDQLNRGDEISESLVKAIK----ASAISVIIFSEDYASSRW-CLDEF 85 (93)
Q Consensus 25 ~~~~~L~~~L~--~~gi~v~~d~~~~~G~~~~~~i~~~i~----~s~~~i~v~S~~y~~S~w-c~~El 85 (93)
..+..+.+.|. ...+.+.+-...-++..+.+.+.++|+ +--.-|+|+.+.|+...- .+.|+
T Consensus 45 ~~~~~v~~~l~~~~~~~~~~fqS~~g~~~Wl~P~~~~~l~~l~~~G~~~i~v~p~gF~~D~~Etl~di 112 (135)
T cd00419 45 ETARLVAERLGLPFDEYELAYQSRFGPGEWLEPSTDDALEELAKEGVKNVVVVPIGFVSDHLETLYEL 112 (135)
T ss_pred HHHHHHHHHhCCCCCCEEEEecCCCCCCCCCCCCHHHHHHHHHHcCCCeEEEECCccccccHHHHHHH
Confidence 34556666665 344555444323345444444444443 333568889999986532 34444
No 119
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=38.19 E-value=1.1e+02 Score=21.18 Aligned_cols=50 Identities=12% Similarity=0.181 Sum_probs=30.8
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHH
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAI 61 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i 61 (93)
.|.++|-+....+..+.+..+.|.+.|+.+..-.--..|.+|.+.+.+..
T Consensus 156 ~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~lP~~~KDwNEllk~~~ 205 (218)
T TIGR00646 156 KIFICFDNDFAGKNAAANLEEILKKAGFITKVIEIKAAAKDWNDLFLLNN 205 (218)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeCCCcCCChhHHHHHhh
Confidence 57788866554556667777777777887655431124467776555443
No 120
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=38.15 E-value=41 Score=17.98 Aligned_cols=21 Identities=14% Similarity=0.237 Sum_probs=13.9
Q ss_pred hHHHHHHHHHhcCCceEEeec
Q 037311 25 NFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.-+..+...|+++||.+++..
T Consensus 10 ~ea~~i~~~L~~~gI~~~v~~ 30 (67)
T PF09413_consen 10 IEAELIKGLLEENGIPAFVKN 30 (67)
T ss_dssp HHHHHHHHHHHHTT--EE--S
T ss_pred HHHHHHHHHHHhCCCcEEEEC
Confidence 346778889999999999976
No 121
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=37.76 E-value=91 Score=18.65 Aligned_cols=53 Identities=9% Similarity=0.251 Sum_probs=31.4
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
+|-|..+.- +.++..|.+.|...|+.+-+-. +..+ ..+.+++ .|++.+|.|..
T Consensus 4 iy~S~tGnT--~~~A~~i~~~~~~~g~~v~~~~~~~~~~---------~~l~~~d-~iilgspty~~ 58 (140)
T TIGR01753 4 VYASMTGNT--EEMANIIAEGLKEAGAEVDLLEVADADA---------EDLLSYD-AVLLGCSTWGD 58 (140)
T ss_pred EEECCCcHH--HHHHHHHHHHHHhcCCeEEEEEcccCCH---------HHHhcCC-EEEEEcCCCCC
Confidence 355554432 4688999999988888765443 2211 1233444 45666777753
No 122
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=37.67 E-value=92 Score=20.26 Aligned_cols=32 Identities=16% Similarity=0.080 Sum_probs=23.7
Q ss_pred ccEEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
--+.|..... +.|...|.+.|++.||-|--++
T Consensus 53 Tt~~l~q~~~---D~Fg~aL~~aLR~~GYaV~e~~ 84 (151)
T PRK13883 53 TRFELQQPTP---DAFGQALVKALRDKGYALLEYN 84 (151)
T ss_pred eEEEEecCCC---cHHHHHHHHHHHHcCeEEEecC
Confidence 4455544333 4799999999999999988655
No 123
>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=37.56 E-value=96 Score=19.36 Aligned_cols=21 Identities=29% Similarity=0.327 Sum_probs=19.2
Q ss_pred hHHHHHHHHHhcCCceEEeec
Q 037311 25 NFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.|...|.+.|+++|+-|--++
T Consensus 36 ~Fg~aL~~~LR~~GYaV~e~~ 56 (121)
T PF07283_consen 36 PFGQALENALRAKGYAVIEDD 56 (121)
T ss_pred hHHHHHHHHHHhcCcEEEecC
Confidence 799999999999999988775
No 124
>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=37.54 E-value=1e+02 Score=19.17 Aligned_cols=61 Identities=11% Similarity=-0.042 Sum_probs=37.5
Q ss_pred HHHhcCCceEEeec------c--------CCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhhc
Q 037311 32 SALARQNIQTFIDD------Q--------LNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILECK 92 (93)
Q Consensus 32 ~~L~~~gi~v~~d~------~--------~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~~ 92 (93)
..|-+.|+.+|--. . -..+.-|.+--..-++.|+-+|++-.|++-.|.=-..|+..+.+.+
T Consensus 34 a~l~~~G~~~fSpv~~sH~~~~~~~~~~~~~~~~~W~~~d~~~L~~c~~lvV~~i~GW~~S~Gi~~Ei~~a~~~~ 108 (116)
T PF09152_consen 34 AELLKAGHAAFSPVVMSHPINFELLGDDDPLIQKLWEDWDRPFLDACDELVVLDIPGWDDSEGIWAEIEAAEEMG 108 (116)
T ss_dssp HHHHHTT-EEEEHHHHHHHHHCCGTTS-HHHHHHHHHHHHHHHHHH-SEEEE---TTGGG-HHHHHHHHHHHHTT
T ss_pred HHHHhcCCeeEeccccccccchhcccccCcchhHHHHHHhHHHHHhcceeEEecCCCccccccHHHHHHHHHHcC
Confidence 34556899888640 1 1122334444444577899999999999999999999999988754
No 125
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=36.85 E-value=66 Score=24.15 Aligned_cols=38 Identities=21% Similarity=0.287 Sum_probs=30.8
Q ss_pred HHHHHHHHhCC-EEEEEEcCCCC-CcHHHHHHHHHHHhhc
Q 037311 55 ESLVKAIKASA-ISVIIFSEDYA-SSRWCLDEFAEILECK 92 (93)
Q Consensus 55 ~~i~~~i~~s~-~~i~v~S~~y~-~S~wc~~El~~~~~~~ 92 (93)
+.+.+++.+.+ .+.++++|+-- ..-|-.+||.++.+-+
T Consensus 148 ~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc 187 (388)
T COG1168 148 DALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELC 187 (388)
T ss_pred HHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHH
Confidence 47788888887 78888888866 6789999999988754
No 126
>KOG3573 consensus Caspase, apoptotic cysteine protease [Cell cycle control, cell division, chromosome partitioning]
Probab=36.79 E-value=23 Score=25.04 Aligned_cols=29 Identities=21% Similarity=0.219 Sum_probs=20.5
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCce
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQ 40 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~ 40 (93)
+-|+||++.+..-+|+..|.+.|.+.+-+
T Consensus 229 ~g~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 229 PGYVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred CCceeeecCCCceeeHHHHHHHHHHhcch
Confidence 33566666555567888899988877665
No 127
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=36.72 E-value=51 Score=17.65 Aligned_cols=30 Identities=17% Similarity=0.097 Sum_probs=19.7
Q ss_pred cccEEEecccCcCChhHHHHHHHHHhcCCceE
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALARQNIQT 41 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v 41 (93)
.-.|+++.-..+ .+-...+.++|++.|+.+
T Consensus 37 ~~~v~v~ie~~~--~~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 37 EARVLVGIQVPD--REDLAELKERLEALGYPY 66 (68)
T ss_pred ceEEEEEEEeCC--HHHHHHHHHHHHHcCCCc
Confidence 345666665444 245677888888888864
No 128
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=36.69 E-value=56 Score=21.52 Aligned_cols=43 Identities=21% Similarity=0.284 Sum_probs=28.5
Q ss_pred HHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 29 HLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
.|.+.|++.|+.|..-. +. +.......+.+.+.....-+++++
T Consensus 131 ~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~~v~ft 175 (231)
T PF02602_consen 131 DLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEIDAVVFT 175 (231)
T ss_dssp HHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTSEEEES
T ss_pred HHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCCEEEEC
Confidence 36677788888766544 55 556677788888877665444443
No 129
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=36.64 E-value=1.3e+02 Score=20.31 Aligned_cols=33 Identities=18% Similarity=0.321 Sum_probs=24.7
Q ss_pred EEEecccCcC--ChhHHHHHHHHHhcCCceEEeec
Q 037311 13 VFVSFRGEDI--RDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 13 VFISy~~~D~--~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.||.+=+-|. ..+.+..|++.|+++|+.|.+-.
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~tr 38 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTR 38 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 4777766553 24678899999999999877764
No 130
>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=36.39 E-value=1.5e+02 Score=20.87 Aligned_cols=28 Identities=11% Similarity=0.068 Sum_probs=16.9
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCce
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQ 40 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~ 40 (93)
|-|=|...|-.+.++..|.+.|++.|+.
T Consensus 139 vaii~~~~~~g~~~~~~l~~~l~~~g~~ 166 (362)
T cd06367 139 FSVVTSRDPGYRDFLDRVETTLEESFVG 166 (362)
T ss_pred EEEEEEcCcccHHHHHHHHHHHHhcccc
Confidence 3344444443345677777778777765
No 131
>PRK11263 cardiolipin synthase 2; Provisional
Probab=36.24 E-value=1.1e+02 Score=22.98 Aligned_cols=39 Identities=21% Similarity=0.281 Sum_probs=26.1
Q ss_pred cchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHH
Q 037311 51 DEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEIL 89 (93)
Q Consensus 51 ~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~ 89 (93)
..+...+..+|..++..|.|.+|-|+...--+..|..|.
T Consensus 205 ~~i~~~~~~~i~~A~~~I~I~tpYf~p~~~l~~aL~~Aa 243 (411)
T PRK11263 205 DDIERHYLKALRQARREVIIANAYFFPGYRLLRALRNAA 243 (411)
T ss_pred HHHHHHHHHHHHHhceEEEEEecCcCCCHHHHHHHHHHH
Confidence 345566777777788877777777776655556665544
No 132
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=36.14 E-value=67 Score=19.15 Aligned_cols=60 Identities=20% Similarity=0.249 Sum_probs=36.4
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec---------cC-----CCCcc-hHHHHHHHHHh-CCEEEEEEcCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD---------QL-----NRGDE-ISESLVKAIKA-SAISVIIFSED 74 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~---------~~-----~~G~~-~~~~i~~~i~~-s~~~i~v~S~~ 74 (93)
||||-+..|. .-...+...|.+.|+.++--. .+ ..+.. -.+++.+.|.+ -++-++|..|+
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 6888876663 233356666677777775421 11 11100 12578889999 88888888775
No 133
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=36.06 E-value=1e+02 Score=18.77 Aligned_cols=43 Identities=16% Similarity=0.151 Sum_probs=24.4
Q ss_pred HHHHHHHHHhcCCceEEeeccCC-CCcchHHHHHHHHHhCCEEE
Q 037311 26 FTSHLYSALARQNIQTFIDDQLN-RGDEISESLVKAIKASAISV 68 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d~~~~-~G~~~~~~i~~~i~~s~~~i 68 (93)
....|.+.|++.|+.+..-.-+. .-+.+.+.+.+.+++++++|
T Consensus 19 ~~~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dlii 62 (135)
T smart00852 19 NGPALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADLVI 62 (135)
T ss_pred cHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCEEE
Confidence 44567788888998765432111 11335556666666666433
No 134
>PRK14158 heat shock protein GrpE; Provisional
Probab=35.96 E-value=1.1e+02 Score=20.76 Aligned_cols=47 Identities=19% Similarity=0.328 Sum_probs=35.3
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-------CCEEEEEEcCCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-------SAISVIIFSEDYAS 77 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-------s~~~i~v~S~~y~~ 77 (93)
..|...|+..|+... +-..|+.|.+++-++|.. ...++-|+.++|.-
T Consensus 127 k~l~~vLek~Gv~~I---~~~~G~~FDP~~HEAv~~~~~~~~~~gtVv~v~qkGY~l 180 (194)
T PRK14158 127 SMLLSTLKKFGVTPV---EAEKGTPFDPAYHQAMCQVESAEQEPNTVVAVFQKGYLL 180 (194)
T ss_pred HHHHHHHHHCCCEEe---cCCCCCCCChHHhhhheeecCCCCCcCEEEEEeeCCcEe
Confidence 456778888899754 223599999999998853 35788999999864
No 135
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=35.68 E-value=1.1e+02 Score=19.82 Aligned_cols=66 Identities=15% Similarity=0.283 Sum_probs=38.6
Q ss_pred CCcccEEEecccC--cCChhHH---HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 8 NKKYDVFVSFRGE--DIRDNFT---SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 8 ~~~ydVFISy~~~--D~~~~~~---~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
.+..++|-.|... ..++.+. ..+.+.|+..|+.++.....+. |++.-.+.+...+...-|+|+|.+
T Consensus 64 ~fR~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EA-DDvIatla~~~~~~~~~v~IvS~D 134 (169)
T PF02739_consen 64 TFRKELYPEYKANRKPMPEELIPQLPYIKELLEALGIPVLEVPGYEA-DDVIATLAKKASEEGFEVIIVSGD 134 (169)
T ss_dssp HHHHHCCTTTTHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEETTB-H-HHHHHHHHHHHHHTTCEEEEE-SS
T ss_pred chHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHCCCCEecCCCCcH-HHHHHHHHhhhccCCCEEEEEcCC
Confidence 3555666666432 1123343 4566677788998886544443 455557777777776667777765
No 136
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=35.52 E-value=89 Score=20.32 Aligned_cols=48 Identities=19% Similarity=0.149 Sum_probs=27.6
Q ss_pred HHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCE-EEEEEcCCCC
Q 037311 28 SHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAI-SVIIFSEDYA 76 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~-~i~v~S~~y~ 76 (93)
..|.+.|++.|+.+..-. +..+-... +...+.+++... .|++.|++-+
T Consensus 135 ~~l~~~L~~~g~~v~~~~~Y~~~~~~~~-~~~~~~l~~~~~~~iiftS~~~v 185 (239)
T cd06578 135 EDLAEALRERGAEVDEVEVYRTVPPDLD-AELLELLEEGAIDAVLFTSPSTV 185 (239)
T ss_pred HHHHHHHHHCCCEEEEEEEEEEECCCCc-HHHHHHHHcCCCcEEEEeCHHHH
Confidence 356677777787655433 33333222 355666666654 6777777643
No 137
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type. This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.
Probab=34.93 E-value=2.1e+02 Score=22.55 Aligned_cols=62 Identities=16% Similarity=0.158 Sum_probs=39.3
Q ss_pred CcccEEEecccCc-CChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 9 KKYDVFVSFRGED-IRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 9 ~~ydVFISy~~~D-~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
-.++|+|-.-.++ .....+..|...|+..|+++.+|. .|. +...+..+-+.---.++++.++
T Consensus 456 AP~kV~VIpl~~~~el~~~A~eIa~~LR~~GI~VeiD~---s~s-IGKq~rrADeiGiPf~IIIG~~ 518 (551)
T TIGR00389 456 APIKVAVLPLVNKEELKEIAKEIFQALRKTGIRIKYDD---SGT-IGKRYRRADEIGTPFCVTIDFE 518 (551)
T ss_pred CCceEEEEEecCcHHHHHHHHHHHHHHHHCCCEEEEEC---CCC-HHHHHHHHHHcCCCEEEEECCc
Confidence 3567766554432 224577899999999999999985 232 6566666655444455555544
No 138
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=34.87 E-value=1.2e+02 Score=19.17 Aligned_cols=49 Identities=14% Similarity=0.241 Sum_probs=34.1
Q ss_pred HHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEE-cCCCCCcHHH
Q 037311 26 FTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIF-SEDYASSRWC 81 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~-S~~y~~S~wc 81 (93)
...-|...|.++|..+..-. .- .++.+.+++++++|... +++++..+|-
T Consensus 40 vG~pla~lL~~~gatV~~~~~~t-------~~l~~~v~~ADIVvsAtg~~~~i~~~~i 90 (140)
T cd05212 40 VGAPLQCLLQRDGATVYSCDWKT-------IQLQSKVHDADVVVVGSPKPEKVPTEWI 90 (140)
T ss_pred HHHHHHHHHHHCCCEEEEeCCCC-------cCHHHHHhhCCEEEEecCCCCccCHHHc
Confidence 44567777778899887764 22 25677899999876554 4666777774
No 139
>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=34.85 E-value=74 Score=18.80 Aligned_cols=49 Identities=12% Similarity=0.135 Sum_probs=27.0
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
++||+++... .+....+.++++|.++..=.+- ++.++. +.++..+.+-.
T Consensus 51 I~iS~sG~t~---e~~~~~~~a~~~g~~vi~iT~~-~~s~la-------~~ad~~l~~~~ 99 (126)
T cd05008 51 IAISQSGETA---DTLAALRLAKEKGAKTVAITNV-VGSTLA-------READYVLYLRA 99 (126)
T ss_pred EEEeCCcCCH---HHHHHHHHHHHcCCeEEEEECC-CCChHH-------HhCCEEEEecC
Confidence 4677777642 3445556777888876643211 222222 35676666554
No 140
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=34.77 E-value=1.3e+02 Score=20.64 Aligned_cols=68 Identities=15% Similarity=0.270 Sum_probs=40.2
Q ss_pred CCCCcccEEEecccC--cCCh---hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 6 RNNKKYDVFVSFRGE--DIRD---NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 6 ~~~~~ydVFISy~~~--D~~~---~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
.+.++.++|-.|... .... .....+.+.|+..|+.++.....+. |++...+.........-++|+|++
T Consensus 61 ~~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EA-DD~ia~la~~~~~~g~~~~I~S~D 133 (240)
T cd00008 61 GKTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEA-DDVIGTLAKKAEAEGYKVVIVSGD 133 (240)
T ss_pred CCcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCH-HHHHHHHHHHHHHcCCeEEEEeCC
Confidence 456788888888553 2222 3345677778888998775423332 334445555555555566677755
No 141
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=34.73 E-value=70 Score=16.41 Aligned_cols=33 Identities=9% Similarity=0.102 Sum_probs=22.6
Q ss_pred CCcccEEEecccCcCChhHHHHHHHHHhcCCceEE
Q 037311 8 NKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTF 42 (93)
Q Consensus 8 ~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~ 42 (93)
...+.+++.....+. .-...+.+.|++.|+.+.
T Consensus 40 ~~~~~~~i~v~~~~~--~~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 40 LGEVEVELTLETRGA--EHIEEIIAALREAGYDVR 72 (73)
T ss_pred CceEEEEEEEEeCCH--HHHHHHHHHHHHcCCEEe
Confidence 455667777765542 345678888888998875
No 142
>PF03045 DAN: DAN domain; InterPro: IPR004133 This domain contains 9 conserved cysteines and is extracellular. Therefore the cysteines may form disulphide bridges. This family of proteins has been termed the DAN family [] after the first member to be reported. This family includes DAN, Cerberus and Gremlin. The gremlin protein is an antagonist of bone morphogenetic protein signalling. It is postulated that all members of this family antagonize different TGF beta TGF-beta ligands [].
Probab=34.46 E-value=22 Score=22.03 Aligned_cols=29 Identities=14% Similarity=0.234 Sum_probs=20.6
Q ss_pred hHHHHHHHHHhCCEEEEEEcCCCCCcHHHH
Q 037311 53 ISESLVKAIKASAISVIIFSEDYASSRWCL 82 (93)
Q Consensus 53 ~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~ 82 (93)
|...+.++-+.+. .+.++.+.+...+||.
T Consensus 3 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~Ck 31 (121)
T PF03045_consen 3 WQHFVLKSSRAAL-VSLPTKLQPLKRDWCK 31 (121)
T ss_pred hhhhhhhcCcccc-eeeeccccccccCccE
Confidence 3444555545555 7788899999999995
No 143
>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=34.31 E-value=1.5e+02 Score=20.04 Aligned_cols=60 Identities=10% Similarity=0.073 Sum_probs=38.3
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
.+|++.|..+....| ..|++ +---||+|. -.+..+...+.+.+.++..-|+++||.--..
T Consensus 103 ~i~tr~Se~E~~~~~-~~~~~----~~~~VW~D~--f~~~~~~~~~~~~~~~~~~~~c~VSpELh~~ 162 (192)
T cd08584 103 RTATRVSEYEPIPTA-LSLYE----KADWVWIDS--FTSLWLDNDLILKLLKAGKKICLVSPELHGR 162 (192)
T ss_pred eeEEeecccccchHH-HHhhc----cccEEEEec--ccccCCCHHHHHHHHHCCcEEEEECHHHcCC
Confidence 467777665543222 12222 223489986 2235677788888888899999999986543
No 144
>PF07859 Abhydrolase_3: alpha/beta hydrolase fold A web page of Esterases and alpha/beta hydrolases.; InterPro: IPR013094 The alpha/beta hydrolase fold [] is common to a number of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is an alpha/beta-sheet (rather than a barrel), containing 8 strands connected by helices []. The enzymes are believed to have diverged from a common ancestor, preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best conserved structural features of the fold. Esterase (EST) from Pseudomonas putida is a member of the alpha/beta hydrolase fold superfamily of enzymes []. In most of the family members the beta-strands are parallels, but some have an inversion of the first strands, which gives it an antiparallel orientation. The catalytic triad residues are presented on loops. One of these is the nucleophile elbow and is the most conserved feature of the fold. Some other members lack one or all of the catalytic residues. Some members are therefore inactive but others are involved in surface recognition. The ESTHER database [] gathers and annotates all the published information related to gene and protein sequences of this superfamily []. This entry represents the catalytic domain fold-3 of alpha/beta hydrolase. ; GO: 0016787 hydrolase activity, 0008152 metabolic process; PDB: 3D7R_B 2C7B_B 3ZWQ_B 2YH2_B 3BXP_A 3D3N_A 1LZK_A 1LZL_A 2O7V_A 2O7R_A ....
Probab=34.10 E-value=92 Score=19.94 Aligned_cols=37 Identities=5% Similarity=0.038 Sum_probs=27.1
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
....+||.++..|.-..-...+.+.|++.|..+-+..
T Consensus 165 ~~Pp~~i~~g~~D~l~~~~~~~~~~L~~~gv~v~~~~ 201 (211)
T PF07859_consen 165 GLPPTLIIHGEDDVLVDDSLRFAEKLKKAGVDVELHV 201 (211)
T ss_dssp TCHEEEEEEETTSTTHHHHHHHHHHHHHTT-EEEEEE
T ss_pred cCCCeeeeccccccchHHHHHHHHHHHHCCCCEEEEE
Confidence 3457999999988644455688889999999876653
No 145
>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=33.92 E-value=82 Score=18.53 Aligned_cols=53 Identities=13% Similarity=0.249 Sum_probs=30.6
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
++||+++.. ...+..+ ..++++|.++..=.+ .++.++ .+.++..+.+-+.+..
T Consensus 58 i~is~sg~~--~~~~~~~-~~ak~~g~~vi~iT~-~~~~~l-------~~~ad~~l~~~~~~~~ 110 (131)
T PF01380_consen 58 IIISYSGET--RELIELL-RFAKERGAPVILITS-NSESPL-------ARLADIVLYIPTGEES 110 (131)
T ss_dssp EEEESSSTT--HHHHHHH-HHHHHTTSEEEEEES-STTSHH-------HHHSSEEEEEESSCGS
T ss_pred Eeeeccccc--hhhhhhh-HHHHhcCCeEEEEeC-CCCCch-------hhhCCEEEEecCCCcc
Confidence 567777754 3455555 478888887643211 222222 3567877777766544
No 146
>KOG4594 consensus Sequence-specific single-stranded-DNA-binding protein [Replication, recombination and repair; Transcription; General function prediction only]
Probab=33.82 E-value=38 Score=24.62 Aligned_cols=53 Identities=13% Similarity=0.151 Sum_probs=30.1
Q ss_pred ChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHH
Q 037311 23 RDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFA 86 (93)
Q Consensus 23 ~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~ 86 (93)
|+.++..+|+.|..-|.. +.++.+..+|. -.+-+-+.--+.|+.+.||+.+-.
T Consensus 17 rekLa~YvYEYLlhvgaq-------ksaqtflseir----weknitlge~p~FLhsWWcvFwDL 69 (354)
T KOG4594|consen 17 REKLALYVYEYLLHVGAQ-------KSAQTFLSEIR----WEKNITLGEPPGFLHSWWCVFWDL 69 (354)
T ss_pred HHHHHHHHHHHHHHhhhh-------hhhhhhHHHHH----HhhhhhccCCcchhhhhHHHHHHH
Confidence 567888899988754431 22222333333 111112333578999999998653
No 147
>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=33.71 E-value=76 Score=17.82 Aligned_cols=36 Identities=25% Similarity=0.146 Sum_probs=26.1
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.+-=|+|.+.-.+-. ..-.+|.+.|.++|+.|+.-+
T Consensus 15 ~k~~v~i~HG~~eh~-~ry~~~a~~L~~~G~~V~~~D 50 (79)
T PF12146_consen 15 PKAVVVIVHGFGEHS-GRYAHLAEFLAEQGYAVFAYD 50 (79)
T ss_pred CCEEEEEeCCcHHHH-HHHHHHHHHHHhCCCEEEEEC
Confidence 466788888665432 334578889999999998754
No 148
>PF01094 ANF_receptor: Receptor family ligand binding region The Prosite family is a sub-family of the Pfam family; InterPro: IPR001828 This describes a ligand binding domain and includes extracellular ligand binding domains of a wide range of receptors, as well as the bacterial amino acid binding proteins of known structure [].; PDB: 3SAJ_D 3Q41_B 3QEM_C 3QEK_A 3QEL_C 3MQ4_A 3QLV_G 3OM1_A 3QLU_A 3OM0_A ....
Probab=33.58 E-value=82 Score=21.57 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=17.1
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEE
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTF 42 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~ 42 (93)
|.|=|...+....++..+.+.+++.|..+.
T Consensus 124 v~vv~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (348)
T PF01094_consen 124 VSVVYSDDDYGNSLADSFQDLLRERGGICV 153 (348)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHHHHTTCEE
T ss_pred eeeeccccccccccchhhhhhhccccccee
Confidence 444454444334567788888887554433
No 149
>TIGR02130 dapB_plant dihydrodipicolinate reductase. This narrow family includes genes from Arabidopsis and Fibrobacter succinogenes (which probably recieved the gene from a plant via lateral gene transfer). The sequences are distantly related to the dihydrodipicolinate reductases from archaea. In Fibrobacter this gene is the only candidate DHPR in the genome.
Probab=33.47 E-value=1.8e+02 Score=20.77 Aligned_cols=67 Identities=7% Similarity=0.066 Sum_probs=42.6
Q ss_pred cc-EEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHH
Q 037311 11 YD-VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAE 87 (93)
Q Consensus 11 yd-VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~ 87 (93)
.| |.|-|++.+ .+........++|+.+..-. .+. ++-.+.+.+...+=++++|||.-.---+..+.+
T Consensus 69 ~d~VvIDFT~P~----~~~~n~~~~~~~gv~~ViGTTG~~------~~~~~~l~~~~~i~~l~apNfSiGv~ll~~~~~ 137 (275)
T TIGR02130 69 PELICIDYTHPS----AVNDNAAFYGKHGIPFVMGTTGGD------REALAKLVADAKHPAVIAPNMAKQIVAFLAAIE 137 (275)
T ss_pred CCEEEEECCChH----HHHHHHHHHHHCCCCEEEcCCCCC------HHHHHHHHHhcCCCEEEECcccHHHHHHHHHHH
Confidence 77 999999876 23333344456788877764 322 222334444344778999999877776666654
No 150
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=33.46 E-value=34 Score=22.44 Aligned_cols=21 Identities=33% Similarity=0.572 Sum_probs=16.4
Q ss_pred CCEEEEEEcCC--CCCcHHHHHH
Q 037311 64 SAISVIIFSED--YASSRWCLDE 84 (93)
Q Consensus 64 s~~~i~v~S~~--y~~S~wc~~E 84 (93)
....+.++|-+ |+++.||..|
T Consensus 75 ~~~~Vl~IS~DLPFAq~RfC~ae 97 (158)
T COG2077 75 GNTVVLCISMDLPFAQKRFCGAE 97 (158)
T ss_pred CCcEEEEEeCCChhHHhhhhhhc
Confidence 34677788866 8899999876
No 151
>PTZ00344 pyridoxal kinase; Provisional
Probab=33.38 E-value=1.5e+02 Score=20.80 Aligned_cols=66 Identities=11% Similarity=0.097 Sum_probs=35.9
Q ss_pred hHHHHHHHHHhcCCc--eEEeec-cCCCCcchHHHHHHHHHhCC----EEEEEEcCCCCC--cHHHHHHHHHHHh
Q 037311 25 NFTSHLYSALARQNI--QTFIDD-QLNRGDEISESLVKAIKASA----ISVIIFSEDYAS--SRWCLDEFAEILE 90 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi--~v~~d~-~~~~G~~~~~~i~~~i~~s~----~~i~v~S~~y~~--S~wc~~El~~~~~ 90 (93)
.+...+.+.|.+.+. .+..-. ...|...+.+.+.+.+++.+ .+.+|+.|.+.. ..|...++..++.
T Consensus 60 ~~~~~~l~~l~~~~~~~~~~~v~sG~l~~~~~~~~i~~~l~~~~~~~~~~~vv~DPv~~~~g~l~~~~~~~~~~~ 134 (296)
T PTZ00344 60 NELITLMDGLRANNLLSDYTYVLTGYINSADILREVLATVKEIKELRPKLIFLCDPVMGDDGKLYVKEEVVDAYR 134 (296)
T ss_pred HHHHHHHHHHHhcCCcccCCEEEECCCCCHHHHHHHHHHHHHHHHhCCCceEEECCccccCCceEeCHHHHHHHH
Confidence 355566666665443 222222 45555667777777776432 246778887742 2265555555543
No 152
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=32.76 E-value=1.5e+02 Score=20.19 Aligned_cols=47 Identities=19% Similarity=0.234 Sum_probs=29.2
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHH----hCCEE-EEEEcCC
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIK----ASAIS-VIIFSED 74 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~----~s~~~-i~v~S~~ 74 (93)
+..|.+.|++.|+.|....++ ..+.+.+.+.+..+ ..+++ ++++|.+
T Consensus 34 ~~~l~~~f~~lgF~V~~~~nl-t~~~~~~~l~~f~~~~~~~~d~~v~~~~sHG 85 (243)
T cd00032 34 AENLTKLFESLGYEVEVKNNL-TAEEILEELKEFASPDHSDSDSFVCVILSHG 85 (243)
T ss_pred HHHHHHHHHHCCCEEEEeCCC-CHHHHHHHHHHHHhccCCCCCeeEEEECCCC
Confidence 567888999999999876554 33445555544442 33444 4555554
No 153
>cd00518 H2MP Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE, the large subunit of hydrogenase 3. This cleavage is nickel dependent. This CD also includes such hydrogenase-processing proteins as HydD, HupW, and HoxW, as well as, proteins of the F420-reducing hydrogenase of methanogens (e.g., FrcD). Also included, is the Pyrococcus furiosus FrxA protein, a bifunctional endopeptidase/ sulfhydrogenase found in NADP-reducing hyperthermophiles.The Pyrococcus FrxA is not related to those found in Helicobacter pylori.
Probab=32.66 E-value=1.2e+02 Score=18.63 Aligned_cols=45 Identities=11% Similarity=0.228 Sum_probs=26.0
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
++-.++.+.|+++.. -+. ++..+.....++...+++.+.+|+|-.
T Consensus 14 GvG~~v~~~L~~~~~---~~~v~~id~gt~~~~l~~~l~~~d~viiVDA 59 (139)
T cd00518 14 GFGPAVAERLEERYL---PPGVEVIDGGTLGLELLDLLEGADRVIIVDA 59 (139)
T ss_pred cHHHHHHHHHHhcCC---CCCeEEEECCCCHHHHHHHHhcCCeEEEEEC
Confidence 466677777776532 111 222233334567777788888777755
No 154
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=32.53 E-value=1.4e+02 Score=19.40 Aligned_cols=54 Identities=22% Similarity=0.273 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHhcCC-ceEEeec-cC-------CC-Cc-chHHHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 24 DNFTSHLYSALARQN-IQTFIDD-QL-------NR-GD-EISESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 24 ~~~~~~L~~~L~~~g-i~v~~d~-~~-------~~-G~-~~~~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
..++..+.+.|+..+ +.+..+. ++ .. +. .-...+.+.|..++.+| +.||.|..|
T Consensus 17 ~~la~~~~~~l~~~~~~~~~~~~~~lP~~~~d~~~~~~p~~v~~~~~~i~~aD~li-~~tPeYn~s 81 (184)
T COG0431 17 RALAEAAAKLLPAGGEVEVEFDDLDLPLYNEDLEADGLPPAVQALREAIAAADGLI-IATPEYNGS 81 (184)
T ss_pred HHHHHHHHHhhcccCceEEEecccccCCCCcchhhccCCHHHHHHHHHHHhCCEEE-EECCccCCC
Confidence 357778888888776 4344322 22 11 11 11346667777787665 558888755
No 155
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=32.49 E-value=91 Score=18.57 Aligned_cols=28 Identities=11% Similarity=0.134 Sum_probs=16.7
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
++||+++... +.+ ...+.++++|+++..
T Consensus 48 I~iS~SG~t~--e~i-~~~~~a~~~g~~iI~ 75 (119)
T cd05017 48 IAVSYSGNTE--ETL-SAVEQAKERGAKIVA 75 (119)
T ss_pred EEEECCCCCH--HHH-HHHHHHHHCCCEEEE
Confidence 4667777642 333 444566778887654
No 156
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=32.45 E-value=78 Score=19.83 Aligned_cols=24 Identities=4% Similarity=0.200 Sum_probs=17.8
Q ss_pred chHHHHHHHHHhCCEEEEEEcCCC
Q 037311 52 EISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 52 ~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
.+...+..++++++.+|+|++..-
T Consensus 53 ~~~~~~~~~~~~ad~il~v~d~~~ 76 (158)
T PRK15467 53 RWYHALITTLQDVDMLIYVHGAND 76 (158)
T ss_pred HHHHHHHHHHhcCCEEEEEEeCCC
Confidence 456666677888888888887663
No 157
>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=32.11 E-value=1.7e+02 Score=20.05 Aligned_cols=72 Identities=11% Similarity=0.018 Sum_probs=38.8
Q ss_pred CCCCcccEEEecccC-cCC--hhHHHHHHHHHhcCCceEEeec--cCC--CCc----chHHHHHHHHHhCCEEEEEEcCC
Q 037311 6 RNNKKYDVFVSFRGE-DIR--DNFTSHLYSALARQNIQTFIDD--QLN--RGD----EISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 6 ~~~~~ydVFISy~~~-D~~--~~~~~~L~~~L~~~gi~v~~d~--~~~--~G~----~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
-.+....|-+...+- ..+ ...+..+.+.+...|..+-+-+ +++ ..+ +-...+.+.++.++.+ ++.||.
T Consensus 22 ~~~~~~kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~~~p~v~~l~~~v~~ADgv-ii~TPE 100 (219)
T TIGR02690 22 HKPHIPRILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHADHPKVRELRQLSEWSEGQ-VWCSPE 100 (219)
T ss_pred CCCCCCEEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcccCHHHHHHHHHHHhCCEE-EEeCCc
Confidence 344555654444332 111 3456667677776677664332 332 111 1224566777778655 556999
Q ss_pred CCCc
Q 037311 75 YASS 78 (93)
Q Consensus 75 y~~S 78 (93)
|..|
T Consensus 101 Yn~s 104 (219)
T TIGR02690 101 RHGA 104 (219)
T ss_pred cccC
Confidence 8765
No 158
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=32.05 E-value=95 Score=19.27 Aligned_cols=32 Identities=34% Similarity=0.510 Sum_probs=17.5
Q ss_pred cEEEeccc-CcCChhHHHHHHHHHhcCCceEEeec
Q 037311 12 DVFVSFRG-EDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 12 dVFISy~~-~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
++.||||+ +|. ..+.+|...+.....-+|.|.
T Consensus 1 ~i~vs~SGGKDS--~v~l~l~~~~~~~~~vv~~dt 33 (174)
T PF01507_consen 1 NIVVSFSGGKDS--TVMLHLAREAGRKVPVVFIDT 33 (174)
T ss_dssp SEEEE--SSHHH--HHHHHHHHHHHTTCEEEEEE-
T ss_pred CeEEEecCCHHH--HHHHHHHHHhcCCCcEEEEec
Confidence 47889985 774 455566655554544566665
No 159
>PF00647 EF1G: Elongation factor 1 gamma, conserved domain; InterPro: IPR001662 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents a conserved domain usually found near the C terminus of EF1B-gamma chains, a peptide of 410-440 residues. The gamma chain appears to play a role in anchoring the EF1B complex to the beta and delta chains and to other cellular components. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 1PBU_A.
Probab=32.03 E-value=22 Score=21.83 Aligned_cols=29 Identities=14% Similarity=0.293 Sum_probs=20.2
Q ss_pred cccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 17 FRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 17 y~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
||..|++...+..+.+.+...|+.+|+.+
T Consensus 23 YSN~d~~~~a~p~Fwe~~d~eg~Slw~~~ 51 (107)
T PF00647_consen 23 YSNEDTRTVAMPWFWENFDPEGYSLWFCD 51 (107)
T ss_dssp HHHS-GGGTHHHHHHSS--TTT-EEEEE-
T ss_pred hcCCCchhhHHHHHHHhCCccccEEEEEe
Confidence 67778776777889888999999999975
No 160
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=31.99 E-value=1.8e+02 Score=20.26 Aligned_cols=55 Identities=15% Similarity=0.184 Sum_probs=36.3
Q ss_pred ccEEEecccCcCC-hhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEE
Q 037311 11 YDVFVSFRGEDIR-DNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISV 68 (93)
Q Consensus 11 ydVFISy~~~D~~-~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i 68 (93)
-=+||=+++.|.. ..++.+.+++|+..|..+- ++.....-.+.|.+-+.+.+.+.
T Consensus 34 ~i~FIPtAs~~~~~~~Yv~k~~~~l~~lg~~v~---~L~l~~~~~~~Ie~~l~~~d~Iy 89 (224)
T COG3340 34 TIAFIPTASVDSEDDFYVEKVRNALAKLGLEVS---ELHLSKPPLAAIENKLMKADIIY 89 (224)
T ss_pred eEEEEecCccccchHHHHHHHHHHHHHcCCeee---eeeccCCCHHHHHHhhhhccEEE
Confidence 3468888887653 2478899999999888654 33344444456666666676653
No 161
>PRK14161 heat shock protein GrpE; Provisional
Probab=31.95 E-value=1.3e+02 Score=20.00 Aligned_cols=47 Identities=15% Similarity=0.259 Sum_probs=35.2
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-------CCEEEEEEcCCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-------SAISVIIFSEDYAS 77 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-------s~~~i~v~S~~y~~ 77 (93)
..|...|+..|+... +-..|+.|.+++-+|+.. ...++-|+.++|.-
T Consensus 109 k~l~~vL~~~Gv~~I---~~~~G~~FDP~~HEAv~~~~~~~~~~gtVi~v~q~GY~l 162 (178)
T PRK14161 109 DELDKVFHKHHIEEI---KPEIGSMFDYNLHNAISQIEHPDHAPNSIITLMQSGYKI 162 (178)
T ss_pred HHHHHHHHHCCCEEe---cCCCCCCCChHHhhhheeeCCCCCCcCEEEEEeeCCcEe
Confidence 567778888999754 223589999999888874 24688899998863
No 162
>PRK07308 flavodoxin; Validated
Probab=31.80 E-value=1.3e+02 Score=18.56 Aligned_cols=43 Identities=12% Similarity=0.253 Sum_probs=26.7
Q ss_pred hhHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEcCCCC
Q 037311 24 DNFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
+.++..|.+.|++.|+.+-+.. +..+ ..+.+.+. |++.+|.|-
T Consensus 16 e~iA~~ia~~l~~~g~~~~~~~~~~~~~---------~~l~~~d~-vi~g~~t~g 60 (146)
T PRK07308 16 EEIADIVADKLRELGHDVDVDECTTVDA---------SDFEDADI-AIVATYTYG 60 (146)
T ss_pred HHHHHHHHHHHHhCCCceEEEecccCCH---------hHhccCCE-EEEEeCccC
Confidence 4789999999998888665443 2211 12444544 444777775
No 163
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=31.72 E-value=1.8e+02 Score=20.21 Aligned_cols=31 Identities=13% Similarity=-0.030 Sum_probs=16.9
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
|.|-|...+-...+...+...|++.|+.+-.
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~ 168 (340)
T cd06349 138 VAILSVNTDWGRTSADIFVKAAEKLGGQVVA 168 (340)
T ss_pred EEEEecCChHhHHHHHHHHHHHHHcCCEEEE
Confidence 4454444433344556666666666666554
No 164
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=31.46 E-value=1.4e+02 Score=22.75 Aligned_cols=37 Identities=16% Similarity=0.134 Sum_probs=25.5
Q ss_pred hHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHH
Q 037311 53 ISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEIL 89 (93)
Q Consensus 53 ~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~ 89 (93)
+.+.+.+.|..++..|.+.||-|..++--+..|..|.
T Consensus 319 ~~~~~~~~I~~A~~~I~I~tpYfip~~~i~~aL~~Aa 355 (483)
T PRK01642 319 IHQFLLTAIYSARERLWITTPYFVPDEDLLAALKTAA 355 (483)
T ss_pred HHHHHHHHHHHhccEEEEEcCCcCCCHHHHHHHHHHH
Confidence 4456677788888888888887777665555555443
No 165
>PRK07524 hypothetical protein; Provisional
Probab=31.43 E-value=1.4e+02 Score=22.73 Aligned_cols=37 Identities=19% Similarity=0.221 Sum_probs=26.0
Q ss_pred HHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCE
Q 037311 26 FTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAI 66 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~ 66 (93)
-++.|.+.|++.|++..+- .||+.+. .+.+++.++++
T Consensus 4 ~a~~l~~~L~~~Gv~~vFg---~pG~~~~-~~~dal~~~~i 40 (535)
T PRK07524 4 CGEALVRLLEAYGVETVFG---IPGVHTV-ELYRGLAGSGI 40 (535)
T ss_pred HHHHHHHHHHHcCCCEEEe---CCCcchH-HHHHHHhhcCC
Confidence 3567888999999986664 5787765 45567765543
No 166
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=31.19 E-value=78 Score=20.65 Aligned_cols=30 Identities=10% Similarity=0.181 Sum_probs=22.8
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEEee
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d 44 (93)
|+.|+..-. -+++.+|...|.++|++|..-
T Consensus 7 ivG~k~SGK-TTLie~lv~~L~~~G~rVa~i 36 (161)
T COG1763 7 IVGYKNSGK-TTLIEKLVRKLKARGYRVATV 36 (161)
T ss_pred EEecCCCCh-hhHHHHHHHHHHhCCcEEEEE
Confidence 455655432 478999999999999998874
No 167
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=31.12 E-value=2e+02 Score=20.53 Aligned_cols=59 Identities=25% Similarity=0.277 Sum_probs=32.9
Q ss_pred cccCcCChhHHHHHHHHHhcCCce--EEe-ec-cCCCCc-----------chHHHHHHHHHhC---CEEEEEEcCCCCCc
Q 037311 17 FRGEDIRDNFTSHLYSALARQNIQ--TFI-DD-QLNRGD-----------EISESLVKAIKAS---AISVIIFSEDYASS 78 (93)
Q Consensus 17 y~~~D~~~~~~~~L~~~L~~~gi~--v~~-d~-~~~~G~-----------~~~~~i~~~i~~s---~~~i~v~S~~y~~S 78 (93)
+|++-+ -+.+|.++|.++|-+ +.+ |+ .+-.+. .+...+..+++++ ..+|+|-|-||.++
T Consensus 11 ~SGKst---rA~~L~~~l~~~~~K~~v~ii~deslg~~~ns~y~~s~~EK~lRg~L~S~v~R~Lsk~~iVI~DslNyIKG 87 (281)
T KOG3062|consen 11 CSGKST---RAVELREALKERGTKQSVRIIDDESLGIEKNSNYGDSQAEKALRGKLRSAVDRSLSKGDIVIVDSLNYIKG 87 (281)
T ss_pred CCCchh---HHHHHHHHHHhhcccceEEEechhhcCCCCcccccccHHHHHHHHHHHHHHHhhcccCcEEEEeccccccc
Confidence 456653 578999999988733 333 33 333222 1223333344332 34677888888865
No 168
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=31.06 E-value=82 Score=18.36 Aligned_cols=21 Identities=14% Similarity=0.232 Sum_probs=16.7
Q ss_pred hHHHHHHHHHhcCCceEEeec
Q 037311 25 NFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~ 45 (93)
-++..+.+.++++|+.+-+..
T Consensus 14 ~~~~ki~~~~~~~~~~~~v~~ 34 (96)
T cd05564 14 ILVKKMKKAAEKRGIDAEIEA 34 (96)
T ss_pred HHHHHHHHHHHHCCCceEEEE
Confidence 467889999999999876654
No 169
>COG3980 spsG Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=30.74 E-value=2.2e+02 Score=20.87 Aligned_cols=55 Identities=20% Similarity=0.338 Sum_probs=34.5
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCE
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAI 66 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~ 66 (93)
.++||+|+..+.|.. ...-++...|.+..++.-+- +..+++...++.+..+....
T Consensus 157 ~~r~ilI~lGGsDpk-~lt~kvl~~L~~~~~nl~iV--~gs~~p~l~~l~k~~~~~~~ 211 (318)
T COG3980 157 PKRDILITLGGSDPK-NLTLKVLAELEQKNVNLHIV--VGSSNPTLKNLRKRAEKYPN 211 (318)
T ss_pred chheEEEEccCCChh-hhHHHHHHHhhccCeeEEEE--ecCCCcchhHHHHHHhhCCC
Confidence 578999999999873 67778888888766332222 12344444555555555443
No 170
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=30.67 E-value=2.1e+02 Score=20.78 Aligned_cols=62 Identities=26% Similarity=0.280 Sum_probs=36.6
Q ss_pred CCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 8 NKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 8 ~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
....||+|-+-+.+. ..-+.++...|++.|++|-++. . ...+...+..+-+.--..++++.+
T Consensus 320 ~~~~~vlV~~~~~~~-~~~~~~i~~~Lr~~gi~v~~~~--~-~~~l~k~~~~a~~~g~~~~i~ig~ 381 (397)
T TIGR00442 320 ESSPDVYVVPLGEEA-ELEALKLAQKLRKAGIRVEVDL--G-GRKLKKQLKYADKLGARFAVILGE 381 (397)
T ss_pred CCCCcEEEEEeCHHH-HHHHHHHHHHHHhCCCeEEEeC--C-CCCHHHHHHHHHHcCCCEEEEECh
Confidence 345788886644322 2346678889999999997653 1 234555666665433334444443
No 171
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=30.58 E-value=1.4e+02 Score=18.54 Aligned_cols=48 Identities=15% Similarity=0.261 Sum_probs=26.1
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCc-chHHHHHHHHHhCCEEEEEEcCCCC
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGD-EISESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
.++..|...|. .|--+.+.-++-.|. .+...+.+++.... .|-||.|.
T Consensus 3 ~la~~l~~~l~-~g~vi~L~GdLGaGKTtf~r~l~~~lg~~~---~V~SPTF~ 51 (123)
T PF02367_consen 3 RLAKKLAQILK-PGDVILLSGDLGAGKTTFVRGLARALGIDE---EVTSPTFS 51 (123)
T ss_dssp HHHHHHHHHHS-S-EEEEEEESTTSSHHHHHHHHHHHTT--S-------TTTT
T ss_pred HHHHHHHHhCC-CCCEEEEECCCCCCHHHHHHHHHHHcCCCC---CcCCCCeE
Confidence 46667766663 454455555999994 45566666663333 77888875
No 172
>PRK09866 hypothetical protein; Provisional
Probab=30.53 E-value=98 Score=25.26 Aligned_cols=40 Identities=13% Similarity=0.203 Sum_probs=29.2
Q ss_pred cCCceEEeec-cCC-CCcc-hHHHHHHHHHhCCEEEEEEcCCC
Q 037311 36 RQNIQTFIDD-QLN-RGDE-ISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 36 ~~gi~v~~d~-~~~-~G~~-~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
-.+=-+|+|. .+. ++.. +...+.+++++++.+++|++..-
T Consensus 228 ~~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~ 270 (741)
T PRK09866 228 YPGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQ 270 (741)
T ss_pred ccCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCC
Confidence 3444588888 774 3444 66678889999999999998654
No 173
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=30.51 E-value=98 Score=19.00 Aligned_cols=50 Identities=14% Similarity=0.028 Sum_probs=32.8
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA 63 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~ 63 (93)
....|.|+|-.....+.++..+.+.|...|++|..-. .--.+.+.-++.+
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g-----~~~tP~~~~~~~~ 88 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIG-----LVPTPALSFAIRQ 88 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEE-----EB-HHHHHHHHHH
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhccccccccc-----ccCcHHhhhhccc
Confidence 3456888886655556788888889999999988542 2223455555555
No 174
>PRK12435 ferrochelatase; Provisional
Probab=30.44 E-value=2.1e+02 Score=20.59 Aligned_cols=52 Identities=15% Similarity=0.247 Sum_probs=33.0
Q ss_pred hHHHHHHHHHhcC----CceEEeeccCCCCcchHHHHHHHHHh--CC-EEEEEEcCCCCCc
Q 037311 25 NFTSHLYSALARQ----NIQTFIDDQLNRGDEISESLVKAIKA--SA-ISVIIFSEDYASS 78 (93)
Q Consensus 25 ~~~~~L~~~L~~~----gi~v~~d~~~~~G~~~~~~i~~~i~~--s~-~~i~v~S~~y~~S 78 (93)
..+..|.+.|.+. .+.|++ -+.-|.+..++..+.+.+ .+ ++++.+.|.|..+
T Consensus 61 ~qa~~L~~~L~~~~~~~~~~V~~--amry~~P~i~~~l~~l~~~g~~~iv~lpLyPqyS~~ 119 (311)
T PRK12435 61 EQAKALEKALNEVQDEVEFKLYL--GLKHIEPFIEDAVEQMHNDGIEEAISIVLAPHYSTF 119 (311)
T ss_pred HHHHHHHHHHhhccCCCCceEEE--EecCCCCCHHHHHHHHHHcCCCeEEEEECCCccccc
Confidence 4566777777653 255555 356666766677776653 44 4555579998865
No 175
>PRK05465 ethanolamine ammonia-lyase small subunit; Provisional
Probab=30.27 E-value=1.2e+02 Score=21.56 Aligned_cols=45 Identities=22% Similarity=0.464 Sum_probs=31.0
Q ss_pred hhHHHHHHHHHhcCCc----eEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 24 DNFTSHLYSALARQNI----QTFIDD-QLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi----~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
..|...|...|...|+ .++... ....||.|-+ .+ +++.+|+++-+
T Consensus 130 ~~~l~al~~~L~~~g~~iap~v~~~qgRValgD~Ige----~L-~ar~vvvLIGE 179 (260)
T PRK05465 130 EPLLPALLAGLKAAGWSVGPPVFVRQGRVALGDEIGE----LL-GAKVVVVLIGE 179 (260)
T ss_pred HHHHHHHHHHHHHcCCCcCCeEEEecCeehHHHHHHH----Hh-CCCEEEEEEec
Confidence 4577788888887765 345555 7777776654 33 68888888753
No 176
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=30.20 E-value=78 Score=22.43 Aligned_cols=45 Identities=16% Similarity=0.150 Sum_probs=32.8
Q ss_pred HHHHHHhcCCceEEeec----cC-CCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 29 HLYSALARQNIQTFIDD----QL-NRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~----~~-~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
.+.+.|.+.|+.|..-. +- ..|-.+.+...+++.+++++|.++.+
T Consensus 16 ~~~~~l~~~G~~v~~~g~~~~~~~~~g~~~~~~~~~~~~~ad~ii~~~p~ 65 (296)
T PRK08306 16 ELIRKLVELGAKVSLVGFDQLDHGFTGATKSSSLEEALSDVDVIILPVPG 65 (296)
T ss_pred HHHHHHHHCCCEEEEEeccccccccCCceeeccHHHHhccCCEEEECCcc
Confidence 46678888999988632 22 46766765667789999999988554
No 177
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=30.15 E-value=2.3e+02 Score=21.78 Aligned_cols=37 Identities=24% Similarity=0.249 Sum_probs=26.8
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
.-++.|.+.|++.|++..+- .||+... .+.+++.++.
T Consensus 14 ~~~~~l~~~L~~~GV~~vFg---vpG~~~~-~l~dal~~~~ 50 (564)
T PRK08155 14 TGAELIVRLLERQGIRIVTG---IPGGAIL-PLYDALSQST 50 (564)
T ss_pred cHHHHHHHHHHHcCCCEEEe---CCCcccH-HHHHHHhccC
Confidence 35678889999999987664 5777665 4677776653
No 178
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=30.09 E-value=1.5e+02 Score=18.69 Aligned_cols=43 Identities=16% Similarity=0.168 Sum_probs=24.3
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCC-cchHHHHHHHHH--hCCEE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRG-DEISESLVKAIK--ASAIS 67 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~~i~--~s~~~ 67 (93)
.....|.+.|++.|+.+-.-.-+... +.+.+.+.++++ +++.+
T Consensus 20 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlV 65 (152)
T cd00886 20 RSGPALVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLI 65 (152)
T ss_pred chHHHHHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEE
Confidence 34456778889999875543211111 345566666666 45543
No 179
>PRK08105 flavodoxin; Provisional
Probab=30.05 E-value=1.3e+02 Score=18.88 Aligned_cols=22 Identities=9% Similarity=-0.056 Sum_probs=18.6
Q ss_pred hhHHHHHHHHHhcCCceEEeec
Q 037311 24 DNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
+.+|..|...|.+.|+.+.+..
T Consensus 16 e~~A~~l~~~l~~~g~~~~~~~ 37 (149)
T PRK08105 16 LLVAEEAEAILTAQGHEVTLFE 37 (149)
T ss_pred HHHHHHHHHHHHhCCCceEEec
Confidence 5799999999999999887654
No 180
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=29.97 E-value=1.1e+02 Score=19.27 Aligned_cols=36 Identities=22% Similarity=0.247 Sum_probs=24.4
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCC
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNR 49 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~ 49 (93)
+.|..+--.+-..+..|...|.++|.+|.+-+ |.+.
T Consensus 3 v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~D~~~ 39 (195)
T PF01656_consen 3 VTSGKGGVGKTTIAANLAQALARKGKKVLLIDLDPQA 39 (195)
T ss_dssp EEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEESTTS
T ss_pred EEcCCCCccHHHHHHHHHhccccccccccccccCccc
Confidence 55665544434566788889999999998876 6543
No 181
>PF01520 Amidase_3: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002508 The cell wall envelope of Gram-positive bacteria is a macromolecular, exoskeletal organelle that is assembled and turned over at designated sites. The cell wall also functions as a surface organelle that allows Gram-positive pathogens to interact with their environment, in particular the tissues of the infected host. All of these functions require that surface proteins and enzymes be properly targeted to the cell wall envelope. Two basic mechanisms, cell wall sorting and targeting, have been identified. Cell well sorting is the covalent attachment of surface proteins to the peptidoglycan via a C-terminal sorting signal that contains a consensus LPXTG sequence. More than 100 proteins that possess cell wall-sorting signals, including the M proteins of Streptococcus pyogenes, protein A of Staphylococcus aureus, and several internalins of Listeria monocytogenes, have been identified. Cell wall targeting involves the noncovalent attachment of proteins to the cell surface via specialised binding domains. Several of these wall-binding domains appear to interact with secondary wall polymers that are associated with the peptidoglycan, for example teichoic acids and polysaccharides. Proteins that are targeted to the cell surface include muralytic enzymes such as autolysins, lysostaphin, and phage lytic enzymes. Other examples for targeted proteins are the surface S-layer proteins of bacilli and clostridia, as well as virulence factors required for the pathogenesis of L. monocytogenes (internalin B) and Streptococcus pneumoniae (PspA) infections []. Autolysin 3.5.1.28 from EC hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell wall glycopeptides.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 3QAY_A 3CZX_A 1JWQ_A 1XOV_A 3NE8_A.
Probab=29.94 E-value=1.5e+02 Score=18.68 Aligned_cols=47 Identities=13% Similarity=0.179 Sum_probs=28.2
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHH-HhCCEEEEE
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAI-KASAISVII 70 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i-~~s~~~i~v 70 (93)
..++..|.+.|++.|++|.+..+-...-.+.+....+- .+++.+|-+
T Consensus 27 l~ia~~l~~~L~~~g~~V~~tr~~d~~~~l~~R~~~an~~~ad~~isi 74 (175)
T PF01520_consen 27 LDIALRLKKELEKHGIKVYLTRDNDSDVSLQERAALANSWGADLFISI 74 (175)
T ss_dssp HHHHHHHHHHHHHTTEEEEESSSSSHCCCHHHHHHHHHHTTSSEEEEE
T ss_pred HHHHHHHHHHHhcCCcEEEEeCCCCCCCCHHHHHHHHHhcccCEEEEE
Confidence 35678888999999999998761122224444443332 345555444
No 182
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=29.80 E-value=2.5e+02 Score=21.35 Aligned_cols=62 Identities=24% Similarity=0.265 Sum_probs=42.0
Q ss_pred CCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 7 NNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 7 ~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
.+...||||..-+++. ...+-.+...|++.|+++-++-. +..+...+..|-+.-...++++-
T Consensus 332 ~~~~~~v~v~~~~~~~-~~~a~~la~~LR~~g~~~~~~~~---~r~~k~q~k~A~~~g~~~~viiG 393 (429)
T COG0124 332 VETRVDVYVVPLGEDA-EPEALKLAQKLRAAGISVEVDYS---GRKLKKQFKYADKLGARFAVILG 393 (429)
T ss_pred cCCCCCEEEEEcCchh-HHHHHHHHHHHHHcCCcEEEEec---cccHHHHHHHHHHCCCCEEEEEc
Confidence 4667899999888775 35677899999999999888751 12255566666554333444443
No 183
>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=29.79 E-value=1e+02 Score=18.41 Aligned_cols=50 Identities=10% Similarity=-0.013 Sum_probs=26.4
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
++||++++.. -+....+.++++|.++..=.+- ++.++ .+.++..+.+-+.
T Consensus 52 I~iS~SG~t~---~~~~~~~~a~~~g~~vi~iT~~-~~s~l-------a~~ad~~l~~~~~ 101 (120)
T cd05710 52 ILASHSGNTK---ETVAAAKFAKEKGATVIGLTDD-EDSPL-------AKLADYVIVYGFE 101 (120)
T ss_pred EEEeCCCCCh---HHHHHHHHHHHcCCeEEEEECC-CCCcH-------HHhCCEEEEccCC
Confidence 4667777642 3445556667788875543211 12222 1457776666444
No 184
>PTZ00445 p36-lilke protein; Provisional
Probab=29.77 E-value=1.9e+02 Score=20.00 Aligned_cols=21 Identities=14% Similarity=0.208 Sum_probs=16.6
Q ss_pred hHHHHHHHHHhcCCceEEeec
Q 037311 25 NFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.-+..+.+.|++.||++..-+
T Consensus 29 ~~~~~~v~~L~~~GIk~Va~D 49 (219)
T PTZ00445 29 ESADKFVDLLNECGIKVIASD 49 (219)
T ss_pred HHHHHHHHHHHHcCCeEEEec
Confidence 567778888999999977654
No 185
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see IPR001926 from INTERPRO) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region [].; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1TDJ_A 3IAU_A.
Probab=29.68 E-value=85 Score=18.23 Aligned_cols=32 Identities=16% Similarity=-0.012 Sum_probs=22.6
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEE
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTF 42 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~ 42 (93)
..-.|+++..-.+.. -...|.+.|++.|+.+.
T Consensus 48 ~~a~vlvgi~v~~~~--~~~~l~~~L~~~gy~~~ 79 (91)
T PF00585_consen 48 DFARVLVGIEVPDAE--DLEELIERLKALGYPYE 79 (91)
T ss_dssp SCSEEEEEEE-SSTH--HHHHHHHHHTSSS-EEE
T ss_pred CeeeEEEEEEeCCHH--HHHHHHHHHHHcCCCeE
Confidence 466789998776542 36788899999999766
No 186
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=29.62 E-value=1.5e+02 Score=18.78 Aligned_cols=64 Identities=23% Similarity=0.355 Sum_probs=39.2
Q ss_pred hHHHHHHHHHhcCC--ceEEeeccCCCCcchHHHHHHHHHh---CCEEEEEEcCCCCCc--HHHHHHHHHHHh
Q 037311 25 NFTSHLYSALARQN--IQTFIDDQLNRGDEISESLVKAIKA---SAISVIIFSEDYASS--RWCLDEFAEILE 90 (93)
Q Consensus 25 ~~~~~L~~~L~~~g--i~v~~d~~~~~G~~~~~~i~~~i~~---s~~~i~v~S~~y~~S--~wc~~El~~~~~ 90 (93)
..+..|.+.|.+.+ +.+.. -+.-|.+..++..+.+.+ .+++++-+.|.|..+ .-+.+++.+++.
T Consensus 72 ~q~~~l~~~L~~~~~~~~v~~--amry~~P~i~~~l~~l~~~g~~~iivlPl~P~~S~~Tt~s~~~~~~~~~~ 142 (159)
T cd03411 72 AQAEALEKALDERGIDVKVYL--AMRYGPPSIEEALEELKADGVDRIVVLPLYPQYSASTTGSYLDEVERALK 142 (159)
T ss_pred HHHHHHHHHHhccCCCcEEEe--hHhcCCCCHHHHHHHHHHcCCCEEEEEECCcccccccHHHHHHHHHHHHH
Confidence 46667777776653 44443 355566655555555544 456788888988744 446667766654
No 187
>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=29.59 E-value=1.9e+02 Score=19.89 Aligned_cols=39 Identities=18% Similarity=0.014 Sum_probs=21.3
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCCc-chHHHHHHHHHh
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRGD-EISESLVKAIKA 63 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~~i~~ 63 (93)
+..+..+...+++.|+++--...+.+|+ ++. .....++.
T Consensus 151 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~-~~v~~l~~ 190 (312)
T cd06346 151 VGLADAFTKAFEALGGTVTNVVAHEEGKSSYS-SEVAAAAA 190 (312)
T ss_pred hHHHHHHHHHHHHcCCEEEEEEeeCCCCCCHH-HHHHHHHh
Confidence 4455666677777777766433555553 344 33344443
No 188
>PF02776 TPP_enzyme_N: Thiamine pyrophosphate enzyme, N-terminal TPP binding domain; InterPro: IPR012001 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the N-terminal TPP binding domain of TPP enzymes.; GO: 0030976 thiamine pyrophosphate binding; PDB: 3HWX_1 3FLM_B 3HWW_A 2JLC_A 2JLA_A 2VBG_A 2VBF_B 2Q29_A 2Q27_B 2Q28_B ....
Probab=29.17 E-value=1.5e+02 Score=18.88 Aligned_cols=36 Identities=19% Similarity=0.194 Sum_probs=22.9
Q ss_pred HHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 26 FTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
.++.|.+.|.+.|++..+- .||.... .+.+++.+..
T Consensus 3 ~~~~l~~~L~~~Gv~~vfg---vpG~~~~-~l~~al~~~~ 38 (172)
T PF02776_consen 3 GAEALAEALKANGVTHVFG---VPGSGNL-PLLDALEKSP 38 (172)
T ss_dssp HHHHHHHHHHHTT-SEEEE---E--GGGH-HHHHHHHHTT
T ss_pred HHHHHHHHHHHCCCeEEEE---EeChhHh-HHHHHhhhhc
Confidence 3556778888888876664 4666655 3777787774
No 189
>PLN02379 pfkB-type carbohydrate kinase family protein
Probab=29.14 E-value=2.3e+02 Score=20.63 Aligned_cols=58 Identities=5% Similarity=0.095 Sum_probs=30.2
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
++++|.... .....++.+..+++|+++++|- +...-..+.+.+.+.+....+-+++.+
T Consensus 181 v~v~~~~~~--~~~~~~~~~~A~~~g~~v~lD~s~~~~v~~~r~~l~~ll~~~~vDilf~N 239 (367)
T PLN02379 181 LVLRYGFYN--LEVIEAAIRLAKQEGLSVSLDLASFEMVRNFRSPLLQLLESGKIDLCFAN 239 (367)
T ss_pred EEEEcccCC--HHHHHHHHHHHHHcCCEEEEeccchhhhhhhhHHHHHHhhcCCccEEEcC
Confidence 477764422 2344566666677899999986 432222334444444442233334433
No 190
>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=29.04 E-value=1.4e+02 Score=20.84 Aligned_cols=33 Identities=18% Similarity=0.233 Sum_probs=23.1
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
|-+|+...-....|+..+..+.++.|+.+.++.
T Consensus 87 vt~SGGEP~~q~e~~~~~~~~ake~Gl~~~l~T 119 (260)
T COG1180 87 VTFSGGEPTLQAEFALDLLRAAKERGLHVALDT 119 (260)
T ss_pred EEEECCcchhhHHHHHHHHHHHHHCCCcEEEEc
Confidence 455554443345678778788888899998886
No 191
>PF14926 DUF4498: Domain of unknown function (DUF4498)
Probab=29.04 E-value=43 Score=23.57 Aligned_cols=51 Identities=27% Similarity=0.474 Sum_probs=37.1
Q ss_pred CCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHH
Q 037311 7 NNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAI 61 (93)
Q Consensus 7 ~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i 61 (93)
+...||+| .++.|++|.=+|...|-..|--+-+++++.|=-+....|.+.+
T Consensus 139 dse~y~~f----s~~~R~Eflf~~f~~l~~GG~~~Q~ed~~~~Yl~~tk~lYk~l 189 (247)
T PF14926_consen 139 DSENYDLF----SEEEREEFLFHLFKHLVLGGALCQYEDDLDPYLDTTKSLYKDL 189 (247)
T ss_pred cCceeeec----CHHHHHHHHHHHHHHHeeCCccccchhhhHHHHHHHHHHHHhh
Confidence 45567875 4555789999999999887877766667777766666666644
No 192
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=29.03 E-value=93 Score=18.78 Aligned_cols=32 Identities=13% Similarity=0.254 Sum_probs=23.6
Q ss_pred cccEEEecccCcC----ChhHHHHHHHHHhcCCceE
Q 037311 10 KYDVFVSFRGEDI----RDNFTSHLYSALARQNIQT 41 (93)
Q Consensus 10 ~ydVFISy~~~D~----~~~~~~~L~~~L~~~gi~v 41 (93)
.-|+-|++...+. ...+...|...|.+.|+-.
T Consensus 42 DiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~i~ 77 (112)
T PF14792_consen 42 DIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGFIT 77 (112)
T ss_dssp SEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTSEE
T ss_pred CeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCeEE
Confidence 4577888876544 2468899999999988744
No 193
>COG1777 Predicted transcriptional regulators [Transcription]
Probab=28.87 E-value=82 Score=21.77 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=33.4
Q ss_pred hhHHHHHHHHHhcCCceEE-eeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 24 DNFTSHLYSALARQNIQTF-IDDQLNRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~-~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
++.+.|| ..|++.|+--. ++. .+.|-. .-.-.|.....+.+.+||+++.
T Consensus 43 kAVl~HL-~~LE~AGlveS~ie~-~~Rg~~---rKYY~Is~~~rleV~lsp~~f~ 92 (217)
T COG1777 43 KAVLKHL-RILERAGLVESRIEK-IPRGRP---RKYYMISRNLRLEVTLSPNFFG 92 (217)
T ss_pred HHHHHHH-HHHHHcCCchhhccc-cccCCC---cceeeccCCeEEEEEecCcccc
Confidence 5677888 67899998755 553 333422 1233478888899999999763
No 194
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=28.86 E-value=1.7e+02 Score=19.13 Aligned_cols=33 Identities=12% Similarity=0.186 Sum_probs=21.6
Q ss_pred CCcccEEEecccCcCChhHHHHHHHHHhcCCceEEee
Q 037311 8 NKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 8 ~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d 44 (93)
...+|+|+=-++.- .|. .|...|+++|.+|..-
T Consensus 103 ~~~iD~~vLvSgD~---DF~-~Lv~~lre~G~~V~v~ 135 (160)
T TIGR00288 103 NPNIDAVALVTRDA---DFL-PVINKAKENGKETIVI 135 (160)
T ss_pred cCCCCEEEEEeccH---hHH-HHHHHHHHCCCEEEEE
Confidence 35677777776632 365 5667777778877754
No 195
>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=28.82 E-value=1e+02 Score=16.62 Aligned_cols=10 Identities=0% Similarity=0.179 Sum_probs=5.0
Q ss_pred hcCCceEEee
Q 037311 35 ARQNIQTFID 44 (93)
Q Consensus 35 ~~~gi~v~~d 44 (93)
.++.+-+.+.
T Consensus 46 ~~~d~~i~iS 55 (87)
T cd04795 46 RKGDVVIALS 55 (87)
T ss_pred CCCCEEEEEE
Confidence 3445555554
No 196
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=28.70 E-value=2.2e+02 Score=20.38 Aligned_cols=33 Identities=12% Similarity=0.099 Sum_probs=19.4
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.++|-+... ..+.+...+.+.|++.|+.+.++.
T Consensus 24 r~livt~~~-~~~~~~~~v~~~L~~~~i~~~~~~ 56 (351)
T cd08170 24 RALIIADEF-VLDLVGAKIEESLAAAGIDARFEV 56 (351)
T ss_pred eEEEEECHH-HHHHHHHHHHHHHHhCCCeEEEEE
Confidence 355544221 223566777888888888765443
No 197
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=28.42 E-value=1.6e+02 Score=21.18 Aligned_cols=19 Identities=26% Similarity=0.226 Sum_probs=13.5
Q ss_pred HHHHHHHHhcCCceEEeec
Q 037311 27 TSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~ 45 (93)
+..|.+.|++.|+.+-...
T Consensus 165 ~~~l~~~~~~~gi~v~~~~ 183 (405)
T cd06385 165 MEGLYMELKKNNITVVDLV 183 (405)
T ss_pred HHHHHHHHHhCCeEEEEee
Confidence 5677778888888776543
No 198
>PRK03673 hypothetical protein; Provisional
Probab=28.41 E-value=1.4e+02 Score=22.37 Aligned_cols=43 Identities=9% Similarity=0.067 Sum_probs=24.7
Q ss_pred HHHHHHHHHhcCCceEEeeccCC-CCcchHHHHHHHHHhCCEEE
Q 037311 26 FTSHLYSALARQNIQTFIDDQLN-RGDEISESLVKAIKASAISV 68 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d~~~~-~G~~~~~~i~~~i~~s~~~i 68 (93)
=...|...|.+.|+.+....-+. .-+.+.+.+.++.++++++|
T Consensus 22 N~~~la~~L~~~G~~v~~~~~v~D~~~~i~~~l~~a~~~~DlVI 65 (396)
T PRK03673 22 NAAWLADFFFHQGLPLSRRNTVGDNLDALVAILRERSQHADVLI 65 (396)
T ss_pred HHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhccCCEEE
Confidence 45578888899999876542111 11335555555666666444
No 199
>COG2266 GTP:adenosylcobinamide-phosphate guanylyltransferase [Coenzyme metabolism]
Probab=28.36 E-value=97 Score=20.74 Aligned_cols=27 Identities=11% Similarity=0.261 Sum_probs=20.2
Q ss_pred CCcchHHHHHHHHHh-CCEEEEEEcCCC
Q 037311 49 RGDEISESLVKAIKA-SAISVIIFSEDY 75 (93)
Q Consensus 49 ~G~~~~~~i~~~i~~-s~~~i~v~S~~y 75 (93)
-|.++......++++ ++.+++.+||+-
T Consensus 25 ~GkpLI~~v~~al~~~~d~i~v~isp~t 52 (177)
T COG2266 25 CGKPLIDRVLEALRKIVDEIIVAISPHT 52 (177)
T ss_pred CCccHHHHHHHHHHhhcCcEEEEeCCCC
Confidence 466777777777777 778888888874
No 200
>PRK14154 heat shock protein GrpE; Provisional
Probab=27.86 E-value=1.2e+02 Score=20.70 Aligned_cols=47 Identities=21% Similarity=0.376 Sum_probs=35.2
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-------CCEEEEEEcCCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-------SAISVIIFSEDYAS 77 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-------s~~~i~v~S~~y~~ 77 (93)
..|...|++.|+... +-..|+.|.+++-+|+.. ...++-|+.+.|.-
T Consensus 141 k~l~~vL~k~GVe~I---~~~~G~~FDP~~HEAv~~~~~~~~~~gtVveV~qkGY~l 194 (208)
T PRK14154 141 DLLHNTLAKHGVQVI---NPNPGDPFDPALHEAMSVQAVPDAKPDTIIQVLQKGYQL 194 (208)
T ss_pred HHHHHHHHHCCCEEe---cCCCCCCCChhHhheeeeeCCCCCCcCEEEEEeeCCcEe
Confidence 567778888999754 334689999998888853 35688899998863
No 201
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=27.80 E-value=1.2e+02 Score=19.09 Aligned_cols=55 Identities=16% Similarity=0.100 Sum_probs=30.6
Q ss_pred cccE--EEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 10 KYDV--FVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 10 ~ydV--FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
+-|+ .||+++.. ..+....+.++++|+++..=.. .++.++. +.++..+.+-++++
T Consensus 79 ~~D~~i~iS~sG~t---~~~~~~~~~a~~~g~~ii~iT~-~~~s~l~-------~~ad~~l~~~~~~~ 135 (154)
T TIGR00441 79 KGDVLLGISTSGNS---KNVLKAIEAAKDKGMKTITLAG-KDGGKMA-------GLADIELRVPHFYT 135 (154)
T ss_pred CCCEEEEEcCCCCC---HHHHHHHHHHHHCCCEEEEEeC-CCCCchh-------hhCCEEEEeCCCCc
Confidence 3355 66777764 2444555667788887664321 1223322 35777776666543
No 202
>PRK10439 enterobactin/ferric enterobactin esterase; Provisional
Probab=27.75 E-value=2.3e+02 Score=21.12 Aligned_cols=8 Identities=0% Similarity=0.393 Sum_probs=4.0
Q ss_pred CceEEeec
Q 037311 38 NIQTFIDD 45 (93)
Q Consensus 38 gi~v~~d~ 45 (93)
++++|++-
T Consensus 349 ~lr~~i~~ 356 (411)
T PRK10439 349 GLRIVLEA 356 (411)
T ss_pred CceEEEeC
Confidence 44555543
No 203
>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=27.67 E-value=1.6e+02 Score=18.46 Aligned_cols=45 Identities=24% Similarity=0.403 Sum_probs=27.5
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
..|...|++.|+.+.+-. |+ ..+.+.+-+++..+..+++..+|..
T Consensus 56 ~~L~~~L~~~g~~L~v~~----g~-~~~~l~~l~~~~~~~~V~~~~~~~~ 100 (165)
T PF00875_consen 56 ADLQESLRKLGIPLLVLR----GD-PEEVLPELAKEYGATAVYFNEEYTP 100 (165)
T ss_dssp HHHHHHHHHTTS-EEEEE----SS-HHHHHHHHHHHHTESEEEEE---SH
T ss_pred HHHHHHHHhcCcceEEEe----cc-hHHHHHHHHHhcCcCeeEeccccCH
Confidence 567778888999877654 22 3345555666677888888888764
No 204
>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=27.57 E-value=1.4e+02 Score=17.56 Aligned_cols=25 Identities=0% Similarity=0.096 Sum_probs=15.2
Q ss_pred cchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 51 DEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 51 ~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
..+.......+++++.+|++++..-
T Consensus 60 ~~~~~~~~~~~~~~d~ii~v~d~~~ 84 (159)
T cd00154 60 ERFRSITPSYYRGAHGAILVYDITN 84 (159)
T ss_pred HHHHHHHHHHhcCCCEEEEEEECCC
Confidence 3344445556667777777777654
No 205
>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=27.45 E-value=2.2e+02 Score=19.88 Aligned_cols=52 Identities=4% Similarity=0.014 Sum_probs=32.7
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCc-chHHHHHHHHHhC
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGD-EISESLVKAIKAS 64 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~~i~~s 64 (93)
.|.+-|...+-.+.+...+.+.|+++|+++-......+|. ++...+. .|+.+
T Consensus 138 ~v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~-~l~~~ 190 (333)
T cd06328 138 KIATLAQDYAFGRDGVAAFKAALEKLGAAIVTEEYAPTDTTDFTPYAQ-RLLDA 190 (333)
T ss_pred eEEEEecCccccHHHHHHHHHHHHhCCCEEeeeeeCCCCCcchHHHHH-HHHhc
Confidence 4555565544445677788888888998887655566664 4654444 44443
No 206
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=27.39 E-value=1.6e+02 Score=18.33 Aligned_cols=70 Identities=20% Similarity=0.238 Sum_probs=37.7
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEE-eec-cC------CCCcchHHHHHHHHHhCCEEEEEEcCC------CC--C
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTF-IDD-QL------NRGDEISESLVKAIKASAISVIIFSED------YA--S 77 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~-~d~-~~------~~G~~~~~~i~~~i~~s~~~i~v~S~~------y~--~ 77 (93)
++.+++... -.++..|...|.++|+++. +-. +. .||. +..+. +.....+++.+++ +. .
T Consensus 5 VvG~~~sGK-TTl~~~Li~~l~~~g~~v~~ik~~~~g~~~~d~pG~----Dt~r~-~aGA~~~~~~~~~~~~~~~~~~~~ 78 (140)
T PF03205_consen 5 VVGPKNSGK-TTLIRKLINELKRRGYRVAVIKHTDHGQFEIDPPGT----DTWRF-KAGADVVLVSSDEPIALETQFHQR 78 (140)
T ss_dssp EEESTTSSH-HHHHHHHHHHHHHTT--EEEEEE-STTSTTCSTTCH----HHHHH-HCT-SEEEEECSSEEEEEEECSCC
T ss_pred EECCCCCCH-HHHHHHHHHHHhHcCCceEEEEEccCCCcccCCCCc----ccccc-cccceEEEEEcCCceeeeeecccc
Confidence 455544432 4788999999999999877 332 33 3443 23333 3333445555555 22 4
Q ss_pred cHHHHHHHHHHH
Q 037311 78 SRWCLDEFAEIL 89 (93)
Q Consensus 78 S~wc~~El~~~~ 89 (93)
.++-+.|+...+
T Consensus 79 ~~~~L~~~~~~~ 90 (140)
T PF03205_consen 79 KSMDLEELLSLL 90 (140)
T ss_dssp CCCBHHHHHHHC
T ss_pred CCCCHHHHHHhh
Confidence 555566665543
No 207
>TIGR03297 Ppyr-DeCO2ase phosphonopyruvate decarboxylase. This family consists of examples of phosphonopyruvate an decarboxylase enzyme that produces phosphonoacetaldehyde (Pald), the second step in the biosynthesis phosphonate-containing compounds. Since the preceding enzymate step, PEP phosphomutase (AepX, TIGR02320) favors the substrate PEP energetically, the decarboxylase is required to drive the reaction in the direction of phosphonate production. Pald is a precursor of natural products including antibiotics like bialaphos and phosphonothricin in Streptomyces species, phosphonate-modified molecules such as the polysaccharide B of Bacteroides fragilis, the phosphonolipids of Tetrahymena pyroformis, the glycosylinositolphospholipids of Trypanosoma cruzi. This gene generally occurs in prokaryotic organisms adjacent to the gene for AepX. Most often an aminotansferase (aepZ) is also present which leads to the production of the most common phosphonate compound, 2-aminoethylphosphonate (A
Probab=27.37 E-value=2.3e+02 Score=20.89 Aligned_cols=65 Identities=18% Similarity=0.171 Sum_probs=40.3
Q ss_pred EEEecccC----cCChh-HH-HHHHHHHhcCCceEEeec-cC-CCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 13 VFVSFRGE----DIRDN-FT-SHLYSALARQNIQTFIDD-QL-NRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 13 VFISy~~~----D~~~~-~~-~~L~~~L~~~gi~v~~d~-~~-~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
++||+|++ |+.+. .. .....-|+..||..+.-. +. +..+.+...+..+.+..+-+.+++++++..
T Consensus 84 ~~i~~RG~~g~~depqh~~~G~~t~~lL~~~~i~~~~~~~~~~~~~~~~~~a~~~~~~~~~p~a~l~~~~~~~ 156 (361)
T TIGR03297 84 LIVGWRGEPGVHDEPQHVKQGRITLSLLDALEIPWEVLSTDNDEALAQIERALAHALATSRPYALVVRKGTFA 156 (361)
T ss_pred EEEecCCCCCCCCCchhhHHhHHHHHHHHHcCCCEEECCCChHHHHHHHHHHHHHHHHHCCCEEEEEcccccc
Confidence 38999984 33221 11 334456778899877653 22 233445555555566677888999999874
No 208
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=27.30 E-value=97 Score=19.35 Aligned_cols=31 Identities=16% Similarity=0.111 Sum_probs=19.9
Q ss_pred EEecccCcCChh-HHHHHHHHHhcCCceEEee
Q 037311 14 FVSFRGEDIRDN-FTSHLYSALARQNIQTFID 44 (93)
Q Consensus 14 FISy~~~D~~~~-~~~~L~~~L~~~gi~v~~d 44 (93)
||+=...+..+. .+..|...|.++|.+|.+-
T Consensus 1 fI~~t~~~~GKT~va~~L~~~l~~~g~~V~~~ 32 (166)
T TIGR00347 1 FVTGTDTGVGKTVASSALAAKLKKAGYSVGYY 32 (166)
T ss_pred CeecCCCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 344444444444 4478888999888887773
No 209
>PF13840 ACT_7: ACT domain ; PDB: 3S1T_A 1ZHV_A 3AB4_K 3AB2_O 2DTJ_A 3AAW_A 2RE1_B 3MAH_A 1ZVP_D.
Probab=27.28 E-value=70 Score=17.18 Aligned_cols=21 Identities=29% Similarity=0.499 Sum_probs=16.6
Q ss_pred hhHHHHHHHHHhcCCceEEee
Q 037311 24 DNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d 44 (93)
-+.+..+...|.++||+++.-
T Consensus 21 ~Gv~a~i~~~La~~~I~i~~i 41 (65)
T PF13840_consen 21 PGVAAKIFSALAEAGINIFMI 41 (65)
T ss_dssp HHHHHHHHHHHHHTTS-ECEE
T ss_pred ccHHHHHHHHHHHCCCCEEEE
Confidence 468889999999999988753
No 210
>PF15221 LEP503: Lens epithelial cell protein LEP503
Probab=27.12 E-value=36 Score=18.44 Aligned_cols=45 Identities=22% Similarity=0.454 Sum_probs=23.0
Q ss_pred HHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHH
Q 037311 30 LYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFA 86 (93)
Q Consensus 30 L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~ 86 (93)
+..+|...|++|=. ++.|.-|. -+.+.+++..-+++ --||..||.
T Consensus 16 ~~~~l~dtglrvpv---~KmGtgwe-G~~~tLKe~aYilL--------CCWCIKelL 60 (61)
T PF15221_consen 16 LGRALRDTGLRVPV---IKMGTGWE-GLQQTLKEVAYILL--------CCWCIKELL 60 (61)
T ss_pred ccccccccccCCce---eeecchHH-HHHHHHHHHHHHHH--------HHHHHHHHc
Confidence 34455666665443 23455443 44555555433222 248888873
No 211
>PRK02797 4-alpha-L-fucosyltransferase; Provisional
Probab=26.94 E-value=2.6e+02 Score=20.56 Aligned_cols=45 Identities=16% Similarity=0.373 Sum_probs=25.7
Q ss_pred HHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCC-EEEEEEcCCCCC
Q 037311 31 YSALARQNIQTFIDD-QLNRGDEISESLVKAIKASA-ISVIIFSEDYAS 77 (93)
Q Consensus 31 ~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~-~~i~v~S~~y~~ 77 (93)
...|.+.|+.|+++. .+ .....++..+.+...+ ..|..++|+|++
T Consensus 262 wqdl~e~gv~Vlf~~d~L--~~~~v~e~~rql~~~dk~~I~Ff~pn~~~ 308 (322)
T PRK02797 262 WQDLTEQGLPVLFTGDDL--DEDIVREAQRQLASVDKNIIAFFSPNYLQ 308 (322)
T ss_pred HHHHHhCCCeEEecCCcc--cHHHHHHHHHHHHhhCcceeeecCHhHHH
Confidence 355677899997766 44 2333344444455555 455555566543
No 212
>TIGR02867 spore_II_P stage II sporulation protein P. Stage II sporulation protein P is a protein of the endospore formation program in a number of lineages in the Firmicutes (low-GC Gram-positive bacteria). It is expressed in the mother cell compartment, under control of Sigma-E. SpoIIP, along with SpoIIM and SpoIID, is one of three major proteins involved in engulfment of the forespore by the mother cell. This protein family is named for the single member in Bacillus subtilis, although most sporulating bacteria have two members.
Probab=26.91 E-value=81 Score=21.27 Aligned_cols=21 Identities=19% Similarity=0.245 Sum_probs=18.2
Q ss_pred HHHHHHHHHhcCCceEEeecc
Q 037311 26 FTSHLYSALARQNIQTFIDDQ 46 (93)
Q Consensus 26 ~~~~L~~~L~~~gi~v~~d~~ 46 (93)
....|.+.|+++||.|..|+.
T Consensus 35 VG~~L~~~Le~~Gi~vihd~t 55 (196)
T TIGR02867 35 VGDRLAKELEEKGIGVIHDKT 55 (196)
T ss_pred HHHHHHHHHHHCCCeEEEeCC
Confidence 457899999999999999973
No 213
>PRK13835 conjugal transfer protein TrbH; Provisional
Probab=26.85 E-value=68 Score=20.78 Aligned_cols=22 Identities=23% Similarity=0.217 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHhcCCceEEeec
Q 037311 24 DNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
..|...|.++|+..||-|--|.
T Consensus 68 d~Fg~aL~~aLr~~GYaVvtd~ 89 (145)
T PRK13835 68 SPFGQALEAALKGWGYAVVTDQ 89 (145)
T ss_pred cHHHHHHHHHHHhcCeEEeecc
Confidence 3799999999999999988653
No 214
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=26.70 E-value=2.1e+02 Score=19.44 Aligned_cols=46 Identities=15% Similarity=0.135 Sum_probs=25.4
Q ss_pred HHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEE-EEEEcCC
Q 037311 29 HLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAIS-VIIFSED 74 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~-i~v~S~~ 74 (93)
.|.+.|++.|+.|-.-. +-.+.......+.+.+..-..- |++.|+.
T Consensus 144 ~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~~~~~~~d~v~ftS~~ 192 (255)
T PRK05752 144 LLAERLREQGASVDYLELYRRCLPDYPAGTLLQRVEAERLNGLVVSSGQ 192 (255)
T ss_pred HHHHHHHHCCCEEeEEEEEeecCCCCCHHHHHHHHHhCCCCEEEECCHH
Confidence 47778888898765432 3333333344566666655543 4444444
No 215
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=26.30 E-value=2.5e+02 Score=20.20 Aligned_cols=35 Identities=20% Similarity=0.323 Sum_probs=26.4
Q ss_pred ccEEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
-++-||..++-.-..+...|...+.++|+.++++.
T Consensus 131 ~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~T 165 (322)
T PRK13762 131 KHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVT 165 (322)
T ss_pred CEEEEeCCccccchhhHHHHHHHHHHcCCCEEEEC
Confidence 35778877765544566777788888999999987
No 216
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=26.26 E-value=1.9e+02 Score=22.50 Aligned_cols=36 Identities=14% Similarity=0.185 Sum_probs=27.5
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhC
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKAS 64 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s 64 (93)
..++.|...|++.|++..+- .||+.+. .+.+++.++
T Consensus 12 t~a~~l~~~L~~~GV~~vFG---vpG~~~~-~l~dal~~~ 47 (595)
T PRK09107 12 TGAEMVVQALKDQGVEHIFG---YPGGAVL-PIYDEIFQQ 47 (595)
T ss_pred hHHHHHHHHHHHCCCCEEEE---ccCcchH-HHHHHHhhc
Confidence 45788999999999987765 6777666 477777654
No 217
>COG0320 LipA Lipoate synthase [Coenzyme metabolism]
Probab=26.16 E-value=2.6e+02 Score=20.34 Aligned_cols=59 Identities=17% Similarity=0.311 Sum_probs=40.5
Q ss_pred HHHHHHhcCCce----EEeec-cCCCC-cchHHHHHHHHHhCC--EEEEEEcCCCCCcHHHHHHHHH
Q 037311 29 HLYSALARQNIQ----TFIDD-QLNRG-DEISESLVKAIKASA--ISVIIFSEDYASSRWCLDEFAE 87 (93)
Q Consensus 29 ~L~~~L~~~gi~----v~~d~-~~~~G-~~~~~~i~~~i~~s~--~~i~v~S~~y~~S~wc~~El~~ 87 (93)
.+.++-.+.|++ +-.|. |+..| .....+..++|++.. ..|=++.|+|...+-.++.+..
T Consensus 104 rvAeaV~~mgLkyVViTsVdRDDL~DGGA~hfa~~i~~Ire~~P~t~iEvL~PDF~G~~~al~~v~~ 170 (306)
T COG0320 104 RVAEAVKDMGLKYVVITSVDRDDLPDGGAQHFAECIRAIRELNPQTTIEVLTPDFRGNDDALEIVAD 170 (306)
T ss_pred HHHHHHHHhCCCeEEEEeeccccccccchHHHHHHHHHHHhhCCCceEEEeCccccCCHHHHHHHHh
Confidence 344444555553 33455 88766 455568888999876 8899999999997666666543
No 218
>PRK01215 competence damage-inducible protein A; Provisional
Probab=26.10 E-value=1.8e+02 Score=20.37 Aligned_cols=45 Identities=16% Similarity=0.051 Sum_probs=26.3
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCC-CcchHHHHHHHHHhCCEEEE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNR-GDEISESLVKAIKASAISVI 69 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~-G~~~~~~i~~~i~~s~~~i~ 69 (93)
.-...|...|.+.|+.+....-+.. -+.+.+.+.+++++++++|.
T Consensus 23 tn~~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~a~~~~DlVIt 68 (264)
T PRK01215 23 TNASWIARRLTYLGYTVRRITVVMDDIEEIVSAFREAIDRADVVVS 68 (264)
T ss_pred hhHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhcCCCEEEE
Confidence 3455788889999998754321111 13355666666666654443
No 219
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=26.07 E-value=1.9e+02 Score=23.06 Aligned_cols=54 Identities=13% Similarity=0.197 Sum_probs=37.4
Q ss_pred HHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHH
Q 037311 32 SALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFA 86 (93)
Q Consensus 32 ~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~ 86 (93)
++|+++|+.+..-.....-+. ...+.+++.....-++.+||.-+.+++.++-|.
T Consensus 75 ~~l~~~Gi~A~~lnS~l~~~e-~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~ 128 (590)
T COG0514 75 DQLEAAGIRAAYLNSTLSREE-RQQVLNQLKSGQLKLLYISPERLMSPRFLELLK 128 (590)
T ss_pred HHHHHcCceeehhhcccCHHH-HHHHHHHHhcCceeEEEECchhhcChHHHHHHH
Confidence 567788887655432222222 247788888888899999999999988776554
No 220
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=26.05 E-value=1.9e+02 Score=20.05 Aligned_cols=50 Identities=22% Similarity=0.165 Sum_probs=31.1
Q ss_pred hHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHh--CCEEEEEEcCCCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKA--SAISVIIFSEDYA 76 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~--s~~~i~v~S~~y~ 76 (93)
.-...|...|++.|..++.-- ++.+.+. ..+..++.+ ..-.|++.|+|-+
T Consensus 28 ~q~~~l~~~L~~~G~~~~~~P~i~i~~~~~--~~~~~~l~~l~~~d~iiftS~NAV 81 (266)
T PRK08811 28 GEHAPLRRAVARHGGRLLALSPWRLQRLDT--AQARDALRQALAAPIVVFTSPAAV 81 (266)
T ss_pred HHHHHHHHHHHHCCCcEEEcCceeecCCCc--hhHHHHHhhcccCCEEEEECHHHH
Confidence 456788899999999887654 6655543 122333331 3346777788753
No 221
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=25.95 E-value=2.5e+02 Score=20.01 Aligned_cols=46 Identities=20% Similarity=0.315 Sum_probs=24.6
Q ss_pred hhHHHHHHHHHhcC-CceEEeec--cCCCCcchHHHHHHHHHhCCEEEEE
Q 037311 24 DNFTSHLYSALARQ-NIQTFIDD--QLNRGDEISESLVKAIKASAISVII 70 (93)
Q Consensus 24 ~~~~~~L~~~L~~~-gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v 70 (93)
+.|...-...|-.. ||+-|+|- .++..++.. ++.+.+.--..+|.|
T Consensus 53 R~Fl~RaVr~la~~~GIrQFLDlGsGlPT~~nvH-evAq~~~P~aRVVYV 101 (267)
T PF04672_consen 53 RAFLRRAVRYLAEEAGIRQFLDLGSGLPTAGNVH-EVAQRVAPDARVVYV 101 (267)
T ss_dssp HHHHHHHHHHHHCTT---EEEEET--S--SS-HH-HHHHHH-TT-EEEEE
T ss_pred HHHHHHHHHHHHHhcCcceEEEcccCCCCCCCHh-HHHHhhCCCceEEEE
Confidence 36777777777776 99999997 777667766 566666644444443
No 222
>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=25.90 E-value=1.3e+02 Score=17.74 Aligned_cols=28 Identities=25% Similarity=0.367 Sum_probs=16.7
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
++||+++.. +..+..+ +.++++|+++-.
T Consensus 52 i~iS~sG~t--~~~~~~~-~~a~~~g~~vi~ 79 (128)
T cd05014 52 IAISNSGET--DELLNLL-PHLKRRGAPIIA 79 (128)
T ss_pred EEEeCCCCC--HHHHHHH-HHHHHCCCeEEE
Confidence 466777764 2344444 556777887554
No 223
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=25.79 E-value=71 Score=17.10 Aligned_cols=22 Identities=18% Similarity=0.380 Sum_probs=10.1
Q ss_pred HHHHHHhcCCceEEeec-cCCCC
Q 037311 29 HLYSALARQNIQTFIDD-QLNRG 50 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~-~~~~G 50 (93)
.+.+.+......+.+.. -+..|
T Consensus 24 ~~~~~f~~~~~~vli~t~~~~~G 46 (78)
T PF00271_consen 24 EILKKFNSGEIRVLIATDILGEG 46 (78)
T ss_dssp HHHHHHHTTSSSEEEESCGGTTS
T ss_pred HHHHHhhccCceEEEeecccccc
Confidence 34445554444554444 33444
No 224
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=25.73 E-value=1.5e+02 Score=21.34 Aligned_cols=79 Identities=19% Similarity=0.417 Sum_probs=54.0
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeec--cC-CCCcchHHHHHHHHHh--CCEEEEEEcCCCCCcHHHHH
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD--QL-NRGDEISESLVKAIKA--SAISVIIFSEDYASSRWCLD 83 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~--~~-~~G~~~~~~i~~~i~~--s~~~i~v~S~~y~~S~wc~~ 83 (93)
-++.+=+||.+.|. .+++...+-|.+.|+.+|.+. +- .-|.++.+ +..-|-+ .-..+..+|.+|-.-.|...
T Consensus 5 ~~~~~a~~f~~~d~--~~~~~~~n~~~~~~v~~~y~~~~~a~~~~~~~~~-~~~e~~q~~~~~~~~f~~~~~~r~~~~~~ 81 (329)
T COG4916 5 VQFEIALSFAGEDR--EYVDRVANLLREAGVTVFYDIFEEANLWGKNLYD-YLSEIYQDKALFTIMFISEHYSRKMWTNH 81 (329)
T ss_pred hheeeeeeecCchH--HHHHHHHHHHHhhccEEEEeehhhhhhhhhHHHH-HHHHHHhhhhHHHhhhhhccccCcCCCcH
Confidence 45667789998884 688888888899999999985 22 13344442 2222322 34567788999998889888
Q ss_pred HHHHHHh
Q 037311 84 EFAEILE 90 (93)
Q Consensus 84 El~~~~~ 90 (93)
|+..++-
T Consensus 82 ~~~~~~a 88 (329)
T COG4916 82 ERQAMQA 88 (329)
T ss_pred HHHHHHH
Confidence 7766543
No 225
>PRK05568 flavodoxin; Provisional
Probab=25.69 E-value=1.6e+02 Score=17.79 Aligned_cols=55 Identities=9% Similarity=0.207 Sum_probs=31.4
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
||.|-.+.- +..+..+.+.++..|+.+-+.+ +..-+ . ..+.+++. |++-||.|..
T Consensus 7 vY~S~~GnT--~~~a~~i~~~~~~~g~~v~~~~-~~~~~-~-----~~~~~~d~-iilgsp~y~~ 61 (142)
T PRK05568 7 IYWSGTGNT--EAMANLIAEGAKENGAEVKLLN-VSEAS-V-----DDVKGADV-VALGSPAMGD 61 (142)
T ss_pred EEECCCchH--HHHHHHHHHHHHHCCCeEEEEE-CCCCC-H-----HHHHhCCE-EEEECCccCc
Confidence 455544432 4688889898888888665443 21111 1 13566664 5556777654
No 226
>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=25.59 E-value=2.4e+02 Score=19.61 Aligned_cols=54 Identities=11% Similarity=-0.033 Sum_probs=28.2
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
.|+|-+...+-.+..+..+...|++.|+++--...++++..=.......+++.+
T Consensus 134 ~v~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~l~~~~ 187 (333)
T cd06358 134 RWYLIGNDYVWPRGSLAAAKRYIAELGGEVVGEEYVPLGTTDFTSVLERIAASG 187 (333)
T ss_pred eEEEEeccchhhHHHHHHHHHHHHHcCCEEeeeeeecCChHHHHHHHHHHHHcC
Confidence 345544332222345566777788888876644355555332234444555544
No 227
>TIGR00434 cysH phosophoadenylyl-sulfate reductase (thioredoxin). This enzyme, involved in the assimilation of inorganic sulfate, is designated cysH in Bacteria and MET16 in Saccharomyces cerevisiae. Synonyms include phosphoadenosine phosphosulfate reductase, PAPS reductase, and PAPS reductase, thioredoxin-dependent. In a reaction requiring reduced thioredoxin and NADPH, it converts 3(prime)-phosphoadenylylsulfate (PAPS) to sulfite and adenosine 3(prime),5(prime) diphosphate (PAP). A related family of plant enzymes, scoring below the trusted cutoff, differs in having a thioredoxin-like C-terminal domain, not requiring thioredoxin, and in having a preference for 5(prime)-adenylylsulfate (APS) over PAPS.
Probab=25.46 E-value=1.4e+02 Score=19.76 Aligned_cols=29 Identities=14% Similarity=0.025 Sum_probs=17.7
Q ss_pred cEEEeccc-CcCChhHHHHHHHHHhcCCceEEe
Q 037311 12 DVFVSFRG-EDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 12 dVFISy~~-~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
++.+|||+ +|. ..+.+|...+.. .+.+++
T Consensus 15 ~~~~s~SgGKDS--~Vll~L~~~~~~-~~~v~f 44 (212)
T TIGR00434 15 HLVYSTSFGIQG--AVLLDLVSKISP-DIPVIF 44 (212)
T ss_pred CEEEEecCCHHH--HHHHHHHHhcCC-CCcEEE
Confidence 68999974 773 455677665432 355443
No 228
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.26 E-value=65 Score=16.46 Aligned_cols=16 Identities=6% Similarity=0.175 Sum_probs=12.2
Q ss_pred HHHHHHHHhcCCceEE
Q 037311 27 TSHLYSALARQNIQTF 42 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~ 42 (93)
...+.+.|+++|+.++
T Consensus 50 ~~~~~~~L~~~G~~v~ 65 (65)
T cd04882 50 IEKAIEVLQERGVELV 65 (65)
T ss_pred HHHHHHHHHHCCceEC
Confidence 5577788889998763
No 229
>PF03068 PAD: Protein-arginine deiminase (PAD); InterPro: IPR013530 In the presence of calcium ions, Protein-arginine deiminase (PAD) enzymes 3.5.3.15 from EC catalyse the post-translational modification reaction responsible for the formation of citrulline residues from protein-bound arginine residues []. Four PAD isotypes of PAD have been identified in mammals, a fifth may also exist. Non-mammalian vertebrates appear to have only a single PAD enzyme. All known natural substrates of PAD are proteins known to have an important structural function, such as keratin (PAD1), intermediate filaments or proteins associated with intermediate filaments. Citrulination may have consequences for the structural integrity and interactions of these proteins. Physiological levels of calcium appear to be too low to activate these enzymes suggesting a role between PAD activation and loss of calcium homeostasis during terminal differentiation and cell death (apoptosis). ; GO: 0004668 protein-arginine deiminase activity, 0005509 calcium ion binding, 0005737 cytoplasm; PDB: 3B1U_A 3B1T_A 2DW5_A 3APN_A 1WD9_A 2DEX_X 1WD8_A 2DEY_X 2DEW_X 1WDA_A ....
Probab=25.15 E-value=65 Score=24.15 Aligned_cols=36 Identities=19% Similarity=0.241 Sum_probs=23.5
Q ss_pred CCCCcccEEEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 6 RNNKKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 6 ~~~~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
.-..--+||+|= ..|. +.|+..|.+..++.|+++-+
T Consensus 24 ~tq~p~eV~v~~-~~~n-~~Fv~~l~~l~~~a~~~~~i 59 (385)
T PF03068_consen 24 HTQPPQEVYVCS-VKDN-QQFVKALKELVAKAGCKLPI 59 (385)
T ss_dssp TTS-EEEEEEE---SS--HHHHHHHHHHHHHTT-EEEE
T ss_pred CCCCceEEEEec-cCCH-HHHHHHHHHHHHHcCCceee
Confidence 344556899994 4554 57999999888888887544
No 230
>PRK13862 putative crown gall tumor protein VirC2; Provisional
Probab=25.13 E-value=1.2e+02 Score=20.42 Aligned_cols=29 Identities=28% Similarity=0.303 Sum_probs=20.5
Q ss_pred CCCCCCcccEEEecccCcCChhHHHHHHHHHh
Q 037311 4 FSRNNKKYDVFVSFRGEDIRDNFTSHLYSALA 35 (93)
Q Consensus 4 s~~~~~~ydVFISy~~~D~~~~~~~~L~~~L~ 35 (93)
|...+.+..||+|-+-.-. -++++++.|-
T Consensus 75 s~~~PEKvQVFLSArpPAp---~vSk~yD~Li 103 (201)
T PRK13862 75 STTAPEKVQVFLSARPPAP---EVSKIYDNLI 103 (201)
T ss_pred CCCCchheEEeeecCCCCc---cHHHHHHHHH
Confidence 5677889999999876532 3556666554
No 231
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=25.13 E-value=1.8e+02 Score=20.06 Aligned_cols=39 Identities=18% Similarity=0.187 Sum_probs=30.4
Q ss_pred cEEEecccCcCChhHH-HHHHHHHhcCCceEEeeccCCCC
Q 037311 12 DVFVSFRGEDIRDNFT-SHLYSALARQNIQTFIDDQLNRG 50 (93)
Q Consensus 12 dVFISy~~~D~~~~~~-~~L~~~L~~~gi~v~~d~~~~~G 50 (93)
.+||+=...|..+.++ ..|..+|.+.|+++..-+-++.|
T Consensus 4 ~~fVtGTDT~VGKTv~S~aL~~~l~~~g~~~~~~KPVqsG 43 (223)
T COG0132 4 RFFVTGTDTGVGKTVVSAALAQALKQQGYSVAGYKPVQTG 43 (223)
T ss_pred eEEEEeCCCCccHHHHHHHHHHHHHhCCCeeEEECceeeC
Confidence 5788877777778888 67888999999998887645555
No 232
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=25.08 E-value=1.5e+02 Score=17.30 Aligned_cols=54 Identities=13% Similarity=0.310 Sum_probs=29.2
Q ss_pred ccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEE
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVII 70 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v 70 (93)
-+.++.++..| +...+.+....+|+.+.+|- .......+...+.++..-+++++
T Consensus 35 a~~~~~~~~~~----~~~~i~~~~~~~~~d~vid~--~g~~~~~~~~~~~l~~~G~~v~v 88 (130)
T PF00107_consen 35 ADHVIDYSDDD----FVEQIRELTGGRGVDVVIDC--VGSGDTLQEAIKLLRPGGRIVVV 88 (130)
T ss_dssp ESEEEETTTSS----HHHHHHHHTTTSSEEEEEES--SSSHHHHHHHHHHEEEEEEEEEE
T ss_pred ccccccccccc----cccccccccccccceEEEEe--cCcHHHHHHHHHHhccCCEEEEE
Confidence 45667776654 66666665555678888873 22133333444444444444443
No 233
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=25.01 E-value=2.6e+02 Score=19.82 Aligned_cols=38 Identities=16% Similarity=0.125 Sum_probs=29.7
Q ss_pred HHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhhc
Q 037311 55 ESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILECK 92 (93)
Q Consensus 55 ~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~~ 92 (93)
..-..+..+++.+|++..|.-...+|-+.+...++-.+
T Consensus 146 ekRl~aAA~adfVi~~YNP~s~~R~~~~~~a~eil~~~ 183 (249)
T COG1010 146 EKRLRAAAEADFVIALYNPISKRRPEQLGRAFEILREH 183 (249)
T ss_pred HHHHHHHhhCCEEEEEECCccccchHHHHHHHHHHHHh
Confidence 34455667899999999999999999888777766543
No 234
>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=24.94 E-value=60 Score=17.04 Aligned_cols=15 Identities=27% Similarity=0.585 Sum_probs=11.4
Q ss_pred HHHhCCEEEEEEcCC
Q 037311 60 AIKASAISVIIFSED 74 (93)
Q Consensus 60 ~i~~s~~~i~v~S~~ 74 (93)
-+.++++.+++++|+
T Consensus 29 ~LC~~~v~~iv~~~~ 43 (51)
T PF00319_consen 29 TLCGVDVALIVFSPD 43 (51)
T ss_dssp HHHT-EEEEEEEETT
T ss_pred eecCCeEEEEEECCC
Confidence 466788999999987
No 235
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=24.93 E-value=1.3e+02 Score=19.18 Aligned_cols=52 Identities=13% Similarity=-0.015 Sum_probs=29.2
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
++||+++... -+..+.+.++++|.++..=.+ .++.++ .+.++.++.+-++..
T Consensus 77 I~iS~sG~t~---~~i~~~~~ak~~g~~ii~IT~-~~~s~l-------a~~ad~~l~~~~~~~ 128 (179)
T TIGR03127 77 IAISGSGETE---SLVTVAKKAKEIGATVAAITT-NPESTL-------GKLADVVVEIPAATK 128 (179)
T ss_pred EEEeCCCCcH---HHHHHHHHHHHCCCeEEEEEC-CCCCch-------HHhCCEEEEeCCccc
Confidence 4777877642 333455667888988765321 122222 245777777666443
No 236
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=24.93 E-value=2.5e+02 Score=21.85 Aligned_cols=36 Identities=14% Similarity=0.122 Sum_probs=27.4
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhC
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKAS 64 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s 64 (93)
.-++.|.+.|++.|++..+- .||+.+. .+.+++.++
T Consensus 22 ~~a~~l~~~L~~~GV~~vFg---vpG~~~~-~l~dal~~~ 57 (587)
T PRK06965 22 IGAEILMKALAAEGVEFIWG---YPGGAVL-YIYDELYKQ 57 (587)
T ss_pred cHHHHHHHHHHHcCCCEEEe---cCCcchH-HHHHHHhhc
Confidence 45789999999999987764 6777765 467777654
No 237
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=24.92 E-value=1.7e+02 Score=19.65 Aligned_cols=46 Identities=13% Similarity=0.142 Sum_probs=25.1
Q ss_pred HHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCE-EEEEEcCC
Q 037311 29 HLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASAI-SVIIFSED 74 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~-~i~v~S~~ 74 (93)
.|.+.|+++|+.|-.-. +-.+-......+...+++.+. .|++.|+.
T Consensus 132 ~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~S~~ 180 (240)
T PRK09189 132 VFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLYSRV 180 (240)
T ss_pred hhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEeCHH
Confidence 46677788887654322 333223333455666666543 56666665
No 238
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=24.81 E-value=81 Score=21.46 Aligned_cols=21 Identities=14% Similarity=0.246 Sum_probs=18.6
Q ss_pred hHHHHHHHHHhcCCceEEeec
Q 037311 25 NFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~ 45 (93)
+.+..|.+.|.++|+.+++-+
T Consensus 38 TiA~ale~~L~~~G~~~y~LD 58 (197)
T COG0529 38 TIANALEEKLFAKGYHVYLLD 58 (197)
T ss_pred HHHHHHHHHHHHcCCeEEEec
Confidence 688999999999999998854
No 239
>PRK13937 phosphoheptose isomerase; Provisional
Probab=24.78 E-value=1.4e+02 Score=19.45 Aligned_cols=51 Identities=14% Similarity=0.111 Sum_probs=29.0
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
++||+++.. .-+....+.++++|+++..=.. .++..+. +.++..+.+-++.
T Consensus 111 i~iS~sG~t---~~~~~~~~~ak~~g~~~I~iT~-~~~s~L~-------~~ad~~l~~~~~e 161 (188)
T PRK13937 111 IGISTSGNS---PNVLAALEKARELGMKTIGLTG-RDGGKMK-------ELCDHLLIVPSDD 161 (188)
T ss_pred EEEeCCCCc---HHHHHHHHHHHHCCCeEEEEeC-CCCChhH-------HhCCEEEEeCCCC
Confidence 366777764 2344555667788887664321 1222222 4677777776654
No 240
>PRK10646 ADP-binding protein; Provisional
Probab=24.63 E-value=97 Score=20.04 Aligned_cols=58 Identities=12% Similarity=0.159 Sum_probs=34.5
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCc-chHHHHHHHHHhCCEEEEEEcCCCC
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGD-EISESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~-~~~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
|++.+.+++ ..++..|...|. .|-.+.+.-++-.|. .+...+.+++.-.. .|-||.|.
T Consensus 6 ~~~~s~~~t-~~l~~~la~~l~-~g~vi~L~GdLGaGKTtf~rgl~~~Lg~~~---~V~SPTFt 64 (153)
T PRK10646 6 IPLPDEQAT-LDLGARVAKACD-GATVIYLYGDLGAGKTTFSRGFLQALGHQG---NVKSPTYT 64 (153)
T ss_pred EECCCHHHH-HHHHHHHHHhCC-CCcEEEEECCCCCCHHHHHHHHHHHcCCCC---CCCCCCEe
Confidence 444555554 367777766654 455566666999994 45566666664322 25577654
No 241
>PRK09271 flavodoxin; Provisional
Probab=24.55 E-value=1.9e+02 Score=18.22 Aligned_cols=29 Identities=7% Similarity=0.121 Sum_probs=20.1
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
||-|-.+.- +..+..|.+.|+..|+.+-+
T Consensus 6 vY~S~tGnT--e~~A~~ia~~l~~~g~~v~~ 34 (160)
T PRK09271 6 AYASLSGNT--REVAREIEERCEEAGHEVDW 34 (160)
T ss_pred EEEcCCchH--HHHHHHHHHHHHhCCCeeEE
Confidence 455544432 46889999999998887643
No 242
>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=24.24 E-value=1.6e+02 Score=17.31 Aligned_cols=41 Identities=20% Similarity=0.130 Sum_probs=23.8
Q ss_pred HHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 29 HLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
-+...|+..|+.|..-. +.. .+++.+.+.+.+--++.+|-.
T Consensus 18 ~~~~~l~~~G~~V~~lg~~~~-----~~~l~~~~~~~~pdvV~iS~~ 59 (119)
T cd02067 18 IVARALRDAGFEVIDLGVDVP-----PEEIVEAAKEEDADAIGLSGL 59 (119)
T ss_pred HHHHHHHHCCCEEEECCCCCC-----HHHHHHHHHHcCCCEEEEecc
Confidence 34446778899885432 322 236666777666555555543
No 243
>PRK11263 cardiolipin synthase 2; Provisional
Probab=24.21 E-value=87 Score=23.44 Aligned_cols=38 Identities=16% Similarity=0.416 Sum_probs=20.3
Q ss_pred hHHHHHHHHHhcCCceEEeec-cC---CCCcchHHHHHHHHH
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QL---NRGDEISESLVKAIK 62 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~---~~G~~~~~~i~~~i~ 62 (93)
++-..+.+++++..-.+.+.. -+ ..|..+.+.+.++.+
T Consensus 18 e~~~~l~~~I~~Ak~~I~i~~yi~~~d~~g~~l~~aL~~aa~ 59 (411)
T PRK11263 18 QYYPRVFEAIAAAQEEILLETFILFEDKVGKQLHAALLAAAQ 59 (411)
T ss_pred HHHHHHHHHHHHhCCEEEEEEEEEecCchHHHHHHHHHHHHH
Confidence 455667777776544444443 33 335555555555543
No 244
>PF09314 DUF1972: Domain of unknown function (DUF1972); InterPro: IPR015393 This domain is functionally uncharacterised and found in bacterial glycosyltransferases and rhamnosyltransferases.
Probab=24.19 E-value=92 Score=20.78 Aligned_cols=20 Identities=20% Similarity=0.401 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHhcCCceEEe
Q 037311 24 DNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~ 43 (93)
++||++|...|.++|+.+..
T Consensus 20 ET~ve~L~~~l~~~g~~v~V 39 (185)
T PF09314_consen 20 ETFVEELAPRLVSKGIDVTV 39 (185)
T ss_pred HHHHHHHHHHHhcCCceEEE
Confidence 57999999999988886544
No 245
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=24.14 E-value=2.9e+02 Score=20.16 Aligned_cols=67 Identities=9% Similarity=0.070 Sum_probs=40.4
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec--cCCCCcchHH-HHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHH
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD--QLNRGDEISE-SLVKAIKASAISVIIFSEDYASSRWCLDEFAEIL 89 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~-~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~ 89 (93)
++|++...- ..+..-.+.|++.|+++-+-+ .+.| +.. .|.+.+++.+. |+++-.++ ++-..|+..++
T Consensus 250 ~iva~Gs~~---~~a~eA~~~L~~~Gi~v~vi~~~~l~P---fp~~~i~~~l~~~k~-VivvE~n~---g~l~~ei~~~~ 319 (352)
T PRK07119 250 VLVAYGTSA---RIAKSAVDMAREEGIKVGLFRPITLWP---FPEKALEELADKGKG-FLSVEMSM---GQMVEDVRLAV 319 (352)
T ss_pred EEEEcCccH---HHHHHHHHHHHHcCCeEEEEeeceecC---CCHHHHHHHHhCCCE-EEEEeCCc---cHHHHHHHHHh
Confidence 466665432 345566677888899876554 4444 433 47777777776 45555553 56666666554
No 246
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=24.12 E-value=1.4e+02 Score=19.02 Aligned_cols=60 Identities=15% Similarity=0.128 Sum_probs=31.4
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHH
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAE 87 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~ 87 (93)
+.||+++... -+....+.++++|.++..=.+. ++.++. +-++..+.+-++. ++-..|+..
T Consensus 106 I~iS~SG~t~---~~i~~~~~ak~~Ga~vI~IT~~-~~s~La-------~~aD~~l~~~~~~----~~~~~~~~~ 165 (177)
T cd05006 106 IGISTSGNSP---NVLKALEAAKERGMKTIALTGR-DGGKLL-------ELADIEIHVPSDD----TPRIQEVHL 165 (177)
T ss_pred EEEeCCCCCH---HHHHHHHHHHHCCCEEEEEeCC-CCCchh-------hhCCEEEEeCCCC----hHHHHHHHH
Confidence 4667777642 3445556667788876653321 222222 3477776664443 334444443
No 247
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=24.04 E-value=2e+02 Score=20.98 Aligned_cols=61 Identities=18% Similarity=0.383 Sum_probs=36.8
Q ss_pred EEEecccCcCChhHHH--HHHHHHhcCCceEEeec-----cCCCCcch-HHHHHHHHHhCCEEEEEEcCCC
Q 037311 13 VFVSFRGEDIRDNFTS--HLYSALARQNIQTFIDD-----QLNRGDEI-SESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 13 VFISy~~~D~~~~~~~--~L~~~L~~~gi~v~~d~-----~~~~G~~~-~~~i~~~i~~s~~~i~v~S~~y 75 (93)
+|+.|.+.+.. ... .+...+.+....|+.-- ....|..+ .......+++....|.+++|..
T Consensus 176 ~FlNY~W~~~~--l~~s~~~a~~~g~~~~dvy~GiDv~grg~~~~~~~~~~~~~~~~~~~~~Svalfap~W 244 (339)
T cd06547 176 IFLNYWWTEES--LERSVQLAEGLGRSPYDVYVGVDVWGRGTKGGGGWNSDKALDEIKKAGLSVALFAPGW 244 (339)
T ss_pred eeEecCCCcch--HHHHHHHHHHcCCCHhHEEEEEEEEcCCcccCCCCchhhhhhhhcccCeEEEEEcCcc
Confidence 79999997642 222 23444544444444432 33334445 2455667888999999999983
No 248
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=24.04 E-value=2.9e+02 Score=20.19 Aligned_cols=51 Identities=22% Similarity=0.326 Sum_probs=37.9
Q ss_pred ChhHHHHHHHHHhcCC--ceEEeec-cCCCC-cchHHHHHHHHHhCCEEEEEEcC
Q 037311 23 RDNFTSHLYSALARQN--IQTFIDD-QLNRG-DEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 23 ~~~~~~~L~~~L~~~g--i~v~~d~-~~~~G-~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
.+.|-..|..+|.... -.+|+.. .-..| -.+++.+.++++++.++++-.|.
T Consensus 192 Q~~Fe~~l~~~l~~~~~~~~i~vE~Es~~IG~~~lP~~l~~~m~~~~~v~i~~~~ 246 (345)
T PRK11784 192 QKDFENLLAEALLKLDPARPIVVEDESRRIGRVHLPEALYEAMQQAPIVVVEAPL 246 (345)
T ss_pred hHHHHHHHHHHHHcCCCCCeEEEEeccccccCccCCHHHHHHHhhCCEEEEECCH
Confidence 3679999999998643 3566665 55555 66888999999999888766553
No 249
>PF05636 HIGH_NTase1: HIGH Nucleotidyl Transferase; InterPro: IPR008513 This family consists of several bacterial proteins of unknown function.; PDB: 3GMI_A.
Probab=24.01 E-value=1.3e+02 Score=22.40 Aligned_cols=28 Identities=18% Similarity=0.495 Sum_probs=17.4
Q ss_pred HHHhCCEEEEEEcCCCCC-------cHHHHHHHHH
Q 037311 60 AIKASAISVIIFSEDYAS-------SRWCLDEFAE 87 (93)
Q Consensus 60 ~i~~s~~~i~v~S~~y~~-------S~wc~~El~~ 87 (93)
.+-.++.+|+|+|-+|++ ++|-+.|++.
T Consensus 26 ~~~~ad~ii~vMSGnFvQRGEPAi~dKw~RA~~AL 60 (388)
T PF05636_consen 26 KITGADVIIAVMSGNFVQRGEPAIIDKWTRAEMAL 60 (388)
T ss_dssp ---TSSEEEEEE--TTSBTSSB-SS-HHHHHHHHH
T ss_pred ccCCCCEEEEEECCCcccCCCeeeCCHHHHHHHHH
Confidence 344788999999999985 5677776653
No 250
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=23.97 E-value=76 Score=16.72 Aligned_cols=15 Identities=13% Similarity=0.100 Sum_probs=10.7
Q ss_pred HHHHHHhcCCceEEe
Q 037311 29 HLYSALARQNIQTFI 43 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~ 43 (93)
.+.+.|++.|+++++
T Consensus 52 ~~~~~L~~~G~~v~~ 66 (66)
T cd04908 52 KAKEALKEAGFAVKL 66 (66)
T ss_pred HHHHHHHHCCCEEEC
Confidence 556777888888763
No 251
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=23.87 E-value=1.6e+02 Score=17.14 Aligned_cols=12 Identities=17% Similarity=0.365 Sum_probs=5.1
Q ss_pred HHHHHHHHhCCE
Q 037311 55 ESLVKAIKASAI 66 (93)
Q Consensus 55 ~~i~~~i~~s~~ 66 (93)
+.+.+.+++.+.
T Consensus 77 ~~~~~~l~~~~~ 88 (131)
T PF13401_consen 77 SLLIDALDRRRV 88 (131)
T ss_dssp HHHHHHHHHCTE
T ss_pred HHHHHHHHhcCC
Confidence 344444444444
No 252
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=23.87 E-value=1.5e+02 Score=19.50 Aligned_cols=51 Identities=10% Similarity=0.070 Sum_probs=30.0
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCC
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSED 74 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~ 74 (93)
++||++++. .-+....+.++++|.++..=... ++.++. +.++..|.+-++.
T Consensus 116 I~iS~SG~t---~~~i~~~~~ak~~g~~iI~iT~~-~~s~l~-------~~ad~~l~~~~~~ 166 (192)
T PRK00414 116 LGISTSGNS---GNIIKAIEAARAKGMKVITLTGK-DGGKMA-------GLADIEIRVPHFG 166 (192)
T ss_pred EEEeCCCCC---HHHHHHHHHHHHCCCeEEEEeCC-CCChhH-------HhCCEEEEeCCCC
Confidence 357777764 24445556777888887654311 222222 3578888777744
No 253
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=23.81 E-value=2.8e+02 Score=19.94 Aligned_cols=46 Identities=15% Similarity=0.188 Sum_probs=25.3
Q ss_pred hHHHHHHHHHhcCCceEEe-ec-cCCCCcchHHHHHHHHHh--CCEEEEE
Q 037311 25 NFTSHLYSALARQNIQTFI-DD-QLNRGDEISESLVKAIKA--SAISVII 70 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~-d~-~~~~G~~~~~~i~~~i~~--s~~~i~v 70 (93)
.+++.+...|++.|+.+.. +. .-.|...-.+++.+.+++ ++.+|.|
T Consensus 36 ~~~~~v~~~L~~~~i~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIai 85 (366)
T PF00465_consen 36 GLVDRVLDALEEAGIEVQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAI 85 (366)
T ss_dssp THHHHHHHHHHHTTCEEEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEE
T ss_pred ccHHHHHHHHhhCceEEEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEc
Confidence 3667788888888887643 32 334443333455555553 3455554
No 254
>PF13899 Thioredoxin_7: Thioredoxin-like; PDB: 2LST_A 3PH9_A 1UC7_A 2JU5_A 1VRS_D 2FWG_A 2FWF_A 2FWH_A 2FWE_A 3FK8_A ....
Probab=23.78 E-value=1.4e+02 Score=16.36 Aligned_cols=21 Identities=24% Similarity=0.328 Sum_probs=14.5
Q ss_pred chHHHHHHHHHhCCEEEEEEc
Q 037311 52 EISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 52 ~~~~~i~~~i~~s~~~i~v~S 72 (93)
++.+.+.+|-++-+-+++.++
T Consensus 5 d~~~al~~A~~~~kpvlv~f~ 25 (82)
T PF13899_consen 5 DYEEALAEAKKEGKPVLVDFG 25 (82)
T ss_dssp SHHHHHHHHHHHTSEEEEEEE
T ss_pred hHHHHHHHHHHcCCCEEEEEE
Confidence 355667777777777777774
No 255
>TIGR02821 fghA_ester_D S-formylglutathione hydrolase. This model describes a protein family from bacteria, yeast, and human, with a conserved critical role in formaldehyde detoxification as S-formylglutathione hydrolase (EC 3.1.2.12). Members in eukaryotes such as the human protein are better known as esterase D (EC 3.1.1.1), an enzyme with broad specificity, although S-formylglutathione hydrolase has now been demonstrated as well.
Probab=23.78 E-value=2.5e+02 Score=19.21 Aligned_cols=34 Identities=6% Similarity=-0.068 Sum_probs=19.2
Q ss_pred ccEEEecccCcCChh---HHHHHHHHHhcCCceEEee
Q 037311 11 YDVFVSFRGEDIRDN---FTSHLYSALARQNIQTFID 44 (93)
Q Consensus 11 ydVFISy~~~D~~~~---~~~~L~~~L~~~gi~v~~d 44 (93)
.-++|.+...|..-. -...+.+.|++.|..+.+.
T Consensus 212 ~plli~~G~~D~~v~~~~~~~~~~~~l~~~g~~v~~~ 248 (275)
T TIGR02821 212 STILIDQGTADQFLDEQLRPDAFEQACRAAGQALTLR 248 (275)
T ss_pred CCeeEeecCCCcccCccccHHHHHHHHHHcCCCeEEE
Confidence 346666666664211 2345667777777665553
No 256
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=23.75 E-value=1.4e+02 Score=19.10 Aligned_cols=23 Identities=26% Similarity=0.426 Sum_probs=17.0
Q ss_pred HHHHHHHHhCCEEEEEEcCCCCCc
Q 037311 55 ESLVKAIKASAISVIIFSEDYASS 78 (93)
Q Consensus 55 ~~i~~~i~~s~~~i~v~S~~y~~S 78 (93)
..+.+.|..++.+ ++.||.|..|
T Consensus 60 ~~~~~~i~~AD~i-Ii~tP~Y~~s 82 (174)
T TIGR03566 60 ERILQAIESADLL-VVGSPVYRGS 82 (174)
T ss_pred HHHHHHHHHCCEE-EEECCcCcCc
Confidence 4777888888855 5568888754
No 257
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=23.66 E-value=1.6e+02 Score=17.08 Aligned_cols=57 Identities=19% Similarity=0.236 Sum_probs=26.4
Q ss_pred HHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCC----CCCcHHHHHHHHHH
Q 037311 31 YSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSED----YASSRWCLDEFAEI 88 (93)
Q Consensus 31 ~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~----y~~S~wc~~El~~~ 88 (93)
.+.+....-.+++.. .+ ....+.+.+..+.++.-.+-+++... -........++...
T Consensus 2 ~~~i~~A~~~i~i~~~~~-~~~~i~~~l~~~~~~gv~v~ii~~~~~~~~~~~~~~~~~~~~~~ 63 (126)
T PF13091_consen 2 IDLIKSAQKSIWIASPYI-TDPDIIKALLDAAKRGVKVRIIVDSNQDDSEAINLASLKELREL 63 (126)
T ss_dssp HHHHHT-SSEEEEEESSS--SCHHHHHHHHHHHTT-EEEEEEECGGGHHCCCSHHHHHHHHHH
T ss_pred HHHHhccCCEEEEEEEec-CcHHHHHHHHHHHHCCCeEEEEECCCccccchhhhHHHHHHHhh
Confidence 345555445555555 44 44455556666555544444444432 22234455555544
No 258
>PLN02972 Histidyl-tRNA synthetase
Probab=23.61 E-value=2.8e+02 Score=22.87 Aligned_cols=59 Identities=19% Similarity=0.230 Sum_probs=36.8
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEc
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFS 72 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S 72 (93)
...||||.+-+.+.. .-+-.+...|++.||++-+.. ...+...+..+-+.--..++++.
T Consensus 667 ~~~dVlV~s~g~~~l-~~alkia~~LR~aGI~aE~~~----~~kl~kq~~~A~k~gi~~vVIIG 725 (763)
T PLN02972 667 TETEVLVSIIGDDKL-ALAAELVSELWNAGIKAEYKV----STRKAKHLKRAKESGIPWMVLVG 725 (763)
T ss_pred CCCcEEEEEeCHHHH-HHHHHHHHHHHHCCCEEEEeC----CCCHHHHHHHHHHCCCCEEEEEC
Confidence 447999998654432 345678889999999888642 23455555555544334444444
No 259
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=23.46 E-value=2.6e+02 Score=19.36 Aligned_cols=36 Identities=8% Similarity=0.074 Sum_probs=18.6
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCC-cchHHHHHH
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRG-DEISESLVK 59 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G-~~~~~~i~~ 59 (93)
+.++..+...+++.|+.+-....+.++ .++...+.+
T Consensus 149 ~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~ 185 (334)
T cd06327 149 HSLERDARKVVKANGGKVVGSVRHPLGTSDFSSYLLQ 185 (334)
T ss_pred HHHHHHHHHHHHhcCCEEcCcccCCCCCccHHHHHHH
Confidence 345566666666677766544333333 344433333
No 260
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=23.43 E-value=2.4e+02 Score=21.82 Aligned_cols=35 Identities=14% Similarity=0.266 Sum_probs=24.3
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
++.|...|.+.|++..+- .||+.+. .+.+++.++.
T Consensus 4 ~~~l~~~L~~~Gv~~vFg---~pG~~~~-~l~~al~~~~ 38 (586)
T PRK06276 4 AEAIIKALEAEGVKIIFG---YPGGALL-PFYDALYDSD 38 (586)
T ss_pred HHHHHHHHHHcCCCEEEE---CCCcchH-HHHHHHHhCC
Confidence 456788889999987765 5776655 4666666554
No 261
>PRK11633 cell division protein DedD; Provisional
Probab=23.29 E-value=93 Score=21.53 Aligned_cols=26 Identities=8% Similarity=0.192 Sum_probs=20.4
Q ss_pred ecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 16 SFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 16 Sy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
||+..| =|..|...|+..||+.+...
T Consensus 156 af~n~~----~A~~l~~kL~~~G~~Ay~~~ 181 (226)
T PRK11633 156 ALKNAD----KVNEIVAKLRLSGYRVYTVP 181 (226)
T ss_pred ccCCHH----HHHHHHHHHHHCCCeeEEEe
Confidence 466554 47788999999999999854
No 262
>PRK14155 heat shock protein GrpE; Provisional
Probab=23.23 E-value=1.3e+02 Score=20.62 Aligned_cols=47 Identities=17% Similarity=0.345 Sum_probs=34.6
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-------CCEEEEEEcCCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-------SAISVIIFSEDYAS 77 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-------s~~~i~v~S~~y~~ 77 (93)
..|...|++.|+... +-..|+.|.+++-++|.. ...+|-|+.+.|.-
T Consensus 104 k~~~~~L~k~GV~~I---~~~~G~~FDP~~HEAv~~~~~~~~~~gtVi~V~qkGY~l 157 (208)
T PRK14155 104 KELLGAFERNGLKKI---DPAKGDKFDPHLHQAMMEQPSTEVAAGGVLQVMQAGYEL 157 (208)
T ss_pred HHHHHHHHHCCCcee---cCCCCCCCChhHhceeeeecCCCCCcCeEEEEeeCCeEe
Confidence 567778888999754 223588888888887764 35688888888863
No 263
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=23.21 E-value=3.2e+02 Score=20.30 Aligned_cols=59 Identities=15% Similarity=0.048 Sum_probs=32.2
Q ss_pred cEEEecccCcCChhHHHHHHHHHhcCCceEE-eec-cCCCCcchHHHHHHHHHh--CCEEEEE
Q 037311 12 DVFVSFRGEDIRDNFTSHLYSALARQNIQTF-IDD-QLNRGDEISESLVKAIKA--SAISVII 70 (93)
Q Consensus 12 dVFISy~~~D~~~~~~~~L~~~L~~~gi~v~-~d~-~~~~G~~~~~~i~~~i~~--s~~~i~v 70 (93)
.|+|-....-.+......+...|++.|+.+. ++. ...|......+..+..++ ++.+|.|
T Consensus 25 ~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 87 (414)
T cd08190 25 RVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAV 87 (414)
T ss_pred eEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 3455543321222456778888888887654 344 556665544455555543 4555544
No 264
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=23.19 E-value=1.5e+02 Score=17.32 Aligned_cols=42 Identities=7% Similarity=0.151 Sum_probs=26.1
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
-++.++.+.++++|+.+-+.. .+. ++.+.+.+.+ +++++|+.
T Consensus 18 ~l~~k~~~~~~~~gi~~~v~a~~~~-------~~~~~~~~~D--vill~pqi 60 (95)
T TIGR00853 18 LLVNKMNKAAEEYGVPVKIAAGSYG-------AAGEKLDDAD--VVLLAPQV 60 (95)
T ss_pred HHHHHHHHHHHHCCCcEEEEEecHH-------HHHhhcCCCC--EEEECchH
Confidence 466889999999999876654 321 2333334444 66667764
No 265
>COG0303 MoeA Molybdopterin biosynthesis enzyme [Coenzyme metabolism]
Probab=23.17 E-value=1.4e+02 Score=22.45 Aligned_cols=42 Identities=14% Similarity=0.249 Sum_probs=32.9
Q ss_pred cccEEEecccCcCChhHHHHHHHHHh-cCCceEEeec-cCCCCcchH
Q 037311 10 KYDVFVSFRGEDIRDNFTSHLYSALA-RQNIQTFIDD-QLNRGDEIS 54 (93)
Q Consensus 10 ~ydVFISy~~~D~~~~~~~~L~~~L~-~~gi~v~~d~-~~~~G~~~~ 54 (93)
.+|+-|...+.-.. -.+.+++.|+ +.| .+.++. .++||....
T Consensus 242 ~~DviItsGG~SvG--~~D~v~~~l~~~lG-~v~~~gia~kPGkP~~ 285 (404)
T COG0303 242 EADVIITSGGVSVG--DADYVKAALERELG-EVLFHGVAMKPGKPTG 285 (404)
T ss_pred cCCEEEEeCCccCc--chHhHHHHHHhcCC-cEEEEeeeecCCCceE
Confidence 48999998776542 3677888899 589 888888 999997753
No 266
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=22.82 E-value=74 Score=18.46 Aligned_cols=18 Identities=17% Similarity=0.416 Sum_probs=14.2
Q ss_pred hHHHHHHHHHhcCCceEE
Q 037311 25 NFTSHLYSALARQNIQTF 42 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~ 42 (93)
......+++|+++|++.-
T Consensus 19 ~iL~~Vy~AL~EKGYnPi 36 (79)
T PF06135_consen 19 EILKQVYAALEEKGYNPI 36 (79)
T ss_pred HHHHHHHHHHHHcCCChH
Confidence 455688899999999754
No 267
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=22.73 E-value=1.2e+02 Score=19.17 Aligned_cols=31 Identities=13% Similarity=0.109 Sum_probs=22.5
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
++.+++... -.++..|...|.++|++|-.-+
T Consensus 4 i~G~~gsGK-Ttl~~~l~~~l~~~G~~V~viK 34 (155)
T TIGR00176 4 IVGPKNSGK-TTLIERLVKALKARGYRVATIK 34 (155)
T ss_pred EECCCCCCH-HHHHHHHHHHHHhcCCeEEEEe
Confidence 556665543 4677999999999999886643
No 268
>PRK15182 Vi polysaccharide biosynthesis protein TviB; Provisional
Probab=22.73 E-value=2.3e+02 Score=21.24 Aligned_cols=31 Identities=23% Similarity=0.305 Sum_probs=25.5
Q ss_pred Eeccc--CcCChhHHHHHHHHHhcCCceEEeec
Q 037311 15 VSFRG--EDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 15 ISy~~--~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
++|.. .|.|++=+..|.+.|.++|..|...+
T Consensus 322 lafK~~t~D~R~Spa~~ii~~L~~~g~~V~~~D 354 (425)
T PRK15182 322 FTFKENCPDIRNTRIIDVVKELGKYSCKVDIFD 354 (425)
T ss_pred eEeCCCCCccccCcHHHHHHHHHhCCCEEEEEC
Confidence 45654 57788888899999999999988887
No 269
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=22.63 E-value=1.3e+02 Score=15.58 Aligned_cols=8 Identities=13% Similarity=0.746 Sum_probs=3.2
Q ss_pred HHHHHHHH
Q 037311 80 WCLDEFAE 87 (93)
Q Consensus 80 wc~~El~~ 87 (93)
|....+.+
T Consensus 66 ~~~~~~~Q 73 (82)
T smart00490 66 WSPASYIQ 73 (82)
T ss_pred CCHHHHHH
Confidence 34444433
No 270
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=22.60 E-value=1.4e+02 Score=19.96 Aligned_cols=33 Identities=21% Similarity=0.276 Sum_probs=25.1
Q ss_pred EEEecccCcCC-hhHHHHHHHHHhcCCceEEeec
Q 037311 13 VFVSFRGEDIR-DNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 13 VFISy~~~D~~-~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
+-|-|+..|.. ...++.|...|++.|+.|=+.+
T Consensus 3 ~LIlYstr~GqT~kIA~~iA~~L~e~g~qvdi~d 36 (175)
T COG4635 3 TLILYSTRDGQTRKIAEYIASHLRESGIQVDIQD 36 (175)
T ss_pred eEEEEecCCCcHHHHHHHHHHHhhhcCCeeeeee
Confidence 45778887642 4688899999999999887653
No 271
>PRK02947 hypothetical protein; Provisional
Probab=22.60 E-value=1.5e+02 Score=20.43 Aligned_cols=33 Identities=15% Similarity=0.105 Sum_probs=21.2
Q ss_pred cccE--EEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 10 KYDV--FVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 10 ~ydV--FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
.-|+ +|||++.. ..+..+.+.++++|+++..=.
T Consensus 106 ~~Dv~i~iS~sG~t---~~~i~~~~~a~~~g~~vI~iT 140 (246)
T PRK02947 106 PGDVLIVVSNSGRN---PVPIEMALEAKERGAKVIAVT 140 (246)
T ss_pred CCCEEEEEeCCCCC---HHHHHHHHHHHHCCCEEEEEc
Confidence 3455 66777764 245566677788899876544
No 272
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.51 E-value=1.4e+02 Score=15.94 Aligned_cols=27 Identities=26% Similarity=0.406 Sum_probs=16.2
Q ss_pred HHHHHHHHHhCCEEEEEEcCCCCCcHHH
Q 037311 54 SESLVKAIKASAISVIIFSEDYASSRWC 81 (93)
Q Consensus 54 ~~~i~~~i~~s~~~i~v~S~~y~~S~wc 81 (93)
.+.|........+.++.++|.| .|.=|
T Consensus 5 ~~~L~yka~~~G~~v~~v~~~~-TSq~C 31 (69)
T PF07282_consen 5 RQRLEYKAEEYGIQVVEVDEAY-TSQTC 31 (69)
T ss_pred HHHHHHHHHHhCCEEEEECCCC-CccCc
Confidence 3445555556667777777777 45433
No 273
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=22.39 E-value=99 Score=20.58 Aligned_cols=20 Identities=20% Similarity=0.301 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHhcCCceEEe
Q 037311 24 DNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~ 43 (93)
..|+..|..+|+++|+.|-.
T Consensus 19 ~~f~~~LaRa~e~RGf~v~~ 38 (182)
T COG4567 19 TPFLRTLARAMERRGFAVVT 38 (182)
T ss_pred hHHHHHHHHHHhccCceeEe
Confidence 57999999999999997765
No 274
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=22.23 E-value=1.2e+02 Score=16.69 Aligned_cols=30 Identities=17% Similarity=0.197 Sum_probs=23.7
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEe
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFI 43 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~ 43 (93)
+-|+..+.|. .+.+..+...|.++|.++--
T Consensus 2 ~iltv~g~Dr-~GiVa~vs~~la~~g~nI~d 31 (77)
T cd04893 2 LVISALGTDR-PGILNELTRAVSESGCNILD 31 (77)
T ss_pred EEEEEEeCCC-ChHHHHHHHHHHHcCCCEEE
Confidence 3467778886 48999999999999987653
No 275
>PLN02470 acetolactate synthase
Probab=22.20 E-value=3.1e+02 Score=21.23 Aligned_cols=36 Identities=22% Similarity=0.267 Sum_probs=26.8
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhC
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKAS 64 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s 64 (93)
.-++.|.+.|++.|++..+- .||+.+. .+.+++.++
T Consensus 14 ~~a~~l~~~L~~~GV~~vFg---~pG~~~~-~l~dal~~~ 49 (585)
T PLN02470 14 KGADILVEALEREGVDTVFA---YPGGASM-EIHQALTRS 49 (585)
T ss_pred cHHHHHHHHHHHcCCCEEEE---cCCcccH-HHHHHHhcc
Confidence 45788999999999987664 6777665 566667555
No 276
>COG1540 Uncharacterized proteins, homologs of lactam utilization protein B [General function prediction only]
Probab=22.19 E-value=83 Score=22.19 Aligned_cols=19 Identities=21% Similarity=0.298 Sum_probs=16.4
Q ss_pred hhHHHHHHHHHhcCCceEE
Q 037311 24 DNFTSHLYSALARQNIQTF 42 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~ 42 (93)
-+|+..|+++|+..||++.
T Consensus 231 l~~~~riR~~l~~~gi~v~ 249 (252)
T COG1540 231 LAFARRIRAALEAEGIKVA 249 (252)
T ss_pred HHHHHHHHHHHHHcCCeee
Confidence 3688999999999999874
No 277
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=22.16 E-value=1.6e+02 Score=16.40 Aligned_cols=41 Identities=24% Similarity=0.512 Sum_probs=20.1
Q ss_pred HHHhcCCceEEeec-cCCCCcchHHHHHHHHHh--CCEEEEEEcCC
Q 037311 32 SALARQNIQTFIDD-QLNRGDEISESLVKAIKA--SAISVIIFSED 74 (93)
Q Consensus 32 ~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~--s~~~i~v~S~~ 74 (93)
+.+.+..+.+.+-+ ++..++.+ ++.+.|++ -+.-++++|.+
T Consensus 37 ~~~~~~~~d~iiid~~~~~~~~~--~~~~~i~~~~~~~~ii~~t~~ 80 (112)
T PF00072_consen 37 ELLKKHPPDLIIIDLELPDGDGL--ELLEQIRQINPSIPIIVVTDE 80 (112)
T ss_dssp HHHHHSTESEEEEESSSSSSBHH--HHHHHHHHHTTTSEEEEEESS
T ss_pred HHhcccCceEEEEEeeecccccc--ccccccccccccccEEEecCC
Confidence 44455556655555 55544332 34444444 23555555533
No 278
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=22.16 E-value=1.7e+02 Score=16.76 Aligned_cols=31 Identities=6% Similarity=-0.006 Sum_probs=17.8
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCc
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNI 39 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi 39 (93)
.+||+.++.......+.+...++..|...|.
T Consensus 87 ~~~D~v~~~~~~~~~~~~l~~~~~~Lk~gG~ 117 (124)
T TIGR02469 87 PEPDRVFIGGSGGLLQEILEAIWRRLRPGGR 117 (124)
T ss_pred CCCCEEEECCcchhHHHHHHHHHHHcCCCCE
Confidence 4677766654332224566666666666665
No 279
>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=22.15 E-value=2.3e+02 Score=18.90 Aligned_cols=43 Identities=14% Similarity=0.211 Sum_probs=31.8
Q ss_pred hhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEE
Q 037311 24 DNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAIS 67 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~ 67 (93)
..-...|..+.+.+|+-+|.|-| .+|+.|...|.+.+-++.+.
T Consensus 35 ~~~i~~i~~~~~~rgVIIfTDpD-~~GekIRk~i~~~vp~~kha 77 (174)
T TIGR00334 35 DETINLIKKAQKKQGVIILTDPD-FPGEKIRKKIEQHLPGYENC 77 (174)
T ss_pred HHHHHHHHHHhhcCCEEEEeCCC-CchHHHHHHHHHHCCCCeEE
Confidence 34566777788889999998854 47888888888877666543
No 280
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=22.04 E-value=2e+02 Score=17.62 Aligned_cols=40 Identities=13% Similarity=0.292 Sum_probs=14.4
Q ss_pred HHHHHHhcCCce-EEeeccCCCCcchHHHHHHHHHhCCEEEE
Q 037311 29 HLYSALARQNIQ-TFIDDQLNRGDEISESLVKAIKASAISVI 69 (93)
Q Consensus 29 ~L~~~L~~~gi~-v~~d~~~~~G~~~~~~i~~~i~~s~~~i~ 69 (93)
.|.+.+++.++. +++.-.....+.+ .++.+.+++..+-|-
T Consensus 132 ~l~~~~~~~~id~v~ial~~~~~~~i-~~ii~~~~~~~v~v~ 172 (175)
T PF13727_consen 132 DLPELVREHDIDEVIIALPWSEEEQI-KRIIEELENHGVRVR 172 (175)
T ss_dssp GHHHHHHHHT--EEEE--TTS-HHHH-HHHHHHHHTTT-EEE
T ss_pred HHHHHHHhCCCCEEEEEcCccCHHHH-HHHHHHHHhCCCEEE
Confidence 444555555664 3333222222222 344445555444443
No 281
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function.
Probab=21.94 E-value=1.8e+02 Score=19.34 Aligned_cols=41 Identities=12% Similarity=0.129 Sum_probs=26.3
Q ss_pred hHHHHHHHHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCC
Q 037311 25 NFTSHLYSALARQNIQTFIDD--QLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~ 65 (93)
.++..+..+|++.|+.+.+.+ .-.|--.+...+--+++.-.
T Consensus 19 dl~r~~eRa~rRA~lp~a~SqGFnP~Pkisf~~aLpvGv~S~~ 61 (187)
T PF10105_consen 19 DLMRVFERALRRAGLPVAYSQGFNPHPKISFAPALPVGVESLA 61 (187)
T ss_pred HHHHHHHHHhhhcCCCeeecCCCCCCcceeecccccCceeecc
Confidence 366677788889999999887 44444445444555555443
No 282
>PF00128 Alpha-amylase: Alpha amylase, catalytic domain; InterPro: IPR006047 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Enzymes containing this domain, such as alpha-amylase, belong to family 13 (GH13 from CAZY) of the glycosyl hydrolases. The maltogenic alpha-amylase is an enzyme which catalyses hydrolysis of (1-4)-alpha-D-glucosidic linkages in polysaccharides so as to remove successive alpha-maltose residues from the non-reducing ends of the chains in the conversion of starch to maltose. Other enzymes include neopullulanase, which hydrolyses pullulan to panose, and cyclomaltodextrinase, which hydrolyses cyclodextrins. This entry represents the catalytic domain found in several protein members of this family. It has a structure consisting of an 8 stranded alpha/beta barrel that contains the active site, interrupted by a ~70 amino acid calcium-binding domain protruding between beta strand 3 and alpha helix 3, and a carboxyl-terminal Greek key beta-barrel domain []. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0003824 catalytic activity, 0043169 cation binding, 0005975 carbohydrate metabolic process; PDB: 3FAX_A 3FAW_A 2DH3_B 2DH2_A 1CIU_A 1A47_A 3BMW_A 3BMV_A 2FH8_A 2FH6_A ....
Probab=21.90 E-value=92 Score=20.97 Aligned_cols=19 Identities=21% Similarity=0.314 Sum_probs=16.3
Q ss_pred HHHHHHHHhcCCceEEeec
Q 037311 27 TSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~ 45 (93)
...|.+++.++|++|.+|-
T Consensus 54 ~~~Lv~~~h~~gi~VilD~ 72 (316)
T PF00128_consen 54 FKELVDAAHKRGIKVILDV 72 (316)
T ss_dssp HHHHHHHHHHTTCEEEEEE
T ss_pred hhhhhhccccccceEEEee
Confidence 3578888899999999996
No 283
>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=21.82 E-value=1.7e+02 Score=16.73 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=22.8
Q ss_pred HHHhcCCceEEeec-cCCCCcch--HHHHHHHHHhCCEEEEEEcCCCC
Q 037311 32 SALARQNIQTFIDD-QLNRGDEI--SESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 32 ~~L~~~gi~v~~d~-~~~~G~~~--~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
..|++.|+.+.--. -...|+.. ..++.+.|++-++-++|..|.-.
T Consensus 24 ~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~ 71 (95)
T PF02142_consen 24 KFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPF 71 (95)
T ss_dssp HHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--TH
T ss_pred HHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCC
Confidence 45677888832221 11111111 01688899999888888777643
No 284
>PF03807 F420_oxidored: NADP oxidoreductase coenzyme F420-dependent; InterPro: IPR004455 The function of F420-dependent NADP reductase is the transfer of electrons from reduced coenzyme F420 into an electron transport chain. It catalyses the reduction of F420 with NADP(+) and the reduction of NADP(+) with F420H(2).; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 2IZZ_B 2GR9_B 2GRA_B 2GER_C 2AMF_E 2AHR_C 2VQ3_B 2VNS_B 2RCY_D 2YJZ_D ....
Probab=21.81 E-value=1.3e+02 Score=16.72 Aligned_cols=52 Identities=12% Similarity=0.103 Sum_probs=28.2
Q ss_pred CcccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCC
Q 037311 9 KKYDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 9 ~~ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~ 77 (93)
...+|++.+++..+ -+.++. ++.++.++-+ +..+.+++++++++-+.|..+.
T Consensus 24 ~~~~v~~~~~r~~~---~~~~~~---~~~~~~~~~~-----------~~~~~~~~advvilav~p~~~~ 75 (96)
T PF03807_consen 24 KPHEVIIVSSRSPE---KAAELA---KEYGVQATAD-----------DNEEAAQEADVVILAVKPQQLP 75 (96)
T ss_dssp -GGEEEEEEESSHH---HHHHHH---HHCTTEEESE-----------EHHHHHHHTSEEEE-S-GGGHH
T ss_pred CceeEEeeccCcHH---HHHHHH---HhhccccccC-----------ChHHhhccCCEEEEEECHHHHH
Confidence 45778876654432 222332 3345555542 3456788999998888777543
No 285
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=21.78 E-value=2.2e+02 Score=17.91 Aligned_cols=54 Identities=11% Similarity=0.123 Sum_probs=39.0
Q ss_pred ccEEEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
.++|+-..+.-....++..|..++..+|+-++.|-| .+|+.+...|.+.+..+.
T Consensus 30 ~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D-~~Ge~Irk~l~~~l~~~~ 83 (127)
T COG1658 30 AGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD-RKGERIRKKLKEYLPGAK 83 (127)
T ss_pred CceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC-cchHHHHHHHHHHhcccc
Confidence 456666655322235778888888889998888754 578889888888888743
No 286
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=21.67 E-value=2.6e+02 Score=21.54 Aligned_cols=38 Identities=18% Similarity=0.291 Sum_probs=27.5
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAI 66 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~ 66 (93)
.-++.|.+.|.+.|++..+- .||+.+. .+.+++.++.+
T Consensus 17 ~~~~~i~~~L~~~Gv~~vFg---~pG~~~~-~l~~al~~~~i 54 (571)
T PRK07710 17 TGAQMLIEALEKEGVEVIFG---YPGGAVL-PLYDALYDCGI 54 (571)
T ss_pred hHHHHHHHHHHHcCCCEEEe---CCCcchH-HHHHHHHhcCC
Confidence 35788999999999986664 6777666 46667766543
No 287
>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species
Probab=21.60 E-value=2.1e+02 Score=21.57 Aligned_cols=45 Identities=11% Similarity=0.102 Sum_probs=25.4
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCC-CcchHHHHHHHHHhCCEEEE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNR-GDEISESLVKAIKASAISVI 69 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~-G~~~~~~i~~~i~~s~~~i~ 69 (93)
.-...|...|.+.|+.+....-+.. -+.+.+.+.+++++++++|.
T Consensus 20 tN~~~l~~~L~~~G~~v~~~~~v~Dd~~~i~~~l~~a~~~~DlVIt 65 (413)
T TIGR00200 20 TNAQWLADFLAHQGLPLSRRTTVGDNPERLKTIIRIASERADVLIF 65 (413)
T ss_pred chHHHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhcCCCEEEE
Confidence 3455788889999998765431111 12344555555555555544
No 288
>PRK14151 heat shock protein GrpE; Provisional
Probab=21.59 E-value=2.2e+02 Score=18.83 Aligned_cols=45 Identities=13% Similarity=0.300 Sum_probs=34.1
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh-------CCEEEEEEcCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA-------SAISVIIFSEDYA 76 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~-------s~~~i~v~S~~y~ 76 (93)
..|...|++.|+... + ..|+.|.+++-+++.. ...++-|+.++|.
T Consensus 109 k~l~~~L~k~Gv~~i---~-~~G~~FDP~~HEAv~~~~~~~~~~gtI~~v~qkGY~ 160 (176)
T PRK14151 109 KMFQDTLKRYQLEAV---D-PHGEPFNPEHHQAMAMQESADVEPNSVLKVFQKGYL 160 (176)
T ss_pred HHHHHHHHHCCCEEe---C-CCCCCCCHHHhhcceeeCCCCCCcCeEEEEeeCCcE
Confidence 456678888999865 2 3588888888888764 3568888888885
No 289
>PRK14139 heat shock protein GrpE; Provisional
Probab=21.49 E-value=1.7e+02 Score=19.60 Aligned_cols=46 Identities=17% Similarity=0.314 Sum_probs=34.6
Q ss_pred HHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh------CCEEEEEEcCCCCC
Q 037311 28 SHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA------SAISVIIFSEDYAS 77 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~------s~~~i~v~S~~y~~ 77 (93)
..|...|++.|+... + ..|+.|.+++-+++.. ...++-|+.++|.-
T Consensus 118 k~l~~vL~k~Gv~~I-~---~~G~~FDP~~HEAv~~~~~~~~~gtVi~V~qkGY~l 169 (185)
T PRK14139 118 KQLTSAFEKGRVVEI-N---PVGEKFDPHQHQAISMVPAEQEPNTVVAVLQKGYTI 169 (185)
T ss_pred HHHHHHHHHCCCcee-C---CCCCCCChHHhheeeeecCCCCcCEEEEEeeCCcEe
Confidence 577788888999764 2 2688888888888764 35688888888863
No 290
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=21.43 E-value=3e+02 Score=21.17 Aligned_cols=38 Identities=11% Similarity=0.235 Sum_probs=26.8
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAI 66 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~ 66 (93)
...+.|.+.|.+.|++..+- .||+.+. .+.+++.+..+
T Consensus 9 ~~~~~l~~~L~~~Gv~~vFg---ipG~~~~-~l~~al~~~~i 46 (561)
T PRK06048 9 TGARAIIKCLEKEGVEVIFG---YPGGAII-PVYDELYDSDL 46 (561)
T ss_pred cHHHHHHHHHHHcCCCEEEE---CCCcchH-HHHHHHhhCCC
Confidence 34678889999999987765 6776655 45666765543
No 291
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=21.41 E-value=2.7e+02 Score=21.62 Aligned_cols=37 Identities=19% Similarity=0.269 Sum_probs=26.7
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
.-++.|.+.|++.|++..+- .||+.+. .+.+++.++.
T Consensus 16 ~~a~~l~~~L~~~GV~~vFG---ipG~~~~-~l~dal~~~~ 52 (570)
T PRK06725 16 TGAGHVIQCLKKLGVTTVFG---YPGGAIL-PVYDALYESG 52 (570)
T ss_pred cHHHHHHHHHHHcCCCEEEE---cCCcchH-HHHHHHHhcC
Confidence 34688999999999987764 6777666 4566665554
No 292
>TIGR01093 aroD 3-dehydroquinate dehydratase, type I. Type II 3-dehydroquinate dehydratase, designated AroQ, is described by TIGR01088.
Probab=21.38 E-value=2.7e+02 Score=18.75 Aligned_cols=49 Identities=27% Similarity=0.266 Sum_probs=28.2
Q ss_pred EeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHhh
Q 037311 42 FIDDQLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILEC 91 (93)
Q Consensus 42 ~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~~ 91 (93)
++|-++..++....++.+.+.... +-+|.|-|..+..|-..|+...++.
T Consensus 95 ~vDiEl~~~~~~~~~l~~~~~~~~-~kvI~S~H~f~~tp~~~~l~~~~~~ 143 (228)
T TIGR01093 95 FVDIELFLPDDAVKELINIAKKGG-TKIIMSYHDFQKTPSWEEIVERLEK 143 (228)
T ss_pred EEEEEccCCHHHHHHHHHHHHHCC-CEEEEeccCCCCCCCHHHHHHHHHH
Confidence 334355555555555555444444 3456677777777777777665543
No 293
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=21.36 E-value=2.7e+02 Score=18.79 Aligned_cols=33 Identities=15% Similarity=0.146 Sum_probs=22.1
Q ss_pred EEEecccCcCChhHHHHHHHHHhcCCceEEeec
Q 037311 13 VFVSFRGEDIRDNFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 13 VFISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~ 45 (93)
|=+|+...=....|+..|...+++.|+.++++.
T Consensus 42 Vt~SGGEPllq~~fl~~l~~~~k~~gi~~~leT 74 (213)
T PRK10076 42 VTLSGGEVLMQAEFATRFLQRLRLWGVSCAIET 74 (213)
T ss_pred EEEeCchHHcCHHHHHHHHHHHHHcCCCEEEEC
Confidence 334443332345688888888888899888876
No 294
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=21.29 E-value=1.6e+02 Score=22.01 Aligned_cols=37 Identities=16% Similarity=0.308 Sum_probs=25.3
Q ss_pred CChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHH
Q 037311 22 IRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIK 62 (93)
Q Consensus 22 ~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~ 62 (93)
.|+.|-..|.+.|++.|+.+.. + ++.++.+.+.++++
T Consensus 352 ~R~~f~~~l~~~l~~~g~~~v~---l-~~g~~~eR~~~a~~ 388 (399)
T PRK08099 352 DRKRFQNLLKEMLKENNIEYVH---V-ESPDYDKRYLRCVE 388 (399)
T ss_pred HHHHHHHHHHHHHHHcCCCEEE---E-CCCCHHHHHHHHHH
Confidence 3567888899999999998553 2 33356666666654
No 295
>PRK09004 FMN-binding protein MioC; Provisional
Probab=21.20 E-value=2.2e+02 Score=17.78 Aligned_cols=21 Identities=19% Similarity=0.159 Sum_probs=17.6
Q ss_pred hhHHHHHHHHHhcCCceEEee
Q 037311 24 DNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~d 44 (93)
+.++.+|.+.|.+.|+.+.+.
T Consensus 16 e~~A~~l~~~~~~~g~~~~~~ 36 (146)
T PRK09004 16 EYVADHLAEKLEEAGFSTETL 36 (146)
T ss_pred HHHHHHHHHHHHHcCCceEEe
Confidence 579999999999999887654
No 296
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=21.16 E-value=2e+02 Score=22.46 Aligned_cols=47 Identities=13% Similarity=0.314 Sum_probs=33.2
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
..+..|...|...|+.+..-. ++...+. ..+.+.+++-..-|+|.|.
T Consensus 268 ~~ae~l~~~L~~~g~~v~~lhg~l~~~eR--~~il~~Fr~G~~~VLVaTd 315 (572)
T PRK04537 268 AFVERVARTLERHGYRVGVLSGDVPQKKR--ESLLNRFQKGQLEILVATD 315 (572)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCCCHHHH--HHHHHHHHcCCCeEEEEeh
Confidence 467888888988899887766 6665443 4667777776666666554
No 297
>KOG4764 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.13 E-value=82 Score=17.78 Aligned_cols=17 Identities=24% Similarity=0.557 Sum_probs=14.5
Q ss_pred hhHHHHHHHHHhcCCce
Q 037311 24 DNFTSHLYSALARQNIQ 40 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~ 40 (93)
..|..+|++.|++.|..
T Consensus 52 DDFS~QLkaELek~g~k 68 (70)
T KOG4764|consen 52 DDFSNQLKAELEKKGHK 68 (70)
T ss_pred hHHHHHHHHHHHhcccc
Confidence 46999999999988864
No 298
>COG3439 Uncharacterized conserved protein [Function unknown]
Probab=21.09 E-value=2.3e+02 Score=17.95 Aligned_cols=21 Identities=14% Similarity=0.243 Sum_probs=17.7
Q ss_pred hHHHHHHHHHhcCCceEEeec
Q 037311 25 NFTSHLYSALARQNIQTFIDD 45 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~ 45 (93)
+-+.+|...|.++|+.|+-.-
T Consensus 23 E~i~~l~~~lk~~G~~V~~~i 43 (137)
T COG3439 23 ETIERLEEKLKKNGFKVFTEI 43 (137)
T ss_pred HHHHHHHHHHHhCCCeEEEEe
Confidence 456899999999999999763
No 299
>TIGR00597 rad10 DNA repair protein rad10. All proteins in this family for which functions are known are components in a multiprotein endonuclease complex (usually made up of Rad1 and Rad10 homologs). This complex is used primarily for nucleotide excision repair but also for some aspects of recombination repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.08 E-value=2.2e+02 Score=17.58 Aligned_cols=72 Identities=18% Similarity=0.386 Sum_probs=38.5
Q ss_pred ccEEEecccCcCChhHHHHHHHHHh-cCCceEEeec-cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHH
Q 037311 11 YDVFVSFRGEDIRDNFTSHLYSALA-RQNIQTFIDD-QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEI 88 (93)
Q Consensus 11 ydVFISy~~~D~~~~~~~~L~~~L~-~~gi~v~~d~-~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~ 88 (93)
.=+|+|.+=.-...+....-...|. ....++-+-. |++..++...++.+.--..+.++++ .|..+|.+.-
T Consensus 39 ~vLFLSLkYH~L~peYi~~Ri~~L~~~~~lrvLL~~VDv~~~~~~L~eL~k~~~~~~~TLil--------aws~eEaa~Y 110 (112)
T TIGR00597 39 CALFLSLRYHNLHPDYIHRRLQSLGKNFNLRILLVQVDVKNPQQALKELAKMCILNDCTLIL--------AWSFEEAARY 110 (112)
T ss_pred EEEEEEhhhhccCHHHHHHHHHHhccccceeEEEEEEeCCchHHHHHHHHHHHHHcCcEEEE--------ECCHHHHHHh
Confidence 3458876543222234322223333 2345555555 7776666666666654456666666 4667776654
Q ss_pred Hh
Q 037311 89 LE 90 (93)
Q Consensus 89 ~~ 90 (93)
+|
T Consensus 111 lE 112 (112)
T TIGR00597 111 LE 112 (112)
T ss_pred hC
Confidence 43
No 300
>PF03603 DNA_III_psi: DNA polymerase III psi subunit; InterPro: IPR004615 DNA-directed DNA polymerase (2.7.7.7 from EC) catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The enzyme also has 3' to 5' exonuclease activity. It has a core composed of alpha, epsilon and theta chains, that associate with a tau subunit which allows the core dimerization to form the PolIII' complex. PolIII' associates with the gamma complex (gamma, delta, delta', psi and chi chains) and with the beta chain. This family is the psi subunit, the small subunit of the DNA polymerase III holoenzyme in Escherichia coli and related species, whose exact function is not known. It appears to have a narrow taxonomic distribution, being restricted to the gammaproteobacteria.; GO: 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication; PDB: 1EM8_B 3GLI_O 3SXU_B.
Probab=21.04 E-value=2e+02 Score=17.92 Aligned_cols=52 Identities=12% Similarity=0.061 Sum_probs=21.1
Q ss_pred HHHhcCCceEEeec--cCCCCcchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHH
Q 037311 32 SALARQNIQTFIDD--QLNRGDEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEI 88 (93)
Q Consensus 32 ~~L~~~gi~v~~d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~ 88 (93)
..|.+.||..|.-. +...| ++.-.+...-++|+|..+.......=...+-.+
T Consensus 7 ~~LqeMGItqW~Lr~P~~L~g-----~~~i~lp~~~rLliVs~~~p~~~~~L~~dVLrs 60 (128)
T PF03603_consen 7 WLLQEMGITQWQLRRPEVLQG-----EIAISLPESCRLLIVSDELPQLDDPLFQDVLRS 60 (128)
T ss_dssp HHHHHCT--EEEES-GGGTS-------S-----TT--EEEE-SS---TTSHHHHHHHHH
T ss_pred HHHHHcCCCeEEeCCccccCC-----CccccCcccceEEEEeCCCCCccChHHHHHHHH
Confidence 35778999999876 77777 223334444445555444444434333334333
No 301
>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=20.96 E-value=1.7e+02 Score=16.78 Aligned_cols=37 Identities=16% Similarity=0.207 Sum_probs=18.8
Q ss_pred hHHHHHHHHHhcCCceEEeec-cCCCCcchHHHHHHHHHh
Q 037311 25 NFTSHLYSALARQNIQTFIDD-QLNRGDEISESLVKAIKA 63 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~-~~~~G~~~~~~i~~~i~~ 63 (93)
+....|.+.+++..+.+-+-. ++. +.+.+.+.+..++
T Consensus 29 e~~~~l~~l~~~~~~gIIii~e~~~--~~~~~~l~~~~~~ 66 (95)
T PF01990_consen 29 EAEEALKELLKDEDVGIIIITEDLA--EKIRDELDEYREE 66 (95)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEHHHH--TTHHHHHHHHHHT
T ss_pred HHHHHHHHHhcCCCccEEEeeHHHH--HHHHHHHHHHHhc
Confidence 455666666666666544433 332 2344455555444
No 302
>PF10649 DUF2478: Protein of unknown function (DUF2478); InterPro: IPR018912 This is a family of hypothetical bacterial proteins encoded in the vicinity of molybdenum ABC transporter gene-products MobA, MobB and MobC. However the function could not be confirmed.
Probab=20.85 E-value=1.8e+02 Score=19.04 Aligned_cols=29 Identities=10% Similarity=0.126 Sum_probs=20.5
Q ss_pred EEecccCcCChhHHHHHHHHHhcCCceEE
Q 037311 14 FVSFRGEDIRDNFTSHLYSALARQNIQTF 42 (93)
Q Consensus 14 FISy~~~D~~~~~~~~L~~~L~~~gi~v~ 42 (93)
.|-|...+.-+.+...+..+|..+|+++-
T Consensus 3 av~~~~~~~~d~lL~~~a~~L~~~G~rv~ 31 (159)
T PF10649_consen 3 AVVYDDGGDIDALLAAFAARLRARGVRVA 31 (159)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhCCCeEE
Confidence 46676554445677888888998888654
No 303
>PRK05473 hypothetical protein; Provisional
Probab=20.84 E-value=84 Score=18.53 Aligned_cols=18 Identities=17% Similarity=0.403 Sum_probs=14.4
Q ss_pred hHHHHHHHHHhcCCceEE
Q 037311 25 NFTSHLYSALARQNIQTF 42 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~ 42 (93)
......+.+|+++|++..
T Consensus 22 eiL~~Vy~AL~EKGYNPi 39 (86)
T PRK05473 22 EILTTVYDALEEKGYNPI 39 (86)
T ss_pred HHHHHHHHHHHHcCCChH
Confidence 456788899999999754
No 304
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=20.82 E-value=3.2e+02 Score=20.87 Aligned_cols=35 Identities=20% Similarity=0.276 Sum_probs=22.7
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCC
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASA 65 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~ 65 (93)
++.|.+.|++.|++..+- .||+.+. .+.+++.+..
T Consensus 4 ~~~l~~~L~~~Gv~~vFg---~pG~~~~-~l~~al~~~~ 38 (548)
T PRK08978 4 AQWVVHALRAQGVDTVFG---YPGGAIM-PVYDALYDGG 38 (548)
T ss_pred HHHHHHHHHHcCCCEEEe---CCCcchH-HHHHHHHhcC
Confidence 456778888888876664 5666554 3566665444
No 305
>PHA02518 ParA-like protein; Provisional
Probab=20.77 E-value=2.4e+02 Score=18.00 Aligned_cols=29 Identities=14% Similarity=0.055 Sum_probs=22.3
Q ss_pred cCCCCcchHHHHHHHHHhCCEEEEEEcCCCC
Q 037311 46 QLNRGDEISESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 46 ~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
|.+||.. .....++..|+.+|+++.|+..
T Consensus 83 D~p~~~~--~~~~~~l~~aD~viip~~ps~~ 111 (211)
T PHA02518 83 DGAPQDS--ELARAALRIADMVLIPVQPSPF 111 (211)
T ss_pred eCCCCcc--HHHHHHHHHCCEEEEEeCCChh
Confidence 4566643 4567889999999999999864
No 306
>CHL00175 minD septum-site determining protein; Validated
Probab=20.76 E-value=2.9e+02 Score=18.90 Aligned_cols=45 Identities=11% Similarity=0.218 Sum_probs=27.4
Q ss_pred HHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCCC
Q 037311 29 HLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y~ 76 (93)
.+.+.|++..+.+.+- |..||- ......++..++.+|+|++|+..
T Consensus 117 ~~l~~l~~~~yD~VIi-Dtpp~~--~~~~~~~l~~aD~viiV~~p~~~ 161 (281)
T CHL00175 117 MLVDSLKNRGYDYILI-DCPAGI--DVGFINAIAPAQEAIVVTTPEIT 161 (281)
T ss_pred HHHHHHHhCCCCEEEE-eCCCCC--CHHHHHHHHhcCeeEEEcCCChH
Confidence 3444554423432222 456663 34556788899999999998853
No 307
>PF00326 Peptidase_S9: Prolyl oligopeptidase family This family belongs to family S9 of the peptidase classification.; InterPro: IPR001375 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain covers the active site serine of the serine peptidases belonging to MEROPS peptidase family S9 (prolyl oligopeptidase family, clan SC). The protein fold of the peptidase domain for members of this family resembles that of serine carboxypeptidase D, the type example of clan SC. Examples of protein families containing this domain are: Prolyl endopeptidase (3.4.21.26 from EC) (PE) (also called post-proline cleaving enzyme). PE is an enzyme that cleaves peptide bonds on the C-terminal side of prolyl residues. The sequence of PE has been obtained from a mammalian species (pig) and from bacteria (Flavobacterium meningosepticum and Aeromonas hydrophila); there is a high degree of sequence conservation between these sequences. Escherichia coli protease II (3.4.21.83 from EC) (oligopeptidase B) (gene prtB) which cleaves peptide bonds on the C-terminal side of lysyl and argininyl residues. Dipeptidyl peptidase IV (3.4.14.5 from EC) (DPP IV). DPP IV is an enzyme that removes N-terminal dipeptides sequentially from polypeptides having unsubstituted N-termini provided that the penultimate residue is proline. Saccharomyces cerevisiae (Baker's yeast) vacuolar dipeptidyl aminopeptidases A and B (DPAP A and DPAP B), encoded by the STE13 and DAP2 genes respectively. DPAP A is responsible for the proteolytic maturation of the alpha-factor precursor. Acylamino-acid-releasing enzyme (3.4.19.1 from EC) (acyl-peptide hydrolase). This enzyme catalyses the hydrolysis of the amino-terminal peptide bond of an N-acetylated protein to generate a N-acetylated amino acid and a protein with a free amino-terminus. These proteins belong to MEROPS peptidase families S9A, S9B and S9C.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 2AJ8_D 1ORV_D 2AJB_C 2BUC_D 1ORW_D 2AJC_D 2AJD_C 2BUA_A 2HU8_B 3O4J_B ....
Probab=20.72 E-value=1.9e+02 Score=18.61 Aligned_cols=36 Identities=22% Similarity=0.200 Sum_probs=26.5
Q ss_pred CcccEEEecccCcCC--hhHHHHHHHHHhcCCceEEee
Q 037311 9 KKYDVFVSFRGEDIR--DNFTSHLYSALARQNIQTFID 44 (93)
Q Consensus 9 ~~ydVFISy~~~D~~--~~~~~~L~~~L~~~gi~v~~d 44 (93)
.+..++|-|...|.+ -.-+..+.++|++.|+.+-+-
T Consensus 143 ~~~P~li~hG~~D~~Vp~~~s~~~~~~L~~~g~~~~~~ 180 (213)
T PF00326_consen 143 IKPPVLIIHGENDPRVPPSQSLRLYNALRKAGKPVELL 180 (213)
T ss_dssp GGSEEEEEEETTBSSSTTHHHHHHHHHHHHTTSSEEEE
T ss_pred CCCCEEEEccCCCCccCHHHHHHHHHHHHhcCCCEEEE
Confidence 567789999888864 244567888999888875554
No 308
>PRK09428 pssA phosphatidylserine synthase; Provisional
Probab=20.67 E-value=3.4e+02 Score=20.68 Aligned_cols=40 Identities=5% Similarity=0.190 Sum_probs=32.9
Q ss_pred cchHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHHHHh
Q 037311 51 DEISESLVKAIKASAISVIIFSEDYASSRWCLDEFAEILE 90 (93)
Q Consensus 51 ~~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~~~~ 90 (93)
..+...+...+..++.-|.+.||-|...+--+..|..++.
T Consensus 250 ~~l~~~~~~li~~A~~~i~I~TPYF~p~~~l~~~L~~a~~ 289 (451)
T PRK09428 250 NLLNKTIFHLMASAEQKLTICTPYFNLPAILVRNIIRLLR 289 (451)
T ss_pred hHHHHHHHHHHhccCcEEEEEeCCcCCCHHHHHHHHHHHh
Confidence 4666777888888999999999999988888888877754
No 309
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.66 E-value=1.4e+02 Score=16.17 Aligned_cols=27 Identities=26% Similarity=0.425 Sum_probs=21.1
Q ss_pred EecccCcCChhHHHHHHHHHhcCCceEE
Q 037311 15 VSFRGEDIRDNFTSHLYSALARQNIQTF 42 (93)
Q Consensus 15 ISy~~~D~~~~~~~~L~~~L~~~gi~v~ 42 (93)
|+..++|. .+.+..+...|.++|+++-
T Consensus 2 vtv~G~Dr-pGiv~~vt~~la~~~~nI~ 28 (75)
T cd04870 2 ITVTGPDR-PGLTSALTEVLAAHGVRIL 28 (75)
T ss_pred EEEEcCCC-CCHHHHHHHHHHHCCCCEE
Confidence 45567786 4899999999999988765
No 310
>PF06747 CHCH: CHCH domain; InterPro: IPR010625 A conserved motif was identified in the LOC118487 protein was called the CHCH motif. Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterised proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11 kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation []. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit []. The CHCH domain was previously called DUF657 []. ; PDB: 2ZXT_A 3A3C_A 2L0Y_A 2K3J_A.
Probab=20.65 E-value=52 Score=15.20 Aligned_cols=12 Identities=33% Similarity=0.847 Sum_probs=6.7
Q ss_pred HHHHHHHHHhhc
Q 037311 81 CLDEFAEILECK 92 (93)
Q Consensus 81 c~~El~~~~~~~ 92 (93)
|..|+...++|.
T Consensus 1 C~~e~~~~~~Cl 12 (35)
T PF06747_consen 1 CAEEMKAYLACL 12 (35)
T ss_dssp THHHHHHHHHHH
T ss_pred CHHHHHHHHHHH
Confidence 455666665553
No 311
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=20.57 E-value=2.9e+02 Score=18.82 Aligned_cols=47 Identities=15% Similarity=0.254 Sum_probs=28.5
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHH-----hCCEE-EEEEcCC
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIK-----ASAIS-VIIFSED 74 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~-----~s~~~-i~v~S~~ 74 (93)
+..|.+.|++.|+.|....++. ...+.+.+.+..+ +.+++ ++++|..
T Consensus 32 ~~~l~~~f~~lgF~V~~~~dlt-~~em~~~l~~~~~~~~~~~~d~~v~~~~sHG 84 (241)
T smart00115 32 AENLTELFQSLGYEVHVKNNLT-AEEMLEELKEFAERPEHSDSDSFVCVLLSHG 84 (241)
T ss_pred HHHHHHHHHHCCCEEEEecCCC-HHHHHHHHHHHHhccccCCCCEEEEEEcCCC
Confidence 5688899999999998865542 3344444444333 24444 4455554
No 312
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=20.54 E-value=1e+02 Score=19.49 Aligned_cols=45 Identities=16% Similarity=0.313 Sum_probs=25.6
Q ss_pred HHHHHHhcCCceEEeec-cC-------CCCcchHHHHHHHHHhCCEEEEEEcC
Q 037311 29 HLYSALARQNIQTFIDD-QL-------NRGDEISESLVKAIKASAISVIIFSE 73 (93)
Q Consensus 29 ~L~~~L~~~gi~v~~d~-~~-------~~G~~~~~~i~~~i~~s~~~i~v~S~ 73 (93)
.+...|.+.|+.++.-+ +- ..|-...++..+.++++++++.+++.
T Consensus 15 ~~a~~L~~~g~~v~~~d~~~~~~~~~~~~g~~~~~s~~e~~~~~dvvi~~v~~ 67 (163)
T PF03446_consen 15 AMARNLAKAGYEVTVYDRSPEKAEALAEAGAEVADSPAEAAEQADVVILCVPD 67 (163)
T ss_dssp HHHHHHHHTTTEEEEEESSHHHHHHHHHTTEEEESSHHHHHHHBSEEEE-SSS
T ss_pred HHHHHHHhcCCeEEeeccchhhhhhhHHhhhhhhhhhhhHhhcccceEeeccc
Confidence 34455566677765432 21 12444445677788888877776655
No 313
>PRK03094 hypothetical protein; Provisional
Probab=20.52 E-value=91 Score=18.10 Aligned_cols=15 Identities=13% Similarity=0.284 Sum_probs=12.6
Q ss_pred HHHHHHHhcCCceEE
Q 037311 28 SHLYSALARQNIQTF 42 (93)
Q Consensus 28 ~~L~~~L~~~gi~v~ 42 (93)
..+.++|+++||.|-
T Consensus 11 s~i~~~L~~~GYeVv 25 (80)
T PRK03094 11 TDVQQALKQKGYEVV 25 (80)
T ss_pred HHHHHHHHHCCCEEE
Confidence 458899999999886
No 314
>PF11071 DUF2872: Protein of unknown function (DUF2872); InterPro: IPR019884 This entry represents a family of uncharacterised proteins, including YtoQ from Bacillus subtilis. This family shows some sequence similarity to a family of nucleoside 2-deoxyribosyltransferases (COG3613 as iterated through CDD), but sufficiently remote that PSI-BLAST starting from YtoQ and exploring outwards does not discover the relationship.
Probab=20.48 E-value=1e+02 Score=19.81 Aligned_cols=21 Identities=24% Similarity=0.422 Sum_probs=17.5
Q ss_pred HHHHHHhCCEEEEEEcCCCCC
Q 037311 57 LVKAIKASAISVIIFSEDYAS 77 (93)
Q Consensus 57 i~~~i~~s~~~i~v~S~~y~~ 77 (93)
....|++|+++|+.|-+.|.+
T Consensus 66 T~~li~~aDvVVvrFGekYKQ 86 (141)
T PF11071_consen 66 TRTLIEKADVVVVRFGEKYKQ 86 (141)
T ss_pred HHHHHhhCCEEEEEechHHHH
Confidence 455789999999999999853
No 315
>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol. This subfamily contains both alpha and beta subunits of 2-amino-5-chlorophenol 1,6-dioxygenase (2A5CPDO), which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol, an intermediate during p-chloronitrobenzene degradation. 2A5CPDO is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. The active enzyme is probably a heterotetramer, composed of two alpha and two beta subunits. Alpha and beta subunits share significant sequence similarity and may have evolved by gene duplication.
Probab=20.47 E-value=3.1e+02 Score=19.08 Aligned_cols=64 Identities=9% Similarity=0.080 Sum_probs=39.9
Q ss_pred hhHHHHHHHHHhcCCceEEe--ec--cCCCCcchHHHHHHHHHhCCEEEEEEcCCC-CCcHHHHHHHHHHH
Q 037311 24 DNFTSHLYSALARQNIQTFI--DD--QLNRGDEISESLVKAIKASAISVIIFSEDY-ASSRWCLDEFAEIL 89 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~--d~--~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y-~~S~wc~~El~~~~ 89 (93)
.+++..|.+.|.+.|+.+-. +. .+.-|.-+.-.... .+.++-++.+|=+. ..+..-..+|.+++
T Consensus 87 ~eLA~~i~~~~~~~gi~~~~~~~~~~~lDHG~~vPL~~l~--p~~~ipvV~vs~~~~~~~~~~~~~lG~al 155 (268)
T cd07371 87 VELAEACVEEGRKAGLVTRMMRYPRFPIDTGTITALTLMR--PGTDIPPVVISANNLYLSGEETEGEMDLA 155 (268)
T ss_pred HHHHHHHHHHHHHCCCcEEEecCCCCCCCchhHHHHHHhc--CCCCCCeEEEEecCcCCCHHHHHHHHHHH
Confidence 57999999999999998875 22 45666554422221 23555455555222 35666666777766
No 316
>PRK12452 cardiolipin synthetase; Reviewed
Probab=20.44 E-value=2.4e+02 Score=21.73 Aligned_cols=36 Identities=14% Similarity=0.170 Sum_probs=25.7
Q ss_pred chHHHHHHHHHhCCEEEEEEcCCCCCcHHHHHHHHH
Q 037311 52 EISESLVKAIKASAISVIIFSEDYASSRWCLDEFAE 87 (93)
Q Consensus 52 ~~~~~i~~~i~~s~~~i~v~S~~y~~S~wc~~El~~ 87 (93)
.+.+.+.++|..++..|.+.+|-|..++--+..|..
T Consensus 344 ~i~~~~l~~I~~A~~~I~I~tpYf~pd~~l~~aL~~ 379 (509)
T PRK12452 344 SIRNTLLAVMGSAKKSIWIATPYFIPDQETLTLLRL 379 (509)
T ss_pred HHHHHHHHHHHHhhhEEEEECCccCCCHHHHHHHHH
Confidence 566778888888888888888888777544444433
No 317
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=20.40 E-value=1.8e+02 Score=22.87 Aligned_cols=53 Identities=21% Similarity=0.285 Sum_probs=37.0
Q ss_pred hhHHHHHHHHHhcCCceEEe-ec--cCCCCcchHH--HHHHHHHhCCEEEEEEcCCCC
Q 037311 24 DNFTSHLYSALARQNIQTFI-DD--QLNRGDEISE--SLVKAIKASAISVIIFSEDYA 76 (93)
Q Consensus 24 ~~~~~~L~~~L~~~gi~v~~-d~--~~~~G~~~~~--~i~~~i~~s~~~i~v~S~~y~ 76 (93)
-+|+..|.+-+.++|--|-- .. |++.+..+++ .+...+++..-++++.-|+|.
T Consensus 277 sTFaqAlAefy~~~GkiVKTmEsPRDl~v~~eITQYs~l~g~me~t~DiLLLvRPDYT 334 (604)
T COG1855 277 STFAQALAEFYASQGKIVKTMESPRDLQVSPEITQYSPLEGDMEKTADILLLVRPDYT 334 (604)
T ss_pred hHHHHHHHHHHHhcCcEEeeccCcccccCChhhhhcccccCchhhhccEEEEecCCce
Confidence 47888888888777764433 22 8888877764 334456677777888889985
No 318
>cd02953 DsbDgamma DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD alpha). DsbD beta, a transmembrane domain comprising of eight helices, acquires its reducing potential from the cytoplasmic thioredoxin. DsbD alpha transfers the acquired reducing potential from DsbD gamma to target proteins such as the periplasmic protein disulphide isomerases, DsbC and DsbG. This flow of reducing potential from the cytoplasm through DsbD allows DsbC and DsbG to act as isomerases in the oxidizing environment of the bacterial periplasm. DsbD also transfers reducing potential from the cytoplasm to specific reductases in the periplasm which are involved in the maturation of cytochromes.
Probab=20.39 E-value=1.5e+02 Score=16.82 Aligned_cols=17 Identities=18% Similarity=0.307 Sum_probs=10.9
Q ss_pred HHHHHHHhCCEEEEEEc
Q 037311 56 SLVKAIKASAISVIIFS 72 (93)
Q Consensus 56 ~i~~~i~~s~~~i~v~S 72 (93)
.+.+++++-+.+++.+.
T Consensus 3 ~~~~~~~~~k~vlv~f~ 19 (104)
T cd02953 3 ALAQALAQGKPVFVDFT 19 (104)
T ss_pred HHHHHHHcCCeEEEEEE
Confidence 45667777776666554
No 319
>PF03479 DUF296: Domain of unknown function (DUF296); InterPro: IPR005175 This putative conserved domain is found in proteins that contain AT-hook motifs IPR000637 from INTERPRO, suggesting a DNA-binding function for the proteins as a whole, however, the function of this domain is unknown. Overexpression of a protein containing this domain, Q9S7C9 from SWISSPROT, in Arabidopsis thaliana causes late flowering and modified leaf development []. ; PDB: 2DT4_A 2P6Y_A 3HWU_A 3HTN_A 2NMU_A 2H6L_A 2HX0_A.
Probab=20.26 E-value=55 Score=19.91 Aligned_cols=21 Identities=29% Similarity=0.491 Sum_probs=16.1
Q ss_pred cCCCCcchHHHHHHHHHhCCE
Q 037311 46 QLNRGDEISESLVKAIKASAI 66 (93)
Q Consensus 46 ~~~~G~~~~~~i~~~i~~s~~ 66 (93)
.+.||+++.+.|.+..++-.+
T Consensus 7 rl~~Gedl~~~l~~~~~~~~i 27 (120)
T PF03479_consen 7 RLDPGEDLLESLEAFAREHGI 27 (120)
T ss_dssp EEETTSBHHHHHHHHHHHHT-
T ss_pred EECCCCHHHHHHHHHHHHCCC
Confidence 577899999999888776544
No 320
>cd07039 TPP_PYR_POX Pyrimidine (PYR) binding domain of POX. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. Lactobacillus plantarum POX is a homotetramer (dimer-of-homodimers), having two active sites per homodimer lying between PYR and PP domains of differ
Probab=20.17 E-value=2.5e+02 Score=17.90 Aligned_cols=33 Identities=18% Similarity=0.345 Sum_probs=21.3
Q ss_pred HHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHh
Q 037311 27 TSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKA 63 (93)
Q Consensus 27 ~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~ 63 (93)
.+.|.+.|++.|++..+- .||.... .+.+++.+
T Consensus 3 ~~~l~~~L~~~Gv~~vFg---ipG~~~~-~l~~al~~ 35 (164)
T cd07039 3 ADVIVETLENWGVKRVYG---IPGDSIN-GLMDALRR 35 (164)
T ss_pred HHHHHHHHHHCCCCEEEE---cCCCchH-HHHHHHhh
Confidence 346777888888876664 5666554 45666654
No 321
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=20.11 E-value=2.1e+02 Score=18.75 Aligned_cols=33 Identities=18% Similarity=0.156 Sum_probs=24.6
Q ss_pred EEEecccCcCChhHH-HHHHHHHhcCCceEEeec
Q 037311 13 VFVSFRGEDIRDNFT-SHLYSALARQNIQTFIDD 45 (93)
Q Consensus 13 VFISy~~~D~~~~~~-~~L~~~L~~~gi~v~~d~ 45 (93)
+||+=.+.+..++++ .-|...|+++|+++.+-+
T Consensus 2 i~I~~t~t~~GKT~vs~~L~~~l~~~g~~v~~~K 35 (222)
T PRK00090 2 LFVTGTDTDVGKTVVTAALAQALREAGYSVAGYK 35 (222)
T ss_pred EEEEeCCCCcCHHHHHHHHHHHHHHcCCceEEEe
Confidence 577766777666666 688889999999876544
No 322
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=20.07 E-value=2.7e+02 Score=21.62 Aligned_cols=38 Identities=11% Similarity=0.107 Sum_probs=26.5
Q ss_pred hHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCE
Q 037311 25 NFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAI 66 (93)
Q Consensus 25 ~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~ 66 (93)
...+.|.+.|.+.|++..+- .||+.+. .+.+++.+..+
T Consensus 7 ~~~~~l~~~L~~~GV~~vFG---vpG~~~~-~l~dal~~~~i 44 (588)
T PRK07525 7 TPSEAFVETLQAHGITHAFG---IIGSAFM-DASDLFPPAGI 44 (588)
T ss_pred cHHHHHHHHHHHcCCCEEEE---eCCCchH-HHHHHHhccCC
Confidence 46778889999999986664 5776665 45666655443
No 323
>PRK13936 phosphoheptose isomerase; Provisional
Probab=20.00 E-value=1.8e+02 Score=19.15 Aligned_cols=58 Identities=12% Similarity=0.126 Sum_probs=32.2
Q ss_pred cccE--EEecccCcCChhHHHHHHHHHhcCCceEEeeccCCCCcchHHHHHHHHHhCCEEEEEEcCCC
Q 037311 10 KYDV--FVSFRGEDIRDNFTSHLYSALARQNIQTFIDDQLNRGDEISESLVKAIKASAISVIIFSEDY 75 (93)
Q Consensus 10 ~ydV--FISy~~~D~~~~~~~~L~~~L~~~gi~v~~d~~~~~G~~~~~~i~~~i~~s~~~i~v~S~~y 75 (93)
+-|| .|||++.. ..+..+.+.++++|.++..=.+. ++.. +..-...++..+.+-+...
T Consensus 111 ~~Dv~i~iS~sG~t---~~~~~~~~~ak~~g~~iI~IT~~-~~s~----l~~l~~~ad~~l~v~~~~~ 170 (197)
T PRK13936 111 PGDVLLAISTSGNS---ANVIQAIQAAHEREMHVVALTGR-DGGK----MASLLLPEDVEIRVPAERT 170 (197)
T ss_pred CCCEEEEEeCCCCc---HHHHHHHHHHHHCCCeEEEEECC-CCCh----hhhhhccCCEEEEeCCCcH
Confidence 3355 67777753 24556667777888886653211 2222 2223334787777766553
Done!