Query 035104
Match_columns 73
No_of_seqs 104 out of 907
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 09:13:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035104.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035104hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03194 putative disease resi 99.9 5.2E-28 1.1E-32 163.7 7.0 71 3-73 18-88 (187)
2 PLN03210 Resistant to P. syrin 99.9 2.2E-26 4.8E-31 183.9 7.7 72 1-73 1-73 (1153)
3 PF01582 TIR: TIR domain; Int 99.5 1.4E-14 3E-19 92.2 3.5 60 14-73 1-62 (141)
4 smart00255 TIR Toll - interleu 99.4 5.9E-13 1.3E-17 83.2 4.5 61 11-73 1-62 (140)
5 PF13676 TIR_2: TIR domain; PD 99.2 3.4E-12 7.3E-17 76.7 1.2 57 14-73 1-57 (102)
6 KOG3678 SARM protein (with ste 98.1 5.4E-06 1.2E-10 64.2 5.6 63 9-73 610-672 (832)
7 PF08357 SEFIR: SEFIR domain; 97.3 0.00071 1.5E-08 43.0 5.0 61 13-73 2-66 (150)
8 PF08937 DUF1863: MTH538 TIR-l 97.1 0.00086 1.9E-08 42.2 4.3 60 12-72 1-77 (130)
9 PF10137 TIR-like: Predicted n 96.7 0.0073 1.6E-07 38.7 5.7 58 13-73 1-58 (125)
10 PF13271 DUF4062: Domain of un 92.6 0.54 1.2E-05 27.4 5.2 59 14-73 2-60 (83)
11 cd00860 ThrRS_anticodon ThrRS 89.8 0.72 1.6E-05 26.2 3.7 47 11-62 1-47 (91)
12 PF03129 HGTP_anticodon: Antic 87.9 2.2 4.8E-05 24.6 5.0 44 25-72 15-59 (94)
13 PRK09194 prolyl-tRNA synthetas 82.6 1.7 3.7E-05 33.6 3.4 47 9-55 466-514 (565)
14 cd00738 HGTP_anticodon HGTP an 82.5 6.7 0.00015 22.1 5.3 46 12-62 2-50 (94)
15 PF05014 Nuc_deoxyrib_tr: Nucl 82.2 2.2 4.8E-05 25.8 3.2 49 25-73 13-69 (113)
16 cd02426 Pol_gamma_b_Cterm C-te 81.5 1.4 3E-05 27.9 2.2 34 22-55 40-76 (128)
17 PRK12325 prolyl-tRNA synthetas 77.9 3.4 7.4E-05 31.0 3.6 45 11-55 345-391 (439)
18 cd00858 GlyRS_anticodon GlyRS 77.8 4.2 9.1E-05 24.9 3.5 37 10-47 25-63 (121)
19 cd00861 ProRS_anticodon_short 75.1 10 0.00022 21.5 4.5 30 26-55 18-47 (94)
20 COG0400 Predicted esterase [Ge 73.8 12 0.00025 25.7 5.1 55 9-65 144-200 (207)
21 TIGR00418 thrS threonyl-tRNA s 73.5 11 0.00025 28.7 5.5 48 10-62 469-516 (563)
22 COG1658 Small primase-like pro 73.0 5.8 0.00013 25.5 3.3 54 11-66 29-82 (127)
23 COG4271 Predicted nucleotide-b 71.4 12 0.00025 26.5 4.7 57 13-73 84-141 (233)
24 cd03364 TOPRIM_DnaG_primases T 71.0 6.2 0.00013 22.3 2.8 10 38-47 44-53 (79)
25 PRK03991 threonyl-tRNA synthet 69.3 5.8 0.00012 31.4 3.2 42 11-53 499-540 (613)
26 cd04893 ACT_GcvR_1 ACT domains 69.1 8.3 0.00018 21.9 3.1 29 14-43 2-30 (77)
27 PRK08661 prolyl-tRNA synthetas 66.6 7.5 0.00016 29.6 3.2 45 11-55 287-337 (477)
28 PF13740 ACT_6: ACT domain; PD 66.3 10 0.00022 21.4 3.0 28 14-42 3-30 (76)
29 TIGR00409 proS_fam_II prolyl-t 66.0 3 6.6E-05 32.5 1.0 46 11-56 473-520 (568)
30 cd00862 ProRS_anticodon_zinc P 65.6 6.9 0.00015 26.4 2.6 46 11-56 10-61 (202)
31 PRK07933 thymidylate kinase; V 65.4 21 0.00045 24.1 4.9 32 15-46 2-35 (213)
32 PRK12305 thrS threonyl-tRNA sy 62.9 23 0.0005 27.2 5.3 57 11-72 476-533 (575)
33 cd04870 ACT_PSP_1 CT domains f 61.7 11 0.00023 21.1 2.6 27 16-43 2-28 (75)
34 PRK14938 Ser-tRNA(Thr) hydrola 60.3 31 0.00066 26.2 5.4 58 10-72 273-331 (387)
35 smart00646 Ami_3 Ami_3. 59.9 6.9 0.00015 23.4 1.7 11 10-20 7-17 (113)
36 COG0125 Tmk Thymidylate kinase 59.2 24 0.00052 24.2 4.4 33 14-46 4-38 (208)
37 PRK14799 thrS threonyl-tRNA sy 58.3 31 0.00067 27.0 5.3 57 11-72 438-495 (545)
38 TIGR00408 proS_fam_I prolyl-tR 57.9 16 0.00035 27.8 3.7 44 10-53 281-329 (472)
39 PF03720 UDPG_MGDP_dh_C: UDP-g 57.9 12 0.00026 22.4 2.5 51 21-71 12-72 (106)
40 cd04875 ACT_F4HF-DF N-terminal 56.9 15 0.00032 20.3 2.6 27 16-43 2-28 (74)
41 PRK13762 tRNA-modifying enzyme 55.0 17 0.00037 26.3 3.3 37 11-47 130-166 (322)
42 PF13662 Toprim_4: Toprim doma 54.3 13 0.00027 21.1 2.1 28 38-67 47-74 (81)
43 cd04869 ACT_GcvR_2 ACT domains 53.8 18 0.0004 20.0 2.7 27 16-43 2-28 (81)
44 TIGR00334 5S_RNA_mat_M5 ribonu 53.8 22 0.00048 24.1 3.4 42 24-67 34-75 (174)
45 PRK00194 hypothetical protein; 53.7 17 0.00037 20.8 2.6 28 15-43 5-32 (90)
46 PF02337 Gag_p10: Retroviral G 53.4 11 0.00025 22.8 1.8 18 26-43 9-26 (90)
47 PRK13973 thymidylate kinase; P 52.2 48 0.001 22.1 4.9 32 14-45 4-37 (213)
48 cd04914 ACT_AKi-DapG-BS_1 ACT 50.4 27 0.00059 19.2 3.0 31 15-45 3-33 (67)
49 PLN02924 thymidylate kinase 50.3 61 0.0013 22.1 5.2 39 5-43 8-48 (220)
50 COG0529 CysC Adenylylsulfate k 49.9 12 0.00025 26.0 1.6 22 25-46 37-58 (197)
51 PRK00413 thrS threonyl-tRNA sy 49.8 55 0.0012 25.4 5.5 47 11-62 539-585 (638)
52 cd00859 HisRS_anticodon HisRS 48.7 22 0.00049 19.3 2.5 35 12-47 2-36 (91)
53 cd01423 MGS_CPS_I_III Methylgl 48.4 59 0.0013 19.5 5.6 57 14-72 3-76 (116)
54 cd04872 ACT_1ZPV ACT domain pr 48.0 24 0.00051 20.2 2.6 27 16-43 4-30 (88)
55 cd04904 ACT_AAAH ACT domain of 47.6 38 0.00082 18.9 3.3 27 9-38 40-66 (74)
56 PF12146 Hydrolase_4: Putative 47.6 28 0.00061 19.9 2.9 36 10-46 15-50 (79)
57 PF00113 Enolase_C: Enolase, C 46.7 16 0.00035 26.4 2.1 42 10-55 227-268 (295)
58 PRK08350 hypothetical protein; 46.1 20 0.00044 26.7 2.5 33 9-41 279-311 (341)
59 PF09413 DUF2007: Domain of un 45.0 23 0.0005 19.2 2.1 22 28-49 12-33 (67)
60 PRK12444 threonyl-tRNA synthet 44.5 76 0.0016 24.9 5.5 58 10-71 540-598 (639)
61 PLN02734 glycyl-tRNA synthetas 44.5 34 0.00075 27.8 3.7 39 9-48 570-608 (684)
62 PF06309 Torsin: Torsin; Inte 43.5 61 0.0013 20.8 4.2 64 9-73 50-127 (127)
63 PF13840 ACT_7: ACT domain ; P 43.2 24 0.00051 19.4 2.0 22 24-45 20-41 (65)
64 PRK13976 thymidylate kinase; P 43.2 58 0.0013 22.0 4.2 32 14-45 1-36 (209)
65 PF13401 AAA_22: AAA domain; P 42.9 28 0.00061 20.5 2.4 47 15-68 42-88 (131)
66 PTZ00081 enolase; Provisional 42.7 21 0.00045 27.2 2.2 43 10-56 375-417 (439)
67 PRK15057 UDP-glucose 6-dehydro 42.4 53 0.0011 24.4 4.2 51 21-71 311-365 (388)
68 PF14792 DNA_pol_B_palm: DNA p 41.6 35 0.00076 20.9 2.7 32 11-42 42-77 (112)
69 PF02142 MGS: MGS-like domain 41.4 67 0.0014 18.7 3.9 41 32-72 23-65 (95)
70 PF01842 ACT: ACT domain; Int 40.3 38 0.00082 17.5 2.5 26 18-44 5-30 (66)
71 cd00532 MGS-like MGS-like doma 39.8 84 0.0018 18.9 5.0 58 14-73 2-74 (112)
72 PF00128 Alpha-amylase: Alpha 39.7 28 0.0006 23.2 2.3 18 28-45 54-71 (316)
73 cd02042 ParA ParA and ParB of 39.1 76 0.0016 18.1 6.7 59 14-72 3-68 (104)
74 PRK08155 acetolactate synthase 38.5 1.2E+02 0.0027 23.1 5.8 38 27-69 15-53 (564)
75 cd06404 PB1_aPKC PB1 domain is 38.5 63 0.0014 19.4 3.4 42 29-73 30-81 (83)
76 cd00518 H2MP Hydrogenase speci 38.5 84 0.0018 19.5 4.2 49 18-72 9-57 (139)
77 PRK09990 DNA-binding transcrip 38.3 39 0.00085 22.8 2.8 43 21-68 2-46 (251)
78 cd04919 ACT_AK-Hom3_2 ACT doma 38.3 45 0.00097 17.5 2.6 21 24-44 14-34 (66)
79 TIGR00789 flhB_rel flhB C-term 37.7 88 0.0019 18.4 5.0 46 17-65 21-72 (82)
80 cd04932 ACT_AKiii-LysC-EC_1 AC 37.3 64 0.0014 18.3 3.3 21 24-44 14-34 (75)
81 cd01424 MGS_CPS_II Methylglyox 37.1 91 0.002 18.4 5.1 58 13-72 2-72 (110)
82 TIGR00347 bioD dethiobiotin sy 36.8 41 0.00088 21.1 2.6 30 15-44 1-31 (166)
83 cd04868 ACT_AK-like ACT domain 36.6 56 0.0012 15.9 3.0 22 24-45 13-34 (60)
84 COG0124 HisS Histidyl-tRNA syn 36.6 1.3E+02 0.0028 23.0 5.6 59 9-72 333-392 (429)
85 cd04880 ACT_AAAH-PDT-like ACT 36.4 52 0.0011 18.0 2.8 29 9-38 39-67 (75)
86 COG4916 Uncharacterized protei 36.1 44 0.00094 24.6 2.8 38 7-46 173-212 (329)
87 KOG3347 Predicted nucleotide k 35.6 28 0.00062 23.7 1.7 30 29-64 104-133 (176)
88 PF09837 DUF2064: Uncharacteri 35.3 1.1E+02 0.0024 18.9 4.6 49 9-66 8-56 (122)
89 PF13291 ACT_4: ACT domain; PD 35.2 71 0.0015 17.6 3.2 34 9-43 2-35 (80)
90 PF11201 DUF2982: Protein of u 35.1 38 0.00082 22.5 2.3 26 10-35 124-150 (152)
91 COG3980 spsG Spore coat polysa 34.8 1.1E+02 0.0024 22.7 4.8 52 10-65 157-208 (318)
92 PF07859 Abhydrolase_3: alpha/ 34.6 52 0.0011 21.0 2.9 34 11-44 166-199 (211)
93 TIGR02469 CbiT precorrin-6Y C5 34.6 52 0.0011 18.9 2.7 33 10-42 87-119 (124)
94 cd06379 PBP1_iGluR_NMDA_NR1 N- 34.6 1.1E+02 0.0024 21.6 4.8 49 18-68 161-214 (377)
95 cd06342 PBP1_ABC_LIVBP_like Ty 34.5 1.5E+02 0.0032 20.1 5.4 52 18-71 142-194 (334)
96 PF02776 TPP_enzyme_N: Thiamin 34.2 83 0.0018 20.1 3.8 35 28-67 4-38 (172)
97 COG3147 DedD Uncharacterized p 34.1 48 0.001 23.5 2.7 32 18-53 159-190 (226)
98 PRK11784 tRNA 2-selenouridine 33.4 1.5E+02 0.0032 21.9 5.3 49 23-71 191-242 (345)
99 TIGR01917 gly_red_sel_B glycin 33.3 1.2E+02 0.0026 23.5 4.9 63 10-72 303-369 (431)
100 smart00851 MGS MGS-like domain 33.3 98 0.0021 17.7 4.2 37 32-72 23-60 (90)
101 KOG3997 Major apurinic/apyrimi 33.0 81 0.0018 22.8 3.8 55 14-73 73-144 (281)
102 cd06361 PBP1_GPC6A_like Ligand 32.9 95 0.0021 22.7 4.3 62 9-72 171-239 (403)
103 KOG3573 Caspase, apoptotic cys 32.8 32 0.0007 24.4 1.8 29 13-41 229-257 (300)
104 PHA02558 uvsW UvsW helicase; P 32.8 74 0.0016 24.1 3.8 46 10-56 46-93 (501)
105 cd06070 H2MP_like-2 Putative [ 32.5 1.1E+02 0.0024 19.1 4.1 45 18-72 9-53 (140)
106 PRK13187 UDP-3-O-[3-hydroxymyr 32.5 98 0.0021 22.7 4.2 44 25-68 85-131 (304)
107 PRK13896 cobyrinic acid a,c-di 32.3 92 0.002 23.7 4.2 47 14-64 4-52 (433)
108 cd06340 PBP1_ABC_ligand_bindin 32.2 1.6E+02 0.0036 20.5 5.3 57 14-71 147-203 (347)
109 cd05008 SIS_GlmS_GlmD_1 SIS (S 32.1 66 0.0014 19.0 2.9 28 14-44 51-78 (126)
110 PF08444 Gly_acyl_tr_C: Aralky 32.0 43 0.00093 20.3 2.0 28 18-45 31-58 (89)
111 COG0512 PabA Anthranilate/para 31.6 94 0.002 21.4 3.8 25 22-46 8-34 (191)
112 PRK13883 conjugal transfer pro 31.5 57 0.0012 21.6 2.7 27 21-47 59-85 (151)
113 cd04918 ACT_AK1-AT_2 ACT domai 31.5 59 0.0013 17.5 2.4 20 25-44 14-33 (65)
114 KOG3062 RNA polymerase II elon 31.3 76 0.0017 23.1 3.4 31 18-51 11-44 (281)
115 PF02602 HEM4: Uroporphyrinoge 30.8 36 0.00078 22.4 1.6 54 15-73 120-174 (231)
116 TIGR01404 FlhB_rel_III type II 30.8 1.1E+02 0.0024 22.6 4.3 45 18-65 283-334 (342)
117 TIGR00325 lpxC UDP-3-0-acyl N- 30.6 1.1E+02 0.0024 22.4 4.2 43 26-68 73-118 (297)
118 cd04891 ACT_AK-LysC-DapG-like_ 30.3 78 0.0017 15.6 2.9 24 21-44 8-31 (61)
119 cd04933 ACT_AK1-AT_1 ACT domai 30.2 1E+02 0.0023 17.7 3.4 22 24-45 14-35 (78)
120 TIGR00328 flhB flagellar biosy 30.0 1.5E+02 0.0031 22.0 4.8 45 18-65 284-335 (347)
121 PRK13186 lpxC UDP-3-O-[3-hydro 30.0 1.2E+02 0.0025 22.2 4.2 44 25-68 73-119 (295)
122 cd06386 PBP1_NPR_C_like Ligand 30.0 1.9E+02 0.004 20.8 5.3 39 28-67 157-195 (387)
123 PF09314 DUF1972: Domain of un 29.9 85 0.0018 21.2 3.4 40 10-51 91-130 (185)
124 PF09673 TrbC_Ftype: Type-F co 29.6 1.4E+02 0.003 18.3 4.4 28 14-44 2-29 (113)
125 PRK06298 type III secretion sy 29.5 1.2E+02 0.0026 22.5 4.3 44 19-65 286-336 (356)
126 PF02401 LYTB: LytB protein; 29.1 1.2E+02 0.0026 21.8 4.2 43 29-71 41-90 (281)
127 PRK13109 flhB flagellar biosyn 29.1 1.2E+02 0.0026 22.6 4.3 44 19-65 294-344 (358)
128 PRK10076 pyruvate formate lyas 28.9 70 0.0015 21.8 2.9 25 23-47 51-75 (213)
129 cd04795 SIS SIS domain. SIS (S 28.6 86 0.0019 17.0 2.8 10 36-45 46-55 (87)
130 PF01380 SIS: SIS domain SIS d 28.6 85 0.0019 18.4 2.9 27 14-43 58-84 (131)
131 PRK12721 secretion system appa 28.5 1.3E+02 0.0028 22.3 4.3 45 18-65 284-335 (349)
132 cd07238 Glo_EDI_BRP_like_5 Thi 28.5 76 0.0017 18.0 2.6 28 15-47 60-87 (112)
133 cd08359 Glo_EDI_BRP_like_22 Th 28.5 1.2E+02 0.0026 17.2 3.7 29 13-46 67-95 (119)
134 TIGR03570 NeuD_NnaD sugar O-ac 28.4 78 0.0017 19.9 2.9 28 26-53 9-38 (201)
135 COG0683 LivK ABC-type branched 28.4 1.8E+02 0.0039 20.8 5.0 56 13-69 150-205 (366)
136 PLN02284 glutamine synthetase 28.3 65 0.0014 23.7 2.8 31 23-53 167-197 (354)
137 CHL00201 syh histidine-tRNA sy 28.1 1.5E+02 0.0033 22.1 4.7 50 10-64 324-373 (430)
138 PRK12773 flhB flagellar biosyn 28.0 1.3E+02 0.0027 24.6 4.4 44 19-65 584-634 (646)
139 PF03331 LpxC: UDP-3-O-acyl N- 27.9 1.3E+02 0.0028 21.7 4.1 44 25-68 72-118 (277)
140 cd06352 PBP1_NPR_GC_like Ligan 27.8 2E+02 0.0043 20.2 5.1 42 24-67 151-195 (389)
141 cd04913 ACT_AKii-LysC-BS-like_ 27.8 99 0.0021 16.0 3.2 29 16-44 4-32 (75)
142 smart00775 LNS2 LNS2 domain. T 27.7 67 0.0015 20.6 2.5 30 16-45 20-49 (157)
143 PRK00090 bioD dithiobiotin syn 27.6 79 0.0017 20.8 2.9 31 14-44 2-33 (222)
144 cd06366 PBP1_GABAb_receptor Li 27.5 2E+02 0.0044 19.8 5.0 52 14-67 138-192 (350)
145 COG3636 Predicted transcriptio 27.5 36 0.00078 21.2 1.1 15 29-43 64-78 (100)
146 cd00032 CASc Caspase, interleu 27.4 51 0.0011 22.5 2.0 31 9-39 161-200 (243)
147 PF13155 Toprim_2: Toprim-like 27.3 99 0.0021 17.5 3.0 25 39-65 49-73 (96)
148 PLN02530 histidine-tRNA ligase 27.3 1.8E+02 0.0039 22.2 5.1 37 10-47 400-436 (487)
149 PF01583 APS_kinase: Adenylyls 27.1 47 0.001 21.8 1.7 28 25-52 16-44 (156)
150 cd04922 ACT_AKi-HSDH-ThrA_2 AC 26.9 89 0.0019 16.1 2.6 21 25-45 15-35 (66)
151 cd04935 ACT_AKiii-DAPDC_1 ACT 26.7 1.3E+02 0.0028 16.9 3.4 21 24-44 14-34 (75)
152 cd04912 ACT_AKiii-LysC-EC-like 26.7 1.2E+02 0.0026 16.7 3.3 21 24-44 14-34 (75)
153 cd04923 ACT_AK-LysC-DapG-like_ 26.6 99 0.0021 15.6 3.0 22 24-45 13-34 (63)
154 TIGR02100 glgX_debranch glycog 26.6 65 0.0014 25.9 2.6 35 10-45 224-264 (688)
155 cd04890 ACT_AK-like_1 ACT doma 26.3 83 0.0018 16.4 2.4 22 24-45 13-34 (62)
156 smart00642 Aamy Alpha-amylase 26.1 65 0.0014 21.0 2.2 19 28-46 72-90 (166)
157 PF03852 Vsr: DNA mismatch end 26.1 1.5E+02 0.0032 17.5 3.6 46 19-72 17-62 (75)
158 COG0148 Eno Enolase [Carbohydr 25.9 67 0.0014 24.8 2.5 43 10-56 354-396 (423)
159 COG0132 BioD Dethiobiotin synt 25.9 95 0.0021 21.6 3.1 40 13-53 4-44 (223)
160 PRK11589 gcvR glycine cleavage 25.7 1E+02 0.0023 20.8 3.2 33 10-43 5-37 (190)
161 PRK14161 heat shock protein Gr 25.7 1E+02 0.0022 20.7 3.1 33 29-65 109-141 (178)
162 cd02036 MinD Bacterial cell di 25.6 1.6E+02 0.0034 18.1 3.9 36 15-50 4-39 (179)
163 PF09419 PGP_phosphatase: Mito 25.6 1.3E+02 0.0027 20.1 3.5 34 34-67 35-72 (168)
164 PRK05702 flhB flagellar biosyn 25.5 1.9E+02 0.0041 21.5 4.8 45 18-65 291-342 (359)
165 PRK12772 bifunctional flagella 25.5 1.4E+02 0.0031 23.7 4.3 44 19-65 548-598 (609)
166 cd06365 PBP1_Pheromone_recepto 25.5 1.8E+02 0.0039 21.7 4.7 52 20-72 181-236 (469)
167 TIGR00389 glyS_dimeric glycyl- 25.5 2.5E+02 0.0055 22.3 5.7 38 10-47 456-494 (551)
168 cd05017 SIS_PGI_PMI_1 The memb 25.4 1E+02 0.0022 18.4 2.9 30 11-43 43-74 (119)
169 PRK14894 glycyl-tRNA synthetas 25.2 38 0.00083 26.8 1.1 29 26-55 451-480 (539)
170 cd07245 Glo_EDI_BRP_like_9 Thi 25.1 84 0.0018 17.1 2.4 27 14-45 66-92 (114)
171 cd04937 ACT_AKi-DapG-BS_2 ACT 24.8 84 0.0018 16.7 2.2 20 24-43 14-33 (64)
172 PF04915 DltD_N: DltD N-termin 24.8 1E+02 0.0022 17.5 2.6 30 33-62 23-52 (62)
173 PLN02908 threonyl-tRNA synthet 24.8 2.3E+02 0.0049 22.7 5.3 47 11-62 589-635 (686)
174 PF05382 Amidase_5: Bacterioph 24.7 91 0.002 20.4 2.7 28 27-54 52-81 (145)
175 PTZ00378 hypothetical protein; 24.7 48 0.001 26.2 1.5 36 14-55 430-465 (518)
176 cd06335 PBP1_ABC_ligand_bindin 24.7 2.4E+02 0.0052 19.6 5.0 17 26-42 153-169 (347)
177 PF08880 QLQ: QLQ; InterPro: 24.6 48 0.001 16.8 1.1 24 39-65 14-37 (37)
178 PRK12468 flhB flagellar biosyn 24.6 1.6E+02 0.0035 22.1 4.3 44 19-65 292-342 (386)
179 KOG3043 Predicted hydrolase re 24.6 51 0.0011 23.6 1.6 33 28-62 56-88 (242)
180 COG2333 ComEC Predicted hydrol 24.5 1.3E+02 0.0028 21.8 3.7 37 9-47 231-268 (293)
181 PRK14154 heat shock protein Gr 24.5 96 0.0021 21.5 2.9 33 28-64 140-172 (208)
182 cd06367 PBP1_iGluR_NMDA N-term 24.2 2.5E+02 0.0054 19.6 5.1 50 18-68 143-195 (362)
183 PRK12374 putative dithiobiotin 24.1 99 0.0021 20.8 2.9 31 13-43 4-35 (231)
184 TIGR00441 gmhA phosphoheptose 24.1 1E+02 0.0022 19.5 2.8 32 10-44 78-111 (154)
185 cd06328 PBP1_SBP_like_2 Peripl 23.9 2.5E+02 0.0055 19.4 5.3 52 14-67 139-191 (333)
186 cd05710 SIS_1 A subgroup of th 23.9 1.1E+02 0.0025 18.3 2.9 29 12-43 48-78 (120)
187 cd08342 HPPD_N_like N-terminal 23.9 1.1E+02 0.0023 18.4 2.8 27 16-47 73-99 (136)
188 PF02878 PGM_PMM_I: Phosphoglu 23.9 1.2E+02 0.0026 18.7 3.0 49 11-65 40-88 (137)
189 PLN03194 putative disease resi 23.9 2.5E+02 0.0053 19.3 5.4 64 10-73 53-116 (187)
190 PRK00698 tmk thymidylate kinas 23.9 2E+02 0.0043 18.3 4.2 32 14-45 4-37 (205)
191 PF11074 DUF2779: Domain of un 23.9 49 0.0011 21.0 1.3 31 12-42 45-76 (130)
192 PRK14155 heat shock protein Gr 23.8 86 0.0019 21.7 2.5 34 28-65 103-136 (208)
193 PRK14158 heat shock protein Gr 23.7 1.3E+02 0.0029 20.5 3.4 33 29-65 127-159 (194)
194 PF01656 CbiA: CobQ/CobB/MinD/ 23.7 1.3E+02 0.0028 18.8 3.3 33 14-46 2-34 (195)
195 cd07233 Glyoxalase_I Glyoxalas 23.7 1E+02 0.0022 17.5 2.6 26 15-45 73-98 (121)
196 cd06350 PBP1_GPCR_family_C_lik 23.5 1.6E+02 0.0034 20.2 3.9 46 22-68 171-218 (348)
197 COG0576 GrpE Molecular chapero 23.5 1.2E+02 0.0025 20.6 3.1 34 27-65 123-156 (193)
198 TIGR00106 uncharacterized prot 23.4 1.5E+02 0.0032 17.9 3.3 39 25-66 18-58 (97)
199 TIGR03026 NDP-sugDHase nucleot 23.4 1.4E+02 0.0031 21.9 3.8 55 17-71 322-382 (411)
200 TIGR03127 RuMP_HxlB 6-phospho 23.3 1.1E+02 0.0024 19.5 2.9 31 11-44 72-104 (179)
201 PF00120 Gln-synt_C: Glutamine 23.3 81 0.0018 21.7 2.4 32 22-53 65-96 (259)
202 KOG3929 Uncharacterized conser 23.3 28 0.00061 25.8 0.1 14 9-22 197-210 (363)
203 cd05014 SIS_Kpsf KpsF-like pro 23.1 1.2E+02 0.0026 17.9 2.9 28 14-44 52-79 (128)
204 PF12681 Glyoxalase_2: Glyoxal 23.1 92 0.002 17.3 2.3 34 14-52 58-91 (108)
205 COG2257 Uncharacterized homolo 23.1 1.5E+02 0.0033 18.1 3.3 39 27-65 33-77 (92)
206 COG1058 CinA Predicted nucleot 23.0 1.1E+02 0.0024 21.9 3.0 41 27-70 22-65 (255)
207 cd06346 PBP1_ABC_ligand_bindin 22.9 2.6E+02 0.0056 19.1 5.1 41 26-67 152-192 (312)
208 cd04925 ACT_ACR_2 ACT domain-c 22.8 1.2E+02 0.0027 16.7 2.7 26 17-43 4-29 (74)
209 cd04885 ACT_ThrD-I Tandem C-te 22.8 1.4E+02 0.003 16.1 2.9 29 12-42 38-66 (68)
210 PF01507 PAPS_reduct: Phosphoa 22.4 1E+02 0.0022 19.0 2.6 32 13-46 1-33 (174)
211 PF14871 GHL6: Hypothetical gl 22.4 92 0.002 19.7 2.3 20 25-44 43-62 (132)
212 PRK00037 hisS histidyl-tRNA sy 22.4 2.8E+02 0.0061 20.1 5.1 35 11-46 318-352 (412)
213 cd01672 TMPK Thymidine monopho 22.3 1.1E+02 0.0024 19.1 2.7 29 15-43 2-32 (200)
214 PRK05670 anthranilate synthase 22.2 77 0.0017 20.6 2.0 23 22-44 6-28 (189)
215 PRK07524 hypothetical protein; 22.2 1.9E+02 0.004 22.0 4.3 37 28-69 5-41 (535)
216 smart00115 CASc Caspase, inter 22.2 86 0.0019 21.5 2.3 29 10-38 158-195 (241)
217 PRK08156 type III secretion sy 22.2 1.8E+02 0.004 21.7 4.1 44 19-65 280-330 (361)
218 PF08414 NADPH_Ox: Respiratory 22.2 67 0.0015 20.0 1.6 18 24-41 59-77 (100)
219 TIGR02826 RNR_activ_nrdG3 anae 22.1 1E+02 0.0023 19.7 2.6 32 15-46 64-95 (147)
220 cd04873 ACT_UUR-ACR-like ACT d 22.0 1.3E+02 0.0029 15.5 2.7 25 18-43 5-29 (70)
221 cd08355 Glo_EDI_BRP_like_14 Th 22.0 1.7E+02 0.0037 16.8 3.4 32 16-52 72-103 (122)
222 PF04343 DUF488: Protein of un 21.9 1.2E+02 0.0025 18.5 2.7 24 28-51 2-25 (122)
223 TIGR00442 hisS histidyl-tRNA s 21.8 3.1E+02 0.0066 19.9 5.2 36 10-46 321-356 (397)
224 PRK01045 ispH 4-hydroxy-3-meth 21.6 2.2E+02 0.0048 20.7 4.4 41 30-70 44-91 (298)
225 cd06066 H2MP_NAD-link-bidir En 21.6 2.1E+02 0.0047 17.8 3.9 46 18-72 9-56 (139)
226 COG2130 Putative NADP-dependen 21.6 2E+02 0.0044 21.6 4.2 50 10-68 195-245 (340)
227 cd05013 SIS_RpiR RpiR-like pro 21.5 1.5E+02 0.0032 17.3 3.0 30 12-44 63-92 (139)
228 COG2861 Uncharacterized protei 21.5 1.1E+02 0.0024 22.0 2.8 34 28-64 140-173 (250)
229 cd04886 ACT_ThrD-II-like C-ter 21.5 1.3E+02 0.0029 15.3 3.4 32 10-43 41-72 (73)
230 PF00879 Defensin_propep: Defe 21.4 54 0.0012 18.1 1.0 13 10-22 38-50 (52)
231 smart00493 TOPRIM topoisomeras 21.4 1.1E+02 0.0023 16.5 2.3 37 27-65 37-73 (76)
232 cd04931 ACT_PAH ACT domain of 21.4 1.5E+02 0.0033 17.5 3.0 26 9-37 54-80 (90)
233 KOG0139 Short-chain acyl-CoA d 21.4 1.4E+02 0.003 22.9 3.4 50 9-71 191-243 (398)
234 PRK13862 putative crown gall t 21.3 1.2E+02 0.0027 20.8 2.8 25 9-36 79-103 (201)
235 cd05006 SIS_GmhA Phosphoheptos 21.2 1.3E+02 0.0028 19.2 2.9 30 12-44 102-133 (177)
236 PRK04173 glycyl-tRNA synthetas 21.2 1.2E+02 0.0027 23.0 3.1 36 10-46 362-398 (456)
237 PRK08617 acetolactate synthase 21.0 2.1E+02 0.0046 21.7 4.4 40 27-71 7-46 (552)
238 PRK10291 glyoxalase I; Provisi 21.0 1.5E+02 0.0032 17.4 3.0 25 16-45 69-93 (129)
239 cd04934 ACT_AK-Hom3_1 CT domai 21.0 1.1E+02 0.0025 17.1 2.3 21 24-44 14-34 (73)
240 cd05402 NT_PAP_TUTase Nucleoti 20.9 1.3E+02 0.0028 17.7 2.7 32 9-40 36-68 (114)
241 PF03481 SUA5: Putative GTP-bi 20.7 1.2E+02 0.0027 18.5 2.7 52 12-65 68-122 (125)
242 PRK05752 uroporphyrinogen-III 20.7 2.2E+02 0.0047 19.4 4.1 54 15-73 133-188 (255)
243 PF09682 Holin_LLH: Phage holi 20.6 72 0.0016 19.4 1.5 24 19-42 65-88 (108)
244 PRK13188 bifunctional UDP-3-O- 20.6 2E+02 0.0043 22.3 4.2 43 26-68 75-120 (464)
245 PF02579 Nitro_FeMo-Co: Dinitr 20.6 1E+02 0.0022 17.3 2.1 17 29-45 64-80 (94)
246 KOG3423 Transcription initiati 20.6 51 0.0011 22.5 0.9 24 19-42 145-169 (176)
247 PF07283 TrbH: Conjugal transf 20.6 1.8E+02 0.0039 18.5 3.4 23 25-47 35-57 (121)
248 PLN02891 IMP cyclohydrolase 20.5 1.5E+02 0.0033 23.6 3.6 46 13-71 492-538 (547)
249 PF00493 MCM: MCM2/3/5 family 20.3 1.1E+02 0.0024 22.0 2.7 33 35-70 119-152 (331)
250 PF00581 Rhodanese: Rhodanese- 20.2 1.5E+02 0.0033 16.5 2.8 30 14-43 71-101 (113)
251 PF00585 Thr_dehydrat_C: C-ter 20.2 1.8E+02 0.004 17.0 3.2 32 10-43 48-79 (91)
252 PRK09441 cytoplasmic alpha-amy 20.2 89 0.0019 23.6 2.2 18 28-45 83-100 (479)
253 PRK02947 hypothetical protein; 20.0 1.3E+02 0.0029 20.7 2.9 31 11-44 106-138 (246)
No 1
>PLN03194 putative disease resistance protein; Provisional
Probab=99.95 E-value=5.2e-28 Score=163.72 Aligned_cols=71 Identities=32% Similarity=0.546 Sum_probs=67.3
Q ss_pred CCCCCCCCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 3 SSSSFSSCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 3 ~~s~s~~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
++|||++.+|||||||||+|+|++|++|||++|+++||+||+|+.++++|+.|.++|.+||++|+++||||
T Consensus 18 ~~~~~~~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVf 88 (187)
T PLN03194 18 PSSSSSAKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVF 88 (187)
T ss_pred ccCCCCCCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEE
Confidence 45566689999999999999999999999999999999999999999999999999999999999999997
No 2
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.93 E-value=2.2e-26 Score=183.91 Aligned_cols=72 Identities=51% Similarity=0.794 Sum_probs=68.6
Q ss_pred CCCCCCCC-CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 1 MASSSSFS-SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 1 Ma~~s~s~-~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
||+||||+ .|+|||||||||+|||++|++|||++|.++||++|+|+ ++++|+.|.+++.+||++|||+||||
T Consensus 1 ~~~~~~~~~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~-~~~~g~~~~~~l~~~i~~s~~~ivv~ 73 (1153)
T PLN03210 1 MASSSSSSRNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDN-EIERSQSLDPELKQAIRDSRIAVVVF 73 (1153)
T ss_pred CCCCCCCCCCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccC-CccCCCcccHHHHHHHHhCeEEEEEe
Confidence 88887765 89999999999999999999999999999999999998 59999999999999999999999997
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=99.50 E-value=1.4e-14 Score=92.15 Aligned_cols=60 Identities=30% Similarity=0.635 Sum_probs=54.9
Q ss_pred EEeeceeccchhchHHHHHHHHhcC--CcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQK--KIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~--gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
|||||++.+++..|+.+|..+|+++ |+++|++++++.+|..+.+++.++|++||..|+||
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~Vl 62 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVL 62 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEE
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEe
Confidence 8999999666789999999999999 99999999999999999999999999999999996
No 4
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.38 E-value=5.9e-13 Score=83.16 Aligned_cols=61 Identities=43% Similarity=0.776 Sum_probs=51.7
Q ss_pred cccEEeecee-ccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 11 RYDVFLSFRG-EDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 11 ~ydVFiSfrg-~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
.|||||||++ ++..+.|+.+|...|...|+.+|.|+..+ .|.... +|.++|++|+..|+|+
T Consensus 1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~-~~~~~~-~i~~~i~~s~~~i~vl 62 (140)
T smart00255 1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEP-GGGDLE-EIDEAIEKSRIAIVVL 62 (140)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCccc-ccchHH-HHHHHHHHCcEEEEEE
Confidence 5999999999 56778999999999999999999998633 333333 9999999999999885
No 5
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.21 E-value=3.4e-12 Score=76.67 Aligned_cols=57 Identities=28% Similarity=0.593 Sum_probs=48.3
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
|||||+++| +.++..|...|++.|+++|+|. ++.+|+.+...+.++|++|+..|+++
T Consensus 1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~-~~~~g~~~~~~i~~~i~~s~~~i~~~ 57 (102)
T PF13676_consen 1 VFISYSSED--REFAERLAERLESAGIRVFLDR-DIPPGEDWREEIERAIERSDCVIVLL 57 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GG-EE-TTS-HHCCCHHCCTTEEEEEEEE
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEE-eCCCCCCHHHHHHHHHHhCCEEEEEE
Confidence 899999999 4699999999999999999997 89999999999999999999988874
No 6
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=98.13 E-value=5.4e-06 Score=64.24 Aligned_cols=63 Identities=32% Similarity=0.509 Sum_probs=55.4
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
....|||||||.. +.+..++.|--.|+-+|+++|+|-++++.|+ +.+.+++.|...+-.|.|+
T Consensus 610 skq~DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVL 672 (832)
T KOG3678|consen 610 SKQIDVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVL 672 (832)
T ss_pred cCCcceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEe
Confidence 4678999999986 5678999999999999999999988899886 4679999999999998885
No 7
>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=97.28 E-value=0.00071 Score=42.95 Aligned_cols=61 Identities=26% Similarity=0.438 Sum_probs=48.6
Q ss_pred cEEeeceeccchh-chHHHHHHHHhcC-CcceeecccccCC--CCCCcHHHHHHHhhcceEEEEC
Q 035104 13 DVFLSFRGEDTRD-NFLSHLVEALRQK-KIKSFIDNEELSR--GDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 13 dVFiSfrg~D~r~-~f~~~L~~~L~~~-gi~~f~D~~~l~~--G~~i~~~i~~aI~~Sri~IvVf 73 (73)
-|||+|+.+...+ ..|..|...|++. |+.|.+|.-+... +.....=+.+.|+++...|+|.
T Consensus 2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~ 66 (150)
T PF08357_consen 2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVC 66 (150)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEe
Confidence 4999999865433 5689999999999 9999999765533 5566667788899999888873
No 8
>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=97.15 E-value=0.00086 Score=42.20 Aligned_cols=60 Identities=23% Similarity=0.450 Sum_probs=29.3
Q ss_pred ccEEeeceeccchhchHHHHHHHHhcC-------Ccce-e---------ecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 12 YDVFLSFRGEDTRDNFLSHLVEALRQK-------KIKS-F---------IDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 12 ydVFiSfrg~D~r~~f~~~L~~~L~~~-------gi~~-f---------~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
|.|||||+..|.. .....|...+... ++.. | .+..+....+.|...|-++|+.|.+.||+
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVL 77 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVL 77 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEE
Confidence 6899999999854 3666666666663 2211 1 12222223347889999999999999986
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=96.68 E-value=0.0073 Score=38.68 Aligned_cols=58 Identities=19% Similarity=0.285 Sum_probs=49.3
Q ss_pred cEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
.|||.|. .|. .....+..-|+..|+.+.+-.+....|..+-..+.+...++..+|++|
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~ 58 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLF 58 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEE
Confidence 3899997 653 467788888888899999887778899999999999999999999986
No 10
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=92.63 E-value=0.54 Score=27.42 Aligned_cols=59 Identities=22% Similarity=0.188 Sum_probs=41.6
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
||||-.-.|.. .-=..|.+.+.+.|..+..-+.-..++......+++.|++|.+.|.++
T Consensus 2 VFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~il 60 (83)
T PF13271_consen 2 VFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILIL 60 (83)
T ss_pred EEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEee
Confidence 89998777753 344678888888887665533212335556678899999999998874
No 11
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=89.81 E-value=0.72 Score=26.16 Aligned_cols=47 Identities=11% Similarity=0.183 Sum_probs=32.3
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
+++|+|..-+++. ..-+-.+...|++.|+++-+|... .++...+..|
T Consensus 1 p~~v~ii~~~~~~-~~~a~~~~~~Lr~~g~~v~~d~~~----~~~~~~~~~a 47 (91)
T cd00860 1 PVQVVVIPVTDEH-LDYAKEVAKKLSDAGIRVEVDLRN----EKLGKKIREA 47 (91)
T ss_pred CeEEEEEeeCchH-HHHHHHHHHHHHHCCCEEEEECCC----CCHHHHHHHH
Confidence 3787777665544 357789999999999999988642 3444444443
No 12
>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=87.85 E-value=2.2 Score=24.57 Aligned_cols=44 Identities=18% Similarity=0.249 Sum_probs=30.0
Q ss_pred hchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHH-hhcceEEEE
Q 035104 25 DNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAI-KESKISVII 72 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI-~~Sri~IvV 72 (73)
..++.+|...|++.||.+.+|+. +..+...+-.|- .+.++.|+|
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~----~~~~~k~~~~a~~~g~p~~iii 59 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDS----DKSLGKQIKYADKLGIPFIIII 59 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESS----SSTHHHHHHHHHHTTESEEEEE
T ss_pred HHHHHHHHHHHHHCCCEEEEECC----CCchhHHHHHHhhcCCeEEEEE
Confidence 35789999999999999999974 344444554444 334555443
No 13
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=82.55 E-value=1.7 Score=33.56 Aligned_cols=47 Identities=15% Similarity=0.268 Sum_probs=34.3
Q ss_pred CCcccEEeecee--ccchhchHHHHHHHHhcCCcceeecccccCCCCCC
Q 035104 9 SCRYDVFLSFRG--EDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGI 55 (73)
Q Consensus 9 ~~~ydVFiSfrg--~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i 55 (73)
.-+++|+|---+ .+.-...+..|+..|++.||.+.+|+++-..|..+
T Consensus 466 iaP~~v~Iv~~~~~~~~~~~~a~~i~~~L~~~gi~v~~Ddr~~~~g~k~ 514 (565)
T PRK09194 466 IAPFDVHIVPVNMKDEEVKELAEKLYAELQAAGIEVLLDDRKERPGVKF 514 (565)
T ss_pred cCCceEEEEECCCCcHHHHHHHHHHHHHHhccCCeEEEECCCCCHHHHH
Confidence 355899887554 23334688999999999999999998754455444
No 14
>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=82.51 E-value=6.7 Score=22.07 Aligned_cols=46 Identities=20% Similarity=0.298 Sum_probs=30.6
Q ss_pred ccEEeeceec---cchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 12 YDVFLSFRGE---DTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 12 ydVFiSfrg~---D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
++|+|-.-++ .. ...+-.+...|++.|+.+-+|.. +.++...+..|
T Consensus 2 ~~v~ii~~~~~~~~~-~~~a~~~~~~Lr~~g~~v~~~~~----~~~~~k~~~~a 50 (94)
T cd00738 2 IDVAIVPLTDPRVEA-REYAQKLLNALLANGIRVLYDDR----ERKIGKKFREA 50 (94)
T ss_pred eEEEEEECCCCcHHH-HHHHHHHHHHHHHCCCEEEecCC----CcCHhHHHHHH
Confidence 5766655443 32 35778899999999999988764 34555444444
No 15
>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=82.21 E-value=2.2 Score=25.79 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=35.4
Q ss_pred hchHHHHHHHHhcCCcceeecccccC--------CCCCCcHHHHHHHhhcceEEEEC
Q 035104 25 DNFLSHLVEALRQKKIKSFIDNEELS--------RGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~D~~~l~--------~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
..+...+.++|++.|+.+|...+.-. +.+.|...-.++|++|.+.|+++
T Consensus 13 ~~~~~~~~~~L~~~g~~v~~P~~~~~~~~~~~~~~~~~i~~~d~~~i~~~D~via~l 69 (113)
T PF05014_consen 13 KARVERLREALEKNGFEVYSPQDNDENDEEDSQEWAREIFERDLEGIRECDIVIANL 69 (113)
T ss_dssp HHHHHHHHHHHHTTTTEEEGGCTCSSS--TTSHHCHHHHHHHHHHHHHHSSEEEEEE
T ss_pred HHHHHHHHHHHHhCCCEEEeccccccccccccchHHHHHHHHHHHHHHHCCEEEEEC
Confidence 46889999999999999987542111 12234445568999999999864
No 16
>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=81.53 E-value=1.4 Score=27.87 Aligned_cols=34 Identities=15% Similarity=0.103 Sum_probs=26.0
Q ss_pred cchhchHHHHHHHHhcCCcceeeccccc---CCCCCC
Q 035104 22 DTRDNFLSHLVEALRQKKIKSFIDNEEL---SRGDGI 55 (73)
Q Consensus 22 D~r~~f~~~L~~~L~~~gi~~f~D~~~l---~~G~~i 55 (73)
+.-...+..||+.|+..|+.+..|++.- .+|..+
T Consensus 40 ~~~~~~a~~l~~~L~~~gi~v~~D~r~~~~~~~G~k~ 76 (128)
T cd02426 40 AELRDLCQGLKNELREAGLSVWPGYLETQHSSLEQLL 76 (128)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEeccCcccccCHHHHH
Confidence 3345688999999999999999998643 355544
No 17
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=77.85 E-value=3.4 Score=31.01 Aligned_cols=45 Identities=18% Similarity=0.200 Sum_probs=31.8
Q ss_pred cccEEeecee--ccchhchHHHHHHHHhcCCcceeecccccCCCCCC
Q 035104 11 RYDVFLSFRG--EDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGI 55 (73)
Q Consensus 11 ~ydVFiSfrg--~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i 55 (73)
+++|.|---+ .+.....+..|+..|++.||.+.+|+++-..|..+
T Consensus 345 P~qV~Iipi~~~~~~~~~~a~~i~~~L~~~Gi~v~~D~~~~~lg~ki 391 (439)
T PRK12325 345 PFKVGIINLKQGDEACDAACEKLYAALSAAGIDVLYDDTDERPGAKF 391 (439)
T ss_pred CeEEEEEecCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHhHHH
Confidence 4788765432 23344678999999999999999998754444444
No 18
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=77.78 E-value=4.2 Score=24.92 Aligned_cols=37 Identities=14% Similarity=0.084 Sum_probs=28.5
Q ss_pred CcccEEeecee--ccchhchHHHHHHHHhcCCcceeeccc
Q 035104 10 CRYDVFLSFRG--EDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 10 ~~ydVFiSfrg--~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
..+||+|-.-+ ++. ...+..|+..|++.|+.+-+|..
T Consensus 25 ap~~v~Ii~~~~~~~~-~~~a~~la~~LR~~gi~v~~d~~ 63 (121)
T cd00858 25 APIKVAVLPLVKRDEL-VEIAKEISEELRELGFSVKYDDS 63 (121)
T ss_pred CCcEEEEEecCCcHHH-HHHHHHHHHHHHHCCCEEEEeCC
Confidence 46888887766 433 35778999999999999999863
No 19
>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=75.06 E-value=10 Score=21.55 Aligned_cols=30 Identities=13% Similarity=0.274 Sum_probs=22.3
Q ss_pred chHHHHHHHHhcCCcceeecccccCCCCCC
Q 035104 26 NFLSHLVEALRQKKIKSFIDNEELSRGDGI 55 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i 55 (73)
..+..|...|++.|+++.+|.+.-..|..+
T Consensus 18 ~~a~~la~~Lr~~g~~v~~d~~~~~l~k~i 47 (94)
T cd00861 18 ELAEKLYAELQAAGVDVLLDDRNERPGVKF 47 (94)
T ss_pred HHHHHHHHHHHHCCCEEEEECCCCCcccch
Confidence 477889999999999999987533333433
No 20
>COG0400 Predicted esterase [General function prediction only]
Probab=73.79 E-value=12 Score=25.69 Aligned_cols=55 Identities=22% Similarity=0.196 Sum_probs=44.3
Q ss_pred CCcccEEeeceeccc--hhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 9 SCRYDVFLSFRGEDT--RDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~--r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
....-|||++-..|- -.....+|.+.|+..|..+.... .+-|=+|.++-++++++
T Consensus 144 ~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v~~~~--~~~GH~i~~e~~~~~~~ 200 (207)
T COG0400 144 LAGTPILLSHGTEDPVVPLALAEALAEYLTASGADVEVRW--HEGGHEIPPEELEAARS 200 (207)
T ss_pred cCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCEEEEE--ecCCCcCCHHHHHHHHH
Confidence 456779999988886 45677999999999999998775 45778888887777764
No 21
>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=73.48 E-value=11 Score=28.75 Aligned_cols=48 Identities=13% Similarity=0.236 Sum_probs=36.0
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
.+.||+|---+++. ...+..|...|+++|++|-+|.. ++++...+-.|
T Consensus 469 ~p~~v~vi~~~~~~-~~~a~~ia~~LR~~Gi~v~~d~~----~~sl~~q~k~A 516 (563)
T TIGR00418 469 APVQVVVIPVNERH-LDYAKKVAQKLKKAGIRVDVDDR----NERLGKKIREA 516 (563)
T ss_pred CCceEEEEEccchH-HHHHHHHHHHHHHcCCEEEEECC----CCCHHHHHHHH
Confidence 45788887766654 36789999999999999999864 45565555555
No 22
>COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair]
Probab=73.03 E-value=5.8 Score=25.54 Aligned_cols=54 Identities=13% Similarity=0.161 Sum_probs=41.3
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhc
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKES 66 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~S 66 (73)
..++|+-..+.=....++..|-.++..+|+-++.|.+ .+|+.|...+.+.+.++
T Consensus 29 ~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D--~~Ge~Irk~l~~~l~~~ 82 (127)
T COG1658 29 DAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPD--RKGERIRKKLKEYLPGA 82 (127)
T ss_pred CCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCC--cchHHHHHHHHHHhccc
Confidence 3456666654322256889999999999999999976 48999998888888774
No 23
>COG4271 Predicted nucleotide-binding protein containing TIR -like domain [Transcription]
Probab=71.35 E-value=12 Score=26.47 Aligned_cols=57 Identities=28% Similarity=0.313 Sum_probs=42.0
Q ss_pred cEEeeceeccchhchHHHHHHHHh-cCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALR-QKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~-~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
-||+-+..+. .+.....+|. +....+-+-+.-...|+.+-..+.+-|.+++++|++.
T Consensus 84 kvFvv~ghd~----iArael~allrd~~l~~vi~d~~~~~g~~ile~lek~i~~v~FAi~la 141 (233)
T COG4271 84 KVFVVSGHDA----IARAELEALLRDWKLEPVILDGLFSEGQTILESLEKYIAEVKFAIVLA 141 (233)
T ss_pred eEEEEeccHH----HHHHHHHHHhhccccceEEecCcccccHHHHHHHHHHhhhceEEEEEe
Confidence 8999986553 5656666665 4444444434357889999999999999999999873
No 24
>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=70.96 E-value=6.2 Score=22.33 Aligned_cols=10 Identities=20% Similarity=0.328 Sum_probs=5.1
Q ss_pred CCcceeeccc
Q 035104 38 KKIKSFIDNE 47 (73)
Q Consensus 38 ~gi~~f~D~~ 47 (73)
+.|..+.|.+
T Consensus 44 ~~vii~~D~D 53 (79)
T cd03364 44 KEVILAFDGD 53 (79)
T ss_pred CeEEEEECCC
Confidence 4455555543
No 25
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=69.29 E-value=5.8 Score=31.38 Aligned_cols=42 Identities=17% Similarity=0.200 Sum_probs=31.2
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCC
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGD 53 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~ 53 (73)
.++|+|---+++ ....+..+++.|+++|+++.+|+++-..|.
T Consensus 499 P~qV~IIpi~e~-~~~~A~eIa~~Lr~~GirV~lDdr~~slgk 540 (613)
T PRK03991 499 PTQVRVIPVSER-HLDYAEEVADKLEAAGIRVDVDDRDESLGK 540 (613)
T ss_pred CceEEEEEeCHH-HHHHHHHHHHHHHhCCCEEEEECCCCCHHH
Confidence 578876655544 346899999999999999999986433333
No 26
>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=69.12 E-value=8.3 Score=21.86 Aligned_cols=29 Identities=24% Similarity=0.384 Sum_probs=24.8
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCccee
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
+-|++.|+| |.+.+..+...|.++|.++-
T Consensus 2 ~iltv~g~D-r~GiVa~vs~~la~~g~nI~ 30 (77)
T cd04893 2 LVISALGTD-RPGILNELTRAVSESGCNIL 30 (77)
T ss_pred EEEEEEeCC-CChHHHHHHHHHHHcCCCEE
Confidence 457889999 56999999999999998764
No 27
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=66.56 E-value=7.5 Score=29.56 Aligned_cols=45 Identities=16% Similarity=0.191 Sum_probs=31.0
Q ss_pred cccEEeecee-----ccchhchHHHHHHHHhcCCcceeecc-cccCCCCCC
Q 035104 11 RYDVFLSFRG-----EDTRDNFLSHLVEALRQKKIKSFIDN-EELSRGDGI 55 (73)
Q Consensus 11 ~ydVFiSfrg-----~D~r~~f~~~L~~~L~~~gi~~f~D~-~~l~~G~~i 55 (73)
+++|+|---. .+.-...+..|+..|++.||++-+|+ .....|..+
T Consensus 287 P~qV~Iipi~~~~~~~~~~~~~a~~l~~~Lr~~GirV~lD~r~~~s~gkK~ 337 (477)
T PRK08661 287 PIQVVIVPIFKKEEKKEEVLEYAKELAEELKKAGIRVKLDDRSDKTPGWKF 337 (477)
T ss_pred CCeEEEEEecCCCcCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHH
Confidence 5888765431 12234678999999999999999998 434444443
No 28
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=66.28 E-value=10 Score=21.43 Aligned_cols=28 Identities=14% Similarity=0.313 Sum_probs=22.2
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcce
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKS 42 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~ 42 (73)
+-|+.-|+| |.+.+..+...|.+.|.++
T Consensus 3 ~vItv~G~D-rpGiv~~v~~~l~~~g~ni 30 (76)
T PF13740_consen 3 LVITVVGPD-RPGIVAAVTGVLAEHGCNI 30 (76)
T ss_dssp EEEEEEEE---TTHHHHHHHHHHCTT-EE
T ss_pred EEEEEEecC-CCcHHHHHHHHHHHCCCcE
Confidence 457888999 6799999999999999876
No 29
>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=66.01 E-value=3 Score=32.53 Aligned_cols=46 Identities=15% Similarity=0.333 Sum_probs=32.0
Q ss_pred cccEEeece--eccchhchHHHHHHHHhcCCcceeecccccCCCCCCc
Q 035104 11 RYDVFLSFR--GEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGIS 56 (73)
Q Consensus 11 ~ydVFiSfr--g~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~ 56 (73)
+|+|=|--- ..+.....+..||+.|+..|+.+.+||++...|..+.
T Consensus 473 P~qV~Iip~~~~~~~~~~~a~~l~~~L~~~gi~v~~DDr~~~~G~K~~ 520 (568)
T TIGR00409 473 PYDVVIVVMNMKDEEQQQLAEELYSELLAQGVDVLLDDRNERAGVKFA 520 (568)
T ss_pred CeEEEEEEcCCChHHHHHHHHHHHHHHHhCCCEEEEECCCCCHHHHHH
Confidence 466644321 1213456889999999999999999998756666553
No 30
>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=65.57 E-value=6.9 Score=26.37 Aligned_cols=46 Identities=17% Similarity=0.187 Sum_probs=31.9
Q ss_pred cccEEeeceecc-----chhchHHHHHHHHhcCCcceeeccccc-CCCCCCc
Q 035104 11 RYDVFLSFRGED-----TRDNFLSHLVEALRQKKIKSFIDNEEL-SRGDGIS 56 (73)
Q Consensus 11 ~ydVFiSfrg~D-----~r~~f~~~L~~~L~~~gi~~f~D~~~l-~~G~~i~ 56 (73)
+++|+|---+++ .-...+..|+..|+..||++.+|+++- ..|..+.
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~ 61 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFN 61 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHH
Confidence 467766543322 123578999999999999999998644 5666554
No 31
>PRK07933 thymidylate kinase; Validated
Probab=65.44 E-value=21 Score=24.07 Aligned_cols=32 Identities=16% Similarity=0.193 Sum_probs=25.6
Q ss_pred Eeeceeccc--hhchHHHHHHHHhcCCcceeecc
Q 035104 15 FLSFRGEDT--RDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 15 FiSfrg~D~--r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
||.+-|.|. +.+.+..|.+.|+.+|+++..-.
T Consensus 2 ~IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~~ 35 (213)
T PRK07933 2 LIAIEGVDGAGKRTLTEALRAALEARGRSVATLA 35 (213)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 788887775 55788999999999998887543
No 32
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=62.89 E-value=23 Score=27.20 Aligned_cols=57 Identities=12% Similarity=0.256 Sum_probs=38.7
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh-cceEEEE
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE-SKISVII 72 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~-Sri~IvV 72 (73)
++||+|---+++. ...+..++..|+++||++-+|.+ +..+...+-.|-+. .+..|+|
T Consensus 476 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~----~~~l~kk~~~A~~~g~p~~iiv 533 (575)
T PRK12305 476 PVQVVIIPVADAH-NEYAEEVAKKLRAAGIRVEVDTS----NERLNKKIRNAQKQKIPYMLVV 533 (575)
T ss_pred CccEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHhcCCCEEEEE
Confidence 4689887666553 35788999999999999999975 34455555554332 4444443
No 33
>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=61.72 E-value=11 Score=21.11 Aligned_cols=27 Identities=26% Similarity=0.469 Sum_probs=22.9
Q ss_pred eeceeccchhchHHHHHHHHhcCCccee
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
++.-|+| |.+.+..+.+.|.++|++.-
T Consensus 2 vtv~G~D-rpGiv~~vt~~la~~~~nI~ 28 (75)
T cd04870 2 ITVTGPD-RPGLTSALTEVLAAHGVRIL 28 (75)
T ss_pred EEEEcCC-CCCHHHHHHHHHHHCCCCEE
Confidence 4667888 56999999999999998764
No 34
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=60.25 E-value=31 Score=26.23 Aligned_cols=58 Identities=21% Similarity=0.215 Sum_probs=38.0
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHH-hhcceEEEE
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAI-KESKISVII 72 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI-~~Sri~IvV 72 (73)
-.++|+|-.-+++. ...+-.|+..|+++|+++.+|.. ++++...+-.|- .+.++.|+|
T Consensus 273 AP~qV~IIpl~eel-~e~AlkLA~eLR~aGIrVeiDl~----srSLgKQiK~AdK~GaPfvIII 331 (387)
T PRK14938 273 NPIQVRILPVKKDF-LDFSIQVAERLRKEGIRVNVDDL----DDSLGNKIRRAGTEWIPFVIII 331 (387)
T ss_pred CcceEEEEEeChHH-HHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEE
Confidence 35677666555553 35778999999999999999863 345655555553 224444443
No 35
>smart00646 Ami_3 Ami_3.
Probab=59.85 E-value=6.9 Score=23.40 Aligned_cols=11 Identities=27% Similarity=0.625 Sum_probs=6.8
Q ss_pred CcccEEeecee
Q 035104 10 CRYDVFLSFRG 20 (73)
Q Consensus 10 ~~ydVFiSfrg 20 (73)
.+.|+|||.+-
T Consensus 7 ~~ad~~iSiH~ 17 (113)
T smart00646 7 AKADLFVSIHA 17 (113)
T ss_pred cCCCEEEEEee
Confidence 45677777653
No 36
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=59.19 E-value=24 Score=24.17 Aligned_cols=33 Identities=24% Similarity=0.399 Sum_probs=27.4
Q ss_pred EEeeceeccc--hhchHHHHHHHHhcCCcceeecc
Q 035104 14 VFLSFRGEDT--RDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 14 VFiSfrg~D~--r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
.||.+-|-|. +.+-+..|++.|+.+|+.|..-.
T Consensus 4 ~fI~iEGiDGaGKTT~~~~L~~~l~~~g~~v~~tr 38 (208)
T COG0125 4 MFIVIEGIDGAGKTTQAELLKERLEERGIKVVLTR 38 (208)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 5899988875 55678999999999999887764
No 37
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=58.27 E-value=31 Score=27.02 Aligned_cols=57 Identities=16% Similarity=0.331 Sum_probs=38.2
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHH-hhcceEEEE
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAI-KESKISVII 72 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI-~~Sri~IvV 72 (73)
+.||+|---+++. ...+..+.+.|+++|+++-+|.+ ++.+...+-.|- .+.+..|+|
T Consensus 438 P~qV~Iipi~e~~-~~~A~~Ia~~LR~~GirVelD~~----~~~lgkkir~A~k~gip~viII 495 (545)
T PRK14799 438 SVQVRVLPITDEV-NEYAEKVLNDMRKRRIRAEIDYA----GETLSKRIKNAYDQGVPYILIV 495 (545)
T ss_pred CceEEEEEcCHHH-HHHHHHHHHHHHhCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEEE
Confidence 4688777656554 35788999999999999999874 445555554442 234444443
No 38
>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=57.93 E-value=16 Score=27.77 Aligned_cols=44 Identities=11% Similarity=0.181 Sum_probs=30.3
Q ss_pred CcccEEeec---eec--cchhchHHHHHHHHhcCCcceeecccccCCCC
Q 035104 10 CRYDVFLSF---RGE--DTRDNFLSHLVEALRQKKIKSFIDNEELSRGD 53 (73)
Q Consensus 10 ~~ydVFiSf---rg~--D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~ 53 (73)
-++||+|-= ..+ +.....+..|+..|++.|+++.+|++.-..|.
T Consensus 281 aP~qV~Iipi~~~~~~~~~~~~~A~~l~~~Lr~~girv~lD~r~~s~gk 329 (472)
T TIGR00408 281 APIQVVIIPIIFKKKENEKVMEAAREVRSRLKKAGFRVHIDDRDNRPGR 329 (472)
T ss_pred CcceEEEEEccCCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHH
Confidence 347887653 322 23456889999999999999999985323333
No 39
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=57.86 E-value=12 Score=22.42 Aligned_cols=51 Identities=20% Similarity=0.326 Sum_probs=31.0
Q ss_pred ccchhchHHHHHHHHhcCCcceeecccccC----------CCCCCcHHHHHHHhhcceEEE
Q 035104 21 EDTRDNFLSHLVEALRQKKIKSFIDNEELS----------RGDGISPSLLKAIKESKISVI 71 (73)
Q Consensus 21 ~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~----------~G~~i~~~i~~aI~~Sri~Iv 71 (73)
.|+|.+=+-.|++.|.++|+.+.+-|--.. .|-.+.+.+.++++.+...|+
T Consensus 12 ~D~R~Sp~~~l~~~L~~~g~~V~~~DP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~D~vvl 72 (106)
T PF03720_consen 12 DDIRESPALELIEELKERGAEVSVYDPYVDEEEIKELGKLEGVEVCDDLEEALKGADAVVL 72 (106)
T ss_dssp S--TT-HHHHHHHHHHHTT-EEEEE-TTSHHHHHHHHCHHHCEEEESSHHHHHTTESEEEE
T ss_pred cccccCHHHHHHHHHHHCCCEEEEECCccChHHHHhhCCccceEEecCHHHHhcCCCEEEE
Confidence 588999999999999999999888542221 122223345677777766554
No 40
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=56.86 E-value=15 Score=20.33 Aligned_cols=27 Identities=15% Similarity=0.174 Sum_probs=22.6
Q ss_pred eeceeccchhchHHHHHHHHhcCCccee
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
|+..|+| |.+.+..+...|.++|++.-
T Consensus 2 i~v~g~D-~~Giv~~it~~l~~~g~nI~ 28 (74)
T cd04875 2 LTLSCPD-RPGIVAAVSGFLAEHGGNIV 28 (74)
T ss_pred EEEEcCC-CCCHHHHHHHHHHHcCCCEE
Confidence 4567888 56999999999999998764
No 41
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=54.99 E-value=17 Score=26.30 Aligned_cols=37 Identities=24% Similarity=0.439 Sum_probs=31.7
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeeccc
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
.-+|-||+.||-+-+.++..|.+.++++|++++++-.
T Consensus 130 ~~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~TN 166 (322)
T PRK13762 130 PKHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVTN 166 (322)
T ss_pred CCEEEEeCCccccchhhHHHHHHHHHHcCCCEEEECC
Confidence 3468899889988777889999999999999999864
No 42
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=54.34 E-value=13 Score=21.12 Aligned_cols=28 Identities=18% Similarity=0.286 Sum_probs=16.1
Q ss_pred CCcceeecccccCCCCCCcHHHHHHHhhcc
Q 035104 38 KKIKSFIDNEELSRGDGISPSLLKAIKESK 67 (73)
Q Consensus 38 ~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sr 67 (73)
+.|-.+.|.+. +|+....++.+......
T Consensus 47 ~~Vii~~D~D~--~G~~~a~~i~~~l~~~g 74 (81)
T PF13662_consen 47 KEVIIAFDNDK--AGEKAAQKIAKKLLPLG 74 (81)
T ss_dssp SEEEEEEESSH--HHHHHHHHHHHHHG---
T ss_pred ceEEEEeCcCH--HHHHHHHHHHHHHHhhc
Confidence 66777777653 67666666666554433
No 43
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second 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 in
Probab=53.78 E-value=18 Score=19.97 Aligned_cols=27 Identities=22% Similarity=0.367 Sum_probs=22.7
Q ss_pred eeceeccchhchHHHHHHHHhcCCccee
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
|+..|+| +.+.+..+...|.++|+++-
T Consensus 2 l~v~g~D-~~Giv~~it~~l~~~~~nI~ 28 (81)
T cd04869 2 VEVVGND-RPGIVHEVTQFLAQRNINIE 28 (81)
T ss_pred EEEEeCC-CCCHHHHHHHHHHHcCCCeE
Confidence 4567888 67999999999999998764
No 44
>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=53.77 E-value=22 Score=24.09 Aligned_cols=42 Identities=12% Similarity=0.255 Sum_probs=32.7
Q ss_pred hhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcc
Q 035104 24 RDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESK 67 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sr 67 (73)
...-+..|-.+...+||-+|.|.+ .+|+.|...|.+.+-+++
T Consensus 34 ~~~~i~~i~~~~~~rgVIIfTDpD--~~GekIRk~i~~~vp~~k 75 (174)
T TIGR00334 34 KDETINLIKKAQKKQGVIILTDPD--FPGEKIRKKIEQHLPGYE 75 (174)
T ss_pred CHHHHHHHHHHhhcCCEEEEeCCC--CchHHHHHHHHHHCCCCe
Confidence 344567788888999999999976 489999888888766554
No 45
>PRK00194 hypothetical protein; Validated
Probab=53.71 E-value=17 Score=20.79 Aligned_cols=28 Identities=11% Similarity=0.334 Sum_probs=23.7
Q ss_pred EeeceeccchhchHHHHHHHHhcCCccee
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
=+...|+| +.+.+..+...|.++|+++-
T Consensus 5 ~ltv~g~D-rpGiva~vt~~la~~g~nI~ 32 (90)
T PRK00194 5 IITVIGKD-KVGIIAGVSTVLAELNVNIL 32 (90)
T ss_pred EEEEEcCC-CCCHHHHHHHHHHHcCCCEE
Confidence 35677888 67999999999999999863
No 46
>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=53.35 E-value=11 Score=22.84 Aligned_cols=18 Identities=28% Similarity=0.405 Sum_probs=13.3
Q ss_pred chHHHHHHHHhcCCccee
Q 035104 26 NFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi~~f 43 (73)
-|++.|...|+.+||++=
T Consensus 9 ~fv~~Lk~lLk~rGi~v~ 26 (90)
T PF02337_consen 9 PFVSILKHLLKERGIRVK 26 (90)
T ss_dssp HHHHHHHHHHHCCT----
T ss_pred HHHHHHHHHHHHcCeeec
Confidence 599999999999999873
No 47
>PRK13973 thymidylate kinase; Provisional
Probab=52.22 E-value=48 Score=22.07 Aligned_cols=32 Identities=22% Similarity=0.458 Sum_probs=25.9
Q ss_pred EEeeceeccc--hhchHHHHHHHHhcCCcceeec
Q 035104 14 VFLSFRGEDT--RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 14 VFiSfrg~D~--r~~f~~~L~~~L~~~gi~~f~D 45 (73)
.||.+-|.|. +.+-+..|++.|..+|+.+..-
T Consensus 4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~ 37 (213)
T PRK13973 4 RFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVT 37 (213)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 6888888876 4567899999999999987643
No 48
>cd04914 ACT_AKi-DapG-BS_1 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the N-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria, bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive aspartokinase isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The B. subtilis AKI is tetrameric consisting of two alpha and
Probab=50.41 E-value=27 Score=19.25 Aligned_cols=31 Identities=13% Similarity=0.235 Sum_probs=23.1
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeec
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D 45 (73)
.++..+.....+++..+...|.++||++=+=
T Consensus 3 ~vtv~~~~~~~~~~a~if~~La~~~InvDmI 33 (67)
T cd04914 3 QIKVKAKDNENDLQQRVFKALANAGISVDLI 33 (67)
T ss_pred EEEEecCCCCccHHHHHHHHHHHcCCcEEEE
Confidence 3455555555678999999999999987543
No 49
>PLN02924 thymidylate kinase
Probab=50.25 E-value=61 Score=22.09 Aligned_cols=39 Identities=15% Similarity=0.163 Sum_probs=29.9
Q ss_pred CCCCCCcccEEeeceeccc--hhchHHHHHHHHhcCCccee
Q 035104 5 SSFSSCRYDVFLSFRGEDT--RDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 5 s~s~~~~ydVFiSfrg~D~--r~~f~~~L~~~L~~~gi~~f 43 (73)
+.+.+.+--.||.+-|.|. +.+-+..|.+.|+.+|+.+-
T Consensus 8 ~~~~~~~~g~~IviEGiDGsGKsTq~~~L~~~l~~~g~~v~ 48 (220)
T PLN02924 8 TESSVESRGALIVLEGLDRSGKSTQCAKLVSFLKGLGVAAE 48 (220)
T ss_pred CCCCcCCCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCce
Confidence 3344444567999999886 55678999999999999863
No 50
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=49.92 E-value=12 Score=26.02 Aligned_cols=22 Identities=18% Similarity=0.212 Sum_probs=19.2
Q ss_pred hchHHHHHHHHhcCCcceeecc
Q 035104 25 DNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
.+.+..|++.|.++|.++|+=|
T Consensus 37 STiA~ale~~L~~~G~~~y~LD 58 (197)
T COG0529 37 STIANALEEKLFAKGYHVYLLD 58 (197)
T ss_pred HHHHHHHHHHHHHcCCeEEEec
Confidence 4688999999999999999843
No 51
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=49.76 E-value=55 Score=25.44 Aligned_cols=47 Identities=13% Similarity=0.188 Sum_probs=33.6
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
..||+|-.-+++. ...+..|+..|+++|++|-+|.+ +..+...+-.|
T Consensus 539 p~~v~Ii~~~~~~-~~~a~~i~~~Lr~~gi~v~~d~~----~~~l~kki~~A 585 (638)
T PRK00413 539 PVQVVVLPITDKH-ADYAKEVAKKLKAAGIRVEVDLR----NEKIGYKIREA 585 (638)
T ss_pred cceEEEEEeChhH-HHHHHHHHHHHHhCCCEEEEECC----CCCHhHHHHHh
Confidence 4688877656543 36789999999999999999874 34454444444
No 52
>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=48.69 E-value=22 Score=19.27 Aligned_cols=35 Identities=34% Similarity=0.346 Sum_probs=24.2
Q ss_pred ccEEeeceeccchhchHHHHHHHHhcCCcceeeccc
Q 035104 12 YDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 12 ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
.||+|-.-+++.+ .-+-.+...|++.|+.+.++..
T Consensus 2 ~~v~i~~~~~~~~-~~a~~i~~~Lr~~g~~v~~~~~ 36 (91)
T cd00859 2 VDVYVVPLGEGAL-SEALELAEQLRDAGIKAEIDYG 36 (91)
T ss_pred CcEEEEEcChHHH-HHHHHHHHHHHHCCCEEEEecC
Confidence 3666665454332 3466889999999999988653
No 53
>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=48.35 E-value=59 Score=19.51 Aligned_cols=57 Identities=18% Similarity=0.282 Sum_probs=34.8
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeeccc--------cc-----C--C--CCCCcHHHHHHHhhcceEEEE
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE--------EL-----S--R--GDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~--------~l-----~--~--G~~i~~~i~~aI~~Sri~IvV 72 (73)
||+|....|. ..+ ..+.+.|.+.|+++|--.. .+ . . |..-.+.+.+.|++=.+-+||
T Consensus 3 vlisv~~~dk-~~~-~~~a~~l~~~G~~i~aT~gTa~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVI 76 (116)
T cd01423 3 ILISIGSYSK-PEL-LPTAQKLSKLGYKLYATEGTADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVI 76 (116)
T ss_pred EEEecCcccc-hhH-HHHHHHHHHCCCEEEEccHHHHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEE
Confidence 7899887763 334 4777777777777754210 11 0 0 111237888888887776665
No 54
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=48.04 E-value=24 Score=20.22 Aligned_cols=27 Identities=15% Similarity=0.345 Sum_probs=23.3
Q ss_pred eeceeccchhchHHHHHHHHhcCCccee
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
++.-|+| +.+.+..+...|.++|++.-
T Consensus 4 l~i~g~D-~pGiva~vt~~la~~g~nI~ 30 (88)
T cd04872 4 ITVVGKD-RVGIVAGVSTKLAELNVNIL 30 (88)
T ss_pred EEEEcCC-CCCHHHHHHHHHHHcCCCEE
Confidence 5677888 67999999999999998774
No 55
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=47.63 E-value=38 Score=18.95 Aligned_cols=27 Identities=22% Similarity=0.503 Sum_probs=20.6
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcC
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQK 38 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~ 38 (73)
.|+|..|+-+.|.|.. +.++.+.|++.
T Consensus 40 ~~~y~Ffvd~~~~~~~---~~~~l~~L~~~ 66 (74)
T cd04904 40 GSEYEFFVDCEVDRGD---LDQLISSLRRV 66 (74)
T ss_pred CceEEEEEEEEcChHH---HHHHHHHHHHh
Confidence 7999999999996532 56777777664
No 56
>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=47.62 E-value=28 Score=19.93 Aligned_cols=36 Identities=17% Similarity=0.128 Sum_probs=27.9
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecc
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
.+-=|+|.|---+-. ..-.+|.+.|.++|+.||.-|
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 466788888655543 456799999999999999855
No 57
>PF00113 Enolase_C: Enolase, C-terminal TIM barrel domain; InterPro: IPR020810 Enolase (2-phospho-D-glycerate hydrolase) is an essential glycolytic enzyme that catalyses the interconversion of 2-phosphoglycerate and phosphoenolpyruvate [, ]. In vertebrates, there are 3 different, tissue-specific isoenzymes, designated alpha, beta and gamma. Alpha is present in most tissues, beta is localised in muscle tissue, and gamma is found only in nervous tissue. The functional enzyme exists as a dimer of any 2 isoforms. In immature organs and in adult liver, it is usually an alpha homodimer, in adult skeletal muscle, a beta homodimer, and in adult neurons, a gamma homodimer. In developing muscle, it is usually an alpha/beta heterodimer, and in the developing nervous system, an alpha/gamma heterodimer []. The tissue specific forms display minor kinetic differences. Tau-crystallin, one of the major lens proteins in some fish, reptiles and birds, has been shown [] to be evolutionary related to enolase. Neuron-specific enolase is released in a variety of neurological diseases, such as multiple sclerosis and after seizures or acute stroke. Several tumour cells have also been found positive for neuron-specific enolase. Beta-enolase deficiency is associated with glycogenosis type XIII defect.; GO: 0000287 magnesium ion binding, 0004634 phosphopyruvate hydratase activity, 0006096 glycolysis, 0000015 phosphopyruvate hydratase complex; PDB: 2FYM_D 3H8A_C 1E9I_D 3TQP_B 2PU1_A 1OEP_A 2PA6_A 1PDY_A 1PDZ_A 3UJ2_E ....
Probab=46.72 E-value=16 Score=26.43 Aligned_cols=42 Identities=31% Similarity=0.525 Sum_probs=26.9
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCC
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGI 55 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i 55 (73)
..|.|.+|||.-+|-..|+.||.-+|....|++ .-+-+|+.+
T Consensus 227 ~g~~~vvS~rsgEteD~~iadLaVg~~a~~iK~----G~p~r~Er~ 268 (295)
T PF00113_consen 227 AGWGVVVSHRSGETEDTFIADLAVGLGAGQIKT----GAPCRGERI 268 (295)
T ss_dssp TT-EEEEE--SS--S--HHHHHHHHTT-SEEEE----ESSSSHHHH
T ss_pred CCceeeccCCCCCcCchhHHHHHhccCcCeEec----ccchhhHHH
Confidence 457899999999999999999999999887766 235566655
No 58
>PRK08350 hypothetical protein; Provisional
Probab=46.10 E-value=20 Score=26.74 Aligned_cols=33 Identities=27% Similarity=0.253 Sum_probs=29.9
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcc
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIK 41 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~ 41 (73)
...|-+.+|||.-+|-.+|+.||.-+|..-.|+
T Consensus 279 ~~g~~~vvSHRSGETeD~~IAdLaVa~~agqIK 311 (341)
T PRK08350 279 SERITPILAEAKYESADEALPHLAVGLRCPAML 311 (341)
T ss_pred HcCCeEEeecCCCCCcchhHHHHHHHhCCCccc
Confidence 356889999999999999999999999999886
No 59
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=45.02 E-value=23 Score=19.25 Aligned_cols=22 Identities=23% Similarity=0.421 Sum_probs=12.6
Q ss_pred HHHHHHHHhcCCcceeeccccc
Q 035104 28 LSHLVEALRQKKIKSFIDNEEL 49 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l 49 (73)
+..+...|+++||.+++.++..
T Consensus 12 a~~i~~~L~~~gI~~~v~~~~~ 33 (67)
T PF09413_consen 12 AELIKGLLEENGIPAFVKNEHM 33 (67)
T ss_dssp HHHHHHHHHHTT--EE--S---
T ss_pred HHHHHHHHHhCCCcEEEECCcc
Confidence 4677888999999999976543
No 60
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=44.49 E-value=76 Score=24.92 Aligned_cols=58 Identities=10% Similarity=0.116 Sum_probs=38.0
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHH-hhcceEEE
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAI-KESKISVI 71 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI-~~Sri~Iv 71 (73)
.+.+|+|-.-+++.....+..|...|+++|+++-+|.. +.++...+-.|- .+.+..|+
T Consensus 540 ap~qV~Ii~~~~~~~~~~a~~la~~LR~~Gi~veid~~----~~sl~kq~k~A~k~g~~~~ii 598 (639)
T PRK12444 540 APVQVKVIPVSNAVHVQYADEVADKLAQAGIRVERDER----DEKLGYKIREAQMQKIPYVLV 598 (639)
T ss_pred CCceEEEEEcccHHHHHHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHHHHcCCCEEEE
Confidence 45788777666521236788999999999999999864 345555555442 22344444
No 61
>PLN02734 glycyl-tRNA synthetase
Probab=44.47 E-value=34 Score=27.76 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=28.8
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccc
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEE 48 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~ 48 (73)
+.+..|+.--.+++ ....+..|+..|++.|+.+-+|+..
T Consensus 570 P~qVaIlPL~~~ee-~~~~A~eLa~~LR~~GIrVelDd~~ 608 (684)
T PLN02734 570 PIKCTVFPLVQNQQ-LNAVAKVISKELTAAGISHKIDITG 608 (684)
T ss_pred CcEEEEEEecCChH-HHHHHHHHHHHHHhCCCEEEEECCC
Confidence 55666665544433 3468899999999999999999753
No 62
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=43.46 E-value=61 Score=20.80 Aligned_cols=64 Identities=25% Similarity=0.427 Sum_probs=37.2
Q ss_pred CCcccEEeecee-ccchhchHHHH-HHHHhcCC-----cceeecccccCCCC-------CCcHHHHHHHhhcceEEEEC
Q 035104 9 SCRYDVFLSFRG-EDTRDNFLSHL-VEALRQKK-----IKSFIDNEELSRGD-------GISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 9 ~~~ydVFiSfrg-~D~r~~f~~~L-~~~L~~~g-----i~~f~D~~~l~~G~-------~i~~~i~~aI~~Sri~IvVf 73 (73)
+.++ .=+||.| ..|.++|++.| .++|-++| ++.|+-.......+ .+...|.+.+..|.-++.||
T Consensus 50 p~Kp-LVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~~hFP~~~~v~~Yk~~L~~~I~~~v~~C~rslFIF 127 (127)
T PF06309_consen 50 PRKP-LVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIATHHFPHNSNVDEYKEQLKSWIRGNVSRCPRSLFIF 127 (127)
T ss_pred CCCC-EEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeecccccCCCchHHHHHHHHHHHHHHHHHHhCCcCeeeC
Confidence 3445 3466665 46778888544 34444444 56666543333222 34556667777788788887
No 63
>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=43.22 E-value=24 Score=19.42 Aligned_cols=22 Identities=18% Similarity=0.246 Sum_probs=18.1
Q ss_pred hhchHHHHHHHHhcCCcceeec
Q 035104 24 RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D 45 (73)
..+.+..+...|.++||++|.=
T Consensus 20 ~~Gv~a~i~~~La~~~I~i~~i 41 (65)
T PF13840_consen 20 VPGVAAKIFSALAEAGINIFMI 41 (65)
T ss_dssp SHHHHHHHHHHHHHTTS-ECEE
T ss_pred cccHHHHHHHHHHHCCCCEEEE
Confidence 4578999999999999998764
No 64
>PRK13976 thymidylate kinase; Provisional
Probab=43.21 E-value=58 Score=21.98 Aligned_cols=32 Identities=22% Similarity=0.326 Sum_probs=24.3
Q ss_pred EEeeceeccc--hhchHHHHHHHHhcC-Cc-ceeec
Q 035104 14 VFLSFRGEDT--RDNFLSHLVEALRQK-KI-KSFID 45 (73)
Q Consensus 14 VFiSfrg~D~--r~~f~~~L~~~L~~~-gi-~~f~D 45 (73)
.||.|-|-|. +.+-+..|++.|+++ |+ ++...
T Consensus 1 ~fIv~EGiDGsGKsTq~~~L~~~L~~~~g~~~v~~~ 36 (209)
T PRK13976 1 MFITFEGIDGSGKTTQSRLLAEYLSDIYGENNVVLT 36 (209)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHhcCCcceEEe
Confidence 3788888876 556789999999987 74 66554
No 65
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=42.92 E-value=28 Score=20.51 Aligned_cols=47 Identities=17% Similarity=0.325 Sum_probs=23.1
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcce
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKI 68 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri 68 (73)
+++.....+..+|...|..+|...... -...+.+...+.+.+++.+.
T Consensus 42 ~~~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~l~~~~~~~l~~~~~ 88 (131)
T PF13401_consen 42 YVNCPSSRTPRDFAQEILEALGLPLKS-------RQTSDELRSLLIDALDRRRV 88 (131)
T ss_dssp EEEHHHHSSHHHHHHHHHHHHT-SSSS-------TS-HHHHHHHHHHHHHHCTE
T ss_pred EEEeCCCCCHHHHHHHHHHHhCccccc-------cCCHHHHHHHHHHHHHhcCC
Confidence 455444444556666666666555443 01123333455566665555
No 66
>PTZ00081 enolase; Provisional
Probab=42.70 E-value=21 Score=27.22 Aligned_cols=43 Identities=28% Similarity=0.485 Sum_probs=34.3
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCc
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGIS 56 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~ 56 (73)
..+.+.+|||.-+|..+|+.||.-+|....|++ .-+-+|+.+.
T Consensus 375 ~Gi~~iishrsgETed~~iadLAVa~~~~~iK~----G~~~r~er~a 417 (439)
T PTZ00081 375 NGWGVMVSHRSGETEDTFIADLVVGLGTGQIKT----GAPCRSERLA 417 (439)
T ss_pred cCCcEEEeCCCchhHHHHHHHHHHHcCCCceec----CCCcchHHHH
Confidence 467899999998899999999999999988876 2344566543
No 67
>PRK15057 UDP-glucose 6-dehydrogenase; Provisional
Probab=42.41 E-value=53 Score=24.37 Aligned_cols=51 Identities=8% Similarity=0.230 Sum_probs=37.6
Q ss_pred ccchhchHHHHHHHHhcCCcceeecccccCC----CCCCcHHHHHHHhhcceEEE
Q 035104 21 EDTRDNFLSHLVEALRQKKIKSFIDNEELSR----GDGISPSLLKAIKESKISVI 71 (73)
Q Consensus 21 ~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~----G~~i~~~i~~aI~~Sri~Iv 71 (73)
.|+|.+=+-.|.+.|..+|..+-..|-.+.. |-.+.....++++.+...|+
T Consensus 311 ~D~R~Sp~~~i~~~L~~~G~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (388)
T PRK15057 311 DNFRASSIQGIMKRIKAKGVEVIIYEPVMKEDSFFNSRLERDLATFKQQADVIIS 365 (388)
T ss_pred CccccChHHHHHHHHHhCCCEEEEECCCCCchhhcCCeeeCCHHHHHHhCCEEEE
Confidence 4889999999999999999887765432322 23355667788888887765
No 68
>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=41.61 E-value=35 Score=20.94 Aligned_cols=32 Identities=19% Similarity=0.397 Sum_probs=25.6
Q ss_pred cccEEeeceeccc----hhchHHHHHHHHhcCCcce
Q 035104 11 RYDVFLSFRGEDT----RDNFLSHLVEALRQKKIKS 42 (73)
Q Consensus 11 ~ydVFiSfrg~D~----r~~f~~~L~~~L~~~gi~~ 42 (73)
.-|+-|++...+. ...++..|.+.|.++|+-+
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 4678888887665 2579999999999999755
No 69
>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=41.39 E-value=67 Score=18.68 Aligned_cols=41 Identities=20% Similarity=0.344 Sum_probs=22.9
Q ss_pred HHHHhcCCcceeecccccCCCCCC--cHHHHHHHhhcceEEEE
Q 035104 32 VEALRQKKIKSFIDNEELSRGDGI--SPSLLKAIKESKISVII 72 (73)
Q Consensus 32 ~~~L~~~gi~~f~D~~~l~~G~~i--~~~i~~aI~~Sri~IvV 72 (73)
++.|+++||.+---.+....|+.. ...+.+.|++-+|-+||
T Consensus 23 a~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVI 65 (95)
T PF02142_consen 23 AKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVI 65 (95)
T ss_dssp HHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEE
T ss_pred HHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEE
Confidence 456788999832221122323211 12689999999998887
No 70
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=40.27 E-value=38 Score=17.47 Aligned_cols=26 Identities=23% Similarity=0.189 Sum_probs=20.8
Q ss_pred ceeccchhchHHHHHHHHhcCCcceee
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
...+| |.+.+..+...|.++|+++-.
T Consensus 5 v~~~d-rpG~l~~v~~~la~~~inI~~ 30 (66)
T PF01842_consen 5 VIVPD-RPGILADVTEILADHGINIDS 30 (66)
T ss_dssp EEEET-STTHHHHHHHHHHHTTEEEEE
T ss_pred EEcCC-CCCHHHHHHHHHHHcCCCHHH
Confidence 34555 569999999999999998754
No 71
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=39.82 E-value=84 Score=18.86 Aligned_cols=58 Identities=26% Similarity=0.304 Sum_probs=35.0
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeeccc--------c-----cCCCCC-CcHHHHHHHhh-cceEEEEC
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE--------E-----LSRGDG-ISPSLLKAIKE-SKISVIIF 73 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~--------~-----l~~G~~-i~~~i~~aI~~-Sri~IvVf 73 (73)
||||-...|. ..+ -.+.+.|.+.|++.|--.. . +.++.. =.+++...|++ -++.+||.
T Consensus 2 i~isv~d~~K-~~~-~~~a~~l~~~G~~i~AT~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn 74 (112)
T cd00532 2 VFLSVSDHVK-AML-VDLAPKLSSDGFPLFATGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVIN 74 (112)
T ss_pred EEEEEEcccH-HHH-HHHHHHHHHCCCEEEECcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEE
Confidence 6777766552 233 3677777777777764311 1 111111 13689999999 99988873
No 72
>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=39.73 E-value=28 Score=23.23 Aligned_cols=18 Identities=33% Similarity=0.597 Sum_probs=16.3
Q ss_pred HHHHHHHHhcCCcceeec
Q 035104 28 LSHLVEALRQKKIKSFID 45 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D 45 (73)
...|.++++++||++.+|
T Consensus 54 ~~~Lv~~~h~~gi~VilD 71 (316)
T PF00128_consen 54 FKELVDAAHKRGIKVILD 71 (316)
T ss_dssp HHHHHHHHHHTTCEEEEE
T ss_pred hhhhhhccccccceEEEe
Confidence 358999999999999999
No 73
>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=39.05 E-value=76 Score=18.11 Aligned_cols=59 Identities=10% Similarity=0.120 Sum_probs=39.7
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccC-------CCCCCcHHHHHHHhhcceEEEE
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELS-------RGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~-------~G~~i~~~i~~aI~~Sri~IvV 72 (73)
+|.|.+|--.+..++.+|...|.++|.++..-|-+.+ -+-...+....+++.|...|++
T Consensus 3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~~d~viiD~p~~~~~~~~~~l~~ad~viv~ 68 (104)
T cd02042 3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQYDYIIIDTPPSLGLLTRNALAAADLVLIP 68 (104)
T ss_pred EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCEEEEeCcCCCCHHHHHHHHHCCEEEEe
Confidence 4667776666667889999999999988776432222 1112345556788888877765
No 74
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=38.52 E-value=1.2e+02 Score=23.15 Aligned_cols=38 Identities=24% Similarity=0.290 Sum_probs=27.9
Q ss_pred hHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhc-ceE
Q 035104 27 FLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKES-KIS 69 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~S-ri~ 69 (73)
-...|.+.|++.||+...-- +|+.+. .++.+++++ .+-
T Consensus 15 ~~~~l~~~L~~~GV~~vFgv----pG~~~~-~l~dal~~~~~i~ 53 (564)
T PRK08155 15 GAELIVRLLERQGIRIVTGI----PGGAIL-PLYDALSQSTQIR 53 (564)
T ss_pred HHHHHHHHHHHcCCCEEEeC----CCcccH-HHHHHHhccCCce
Confidence 46789999999999776543 677765 678888765 453
No 75
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=38.48 E-value=63 Score=19.44 Aligned_cols=42 Identities=17% Similarity=0.278 Sum_probs=25.0
Q ss_pred HHHHHHHhcCCcceeecccccCCCCCCc----HHHHHHHh------hcceEEEEC
Q 035104 29 SHLVEALRQKKIKSFIDNEELSRGDGIS----PSLLKAIK------ESKISVIIF 73 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f~D~~~l~~G~~i~----~~i~~aI~------~Sri~IvVf 73 (73)
..++.-++...+..+.-|+ .||+++ .+|.+|++ +|.+.|-||
T Consensus 30 ~~~c~~~~~q~ft~kw~DE---EGDp~tiSS~~EL~EA~rl~~~n~~~~l~ihvf 81 (83)
T cd06404 30 RDMCRFHNDQPFTLKWIDE---EGDPCTISSQMELEEAFRLYELNKDSELNIHVF 81 (83)
T ss_pred HHHhCCCCCCcEEEEEECC---CCCceeecCHHHHHHHHHHHHhcCcccEEEEec
Confidence 4455555666777655333 377653 56667765 566677665
No 76
>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=38.48 E-value=84 Score=19.50 Aligned_cols=49 Identities=22% Similarity=0.435 Sum_probs=27.9
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
++++| ++=-++.++|+++... ++-++..|.....++...|++....|+|
T Consensus 9 l~~DD---GvG~~v~~~L~~~~~~---~~v~~id~gt~~~~l~~~l~~~d~viiV 57 (139)
T cd00518 9 LRGDD---GFGPAVAERLEERYLP---PGVEVIDGGTLGLELLDLLEGADRVIIV 57 (139)
T ss_pred ccccC---cHHHHHHHHHHhcCCC---CCeEEEECCCCHHHHHHHHhcCCeEEEE
Confidence 34555 4666788888776420 0011223334456777888887776665
No 77
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=38.31 E-value=39 Score=22.80 Aligned_cols=43 Identities=19% Similarity=0.251 Sum_probs=30.8
Q ss_pred ccchhchHHHHHHHHhcCCcceeecccccCCCCCCc--HHHHHHHhhcce
Q 035104 21 EDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGIS--PSLLKAIKESKI 68 (73)
Q Consensus 21 ~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~--~~i~~aI~~Sri 68 (73)
+|.+.+....+|..|.+. | -+.++++|+.++ .+|.+...-||-
T Consensus 2 ~~~~~~~~~~v~~~i~~~-I----~~g~l~pG~~LPsE~eLa~~~gVSRt 46 (251)
T PRK09990 2 KDERRPIADVVAERIERL-I----VDGVLKVGQALPSERRLCEKLGFSRS 46 (251)
T ss_pred CcccccHHHHHHHHHHHH-H----HcCCCCCCCcCcCHHHHHHHHCCCHH
Confidence 466667778888888765 3 334799999993 577777777764
No 78
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=38.27 E-value=45 Score=17.50 Aligned_cols=21 Identities=10% Similarity=0.134 Sum_probs=17.9
Q ss_pred hhchHHHHHHHHhcCCcceee
Q 035104 24 RDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~ 44 (73)
+.++...+.+.|.+.||++.+
T Consensus 14 ~~~~~~~if~~L~~~~I~v~~ 34 (66)
T cd04919 14 MIGIAGRMFTTLADHRINIEM 34 (66)
T ss_pred CcCHHHHHHHHHHHCCCCEEE
Confidence 357899999999999999854
No 79
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=37.70 E-value=88 Score=18.45 Aligned_cols=46 Identities=20% Similarity=0.304 Sum_probs=35.6
Q ss_pred eceeccchhchHHHHHHHHhcCCcceeeccc------ccCCCCCCcHHHHHHHhh
Q 035104 17 SFRGEDTRDNFLSHLVEALRQKKIKSFIDNE------ELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 17 Sfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~------~l~~G~~i~~~i~~aI~~ 65 (73)
.=+|.| ..+..+.+.-+++||.++-|.. +++-|+.|.+++.+++-+
T Consensus 21 vAKG~g---~~A~~I~~~A~e~~VPi~~~~~LAr~L~~~~ig~~IP~~ly~aVAe 72 (82)
T TIGR00789 21 VASGVG---EVAERIIEIAKKHGIPIVEDPDLVDVLLKLDLDDEIPEELYEVVAE 72 (82)
T ss_pred EEEeCC---HHHHHHHHHHHHcCCCEEeCHHHHHHHHhCCCCCccCHHHHHHHHH
Confidence 344555 4678888888999999998831 357899999999998864
No 80
>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.26 E-value=64 Score=18.25 Aligned_cols=21 Identities=19% Similarity=0.341 Sum_probs=18.6
Q ss_pred hhchHHHHHHHHhcCCcceee
Q 035104 24 RDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~ 44 (73)
..+|+..+...|.++||++-+
T Consensus 14 ~~g~~~~IF~~La~~~I~VDm 34 (75)
T cd04932 14 AQGFLAKVFGILAKHNISVDL 34 (75)
T ss_pred CcCHHHHHHHHHHHcCCcEEE
Confidence 468999999999999998865
No 81
>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=37.14 E-value=91 Score=18.44 Aligned_cols=58 Identities=19% Similarity=0.307 Sum_probs=35.4
Q ss_pred cEEeeceeccchhchHHHHHHHHhcCCcceeeccc--------cc-----CCCCCCcHHHHHHHhhcceEEEE
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE--------EL-----SRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~--------~l-----~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
.||+|....|. . -...+.+.|.+.|++.|--+. .+ .+...=.+++.+.|++=++.+||
T Consensus 2 ~vl~s~~~~~k-~-~~~~~~~~l~~~G~~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vI 72 (110)
T cd01424 2 TVFISVADRDK-P-EAVEIAKRLAELGFKLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVI 72 (110)
T ss_pred eEEEEEEcCcH-h-HHHHHHHHHHHCCCEEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEE
Confidence 37888877663 2 344777777777777764311 11 11101126888999998888876
No 82
>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=36.79 E-value=41 Score=21.09 Aligned_cols=30 Identities=13% Similarity=0.083 Sum_probs=19.8
Q ss_pred Eeeceeccchhch-HHHHHHHHhcCCcceee
Q 035104 15 FLSFRGEDTRDNF-LSHLVEALRQKKIKSFI 44 (73)
Q Consensus 15 FiSfrg~D~r~~f-~~~L~~~L~~~gi~~f~ 44 (73)
||.=.+.+..++. +.+|..+|.++|.++.+
T Consensus 1 fI~~t~~~~GKT~va~~L~~~l~~~g~~V~~ 31 (166)
T TIGR00347 1 FVTGTDTGVGKTVASSALAAKLKKAGYSVGY 31 (166)
T ss_pred CeecCCCCccHHHHHHHHHHHHHHCCCcEEE
Confidence 3333444444444 48999999999987755
No 83
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=36.62 E-value=56 Score=15.90 Aligned_cols=22 Identities=14% Similarity=0.111 Sum_probs=18.0
Q ss_pred hhchHHHHHHHHhcCCcceeec
Q 035104 24 RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D 45 (73)
..++..++.+.|.+.|+++..=
T Consensus 13 ~~~~~~~i~~~l~~~~i~i~~i 34 (60)
T cd04868 13 TPGVAAKIFSALAEAGINVDMI 34 (60)
T ss_pred CCCHHHHHHHHHHHCCCcEEEE
Confidence 3578899999999999988654
No 84
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=36.57 E-value=1.3e+02 Score=23.02 Aligned_cols=59 Identities=27% Similarity=0.356 Sum_probs=39.8
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHh-hcceEEEE
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIK-ESKISVII 72 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~-~Sri~IvV 72 (73)
....|||+..-|+++ ..-+-.|...|++.|+++=+|-. +..+...+-.|-+ +++.+|++
T Consensus 333 ~~~~~v~v~~~~~~~-~~~a~~la~~LR~~g~~~~~~~~----~r~~k~q~k~A~~~g~~~~vii 392 (429)
T COG0124 333 ETRVDVYVVPLGEDA-EPEALKLAQKLRAAGISVEVDYS----GRKLKKQFKYADKLGARFAVIL 392 (429)
T ss_pred CCCCCEEEEEcCchh-HHHHHHHHHHHHHcCCcEEEEec----cccHHHHHHHHHHCCCCEEEEE
Confidence 456899999999987 35677999999999999977743 2225444433332 25555553
No 85
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=36.41 E-value=52 Score=17.99 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=19.7
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcC
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQK 38 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~ 38 (73)
.|.|++||-+.|.... .=+.++.+.|++.
T Consensus 39 ~~~~~f~id~~~~~~~-~~~~~~l~~l~~~ 67 (75)
T cd04880 39 LWEYEFFVDFEGHIDD-PDVKEALEELKRV 67 (75)
T ss_pred CceEEEEEEEECCCCC-HHHHHHHHHHHHh
Confidence 7899999999985221 2245666777654
No 86
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=36.13 E-value=44 Score=24.63 Aligned_cols=38 Identities=24% Similarity=0.260 Sum_probs=31.2
Q ss_pred CCCCcccEEeeceeccchhchHHHHHHHHh--cCCcceeecc
Q 035104 7 FSSCRYDVFLSFRGEDTRDNFLSHLVEALR--QKKIKSFIDN 46 (73)
Q Consensus 7 s~~~~ydVFiSfrg~D~r~~f~~~L~~~L~--~~gi~~f~D~ 46 (73)
+++..||+=+||.|+. ++.+......++ .--+..|.|-
T Consensus 173 ~~~~~~DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~ 212 (329)
T COG4916 173 SSEKPVDSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDL 212 (329)
T ss_pred ccccccceeeEeehhh--hhHHHHHHHhhhcccCCceeeeec
Confidence 3478899999999997 469999999898 4568889985
No 87
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=35.61 E-value=28 Score=23.66 Aligned_cols=30 Identities=13% Similarity=0.203 Sum_probs=21.5
Q ss_pred HHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHh
Q 035104 29 SHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIK 64 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~ 64 (73)
+.||.+|+.+|. ++ -+-++++..+|+..+.
T Consensus 104 s~LY~RL~sRgY----~e--~Ki~eNiecEIfgv~~ 133 (176)
T KOG3347|consen 104 SVLYDRLKSRGY----SE--KKIKENIECEIFGVVL 133 (176)
T ss_pred hHHHHHHHHcCC----CH--HHHhhhcchHHHHHHH
Confidence 589999999994 33 2345777788876554
No 88
>PF09837 DUF2064: Uncharacterized protein conserved in bacteria (DUF2064); InterPro: IPR018641 This entry contains proteins that have no known function. ; PDB: 3CGX_A.
Probab=35.31 E-value=1.1e+02 Score=18.94 Aligned_cols=49 Identities=14% Similarity=0.268 Sum_probs=27.7
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhc
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKES 66 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~S 66 (73)
...+|++|.|.+.+.+. ....+ ....++.++ .+.|..+-..+.+|++..
T Consensus 8 ~~~~~~~l~~~~~~~~~-~~~~~---~~~~~~~~~-----~Q~g~dLG~Rm~~a~~~~ 56 (122)
T PF09837_consen 8 ADGADVVLAYTPDGDHA-AFRQL---WLPSGFSFF-----PQQGGDLGERMANAFQQA 56 (122)
T ss_dssp TSSSEEEEEE----TTH-HHHHH---HH-TTSEEE-----E--SSSHHHHHHHHHHHH
T ss_pred CCCcCEEEEEcCCccHH-HHhcc---ccCCCCEEe-----ecCCCCHHHHHHHHHHHH
Confidence 45689999999887552 22222 445556553 456888888888887765
No 89
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=35.24 E-value=71 Score=17.62 Aligned_cols=34 Identities=18% Similarity=0.339 Sum_probs=25.1
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCccee
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
+..|.|=|.-.+.| |.+.+..+...+.+.|+++-
T Consensus 2 ~~~f~~~l~i~~~d-r~GlL~dI~~~i~~~~~nI~ 35 (80)
T PF13291_consen 2 NKSFPVRLRIEAED-RPGLLADITSVISENGVNIR 35 (80)
T ss_dssp ---EEEEEEEEEE---TTHHHHHHHHHHCSSSEEE
T ss_pred CcEEEEEEEEEEEc-CCCHHHHHHHHHHHCCCCeE
Confidence 34688888888887 56899999999999998764
No 90
>PF11201 DUF2982: Protein of unknown function (DUF2982); InterPro: IPR021367 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=35.07 E-value=38 Score=22.50 Aligned_cols=26 Identities=23% Similarity=0.385 Sum_probs=19.0
Q ss_pred CcccEEeeceeccc-hhchHHHHHHHH
Q 035104 10 CRYDVFLSFRGEDT-RDNFLSHLVEAL 35 (73)
Q Consensus 10 ~~ydVFiSfrg~D~-r~~f~~~L~~~L 35 (73)
-.||+||+...-|. -..|+..|.+-+
T Consensus 124 lGYdlfi~~~~LDR~~~eFv~Llr~~~ 150 (152)
T PF11201_consen 124 LGYDLFIPASDLDRDPEEFVGLLRRYQ 150 (152)
T ss_pred cCceEEeEhhhccCCHHHHHHHHHHHH
Confidence 56999999987664 346887776654
No 91
>COG3980 spsG Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=34.82 E-value=1.1e+02 Score=22.69 Aligned_cols=52 Identities=19% Similarity=0.349 Sum_probs=35.1
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
.++||+|++-|.|.. +.+-.+.+.|.+..++.-+- +..+++.-+.+.+.+++
T Consensus 157 ~~r~ilI~lGGsDpk-~lt~kvl~~L~~~~~nl~iV---~gs~~p~l~~l~k~~~~ 208 (318)
T COG3980 157 PKRDILITLGGSDPK-NLTLKVLAELEQKNVNLHIV---VGSSNPTLKNLRKRAEK 208 (318)
T ss_pred chheEEEEccCCChh-hhHHHHHHHhhccCeeEEEE---ecCCCcchhHHHHHHhh
Confidence 479999999999975 68888888888877333221 12344444566665555
No 92
>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=34.64 E-value=52 Score=20.98 Aligned_cols=34 Identities=9% Similarity=0.051 Sum_probs=25.6
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
-+-+||.+.+.|.-..=...++++|+++|+.+=.
T Consensus 166 ~Pp~~i~~g~~D~l~~~~~~~~~~L~~~gv~v~~ 199 (211)
T PF07859_consen 166 LPPTLIIHGEDDVLVDDSLRFAEKLKKAGVDVEL 199 (211)
T ss_dssp CHEEEEEEETTSTTHHHHHHHHHHHHHTT-EEEE
T ss_pred CCCeeeeccccccchHHHHHHHHHHHHCCCCEEE
Confidence 3468999988886555567899999999997644
No 93
>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=34.63 E-value=52 Score=18.94 Aligned_cols=33 Identities=12% Similarity=-0.056 Sum_probs=22.5
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcce
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKS 42 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~ 42 (73)
.++|+.++.........+..++++.|+..|.-+
T Consensus 87 ~~~D~v~~~~~~~~~~~~l~~~~~~Lk~gG~li 119 (124)
T TIGR02469 87 PEPDRVFIGGSGGLLQEILEAIWRRLRPGGRIV 119 (124)
T ss_pred CCCCEEEECCcchhHHHHHHHHHHHcCCCCEEE
Confidence 468887776555445567888888888777533
No 94
>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=34.62 E-value=1.1e+02 Score=21.61 Aligned_cols=49 Identities=20% Similarity=0.241 Sum_probs=26.0
Q ss_pred ceeccchhchHHHHHHHHhcCCc----ceeecccccCCCC-CCcHHHHHHHhhcce
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKI----KSFIDNEELSRGD-GISPSLLKAIKESKI 68 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi----~~f~D~~~l~~G~-~i~~~i~~aI~~Sri 68 (73)
+...|-..+.+..|.+.|++.|+ .+-... .+.+|+ .+. .+++.|++++.
T Consensus 161 ~~~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~-~~~~~~~d~~-~~l~~ik~~~~ 214 (377)
T cd06379 161 VSDDHEGRAAQKRFETLLEEREIEFKIKVEKVV-EFEPGEKNVT-SLLQEAKELTS 214 (377)
T ss_pred EEcCcchhHHHHHHHHHHHhcCCccceeeeEEE-ecCCchhhHH-HHHHHHhhcCC
Confidence 33334344567778888888887 332222 344443 333 44555665444
No 95
>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=34.49 E-value=1.5e+02 Score=20.12 Aligned_cols=52 Identities=15% Similarity=0.176 Sum_probs=27.5
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeecccccCCC-CCCcHHHHHHHhhcceEEE
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRG-DGISPSLLKAIKESKISVI 71 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G-~~i~~~i~~aI~~Sri~Iv 71 (73)
+...+.....+..|.+.|+++|+++-... .+.+| ..+. .+++.|+++..-+|
T Consensus 142 ~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~d~~-~~l~~i~~~~~~~v 194 (334)
T cd06342 142 DDKTAYGQGLADEFKKALKAAGGKVVARE-GTTDGATDFS-AILTKIKAANPDAV 194 (334)
T ss_pred eCCcchhhHHHHHHHHHHHHcCCEEEEEe-cCCCCCccHH-HHHHHHHhcCCCEE
Confidence 33333344566677777777777654332 34444 3333 45555666544333
No 96
>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=34.15 E-value=83 Score=20.09 Aligned_cols=35 Identities=29% Similarity=0.406 Sum_probs=22.2
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcc
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESK 67 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sr 67 (73)
...|.+.|++.||+.+.-- +|..+. .+++++++++
T Consensus 4 ~~~l~~~L~~~Gv~~vfgv----pG~~~~-~l~~al~~~~ 38 (172)
T PF02776_consen 4 AEALAEALKANGVTHVFGV----PGSGNL-PLLDALEKSP 38 (172)
T ss_dssp HHHHHHHHHHTT-SEEEEE------GGGH-HHHHHHHHTT
T ss_pred HHHHHHHHHHCCCeEEEEE----eChhHh-HHHHHhhhhc
Confidence 4567888888888766542 566655 4778887773
No 97
>COG3147 DedD Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.13 E-value=48 Score=23.47 Aligned_cols=32 Identities=25% Similarity=0.485 Sum_probs=23.1
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeecccccCCCC
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGD 53 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~ 53 (73)
|...|. +.+|...|+..|++.|+....-..|+
T Consensus 159 l~n~dr----anel~~~Lr~~G~~ayi~~~~p~qg~ 190 (226)
T COG3147 159 LKNADR----ANELVAKLRGAGYRAYIEPSTPVQGD 190 (226)
T ss_pred hhhHHH----HHHHHHHHHhCCCceeecccCCCCCc
Confidence 555552 56899999999999999864444443
No 98
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=33.37 E-value=1.5e+02 Score=21.85 Aligned_cols=49 Identities=22% Similarity=0.374 Sum_probs=37.5
Q ss_pred chhchHHHHHHHHhcCCc--ceeecccccCCCC-CCcHHHHHHHhhcceEEE
Q 035104 23 TRDNFLSHLVEALRQKKI--KSFIDNEELSRGD-GISPSLLKAIKESKISVI 71 (73)
Q Consensus 23 ~r~~f~~~L~~~L~~~gi--~~f~D~~~l~~G~-~i~~~i~~aI~~Sri~Iv 71 (73)
+...|-..|..+|.+..- .+|+.++.-.-|. .+++.++++++.+...++
T Consensus 191 sQ~~Fe~~l~~~l~~~~~~~~i~vE~Es~~IG~~~lP~~l~~~m~~~~~v~i 242 (345)
T PRK11784 191 SQKDFENLLAEALLKLDPARPIVVEDESRRIGRVHLPEALYEAMQQAPIVVV 242 (345)
T ss_pred chHHHHHHHHHHHHcCCCCCeEEEEeccccccCccCCHHHHHHHhhCCEEEE
Confidence 556899999999977543 6777765556675 578999999999877654
No 99
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=33.33 E-value=1.2e+02 Score=23.45 Aligned_cols=63 Identities=17% Similarity=0.267 Sum_probs=43.3
Q ss_pred CcccEEeeceeccc----hhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 10 CRYDVFLSFRGEDT----RDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 10 ~~ydVFiSfrg~D~----r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
.-++.|.++-|.-| .+.|...+.+.|++.|+..-+=-..=-....-...+.+.||.+.|-+|.
T Consensus 303 ~l~~~fy~t~G~gt~~~~a~~~g~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~ 369 (431)
T TIGR01917 303 ELFKYFYSTTGNGTAVANSKQFAKEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVH 369 (431)
T ss_pred cccCeeEEccCCCccHHHHHHHHHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEE
Confidence 34788999888766 4569999999999999976553211112223334677999998887664
No 100
>smart00851 MGS MGS-like domain. 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. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=33.27 E-value=98 Score=17.67 Aligned_cols=37 Identities=24% Similarity=0.437 Sum_probs=23.2
Q ss_pred HHHHhcCCccee-ecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 32 VEALRQKKIKSF-IDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 32 ~~~L~~~gi~~f-~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
++.|++.|+.+= ... .+ ++.. +.+.+.|++-++.+||
T Consensus 23 a~~L~~~Gi~~~~~~~-ki--~~~~-~~i~~~i~~g~id~VI 60 (90)
T smart00851 23 AKFLREAGLPVKTLHP-KV--HGGI-LAILDLIKNGEIDLVI 60 (90)
T ss_pred HHHHHHCCCcceeccC-CC--CCCC-HHHHHHhcCCCeEEEE
Confidence 345677898762 221 12 2222 5788999999988876
No 101
>KOG3997 consensus Major apurinic/apyrimidinic endonuclease/3'-repair diesterase APN1 [Replication, recombination and repair]
Probab=33.01 E-value=81 Score=22.79 Aligned_cols=55 Identities=20% Similarity=0.378 Sum_probs=37.6
Q ss_pred EEeeceecc------chhchHHHHHHHHhcCCcceeecccccCCCCC-----------CcHHHHHHHhhcceEEEEC
Q 035104 14 VFLSFRGED------TRDNFLSHLVEALRQKKIKSFIDNEELSRGDG-----------ISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 14 VFiSfrg~D------~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~-----------i~~~i~~aI~~Sri~IvVf 73 (73)
-||++..+| .+..|++.|. +-++-||-.| +++||.. |...|..|+++.+-.++|+
T Consensus 73 YliN~~npd~ek~eks~~~~vDdl~-Rce~LGIgmY----N~HPGSt~~~~kee~l~~ia~~in~a~eetk~V~ivl 144 (281)
T KOG3997|consen 73 YLINAGNPDAEKLEKSRECFVDDLQ-RCEKLGIGMY----NFHPGSTVGKEKEECLTTIAETINFAVEETKNVIIVL 144 (281)
T ss_pred hhcccCCccHHHHHHHHHHHHHHHH-HHHHhCceee----ecCCCccccccHHHHHHHHHHHHHHHHHhccceEEEe
Confidence 478888887 3445666654 3466788777 3666643 5667788999988888774
No 102
>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=32.92 E-value=95 Score=22.69 Aligned_cols=62 Identities=16% Similarity=0.182 Sum_probs=35.0
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCC-------CCcHHHHHHHhhcceEEEE
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGD-------GISPSLLKAIKESKISVII 72 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~-------~i~~~i~~aI~~Sri~IvV 72 (73)
.|++=..| +...|-.++.+..|.++++++|+.+-..+ .+.++. .+...+.+.|++++.=+||
T Consensus 171 ~w~~Vaii-~~~d~yG~~~~~~f~~~~~~~GicIa~~e-~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVv 239 (403)
T cd06361 171 GWNWVGII-ITDDDYGRSALETFIIQAEANGVCIAFKE-ILPASLSDNTKLNRIIRTTEKIIEENKVNVIV 239 (403)
T ss_pred CCcEEEEE-EecCchHHHHHHHHHHHHHHCCeEEEEEE-EecCccCcchhHHHHHHHHHHHHhcCCCeEEE
Confidence 34443333 44455566788999999999998664433 344442 2223444556655554433
No 103
>KOG3573 consensus Caspase, apoptotic cysteine protease [Cell cycle control, cell division, chromosome partitioning]
Probab=32.78 E-value=32 Score=24.37 Aligned_cols=29 Identities=21% Similarity=0.337 Sum_probs=24.3
Q ss_pred cEEeeceeccchhchHHHHHHHHhcCCcc
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALRQKKIK 41 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~~~gi~ 41 (73)
+=|.|||.++....|+.-|+..|.+++-.
T Consensus 229 ~g~~s~R~~~~gsw~Iq~Lc~~~~~~~~~ 257 (300)
T KOG3573|consen 229 PGYVSWRDPTKGSWFIQSLCEVLQEYAKS 257 (300)
T ss_pred CCceeeecCCCceeeHHHHHHHHHHhcch
Confidence 33778898888889999999999988765
No 104
>PHA02558 uvsW UvsW helicase; Provisional
Probab=32.78 E-value=74 Score=24.15 Aligned_cols=46 Identities=11% Similarity=0.176 Sum_probs=33.2
Q ss_pred CcccEEeecee--ccchhchHHHHHHHHhcCCcceeecccccCCCCCCc
Q 035104 10 CRYDVFLSFRG--EDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGIS 56 (73)
Q Consensus 10 ~~ydVFiSfrg--~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~ 56 (73)
..||-.|++-. ....+++...|..-|++.|+.+++|++ ...|+.++
T Consensus 46 ~~~~~~i~~~~~~~~~prG~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~ 93 (501)
T PHA02558 46 GGWDGKIRLLDYNGLLPYGLVGQLKKFAKNRGYSIWVDPR-IEENEDIS 93 (501)
T ss_pred CCCCceEEEeccCCCcccchHHHHHHHHHhcCCeEecCcc-cccCCCCC
Confidence 34555555433 123568999999999999999999874 67777776
No 105
>cd06070 H2MP_like-2 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). 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 hydrogenases 3). This cleavage is nickel dependent.
Probab=32.54 E-value=1.1e+02 Score=19.15 Aligned_cols=45 Identities=36% Similarity=0.431 Sum_probs=26.3
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
++++| +|=-++.++|+++|+.+. | |.....++..-|++....|+|
T Consensus 9 l~~DD---g~G~~v~~~L~~~~v~vi-~------~g~~~~~ll~~i~~~d~viiV 53 (140)
T cd06070 9 LYGDD---GFGSCLAEALEQCGAPVF-D------GGLDGFGLLSHLENYDIVIFI 53 (140)
T ss_pred hcccC---cHHHHHHHHHhhCCCEEE-E------CCCcHHHHHHHHcCCCEEEEE
Confidence 45555 455677777777666432 2 222345666667776666654
No 106
>PRK13187 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=32.48 E-value=98 Score=22.73 Aligned_cols=44 Identities=25% Similarity=0.289 Sum_probs=32.3
Q ss_pred hchHHHHHHHHhcCCcc---eeecccccCCCCCCcHHHHHHHhhcce
Q 035104 25 DNFLSHLVEALRQKKIK---SFIDNEELSRGDGISPSLLKAIKESKI 68 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~---~f~D~~~l~~G~~i~~~i~~aI~~Sri 68 (73)
-.=+.||.+||..-||. +-+|-.|+.-.|.-+..-+++|++..+
T Consensus 85 V~TVEHLlAAL~glgIDN~~Ievdg~EvPIlDGSA~~fv~~i~~aGi 131 (304)
T PRK13187 85 VRTVEHLLASLLACEIDHAIVELDAEEVPILDGSATPWVDAIRACGR 131 (304)
T ss_pred EeeHHHHHHHHHhCCCceEEEEeCCCCCCcccCCHHHHHHHHHhcCC
Confidence 34579999999998864 455666777666666677788888765
No 107
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=32.35 E-value=92 Score=23.73 Aligned_cols=47 Identities=19% Similarity=0.146 Sum_probs=33.6
Q ss_pred EEeeceeccchhchH-HHHHHHHhcCCcceeecccccCCC-CCCcHHHHHHHh
Q 035104 14 VFLSFRGEDTRDNFL-SHLVEALRQKKIKSFIDNEELSRG-DGISPSLLKAIK 64 (73)
Q Consensus 14 VFiSfrg~D~r~~f~-~~L~~~L~~~gi~~f~D~~~l~~G-~~i~~~i~~aI~ 64 (73)
+||+=-+.+..++++ --|.++|+++|.+|. -+++| |.|.+...+++.
T Consensus 4 ~~i~~~~s~~GKT~vt~gl~~~l~~~g~~v~----~~K~Gpd~iD~~~~~~~~ 52 (433)
T PRK13896 4 FVLGGTSSGVGKTVATLATIRALEDAGYAVQ----PAKAGPDFIDPSHHEAVA 52 (433)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHHHHCCCeeE----EEeeCCCCCCHHHHHHHh
Confidence 677777778877887 678899999998772 34456 566776666553
No 108
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=32.18 E-value=1.6e+02 Score=20.45 Aligned_cols=57 Identities=11% Similarity=0.058 Sum_probs=29.8
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEE
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVI 71 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~Iv 71 (73)
|.+-+...+-.+..+..+..++++.|+.+-... .+..++.=...+++.|+.++.-+|
T Consensus 147 v~~l~~~~~~g~~~~~~~~~~~~~~G~~vv~~~-~~~~~~~d~~~~i~~l~~~~~d~v 203 (347)
T cd06340 147 VALVHEDTEFGTSVAEAIKKFAKERGFEIVEDI-SYPANARDLTSEVLKLKAANPDAI 203 (347)
T ss_pred EEEEecCchHhHHHHHHHHHHHHHcCCEEEEee-ccCCCCcchHHHHHHHHhcCCCEE
Confidence 444443333334566667777777777765332 355443222345555666555443
No 109
>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=32.14 E-value=66 Score=19.01 Aligned_cols=28 Identities=18% Similarity=0.151 Sum_probs=20.1
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
+++|++|+. .-+-...+.++++|.++.-
T Consensus 51 I~iS~sG~t---~e~~~~~~~a~~~g~~vi~ 78 (126)
T cd05008 51 IAISQSGET---ADTLAALRLAKEKGAKTVA 78 (126)
T ss_pred EEEeCCcCC---HHHHHHHHHHHHcCCeEEE
Confidence 477888874 2466788888889977753
No 110
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=31.99 E-value=43 Score=20.30 Aligned_cols=28 Identities=18% Similarity=0.341 Sum_probs=21.9
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeec
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D 45 (73)
|||...-.....++-+.|.++|+.+|..
T Consensus 31 yR~~G~~~~v~~~~~~~L~~~g~P~Y~h 58 (89)
T PF08444_consen 31 YRGQGLMSQVMYHLAQYLHKLGFPFYGH 58 (89)
T ss_pred HhcCCHHHHHHHHHHHHHHHCCCCeEee
Confidence 6666555556688899999999999875
No 111
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=31.59 E-value=94 Score=21.40 Aligned_cols=25 Identities=28% Similarity=0.433 Sum_probs=20.8
Q ss_pred cchhchHHHHHHHHhcCC--cceeecc
Q 035104 22 DTRDNFLSHLVEALRQKK--IKSFIDN 46 (73)
Q Consensus 22 D~r~~f~~~L~~~L~~~g--i~~f~D~ 46 (73)
|+..+|+-+|+..|.+-| +.|+.+|
T Consensus 8 DNyDSFtyNLv~yl~~lg~~v~V~rnd 34 (191)
T COG0512 8 DNYDSFTYNLVQYLRELGAEVTVVRND 34 (191)
T ss_pred ECccchHHHHHHHHHHcCCceEEEECC
Confidence 566799999999999977 7777765
No 112
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=31.52 E-value=57 Score=21.60 Aligned_cols=27 Identities=37% Similarity=0.351 Sum_probs=22.1
Q ss_pred ccchhchHHHHHHHHhcCCcceeeccc
Q 035104 21 EDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 21 ~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
.|+...|...|-++|+++|+-+--|+.
T Consensus 59 q~~~D~Fg~aL~~aLR~~GYaV~e~~~ 85 (151)
T PRK13883 59 QPTPDAFGQALVKALRDKGYALLEYNP 85 (151)
T ss_pred cCCCcHHHHHHHHHHHHcCeEEEecCC
Confidence 355568999999999999999876554
No 113
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.52 E-value=59 Score=17.52 Aligned_cols=20 Identities=15% Similarity=0.165 Sum_probs=17.1
Q ss_pred hchHHHHHHHHhcCCcceee
Q 035104 25 DNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~ 44 (73)
.++...++.+|.+.||++.+
T Consensus 14 ~~~~~~i~~aL~~~~I~v~~ 33 (65)
T cd04918 14 SLILERAFHVLYTKGVNVQM 33 (65)
T ss_pred ccHHHHHHHHHHHCCCCEEE
Confidence 35888999999999999865
No 114
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=31.34 E-value=76 Score=23.06 Aligned_cols=31 Identities=35% Similarity=0.482 Sum_probs=21.5
Q ss_pred ceeccchhchHHHHHHHHhcCC---cceeecccccCC
Q 035104 18 FRGEDTRDNFLSHLVEALRQKK---IKSFIDNEELSR 51 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~g---i~~f~D~~~l~~ 51 (73)
++|+-+| +.+|.++|..+| -...+||+.+.-
T Consensus 11 ~SGKstr---A~~L~~~l~~~~~K~~v~ii~deslg~ 44 (281)
T KOG3062|consen 11 CSGKSTR---AVELREALKERGTKQSVRIIDDESLGI 44 (281)
T ss_pred CCCchhH---HHHHHHHHHhhcccceEEEechhhcCC
Confidence 4677655 789999999988 445566655543
No 115
>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=30.81 E-value=36 Score=22.35 Aligned_cols=54 Identities=31% Similarity=0.439 Sum_probs=35.0
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeecc-cccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN-EELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~-~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
++=.||+..+. .|.+.|+++|+.+..-. -+. +.....+.+.+.+...++.+|+|
T Consensus 120 vl~~~g~~~~~----~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~~v~f 174 (231)
T PF02602_consen 120 VLILRGEGGRP----DLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEIDAVVF 174 (231)
T ss_dssp EEEEESSSSCH----HHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTSEEEE
T ss_pred EEEEcCCCccH----HHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCCEEEE
Confidence 55577776653 57788888997765421 111 23445677888888888877765
No 116
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=30.79 E-value=1.1e+02 Score=22.56 Aligned_cols=45 Identities=20% Similarity=0.201 Sum_probs=35.9
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeec-------ccccCCCCCCcHHHHHHHhh
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFID-------NEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D-------~~~l~~G~~i~~~i~~aI~~ 65 (73)
-+|.| ..+..+.+--+++||.+.-| .++.+.|+.|++++.+|+.+
T Consensus 283 AKG~d---~~A~~Ir~iA~e~~VPiven~pLAR~Ly~~~evg~~IP~ely~aVA~ 334 (342)
T TIGR01404 283 CKGTD---AQALAVRAYAEEAGIPVVRDIPLARQLYRTARVGQYIPEELFEAVAE 334 (342)
T ss_pred EeeCc---HHHHHHHHHHHHcCCCEeeCHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence 34666 46788888889999999987 23467899999999999865
No 117
>TIGR00325 lpxC UDP-3-0-acyl N-acetylglucosamine deacetylase. UDP-3-O-(R-3-hydroxymyristoyl)-GlcNAc deacetylase from E. coli, LpxC, was previously designated EnvA. This enzyme is involved in lipid-A precursor biosynthesis. It is essential for cell viability.
Probab=30.64 E-value=1.1e+02 Score=22.40 Aligned_cols=43 Identities=23% Similarity=0.295 Sum_probs=31.7
Q ss_pred chHHHHHHHHhcCCcc---eeecccccCCCCCCcHHHHHHHhhcce
Q 035104 26 NFLSHLVEALRQKKIK---SFIDNEELSRGDGISPSLLKAIKESKI 68 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi~---~f~D~~~l~~G~~i~~~i~~aI~~Sri 68 (73)
.=+.||.+||..-||. +-+|-.|+.-.|.-+-.-+++|++..+
T Consensus 73 ~TVEHLmAAL~glgIDN~~Ieidg~EvPIlDGSa~~fv~~i~~aGi 118 (297)
T TIGR00325 73 STVEHLLAALAALGIDNLRIEVNAPEIPIMDGSALPFLYLLLDAGI 118 (297)
T ss_pred EeHHHHHHHHHhCCCceEEEEeCCCCCCccCCchHHHHHHHHhcCC
Confidence 4579999999998863 445666676666666677788888765
No 118
>cd04891 ACT_AK-LysC-DapG-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins. This CD includes the N-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the first and third, of four, ACT domains present in cyanobacteria AK. Also included are the N-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (Bacillus subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.31 E-value=78 Score=15.63 Aligned_cols=24 Identities=13% Similarity=0.159 Sum_probs=19.1
Q ss_pred ccchhchHHHHHHHHhcCCcceee
Q 035104 21 EDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 21 ~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
.....++...+...|.+.|+++.+
T Consensus 8 ~~~~~~~~~~i~~~L~~~~i~i~~ 31 (61)
T cd04891 8 VPDKPGVAAKIFSALAEAGINVDM 31 (61)
T ss_pred CCCCCcHHHHHHHHHHHcCCcEEE
Confidence 333457888999999999999865
No 119
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.18 E-value=1e+02 Score=17.73 Aligned_cols=22 Identities=14% Similarity=0.170 Sum_probs=19.0
Q ss_pred hhchHHHHHHHHhcCCcceeec
Q 035104 24 RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D 45 (73)
..+|+..+...|.+.||++-+=
T Consensus 14 ~~g~~a~IF~~La~~~InVDmI 35 (78)
T cd04933 14 QYGFLAKVFSIFETLGISVDVV 35 (78)
T ss_pred ccCHHHHHHHHHHHcCCcEEEE
Confidence 4689999999999999998653
No 120
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=30.00 E-value=1.5e+02 Score=22.02 Aligned_cols=45 Identities=24% Similarity=0.420 Sum_probs=35.2
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
-.|.| ..+..+.+.-+++||.++-|. +..+.|+.|++++.+|+.+
T Consensus 284 akG~~---~~A~~I~~~A~~~~vPi~~~~~LAr~Ly~~~~~g~~IP~~ly~aVA~ 335 (347)
T TIGR00328 284 AKGVD---ELALKIKEIARENNVPIVENPPLARALYRQVEIGQEIPPELYKAVAE 335 (347)
T ss_pred EeeCc---HHHHHHHHHHHHcCCCEEeCHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence 34555 356788888899999999882 3467899999999999865
No 121
>PRK13186 lpxC UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=29.99 E-value=1.2e+02 Score=22.21 Aligned_cols=44 Identities=25% Similarity=0.287 Sum_probs=32.2
Q ss_pred hchHHHHHHHHhcCCcc---eeecccccCCCCCCcHHHHHHHhhcce
Q 035104 25 DNFLSHLVEALRQKKIK---SFIDNEELSRGDGISPSLLKAIKESKI 68 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~---~f~D~~~l~~G~~i~~~i~~aI~~Sri 68 (73)
-.=+.||.+||..-||. +-+|-.|+.-.|.-+-.-+++|++..+
T Consensus 73 V~TVEHllAAL~glgIDN~~Ievdg~EvPIlDGSA~~fv~~i~~aGi 119 (295)
T PRK13186 73 VSTVEHLMAALAGLGIDNALIEVDGPEVPIMDGSAAPFVFLIQSAGI 119 (295)
T ss_pred EEeHHHHHHHHHhCCCceEEEEeCCCCCCCccCCHHHHHHHHHHCCC
Confidence 34579999999998864 445666676666666677888888754
No 122
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=29.96 E-value=1.9e+02 Score=20.80 Aligned_cols=39 Identities=15% Similarity=0.078 Sum_probs=25.0
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcc
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESK 67 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sr 67 (73)
...|.++|+..|+.+-.... ...++.-..++++.|+++.
T Consensus 157 ~~~l~~~~~~~gi~v~~~~~-~~~~~~d~~~~l~~ik~~~ 195 (387)
T cd06386 157 LEGVHHVFQEEGYHMSIYPF-DETKDLDLDEIIRAIQASE 195 (387)
T ss_pred HHHHHHHHHhcCceEEEEec-CCCCcccHHHHHHHHHhcC
Confidence 77888999999988765432 2344433456666666544
No 123
>PF09314 DUF1972: Domain of unknown function (DUF1972); InterPro: IPR015393 This domain is functionally uncharacterised and found in bacterial glycosyltransferases and rhamnosyltransferases.
Probab=29.90 E-value=85 Score=21.20 Aligned_cols=40 Identities=23% Similarity=0.374 Sum_probs=29.1
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCC
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSR 51 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~ 51 (73)
.++||++-+. ..+ -.|+..+...|.+.|+++.+.-+.+|+
T Consensus 91 ~~~~ii~ilg-~~~-g~~~~~~~r~~~~~g~~v~vN~DGlEW 130 (185)
T PF09314_consen 91 IKYDIILILG-YGI-GPFFLPFLRKLRKKGGKVVVNMDGLEW 130 (185)
T ss_pred ccCCEEEEEc-CCc-cHHHHHHHHhhhhcCCcEEECCCcchh
Confidence 3567766552 211 258899999999999999998777764
No 124
>PF09673 TrbC_Ftype: Type-F conjugative transfer system pilin assembly protein; InterPro: IPR019106 This entry represents TrbC, a protein that is an essential component of the F-type conjugative pilus assembly system (aka type 4 secretion system) for the transfer of plasmid DNA [, ]. The N-terminal portion of these proteins is heterogeneous.
Probab=29.59 E-value=1.4e+02 Score=18.28 Aligned_cols=28 Identities=21% Similarity=0.381 Sum_probs=16.5
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
||+|++=++. =+..|.+..++.|+.+-+
T Consensus 2 iFvS~SMP~~---~L~~l~~~a~~~~~~~V~ 29 (113)
T PF09673_consen 2 IFVSFSMPDA---SLRNLLKQAERAGVVVVF 29 (113)
T ss_pred EEEECCCCHH---HHHHHHHHHHhCCcEEEE
Confidence 6888877763 244555555555654433
No 125
>PRK06298 type III secretion system protein; Validated
Probab=29.48 E-value=1.2e+02 Score=22.55 Aligned_cols=44 Identities=16% Similarity=0.072 Sum_probs=34.8
Q ss_pred eeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
.|.| ..+..+.+.-+++||.+.-|. ++.+.|+.|++++.+|+-+
T Consensus 286 KG~d---~~A~~Ir~iA~e~~VPiven~pLARaLy~~~evg~~IP~ely~AVA~ 336 (356)
T PRK06298 286 MGIN---LRAKRIIAEAEKYGVPIMRNVPLAHQLLDEGKELKFIPESTYEAIGE 336 (356)
T ss_pred eeCc---HHHHHHHHHHHHcCCCEEeCHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence 4555 357788888899999999872 3467899999999999864
No 126
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=29.13 E-value=1.2e+02 Score=21.82 Aligned_cols=43 Identities=33% Similarity=0.625 Sum_probs=28.9
Q ss_pred HHHHHHHhcCCcceeecccccCCCC-------CCcHHHHHHHhhcceEEE
Q 035104 29 SHLVEALRQKKIKSFIDNEELSRGD-------GISPSLLKAIKESKISVI 71 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f~D~~~l~~G~-------~i~~~i~~aI~~Sri~Iv 71 (73)
.+..++|+++|+.+--|.+++..|+ .++++..+.+++-.+-|+
T Consensus 41 ~~vv~~L~~~Gv~~v~~~~~~~~g~~ViirAHGv~~~~~~~l~~~g~~vi 90 (281)
T PF02401_consen 41 PQVVERLEKRGVKVVDDIDEVPEGDTVIIRAHGVPPEVYEELKERGLEVI 90 (281)
T ss_dssp HHHHHHHHHCTEEEESSGCGS-TTEEEEE-TT---HHHHHHHHHTTEEEE
T ss_pred HHHHHHHHHCCCEEecCccccCCCCEEEEeCCCCCHHHHHHHHHcCCEEE
Confidence 3667899999998876656777775 357888888777665543
No 127
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=29.11 E-value=1.2e+02 Score=22.56 Aligned_cols=44 Identities=14% Similarity=0.275 Sum_probs=34.7
Q ss_pred eeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
.|.| ..+..+.+.-+++||.+.-|. +..+.|+.|++++.+|+.+
T Consensus 294 KG~d---~~A~~Ir~~A~e~~VPiven~pLARaLy~~~evg~~IP~ely~AVA~ 344 (358)
T PRK13109 294 KGQD---LIALKIREIAEENGIPVIEDKPLARSLYDAVQVDQVIPAEFYRPVAQ 344 (358)
T ss_pred EeCc---HHHHHHHHHHHHcCCCEEeCHHHHHHHHHhCCCCCcCCHHHHHHHHH
Confidence 3555 367788888899999999872 3467899999999998764
No 128
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=28.94 E-value=70 Score=21.81 Aligned_cols=25 Identities=16% Similarity=0.335 Sum_probs=21.4
Q ss_pred chhchHHHHHHHHhcCCcceeeccc
Q 035104 23 TRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 23 ~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
....|+..|.++++++|+++.+|-.
T Consensus 51 lq~~fl~~l~~~~k~~gi~~~leTn 75 (213)
T PRK10076 51 MQAEFATRFLQRLRLWGVSCAIETA 75 (213)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEECC
Confidence 3556899999999999999999864
No 129
>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=28.64 E-value=86 Score=17.02 Aligned_cols=10 Identities=10% Similarity=0.208 Sum_probs=4.4
Q ss_pred hcCCcceeec
Q 035104 36 RQKKIKSFID 45 (73)
Q Consensus 36 ~~~gi~~f~D 45 (73)
.++.+-+++.
T Consensus 46 ~~~d~~i~iS 55 (87)
T cd04795 46 RKGDVVIALS 55 (87)
T ss_pred CCCCEEEEEE
Confidence 3344444444
No 130
>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=28.60 E-value=85 Score=18.39 Aligned_cols=27 Identities=19% Similarity=0.370 Sum_probs=17.9
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCccee
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
+++|++|+. + -...+.+.++++|.++-
T Consensus 58 i~is~sg~~--~-~~~~~~~~ak~~g~~vi 84 (131)
T PF01380_consen 58 IIISYSGET--R-ELIELLRFAKERGAPVI 84 (131)
T ss_dssp EEEESSSTT--H-HHHHHHHHHHHTTSEEE
T ss_pred Eeeeccccc--h-hhhhhhHHHHhcCCeEE
Confidence 467777764 2 34466668999997763
No 131
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=28.53 E-value=1.3e+02 Score=22.33 Aligned_cols=45 Identities=22% Similarity=0.328 Sum_probs=35.4
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeec-------ccccCCCCCCcHHHHHHHhh
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFID-------NEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D-------~~~l~~G~~i~~~i~~aI~~ 65 (73)
-.|.| ..+..+.+.-+++||.+.-| .++.+.|+.|++++.+|+-+
T Consensus 284 AKG~d---~~A~~Ir~iA~e~~VPiven~pLARaLY~~~~vg~~IP~ely~aVA~ 335 (349)
T PRK12721 284 EKGKD---AQALHIVKLAERNGIPVVENIPLARALFKEVECGDYIPETLFEPVAA 335 (349)
T ss_pred EEeCc---HHHHHHHHHHHHcCCCEEeCHHHHHHHHHhCCCCCcCCHHHHHHHHH
Confidence 34666 35778888889999999977 23567899999999999864
No 132
>cd07238 Glo_EDI_BRP_like_5 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structure of this family is a that of a strand-swapped dimer.
Probab=28.50 E-value=76 Score=18.00 Aligned_cols=28 Identities=11% Similarity=0.016 Sum_probs=20.3
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeeccc
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
-+.+.-+| +..+++.|+++|+.+..+..
T Consensus 60 ~i~~~v~d-----~~~~~~~l~~~G~~~~~~~~ 87 (112)
T cd07238 60 DLSIEVDD-----VDAALARAVAAGFAIVYGPT 87 (112)
T ss_pred EEEEEeCC-----HHHHHHHHHhcCCeEecCCc
Confidence 35565555 46889999999998876543
No 133
>cd08359 Glo_EDI_BRP_like_22 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=28.49 E-value=1.2e+02 Score=17.23 Aligned_cols=29 Identities=17% Similarity=0.302 Sum_probs=21.7
Q ss_pred cEEeeceeccchhchHHHHHHHHhcCCcceeecc
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
.+.++|.-+| +..+++.|.++|+++....
T Consensus 67 ~~~~~~~v~d-----id~~~~~l~~~G~~~~~~~ 95 (119)
T cd08359 67 GLILNFEVDD-----VDAEYERLKAEGLPIVLPL 95 (119)
T ss_pred eEEEEEEECC-----HHHHHHHHHhcCCCeeecc
Confidence 3567787766 5689999999999765443
No 134
>TIGR03570 NeuD_NnaD sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family. These proteins contain repeats of the bacterial transferase hexapeptide (pfam00132), although often these do not register above the trusted cutoff.
Probab=28.36 E-value=78 Score=19.91 Aligned_cols=28 Identities=11% Similarity=0.185 Sum_probs=19.1
Q ss_pred chHHHHHHHHhcCCc--ceeecccccCCCC
Q 035104 26 NFLSHLVEALRQKKI--KSFIDNEELSRGD 53 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi--~~f~D~~~l~~G~ 53 (73)
.+...|++.|++.|+ .-|+|++.-..|+
T Consensus 9 ~~g~~~~~~l~~~g~~vvgfid~~~~~~~~ 38 (201)
T TIGR03570 9 GHGRVVADIAEDSGWEIVGFLDDNPALQGT 38 (201)
T ss_pred HHHHHHHHHHHhCCCEEEEEEcCCccccCc
Confidence 467788899988884 4578876443444
No 135
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=28.36 E-value=1.8e+02 Score=20.76 Aligned_cols=56 Identities=14% Similarity=0.098 Sum_probs=35.4
Q ss_pred cEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceE
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKIS 69 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~ 69 (73)
-|+|=++...-.+++...+-+.|+.+|..+-.++ ...+++.=...++..|..++.-
T Consensus 150 ~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~-~~~~~~~~~~~~v~~i~~~~~d 205 (366)
T COG0683 150 RVAIIGDDYAYGEGLADAFKAALKALGGEVVVEE-VYAPGDTDFSALVAKIKAAGPD 205 (366)
T ss_pred EEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEE-eeCCCCCChHHHHHHHHhcCCC
Confidence 4556666666667788888888888888633333 3555543245666666666553
No 136
>PLN02284 glutamine synthetase
Probab=28.29 E-value=65 Score=23.68 Aligned_cols=31 Identities=16% Similarity=0.007 Sum_probs=26.7
Q ss_pred chhchHHHHHHHHhcCCcceeecccccCCCC
Q 035104 23 TRDNFLSHLVEALRQKKIKSFIDNEELSRGD 53 (73)
Q Consensus 23 ~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~ 53 (73)
.++.++..|+.+|+..||.+-.-..|.-+|+
T Consensus 167 ~~~~~~~~l~~~l~~~Gi~ve~~h~E~apGQ 197 (354)
T PLN02284 167 FGRDIVDAHYKACLYAGINISGINGEVMPGQ 197 (354)
T ss_pred HHHHHHHHHHHHHHHCCCCeEEEEcCcCCCc
Confidence 4568999999999999999998877888886
No 137
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=28.08 E-value=1.5e+02 Score=22.07 Aligned_cols=50 Identities=18% Similarity=0.224 Sum_probs=33.7
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHh
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIK 64 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~ 64 (73)
...||+|-.-+++.+ ..+-.+...|+++|+++-+|.. +.++...+-.|-+
T Consensus 324 ~~~~v~v~~~~~~~~-~~a~~ia~~LR~~Gi~veid~~----~~~l~k~~k~A~~ 373 (430)
T CHL00201 324 QSIDVYIATQGLKAQ-KKGWEIIQFLEKQNIKFELDLS----SSNFHKQIKQAGK 373 (430)
T ss_pred CCCCEEEEEcCHHHH-HHHHHHHHHHHhCCCeEEEeeC----CCCHHHHHHHHHH
Confidence 346899887655433 4677899999999999987643 2445544444433
No 138
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=27.96 E-value=1.3e+02 Score=24.56 Aligned_cols=44 Identities=23% Similarity=0.439 Sum_probs=35.5
Q ss_pred eeccchhchHHHHHHHHhcCCcceeec-------ccccCCCCCCcHHHHHHHhh
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFID-------NEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D-------~~~l~~G~~i~~~i~~aI~~ 65 (73)
.|.| ..+..+.+.-+++||.+.-| .++.+.|+.|++++.+|+.+
T Consensus 584 KG~D---~lAlrIReiAeE~gVPIVENpPLARALY~~veVGq~IP~eLYeAVAe 634 (646)
T PRK12773 584 KGVD---DFALLIIRIARENGVPTVEDRLQARGLYEEVELGAEVPQQFYRAIAT 634 (646)
T ss_pred EeCc---HHHHHHHHHHHHcCCcEEECHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence 3555 46788888889999999987 23567899999999999865
No 139
>PF03331 LpxC: UDP-3-O-acyl N-acetylglycosamine deacetylase; InterPro: IPR004463 UDP-3-O-N-acetylglucosamine deacetylases are zinc-dependent metalloamidases that catalyse the second and committed step in the biosynthesis of lipid A. Lipid A anchors lipopolysaccharide (the major constituent of the outer membrane) into the membrane in Gram negative bacteria. LpxC shows no homology to mammalian metalloamidases and is essential for cell viability, making it an important target for the development of novel antibacterial compounds []. The structure of UDP-3-O-N-acetylglucosamine deacetylase (LpxC) from Aquifex aeolicus has a two-layer alpha/beta structure similar to that of the second domain of ribosomal protein S5, only in LpxC there is a duplication giving two structural repeats of this fold, each repeat being elaborated with additional structures forming the active site. LpxC contains a zinc-binding motif, which resides at the base of an active site cleft and adjacent to a hydrophobic tunnel occupied by a fatty acid []. This tunnel accounts for the specificity of LpxC toward substrates and inhibitors bearing appropriately positioned 3-O-fatty acid substituents []. This entry represents the UDP-3-O-N-acetylglucosamine deacetylase family of proteins.; GO: 0008759 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity, 0009245 lipid A biosynthetic process; PDB: 2VES_C 3U1Y_A 3P3E_A 3UHM_A 1XXE_A 2IER_A 1YH8_B 2GO4_A 2O3Z_B 2GO3_B ....
Probab=27.88 E-value=1.3e+02 Score=21.73 Aligned_cols=44 Identities=30% Similarity=0.338 Sum_probs=28.0
Q ss_pred hchHHHHHHHHhcCCcc---eeecccccCCCCCCcHHHHHHHhhcce
Q 035104 25 DNFLSHLVEALRQKKIK---SFIDNEELSRGDGISPSLLKAIKESKI 68 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~---~f~D~~~l~~G~~i~~~i~~aI~~Sri 68 (73)
-.=+.||.+||..-||. +-+|-.|+.-.|.-+..-.++|++..+
T Consensus 72 V~TVEHllAAL~glgIDN~~Ievdg~EvPilDGSa~~fv~~i~~aGi 118 (277)
T PF03331_consen 72 VSTVEHLLAALYGLGIDNALIEVDGPEVPILDGSALPFVEAIEEAGI 118 (277)
T ss_dssp EB--HHHHHHHHHCT--SEEEEESSSB---TTSSSHHHHHHHHHHEE
T ss_pred EEEHHHHHHHHHhCCCceEEEEECCCCCCCcCCcHHHHHHHHHhcCc
Confidence 34689999999999875 444666666666666778888888765
No 140
>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=27.81 E-value=2e+02 Score=20.20 Aligned_cols=42 Identities=19% Similarity=0.113 Sum_probs=22.6
Q ss_pred hhchHHHHHHHHhcCCcceeecccccCCC---CCCcHHHHHHHhhcc
Q 035104 24 RDNFLSHLVEALRQKKIKSFIDNEELSRG---DGISPSLLKAIKESK 67 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D~~~l~~G---~~i~~~i~~aI~~Sr 67 (73)
....+..+.++|++.|+.+-... .+..+ ..+. .+++.|+.+.
T Consensus 151 g~~~~~~~~~~~~~~G~~v~~~~-~~~~~~~~~d~~-~~l~~i~~~~ 195 (389)
T cd06352 151 CFFTLEALEAALREFNLTVSHVV-FMEDNSGAEDLL-EILQDIKRRS 195 (389)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEE-EecCCccchhHH-HHHHHhhhcc
Confidence 34566777777777777654332 24443 3344 3334454444
No 141
>cd04913 ACT_AKii-LysC-BS-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins. This CD includes the N-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive aspartokinase isoenzymes. The B. subtilis 168 AKII is induced by methionine and repressed and inhibited by lysine. Although Corynebacterium glutamicum is known to contain a single aspartokinase, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is fee
Probab=27.79 E-value=99 Score=16.02 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=20.7
Q ss_pred eeceeccchhchHHHHHHHHhcCCcceee
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
++..+.....+....+...|.+.||++-+
T Consensus 4 v~v~~~~~~~g~~~~i~~~L~~~~I~i~~ 32 (75)
T cd04913 4 ITLRGVPDKPGVAAKIFGALAEANINVDM 32 (75)
T ss_pred EEECCCCCCCcHHHHHHHHHHHcCCeEEE
Confidence 34444433457888899999999999854
No 142
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=27.67 E-value=67 Score=20.62 Aligned_cols=30 Identities=13% Similarity=0.148 Sum_probs=19.1
Q ss_pred eeceeccchhchHHHHHHHHhcCCcceeec
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f~D 45 (73)
.+.-|+|.-..-+..++.+|+++|+.+++-
T Consensus 20 ~~~~~~~~~~~~~~~a~~~l~~~G~~ivy~ 49 (157)
T smart00775 20 VPIIGKDWTHPGVAKLYRDIQNNGYKILYL 49 (157)
T ss_pred ccccccCcCCHHHHHHHHHHHHcCCeEEEE
Confidence 333444444455677888888888777764
No 143
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=27.58 E-value=79 Score=20.80 Aligned_cols=31 Identities=19% Similarity=0.241 Sum_probs=22.8
Q ss_pred EEeeceeccchhchH-HHHHHHHhcCCcceee
Q 035104 14 VFLSFRGEDTRDNFL-SHLVEALRQKKIKSFI 44 (73)
Q Consensus 14 VFiSfrg~D~r~~f~-~~L~~~L~~~gi~~f~ 44 (73)
+||+=-+.+..++++ -.|..+|+++|.++-.
T Consensus 2 i~I~~t~t~~GKT~vs~~L~~~l~~~g~~v~~ 33 (222)
T PRK00090 2 LFVTGTDTDVGKTVVTAALAQALREAGYSVAG 33 (222)
T ss_pred EEEEeCCCCcCHHHHHHHHHHHHHHcCCceEE
Confidence 566666666666666 7889999999987633
No 144
>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=27.54 E-value=2e+02 Score=19.85 Aligned_cols=52 Identities=27% Similarity=0.351 Sum_probs=28.5
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCC---CCCcHHHHHHHhhcc
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRG---DGISPSLLKAIKESK 67 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G---~~i~~~i~~aI~~Sr 67 (73)
|.+=+...+........+.+.|++.|+.+-... .+.+| ..+. ..++.|+.++
T Consensus 138 v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~-~~~~~~~~~d~~-~~l~~i~~~~ 192 (350)
T cd06366 138 VATIYEDDDYGSGGLPDLVDALQEAGIEISYRA-AFPPSANDDDIT-DALKKLKEKD 192 (350)
T ss_pred EEEEEEcCcccchhHHHHHHHHHHcCCEEEEEe-ccCCCCChhHHH-HHHHHHhcCC
Confidence 333343444344567778888888887764443 35555 2343 4445555443
No 145
>COG3636 Predicted transcriptional regulator [Transcription]
Probab=27.49 E-value=36 Score=21.21 Aligned_cols=15 Identities=27% Similarity=0.264 Sum_probs=12.3
Q ss_pred HHHHHHHhcCCccee
Q 035104 29 SHLVEALRQKKIKSF 43 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f 43 (73)
.+||++|...|-.+|
T Consensus 64 e~LYkaLS~~GNPtf 78 (100)
T COG3636 64 EGLYKALSPGGNPTF 78 (100)
T ss_pred HHHHHHhCCCCCCcH
Confidence 589999999887665
No 146
>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=27.41 E-value=51 Score=22.53 Aligned_cols=31 Identities=19% Similarity=0.412 Sum_probs=21.5
Q ss_pred CCcccEEeec---------eeccchhchHHHHHHHHhcCC
Q 035104 9 SCRYDVFLSF---------RGEDTRDNFLSHLVEALRQKK 39 (73)
Q Consensus 9 ~~~ydVFiSf---------rg~D~r~~f~~~L~~~L~~~g 39 (73)
+..-|+|++| |+++...-|+..|.+.|.+.|
T Consensus 161 p~~~d~lv~ysT~pG~~a~r~~~~gS~fi~~l~~~l~~~~ 200 (243)
T cd00032 161 PVEADFLVAYSTVPGYVSWRNTKKGSWFIQSLCQVLRKYA 200 (243)
T ss_pred CCcccEEEEecCCCCeEeecCCCCCCEeHHHHHHHHHHhC
Confidence 3444777665 455556678899999998765
No 147
>PF13155 Toprim_2: Toprim-like
Probab=27.32 E-value=99 Score=17.52 Aligned_cols=25 Identities=36% Similarity=0.444 Sum_probs=11.9
Q ss_pred CcceeecccccCCCCCCcHHHHHHHhh
Q 035104 39 KIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 39 gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
.|.++.|.+ +.|......+.+.+++
T Consensus 49 ~i~l~~DnD--~aG~~~~~~~~~~l~~ 73 (96)
T PF13155_consen 49 KIVLAFDND--EAGRKAAEKLQKELKE 73 (96)
T ss_pred cEEEEeCCC--HHHHHHHHHHHHHHHh
Confidence 355555543 2455544454444443
No 148
>PLN02530 histidine-tRNA ligase
Probab=27.30 E-value=1.8e+02 Score=22.16 Aligned_cols=37 Identities=19% Similarity=0.069 Sum_probs=28.5
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeeccc
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
...||+|-.-+++.+ ..+-.+.+.|+++|+++-+|..
T Consensus 400 ~~~dVlVi~~~~~~~-~~A~~ia~~LR~~Gi~vevd~~ 436 (487)
T PLN02530 400 HQVDDVVFALDEDLQ-GAAAGVASRLREKGRSVDLVLE 436 (487)
T ss_pred CCCcEEEEEcChHHH-HHHHHHHHHHHHCCCeEEEecC
Confidence 346898887665543 5678899999999999988753
No 149
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=27.12 E-value=47 Score=21.81 Aligned_cols=28 Identities=25% Similarity=0.456 Sum_probs=20.7
Q ss_pred hchHHHHHHHHhcCCcceee-cccccCCC
Q 035104 25 DNFLSHLVEALRQKKIKSFI-DNEELSRG 52 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~-D~~~l~~G 52 (73)
.+.+..|.+.|.+.|+++++ |-+++..|
T Consensus 16 tTlA~~L~~~L~~~g~~~~~LDgD~lR~~ 44 (156)
T PF01583_consen 16 TTLARALERRLFARGIKVYLLDGDNLRHG 44 (156)
T ss_dssp HHHHHHHHHHHHHTTS-EEEEEHHHHCTT
T ss_pred HHHHHHHHHHHHHcCCcEEEecCcchhhc
Confidence 47889999999999999876 54445443
No 150
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=26.92 E-value=89 Score=16.11 Aligned_cols=21 Identities=10% Similarity=0.061 Sum_probs=18.0
Q ss_pred hchHHHHHHHHhcCCcceeec
Q 035104 25 DNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~D 45 (73)
.++...+.++|.+.||++.+-
T Consensus 15 ~~~~~~i~~~l~~~~I~v~~i 35 (66)
T cd04922 15 PGVAATFFSALAKANVNIRAI 35 (66)
T ss_pred ccHHHHHHHHHHHCCCCEEEE
Confidence 478999999999999999644
No 151
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.72 E-value=1.3e+02 Score=16.94 Aligned_cols=21 Identities=10% Similarity=0.317 Sum_probs=18.5
Q ss_pred hhchHHHHHHHHhcCCcceee
Q 035104 24 RDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~ 44 (73)
..+|+..+...|.+.||++-+
T Consensus 14 ~~g~~~~IF~~La~~~I~vDm 34 (75)
T cd04935 14 QVGFLADVFAPFKKHGVSVDL 34 (75)
T ss_pred ccCHHHHHHHHHHHcCCcEEE
Confidence 368999999999999998865
No 152
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=26.68 E-value=1.2e+02 Score=16.70 Aligned_cols=21 Identities=14% Similarity=0.322 Sum_probs=18.1
Q ss_pred hhchHHHHHHHHhcCCcceee
Q 035104 24 RDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~ 44 (73)
..+++..+...|.+.||++..
T Consensus 14 ~~g~~~~if~~L~~~~I~v~~ 34 (75)
T cd04912 14 AHGFLAKVFEIFAKHGLSVDL 34 (75)
T ss_pred CccHHHHHHHHHHHcCCeEEE
Confidence 358999999999999998854
No 153
>cd04923 ACT_AK-LysC-DapG-like_2 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the second and fourth, of four, ACT domains present in cyanobacteria AK. Also included are the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (B. subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.61 E-value=99 Score=15.61 Aligned_cols=22 Identities=14% Similarity=0.135 Sum_probs=18.0
Q ss_pred hhchHHHHHHHHhcCCcceeec
Q 035104 24 RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D 45 (73)
..++...+..+|.+.||++..=
T Consensus 13 ~~~~~~~i~~~L~~~~i~v~~i 34 (63)
T cd04923 13 HPGVAAKMFKALAEAGINIEMI 34 (63)
T ss_pred CccHHHHHHHHHHHCCCCEEEE
Confidence 3578889999999999988654
No 154
>TIGR02100 glgX_debranch glycogen debranching enzyme GlgX. This family consists of the GlgX protein from the E. coli glycogen operon and probable equivalogs from other prokaryotic species. GlgX is not required for glycogen biosynthesis, but instead acts as a debranching enzyme for glycogen catabolism. This model distinguishes GlgX from pullanases and other related proteins that also operate on alpha-1,6-glycosidic linkages. In the wide band between the trusted and noise cutoffs are functionally similar enzymes, mostly from plants, that act similarly but usually are termed isoamylase.
Probab=26.58 E-value=65 Score=25.93 Aligned_cols=35 Identities=26% Similarity=0.422 Sum_probs=24.3
Q ss_pred CcccEEeeceeccchh------chHHHHHHHHhcCCcceeec
Q 035104 10 CRYDVFLSFRGEDTRD------NFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~------~f~~~L~~~L~~~gi~~f~D 45 (73)
|.||. ++|...|.+. .=.+.|.++|+++||.|.+|
T Consensus 224 wGYd~-~~y~a~d~~y~~~g~~~efk~LV~~~H~~GI~VIlD 264 (688)
T TIGR02100 224 WGYNT-LGFFAPEPRYLASGQVAEFKTMVRALHDAGIEVILD 264 (688)
T ss_pred cCcCc-ccccccChhhcCCCCHHHHHHHHHHHHHCCCEEEEE
Confidence 67776 4444444321 11578999999999999999
No 155
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=26.27 E-value=83 Score=16.36 Aligned_cols=22 Identities=23% Similarity=0.274 Sum_probs=18.6
Q ss_pred hhchHHHHHHHHhcCCcceeec
Q 035104 24 RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~D 45 (73)
+.+|...+...|.+.|+++-+=
T Consensus 13 ~~~~~~~if~~l~~~~i~v~~i 34 (62)
T cd04890 13 EVGFLRKIFEILEKHGISVDLI 34 (62)
T ss_pred ccCHHHHHHHHHHHcCCeEEEE
Confidence 3579999999999999988653
No 156
>smart00642 Aamy Alpha-amylase domain.
Probab=26.14 E-value=65 Score=20.97 Aligned_cols=19 Identities=32% Similarity=0.497 Sum_probs=16.4
Q ss_pred HHHHHHHHhcCCcceeecc
Q 035104 28 LSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~ 46 (73)
...|.++++++||++.+|-
T Consensus 72 ~~~lv~~~h~~Gi~vilD~ 90 (166)
T smart00642 72 FKELVDAAHARGIKVILDV 90 (166)
T ss_pred HHHHHHHHHHCCCEEEEEE
Confidence 3588999999999999983
No 157
>PF03852 Vsr: DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine []. GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine []. The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology []. ; GO: 0004519 endonuclease activity, 0006298 mismatch repair; PDB: 1ODG_A 1VSR_A 1CW0_A.
Probab=26.07 E-value=1.5e+02 Score=17.47 Aligned_cols=46 Identities=22% Similarity=0.439 Sum_probs=25.3
Q ss_pred eeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
+++||+... .|.++|...|++--++.+.+ +|.+ .| ++..-+++|.|
T Consensus 17 r~k~TkpE~--~lr~~L~~~G~RyR~~~~~l-pG~P---Di--v~~~~k~aIFV 62 (75)
T PF03852_consen 17 RSKDTKPEL--ALRRALHALGLRYRLNRKDL-PGKP---DI--VFPKYKIAIFV 62 (75)
T ss_dssp -SSS-HHHH--HHHHHHHHTT--EEES-TTS-TT-----SE--EEGGGTEEEEE
T ss_pred cCCCChHHH--HHHHHHHhcCCEEEEccCcC-CCCC---CE--EECCCCEEEEE
Confidence 567776433 68899999999966666544 5532 11 45666666654
No 158
>COG0148 Eno Enolase [Carbohydrate transport and metabolism]
Probab=25.90 E-value=67 Score=24.77 Aligned_cols=43 Identities=28% Similarity=0.456 Sum_probs=35.3
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCc
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGIS 56 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~ 56 (73)
..|-+-||||.-+|-.+|+.||.-++..-.|++ .-+.||+.+.
T Consensus 354 ~gy~~viSHRSGETeD~tIAdLAVa~~agqIKT----Gs~sRseRia 396 (423)
T COG0148 354 AGYTAVISHRSGETEDTTIADLAVATNAGQIKT----GSLSRSERVA 396 (423)
T ss_pred CCCeEEEecCCCCcccchHHHHHHHhCCCeeec----CCCcchhHHH
Confidence 468889999999999999999999999988877 2355677654
No 159
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=25.89 E-value=95 Score=21.64 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=29.2
Q ss_pred cEEeeceeccchhchH-HHHHHHHhcCCcceeecccccCCCC
Q 035104 13 DVFLSFRGEDTRDNFL-SHLVEALRQKKIKSFIDNEELSRGD 53 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~-~~L~~~L~~~gi~~f~D~~~l~~G~ 53 (73)
.+||+=-..|..++++ ..|+++|..+|+++..-. -++.|-
T Consensus 4 ~~fVtGTDT~VGKTv~S~aL~~~l~~~g~~~~~~K-PVqsG~ 44 (223)
T COG0132 4 RFFVTGTDTGVGKTVVSAALAQALKQQGYSVAGYK-PVQTGS 44 (223)
T ss_pred eEEEEeCCCCccHHHHHHHHHHHHHhCCCeeEEEC-ceeeCC
Confidence 4577655566677777 789999999999998764 356553
No 160
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=25.72 E-value=1e+02 Score=20.76 Aligned_cols=33 Identities=9% Similarity=0.120 Sum_probs=28.0
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCccee
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
....+-|+.-|+| |.+.+..+.+.|.+.|++.-
T Consensus 5 m~~~lviTviG~D-rpGIVa~vs~~l~~~g~NI~ 37 (190)
T PRK11589 5 SQHYLVITALGAD-RPGIVNTITRHVSSCGCNIE 37 (190)
T ss_pred cccEEEEEEEcCC-CChHHHHHHHHHHHcCCCee
Confidence 3456779999999 67999999999999999763
No 161
>PRK14161 heat shock protein GrpE; Provisional
Probab=25.70 E-value=1e+02 Score=20.75 Aligned_cols=33 Identities=18% Similarity=0.254 Sum_probs=25.6
Q ss_pred HHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 29 SHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
..|.+.|.+.|+... + ...|+.+.|.+-+|+..
T Consensus 109 k~l~~vL~~~Gv~~I-~---~~~G~~FDP~~HEAv~~ 141 (178)
T PRK14161 109 DELDKVFHKHHIEEI-K---PEIGSMFDYNLHNAISQ 141 (178)
T ss_pred HHHHHHHHHCCCEEe-c---CCCCCCCChHHhhhhee
Confidence 567789999999763 2 12499999999999865
No 162
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=25.56 E-value=1.6e+02 Score=18.13 Aligned_cols=36 Identities=22% Similarity=0.170 Sum_probs=24.5
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeecccccC
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELS 50 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~ 50 (73)
|.|-.|--.+-..+-+|-.+|.++|.+|-+=|-+.+
T Consensus 4 v~~~kgG~GKtt~a~~la~~l~~~g~~vllvD~D~~ 39 (179)
T cd02036 4 VTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLG 39 (179)
T ss_pred EeeCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence 445455445557789999999999998766433343
No 163
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=25.55 E-value=1.3e+02 Score=20.09 Aligned_cols=34 Identities=35% Similarity=0.495 Sum_probs=25.2
Q ss_pred HHhcCCcceee-cc-ccc-CCC-CCCcHHHHHHHhhcc
Q 035104 34 ALRQKKIKSFI-DN-EEL-SRG-DGISPSLLKAIKESK 67 (73)
Q Consensus 34 ~L~~~gi~~f~-D~-~~l-~~G-~~i~~~i~~aI~~Sr 67 (73)
.|+++||+..+ |- ..| .|. +.+.+++.+.+++++
T Consensus 35 ~Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~ 72 (168)
T PF09419_consen 35 HLKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELK 72 (168)
T ss_pred hhhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHH
Confidence 38999999887 32 234 455 578899998888876
No 164
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=25.53 E-value=1.9e+02 Score=21.53 Aligned_cols=45 Identities=22% Similarity=0.327 Sum_probs=35.2
Q ss_pred ceeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
-+|.| ..+..+.+.-+++||.++-|. +..+.|+.|++++.+|+-+
T Consensus 291 akg~~---~~A~~i~~~A~~~~vpi~~~~~LAr~Ly~~~~~g~~Ip~~~~~aVA~ 342 (359)
T PRK05702 291 AKGVD---EVALKIREIAREHNVPIVENPPLARALYATVEIGQEIPEELYKAVAE 342 (359)
T ss_pred EeeCc---HHHHHHHHHHHHcCCCEEeCHHHHHHHHHcCCCCCccCHHHHHHHHH
Confidence 34555 357788888899999999882 3467899999999998864
No 165
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=25.53 E-value=1.4e+02 Score=23.71 Aligned_cols=44 Identities=14% Similarity=0.307 Sum_probs=35.0
Q ss_pred eeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
+|.| ..+..+.+.-+++||.+.-|. ++.+.|+.|++++.+|+-+
T Consensus 548 KG~d---~~A~~Ir~~A~e~~VPive~~~LAR~Ly~~~evg~~IP~ely~aVA~ 598 (609)
T PRK12772 548 KGAD---YVALKIKEIAKENDVPIIENKPLARLIYKKVEIDQEIPQDMYQAVAE 598 (609)
T ss_pred eeCc---HHHHHHHHHHHHCCCcEEeCHHHHHHHHHcCCCCCCCCHHHHHHHHH
Confidence 3555 357788888899999999882 3467899999999999864
No 166
>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=25.50 E-value=1.8e+02 Score=21.69 Aligned_cols=52 Identities=23% Similarity=0.313 Sum_probs=31.2
Q ss_pred eccchhchHHHHHHHHhcCCcceeecccccCCCCCC----cHHHHHHHhhcceEEEE
Q 035104 20 GEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGI----SPSLLKAIKESKISVII 72 (73)
Q Consensus 20 g~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i----~~~i~~aI~~Sri~IvV 72 (73)
..|........|.++|+++||.+-..+ .+..+..- ...+++.|++++.=+||
T Consensus 181 d~~yg~~~~~~~~~~~~~~gi~I~~~~-~i~~~~~~~~~~~~~~l~~i~~~~arvIv 236 (469)
T cd06365 181 DDDRGEQFLSDLREEMQRNGICLAFVE-KIPVNMQLYLTRAEKYYNQIMTSSAKVII 236 (469)
T ss_pred cChhHHHHHHHHHHHHHHCCeEEEEEE-EecCCchhhHHHHHHHHHHhhcCCCeEEE
Confidence 334455778999999999998775443 35544321 12455566666554443
No 167
>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=25.50 E-value=2.5e+02 Score=22.25 Aligned_cols=38 Identities=16% Similarity=0.142 Sum_probs=27.8
Q ss_pred CcccEEeeceecc-chhchHHHHHHHHhcCCcceeeccc
Q 035104 10 CRYDVFLSFRGED-TRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 10 ~~ydVFiSfrg~D-~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
-+++|+|---+++ .-...+..|+..|++.|+++.+|+.
T Consensus 456 AP~kV~VIpl~~~~el~~~A~eIa~~LR~~GI~VeiD~s 494 (551)
T TIGR00389 456 APIKVAVLPLVNKEELKEIAKEIFQALRKTGIRIKYDDS 494 (551)
T ss_pred CCceEEEEEecCcHHHHHHHHHHHHHHHHCCCEEEEECC
Confidence 3677766544432 2345788999999999999999874
No 168
>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=25.42 E-value=1e+02 Score=18.41 Aligned_cols=30 Identities=20% Similarity=0.252 Sum_probs=19.1
Q ss_pred cccE--EeeceeccchhchHHHHHHHHhcCCccee
Q 035104 11 RYDV--FLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 11 ~ydV--FiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
+-|+ ++|++|+. + -+-...+.++++|+++.
T Consensus 43 ~~dl~I~iS~SG~t-~--e~i~~~~~a~~~g~~iI 74 (119)
T cd05017 43 RKTLVIAVSYSGNT-E--ETLSAVEQAKERGAKIV 74 (119)
T ss_pred CCCEEEEEECCCCC-H--HHHHHHHHHHHCCCEEE
Confidence 4455 66777764 2 34466667788898764
No 169
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=25.17 E-value=38 Score=26.82 Aligned_cols=29 Identities=10% Similarity=0.063 Sum_probs=22.8
Q ss_pred chHHHHHHHHhcCCc-ceeecccccCCCCCC
Q 035104 26 NFLSHLVEALRQKKI-KSFIDNEELSRGDGI 55 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi-~~f~D~~~l~~G~~i 55 (73)
..+..|++.|.+.|+ ++.+|+.+ .-|..+
T Consensus 451 eyAkeI~~~L~~~Gi~rv~~Ddse-sIGKKy 480 (539)
T PRK14894 451 ATAKAVRRQLQVGGRMRTVYDDTG-AIGKLY 480 (539)
T ss_pred HHHHHHHHHHHHCCCceEEEcCCC-CHhHHH
Confidence 688999999999998 99999843 444433
No 170
>cd07245 Glo_EDI_BRP_like_9 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases.
Probab=25.06 E-value=84 Score=17.12 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=20.2
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeec
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D 45 (73)
+-++|.-+| +..++++|.++|+.+-..
T Consensus 66 ~~~~~~v~d-----~~~~~~~l~~~g~~~~~~ 92 (114)
T cd07245 66 DHIAFRVDD-----LDAFRARLKAAGVPYTES 92 (114)
T ss_pred ceEEEEeCC-----HHHHHHHHHHcCCCcccc
Confidence 456776666 568999999999986544
No 171
>cd04937 ACT_AKi-DapG-BS_2 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive AK isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The BS AKI is tetrameric consisting of two alpha and two beta subunits; th
Probab=24.84 E-value=84 Score=16.74 Aligned_cols=20 Identities=20% Similarity=0.350 Sum_probs=17.5
Q ss_pred hhchHHHHHHHHhcCCccee
Q 035104 24 RDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f 43 (73)
..++...+..+|.+.||++.
T Consensus 14 ~~gi~~~if~aL~~~~I~v~ 33 (64)
T cd04937 14 VPGVMAKIVGALSKEGIEIL 33 (64)
T ss_pred CcCHHHHHHHHHHHCCCCEE
Confidence 46789999999999999884
No 172
>PF04915 DltD_N: DltD N-terminal region; InterPro: IPR006999 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the N-terminal region of DltD.; PDB: 3BMA_C.
Probab=24.82 E-value=1e+02 Score=17.47 Aligned_cols=30 Identities=40% Similarity=0.531 Sum_probs=21.4
Q ss_pred HHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 33 EALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 33 ~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
++|.+.++.+|....|+.+.|..-|.++-.
T Consensus 23 ~al~~~~yvPfyGSSEl~r~D~~HPsvl~~ 52 (62)
T PF04915_consen 23 KALKDPKYVPFYGSSELSRFDPFHPSVLAE 52 (62)
T ss_dssp HHHSSS-EEEEE-SSTTTS--TTSHHHHHH
T ss_pred HHhcCCCeeeecCcHHHhccCCcCHHHHHH
Confidence 567777999999999999999998887643
No 173
>PLN02908 threonyl-tRNA synthetase
Probab=24.77 E-value=2.3e+02 Score=22.72 Aligned_cols=47 Identities=11% Similarity=0.109 Sum_probs=33.3
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
..+|+|---+++.. ..+..+...|+++|++|-+|.. +..+...+-.|
T Consensus 589 p~qv~Vipv~~~~~-~~A~~va~~LR~~Gi~vevd~~----~~~l~kkir~A 635 (686)
T PLN02908 589 PRQAIVVPISEKSQ-DYAEEVRAQLHAAGFYVDVDVT----DRKIQKKVREA 635 (686)
T ss_pred CceEEEEEECHHHH-HHHHHHHHHHHHCCCEEEEECC----CCCHHHHHHHH
Confidence 46887776665543 5788999999999999998853 44555444444
No 174
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=24.69 E-value=91 Score=20.36 Aligned_cols=28 Identities=29% Similarity=0.321 Sum_probs=17.7
Q ss_pred hHHHHHHHHhcCCcceeecc--cccCCCCC
Q 035104 27 FLSHLVEALRQKKIKSFIDN--EELSRGDG 54 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~--~~l~~G~~ 54 (73)
-+..|+..|.+.|.+---+. .++++||-
T Consensus 52 nT~tl~~~L~~~G~~~I~~~~~~~~q~GDI 81 (145)
T PF05382_consen 52 NTETLHDWLKKNGFKKISENVDWNLQRGDI 81 (145)
T ss_pred CHHHHHHHHhhCCcEEeccCCcccccCCCE
Confidence 45677777777776554443 25677774
No 175
>PTZ00378 hypothetical protein; Provisional
Probab=24.68 E-value=48 Score=26.16 Aligned_cols=36 Identities=17% Similarity=0.132 Sum_probs=26.0
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCC
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGI 55 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i 55 (73)
|++|||.-+ .+|+.||.-++....|++ .-+-+|+.+
T Consensus 430 v~vShRSGe--D~~IAdLAVa~ga~~IKt----Ga~~r~ER~ 465 (518)
T PTZ00378 430 VLVQTLAGN--AATAAHLAVAMGARFLCS----GGLFSAHQC 465 (518)
T ss_pred cccCCCcCC--ccHHHHHHHHcCCCcccc----CCCccchHH
Confidence 459998433 479999999998887765 345666654
No 176
>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=24.67 E-value=2.4e+02 Score=19.61 Aligned_cols=17 Identities=24% Similarity=0.270 Sum_probs=9.0
Q ss_pred chHHHHHHHHhcCCcce
Q 035104 26 NFLSHLVEALRQKKIKS 42 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi~~ 42 (73)
..+..+.++|++.|+.+
T Consensus 153 ~~~~~~~~~~~~~G~~v 169 (347)
T cd06335 153 SNRKDLTAALAARGLKP 169 (347)
T ss_pred hHHHHHHHHHHHcCCee
Confidence 44555555555555544
No 177
>PF08880 QLQ: QLQ; InterPro: IPR014978 QLQ is named after the conserved Gln, Leu, Gln motif. QLQ is found at the N terminus of SWI2/SNF2 protein, which has been shown to be involved in protein-protein interactions. QLQ has been postulated to be involved in mediating protein interactions []. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=24.61 E-value=48 Score=16.79 Aligned_cols=24 Identities=29% Similarity=0.535 Sum_probs=17.2
Q ss_pred CcceeecccccCCCCCCcHHHHHHHhh
Q 035104 39 KIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 39 gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
.|..|.- +.+|.++.+++..+|.+
T Consensus 14 Qi~ayK~---l~~~~pVP~~l~~~I~~ 37 (37)
T PF08880_consen 14 QILAYKY---LARNQPVPPQLQQAIQK 37 (37)
T ss_pred HHHHHHH---HHcCCCCCHHHHHhhhC
Confidence 3445433 66789999999998863
No 178
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=24.55 E-value=1.6e+02 Score=22.14 Aligned_cols=44 Identities=18% Similarity=0.234 Sum_probs=34.8
Q ss_pred eeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
.|.| ..+..+.+.-+++||.+.-|. ++.+.|+.|++++++|+-+
T Consensus 292 KG~d---~~A~~Ir~~A~e~~VPiven~pLARaLy~~~evg~~IP~ely~AVA~ 342 (386)
T PRK12468 292 KGAG---AVALRIRELGAEHRIPLLEAPPLARALFRHSEVGQHIPATLYAAVAE 342 (386)
T ss_pred eeCc---HHHHHHHHHHHHcCCcEEeCHHHHHHHHHhCCCCCCCCHHHHHHHHH
Confidence 3555 367788888899999999882 3467899999999999864
No 179
>KOG3043 consensus Predicted hydrolase related to dienelactone hydrolase [General function prediction only]
Probab=24.55 E-value=51 Score=23.58 Aligned_cols=33 Identities=24% Similarity=0.322 Sum_probs=25.7
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHH
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKA 62 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~a 62 (73)
+.++...+...|+++++=| +-+|++++++..+.
T Consensus 56 ~r~~Adk~A~~Gy~v~vPD--~~~Gdp~~~~~~~~ 88 (242)
T KOG3043|consen 56 TREGADKVALNGYTVLVPD--FFRGDPWSPSLQKS 88 (242)
T ss_pred HHHHHHHHhcCCcEEEcch--hhcCCCCCCCCChh
Confidence 5688888899999999975 77888877664433
No 180
>COG2333 ComEC Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=24.52 E-value=1.3e+02 Score=21.78 Aligned_cols=37 Identities=19% Similarity=0.371 Sum_probs=27.2
Q ss_pred CCcccEEeeceeccchhchH-HHHHHHHhcCCcceeeccc
Q 035104 9 SCRYDVFLSFRGEDTRDNFL-SHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~-~~L~~~L~~~gi~~f~D~~ 47 (73)
+++| +.||- |.+++.+.= ..-.+.|+++++++|.-+.
T Consensus 231 ~Pk~-AliS~-G~~N~yghPh~~Vl~rl~~~~~~v~rTd~ 268 (293)
T COG2333 231 KPKV-ALISS-GRNNRYGHPHQEVLERLQKRGIKVYRTDQ 268 (293)
T ss_pred CCcE-EEEEe-eccCCCCCCcHHHHHHHHhcCCeEEecCC
Confidence 5666 67775 666666554 5677889999999998764
No 181
>PRK14154 heat shock protein GrpE; Provisional
Probab=24.51 E-value=96 Score=21.53 Aligned_cols=33 Identities=24% Similarity=0.437 Sum_probs=25.4
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHh
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIK 64 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~ 64 (73)
...|.+.|.+.||..+ + ...|+.+.|.+-+|+.
T Consensus 140 ~k~l~~vL~k~GVe~I-~---~~~G~~FDP~~HEAv~ 172 (208)
T PRK14154 140 LDLLHNTLAKHGVQVI-N---PNPGDPFDPALHEAMS 172 (208)
T ss_pred HHHHHHHHHHCCCEEe-c---CCCCCCCChhHhheee
Confidence 3568888999999763 2 2359999999999984
No 182
>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=24.17 E-value=2.5e+02 Score=19.62 Aligned_cols=50 Identities=16% Similarity=0.169 Sum_probs=27.5
Q ss_pred ceeccchhchHHHHHHHHhcCCcc--eeecccccCCCCC-CcHHHHHHHhhcce
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIK--SFIDNEELSRGDG-ISPSLLKAIKESKI 68 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~--~f~D~~~l~~G~~-i~~~i~~aI~~Sri 68 (73)
+...|..+++...|.+.|++.|+. +=... ...++.. -...+.+.+++++-
T Consensus 143 ~~~~~~g~~~~~~l~~~l~~~g~~~~i~~~~-~~~~~~~~~~~~~l~~l~~~~~ 195 (362)
T cd06367 143 TSRDPGYRDFLDRVETTLEESFVGWEFQLVL-TLDLSDDDGDARLLRQLKKLES 195 (362)
T ss_pred EEcCcccHHHHHHHHHHHHhcccceeeeeeE-EeccCCCcchHHHHHHHHhcCC
Confidence 444444456788888999888876 21111 2333332 23355555555443
No 183
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=24.14 E-value=99 Score=20.81 Aligned_cols=31 Identities=13% Similarity=0.171 Sum_probs=25.1
Q ss_pred cEEeeceeccchhchH-HHHHHHHhcCCccee
Q 035104 13 DVFLSFRGEDTRDNFL-SHLVEALRQKKIKSF 43 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~-~~L~~~L~~~gi~~f 43 (73)
-+||.=-+.|..++++ ..|.++|+++|.++-
T Consensus 4 ~ifIt~t~t~vGKT~vt~~L~~~l~~~g~~v~ 35 (231)
T PRK12374 4 RFFITGTDTSVGKTVVSRALLQALASQGKTVA 35 (231)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 3788888888888887 788999999988553
No 184
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=24.09 E-value=1e+02 Score=19.54 Aligned_cols=32 Identities=25% Similarity=0.291 Sum_probs=22.3
Q ss_pred CcccE--EeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 10 CRYDV--FLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 10 ~~ydV--FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
.+-|+ .||++|+. .-+-...+.++++|+++.-
T Consensus 78 ~~~D~~i~iS~sG~t---~~~~~~~~~a~~~g~~ii~ 111 (154)
T TIGR00441 78 QKGDVLLGISTSGNS---KNVLKAIEAAKDKGMKTIT 111 (154)
T ss_pred CCCCEEEEEcCCCCC---HHHHHHHHHHHHCCCEEEE
Confidence 34466 66777764 3566888888999987754
No 185
>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=23.95 E-value=2.5e+02 Score=19.42 Aligned_cols=52 Identities=4% Similarity=-0.029 Sum_probs=25.4
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCC-CcHHHHHHHhhcc
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDG-ISPSLLKAIKESK 67 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~-i~~~i~~aI~~Sr 67 (73)
|.+-+...+..+.....+-++|+++|+.+-.+. ...+|+. +. ..+..|+++.
T Consensus 139 v~~i~~~~~~g~~~~~~~~~~~~~~G~~vv~~~-~~~~~~~d~~-~~v~~l~~~~ 191 (333)
T cd06328 139 IATLAQDYAFGRDGVAAFKAALEKLGAAIVTEE-YAPTDTTDFT-PYAQRLLDAL 191 (333)
T ss_pred EEEEecCccccHHHHHHHHHHHHhCCCEEeeee-eCCCCCcchH-HHHHHHHhcC
Confidence 333343334344556666666666776664333 3455543 43 3344444443
No 186
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=23.94 E-value=1.1e+02 Score=18.33 Aligned_cols=29 Identities=14% Similarity=0.096 Sum_probs=19.8
Q ss_pred ccE--EeeceeccchhchHHHHHHHHhcCCccee
Q 035104 12 YDV--FLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 12 ydV--FiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
-|+ ++|++|+. .-+-...+.++++|.++.
T Consensus 48 ~dl~I~iS~SG~t---~~~~~~~~~a~~~g~~vi 78 (120)
T cd05710 48 KSVVILASHSGNT---KETVAAAKFAKEKGATVI 78 (120)
T ss_pred CcEEEEEeCCCCC---hHHHHHHHHHHHcCCeEE
Confidence 355 66777764 245677888888997754
No 187
>cd08342 HPPD_N_like N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS). HppD and HmaS are non-heme iron-dependent dioxygenases, which modify a common substrate, 4-hydroxyphenylpyruvate (HPP), but yield different products. HPPD catalyzes the second reaction in tyrosine catabolism, the conversion of HPP to homogentisate (2,5-dihydroxyphenylacetic acid, HG). HmaS converts HPP to 4-hydroxymandelate, a committed step in the formation of hydroxyphenylglycerine, a structural component of nonproteinogenic macrocyclic peptide antibiotics, such as vancomycin. If the emphasis is on catalytic chemistry, HPPD and HmaS are classified as members of a large family of alpha-keto acid dependent mononuclear non-heme iron oxygenases most of which require Fe(II), molecular oxygen, and an alpha-keto acid (typically alpha-ketoglutarate) to either oxygenate or oxidize a third substrate. Both enzymes are exceptions in that they require two, instead of three, su
Probab=23.94 E-value=1.1e+02 Score=18.41 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=21.1
Q ss_pred eeceeccchhchHHHHHHHHhcCCcceeeccc
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
|+|.-+| +...|+.|+++|+.+.....
T Consensus 73 ia~~V~D-----vda~~~~l~~~G~~v~~~p~ 99 (136)
T cd08342 73 VAFRVDD-----AAAAYERAVARGAKPVQEPV 99 (136)
T ss_pred EEEEeCC-----HHHHHHHHHHcCCeEccCce
Confidence 5666666 67899999999998875543
No 188
>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=23.92 E-value=1.2e+02 Score=18.72 Aligned_cols=49 Identities=16% Similarity=0.104 Sum_probs=32.0
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
..-|.|.+-.-.....|..-+.+.|...|++|+.=. -.-+|.+.-++..
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g------~~~tP~~~~~~~~ 88 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIG------LVPTPALSFAIRQ 88 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEE------EB-HHHHHHHHHH
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhccccccccc------ccCcHHhhhhccc
Confidence 456777775555566778888888899999887321 2335666666665
No 189
>PLN03194 putative disease resistance protein; Provisional
Probab=23.92 E-value=2.5e+02 Score=19.26 Aligned_cols=64 Identities=16% Similarity=0.160 Sum_probs=39.1
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
..+.||+--........+...|.+++++..+.+-+=..+--...---.+|.++++.-++.|+||
T Consensus 53 ~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I~e~~~~ViPIF 116 (187)
T PLN03194 53 LNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALIMESKKRVIPIF 116 (187)
T ss_pred CCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHHHHcCCEEEEEE
Confidence 3578888643233344677899999988876665533222222222357777777656677776
No 190
>PRK00698 tmk thymidylate kinase; Validated
Probab=23.87 E-value=2e+02 Score=18.28 Aligned_cols=32 Identities=22% Similarity=0.360 Sum_probs=23.5
Q ss_pred EEeeceeccc--hhchHHHHHHHHhcCCcceeec
Q 035104 14 VFLSFRGEDT--RDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 14 VFiSfrg~D~--r~~f~~~L~~~L~~~gi~~f~D 45 (73)
.||.+-|.|. +.+++..|.+.|...|..+..-
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~ 37 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKELLEQQGRDVVFT 37 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCceeEe
Confidence 4778887775 4567788889998888665543
No 191
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=23.86 E-value=49 Score=21.03 Aligned_cols=31 Identities=26% Similarity=0.311 Sum_probs=25.4
Q ss_pred ccEEeeceeccchhchHHHHHHHHhcC-Ccce
Q 035104 12 YDVFLSFRGEDTRDNFLSHLVEALRQK-KIKS 42 (73)
Q Consensus 12 ydVFiSfrg~D~r~~f~~~L~~~L~~~-gi~~ 42 (73)
+--||.=.+.|-|+.|+..|.+++... |--+
T Consensus 45 h~efL~~~~~DPr~~~~~~L~~~i~~~~g~iv 76 (130)
T PF11074_consen 45 HVEFLADPGEDPRRELIEALIKAIGSIYGSIV 76 (130)
T ss_pred hHHHhccCCCCchHHHHHHHHHHhhhhcCeEE
Confidence 334788778999999999999999999 7443
No 192
>PRK14155 heat shock protein GrpE; Provisional
Probab=23.77 E-value=86 Score=21.68 Aligned_cols=34 Identities=29% Similarity=0.509 Sum_probs=26.1
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
...|.+.|.+.||... + .+.|+.+.|.+-+||..
T Consensus 103 ~k~~~~~L~k~GV~~I-~---~~~G~~FDP~~HEAv~~ 136 (208)
T PRK14155 103 EKELLGAFERNGLKKI-D---PAKGDKFDPHLHQAMME 136 (208)
T ss_pred HHHHHHHHHHCCCcee-c---CCCCCCCChhHhceeee
Confidence 3677899999999752 2 22599999999998864
No 193
>PRK14158 heat shock protein GrpE; Provisional
Probab=23.72 E-value=1.3e+02 Score=20.55 Aligned_cols=33 Identities=18% Similarity=0.385 Sum_probs=25.2
Q ss_pred HHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 29 SHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
..|...|.+.||..+ + ...|+.+.|.+-+||..
T Consensus 127 k~l~~vLek~Gv~~I-~---~~~G~~FDP~~HEAv~~ 159 (194)
T PRK14158 127 SMLLSTLKKFGVTPV-E---AEKGTPFDPAYHQAMCQ 159 (194)
T ss_pred HHHHHHHHHCCCEEe-c---CCCCCCCChHHhhhhee
Confidence 457889999999753 2 12499999999999853
No 194
>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=23.70 E-value=1.3e+02 Score=18.75 Aligned_cols=33 Identities=21% Similarity=0.246 Sum_probs=24.9
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecc
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
++.|.+|--.+-.++.+|..+|.++|-+|.+=|
T Consensus 2 ~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD 34 (195)
T PF01656_consen 2 AVTSGKGGVGKTTIAANLAQALARKGKKVLLID 34 (195)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEEcCCCCccHHHHHHHHHhccccccccccccc
Confidence 356777766666777999999999999987743
No 195
>cd07233 Glyoxalase_I Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione. Glyoxalase I (also known as lactoylglutathione lyase; EC 4.4.1.5) is part of the glyoxalase system, a two-step system for detoxifying methylglyoxal, a side product of glycolysis. This system is responsible for the conversion of reactive, acyclic alpha-oxoaldehydes into the corresponding alpha-hydroxyacids and involves 2 enzymes, glyoxalase I and II. Glyoxalase I catalyses an intramolecular redox reaction of the hemithioacetal (formed from methylglyoxal and glutathione) to form the thioester, S-D-lactoylglutathione. This reaction involves the transfer of two hydrogen atoms from C1 to C2 of the methylglyoxal, and proceeds via an ene-diol intermediate. Glyoxalase I has a requirement for bound metal ions for catalysis. Eukaryotic glyoxalase I prefers the divalent cation zinc as cofactor, whereas Escherichia coil and other prokaryotic gly
Probab=23.69 E-value=1e+02 Score=17.47 Aligned_cols=26 Identities=19% Similarity=0.236 Sum_probs=19.9
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeec
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D 45 (73)
.++|+-+| +..+++.|.++|+.+-..
T Consensus 73 ~i~~~v~d-----id~~~~~l~~~G~~~~~~ 98 (121)
T cd07233 73 HLAFAVDD-----VYAACERLEEMGVEVTKP 98 (121)
T ss_pred EEEEEeCC-----HHHHHHHHHHCCCEEeeC
Confidence 45677665 678999999999987544
No 196
>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=23.49 E-value=1.6e+02 Score=20.23 Aligned_cols=46 Identities=24% Similarity=0.179 Sum_probs=28.3
Q ss_pred cchhchHHHHHHHHhcCCcceeecccccCCCC--CCcHHHHHHHhhcce
Q 035104 22 DTRDNFLSHLVEALRQKKIKSFIDNEELSRGD--GISPSLLKAIKESKI 68 (73)
Q Consensus 22 D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~--~i~~~i~~aI~~Sri 68 (73)
+-....+..+.+.+++.|+.+=... .+..+. .=...+++.|+.+..
T Consensus 171 ~~g~~~~~~~~~~~~~~gi~v~~~~-~~~~~~~~~d~~~~l~~l~~~~~ 218 (348)
T cd06350 171 DYGRSGLSDLEEELEKNGICIAFVE-AIPPSSTEEDIKRILKKLKSSTA 218 (348)
T ss_pred hhHHHHHHHHHHHHHHCCCcEEEEE-EccCCCcHHHHHHHHHHHHhCCC
Confidence 3345677888888888888764333 355552 122466677777753
No 197
>COG0576 GrpE Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]
Probab=23.48 E-value=1.2e+02 Score=20.59 Aligned_cols=34 Identities=24% Similarity=0.443 Sum_probs=26.6
Q ss_pred hHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 27 FLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
....|...|.+.||..+- . .|+.+.|.+-+|+..
T Consensus 123 ~~~~l~~~L~k~Gv~~i~----~-~Ge~FDP~~HeAv~~ 156 (193)
T COG0576 123 TLDQLLDALEKLGVEEIG----P-EGEKFDPNLHEAVQR 156 (193)
T ss_pred HHHHHHHHHHHCCCEEeC----C-CCCCCCHHHhhheee
Confidence 346788899999996642 2 499999999999865
No 198
>TIGR00106 uncharacterized protein, MTH1187 family. This protein has been crystallized in both Methanobacterium thermoautotrophicum and yeast, but its function remains unknown. Both crystal structures showed sulfate ions bound at the interface of two dimers to form a tetramer.
Probab=23.44 E-value=1.5e+02 Score=17.86 Aligned_cols=39 Identities=23% Similarity=0.411 Sum_probs=27.6
Q ss_pred hchHHHHHHHHhcCCcceeecccc--cCCCCCCcHHHHHHHhhc
Q 035104 25 DNFLSHLVEALRQKKIKSFIDNEE--LSRGDGISPSLLKAIKES 66 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~D~~~--l~~G~~i~~~i~~aI~~S 66 (73)
..++....+.|++.|++.....-+ ++ |+ .++++++|+++
T Consensus 18 s~yVa~~i~~l~~sGl~y~~~pm~T~IE-Ge--~dev~~~i~~~ 58 (97)
T TIGR00106 18 SSYVAAAIEVLKESGLKYELHPMGTLIE-GD--LDELFEAIKAI 58 (97)
T ss_pred HHHHHHHHHHHHHcCCCeEecCCccEEe-cC--HHHHHHHHHHH
Confidence 358888899999999988776432 23 54 45777777664
No 199
>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=23.41 E-value=1.4e+02 Score=21.91 Aligned_cols=55 Identities=22% Similarity=0.265 Sum_probs=36.6
Q ss_pred ecee--ccchhchHHHHHHHHhcCCcceeecccccCCC----CCCcHHHHHHHhhcceEEE
Q 035104 17 SFRG--EDTRDNFLSHLVEALRQKKIKSFIDNEELSRG----DGISPSLLKAIKESKISVI 71 (73)
Q Consensus 17 Sfrg--~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G----~~i~~~i~~aI~~Sri~Iv 71 (73)
+|.. .|+|.+=+-.|.+.|.++|..+-..|-..... ......+.++++++...|+
T Consensus 322 afK~~t~d~r~sp~~~~~~~L~~~g~~v~~~DP~~~~~~~~~~~~~~~~~~~~~~ad~~v~ 382 (411)
T TIGR03026 322 AFKPNTDDVRESPALDIIELLKEKGAKVKAYDPLVPEEEVKGLPLIDDLEEALKGADALVI 382 (411)
T ss_pred EecCCCCccccChHHHHHHHHHhCCCEEEEECCCCChhhhhhcccCCCHHHHHhCCCEEEE
Confidence 4543 48899999999999999999887755332211 1111355578888777665
No 200
>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=23.34 E-value=1.1e+02 Score=19.50 Aligned_cols=31 Identities=16% Similarity=0.119 Sum_probs=20.4
Q ss_pred cccE--EeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 11 RYDV--FLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 11 ~ydV--FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
+-|| ++|++|.- + -+-.+.+.++++|+++..
T Consensus 72 ~~Dv~I~iS~sG~t-~--~~i~~~~~ak~~g~~ii~ 104 (179)
T TIGR03127 72 KGDLLIAISGSGET-E--SLVTVAKKAKEIGATVAA 104 (179)
T ss_pred CCCEEEEEeCCCCc-H--HHHHHHHHHHHCCCeEEE
Confidence 3455 67787763 2 455677778889977653
No 201
>PF00120 Gln-synt_C: Glutamine synthetase, catalytic domain; InterPro: IPR008146 Glutamine synthetase (6.3.1.2 from EC) (GS) [] plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS [, , ]: Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see IPR001637 from INTERPRO). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) have been found in Bacteroides fragilis. in Butyrivibrio fibrisolvens. It is a hexamer of identical chains and in some protozoa. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive.; GO: 0004356 glutamate-ammonia ligase activity, 0006807 nitrogen compound metabolic process; PDB: 2J9I_E 3ZXV_D 1HTQ_D 1HTO_F 2BVC_F 2WGS_G 3ZXR_B 2WHI_D 3NG0_A 1LGR_C ....
Probab=23.28 E-value=81 Score=21.75 Aligned_cols=32 Identities=31% Similarity=0.465 Sum_probs=24.5
Q ss_pred cchhchHHHHHHHHhcCCcceeecccccCCCC
Q 035104 22 DTRDNFLSHLVEALRQKKIKSFIDNEELSRGD 53 (73)
Q Consensus 22 D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~ 53 (73)
|....|...++.+|.+.||.+-.-..|.-+|+
T Consensus 65 ~~~~~~~~~i~~~l~~~Gi~ve~~h~E~gpgQ 96 (259)
T PF00120_consen 65 DAGEDFLEEIVDALEQAGIPVEQIHHEVGPGQ 96 (259)
T ss_dssp STTHHHHHHHHHHHHHCT--EEEEEEESSTTE
T ss_pred hHHHHHHHHHHHHHHHhhccccccccccchHh
Confidence 44567999999999999999988776777775
No 202
>KOG3929 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.25 E-value=28 Score=25.85 Aligned_cols=14 Identities=43% Similarity=0.878 Sum_probs=11.5
Q ss_pred CCcccEEeeceecc
Q 035104 9 SCRYDVFLSFRGED 22 (73)
Q Consensus 9 ~~~ydVFiSfrg~D 22 (73)
..+||||-.|-.+-
T Consensus 197 gsKYDvFq~Fesek 210 (363)
T KOG3929|consen 197 GSKYDVFQDFESEK 210 (363)
T ss_pred ccchhhhccccHHH
Confidence 57899999997764
No 203
>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=23.15 E-value=1.2e+02 Score=17.91 Aligned_cols=28 Identities=21% Similarity=0.278 Sum_probs=17.9
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
+++|++|+.. -+-...+.++++|+++..
T Consensus 52 i~iS~sG~t~---~~~~~~~~a~~~g~~vi~ 79 (128)
T cd05014 52 IAISNSGETD---ELLNLLPHLKRRGAPIIA 79 (128)
T ss_pred EEEeCCCCCH---HHHHHHHHHHHCCCeEEE
Confidence 3677777642 344666667888877654
No 204
>PF12681 Glyoxalase_2: Glyoxalase-like domain; PDB: 3G12_B 1JIF_B 1JIE_B 1QTO_A 3OXH_A 2PJS_A 2RBB_A 3SK1_B 3SK2_B 3RRI_A ....
Probab=23.07 E-value=92 Score=17.28 Aligned_cols=34 Identities=24% Similarity=0.330 Sum_probs=23.1
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCcceeecccccCCC
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRG 52 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G 52 (73)
.-++|+-+| +..+++.|.+.|+++-.+.++-.+|
T Consensus 58 ~~~~~~v~d-----v~~~~~~l~~~G~~~~~~~~~~~~g 91 (108)
T PF12681_consen 58 FHLCFEVED-----VDALYERLKELGAEIVTEPRDDPWG 91 (108)
T ss_dssp EEEEEEESH-----HHHHHHHHHHTTSEEEEEEEEETTS
T ss_pred eEEEEEEcC-----HHHHHHHHHHCCCeEeeCCEEcCCC
Confidence 344565555 5589999999999886664443344
No 205
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=23.05 E-value=1.5e+02 Score=18.15 Aligned_cols=39 Identities=21% Similarity=0.328 Sum_probs=31.8
Q ss_pred hHHHHHHHHhcCCcceeeccc------ccCCCCCCcHHHHHHHhh
Q 035104 27 FLSHLVEALRQKKIKSFIDNE------ELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~~------~l~~G~~i~~~i~~aI~~ 65 (73)
.+..+.+.-++.||..+-|.. +++-|+.|++++.+++.+
T Consensus 33 iAe~II~~Ake~~Vpi~edp~Lv~~L~~lelg~~IPeelY~vVAE 77 (92)
T COG2257 33 IAEKIIEKAKEHGVPIQEDPLLVELLLKLELGDEIPEELYEVVAE 77 (92)
T ss_pred HHHHHHHHHHHcCCCcccCHHHHHHHHhccccccCCHHHHHHHHH
Confidence 568888889999999998842 357899999999988754
No 206
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=23.01 E-value=1.1e+02 Score=21.89 Aligned_cols=41 Identities=17% Similarity=0.214 Sum_probs=27.1
Q ss_pred hHHHHHHHHhcCCcceeecccccCCCCC---CcHHHHHHHhhcceEE
Q 035104 27 FLSHLVEALRQKKIKSFIDNEELSRGDG---ISPSLLKAIKESKISV 70 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~~~l~~G~~---i~~~i~~aI~~Sri~I 70 (73)
=+.+|-+.|...|+.+..-. --||+ |...+-.|++.+.+.|
T Consensus 22 Na~~la~~L~~~G~~v~~~~---~VgD~~~~I~~~l~~a~~r~D~vI 65 (255)
T COG1058 22 NAAFLADELTELGVDLARIT---TVGDNPDRIVEALREASERADVVI 65 (255)
T ss_pred hHHHHHHHHHhcCceEEEEE---ecCCCHHHHHHHHHHHHhCCCEEE
Confidence 35789999999999887642 23444 4555556666655544
No 207
>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=22.88 E-value=2.6e+02 Score=19.10 Aligned_cols=41 Identities=10% Similarity=-0.044 Sum_probs=17.5
Q ss_pred chHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcc
Q 035104 26 NFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESK 67 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sr 67 (73)
..+..+.++|++.|+.+--.. ...+|+.=-...++.|++++
T Consensus 152 ~~~~~~~~~~~~~G~~vv~~~-~~~~~~~d~~~~v~~l~~~~ 192 (312)
T cd06346 152 GLADAFTKAFEALGGTVTNVV-AHEEGKSSYSSEVAAAAAGG 192 (312)
T ss_pred HHHHHHHHHHHHcCCEEEEEE-eeCCCCCCHHHHHHHHHhcC
Confidence 344455555555555543222 24444321123444444444
No 208
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.85 E-value=1.2e+02 Score=16.71 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=20.6
Q ss_pred eceeccchhchHHHHHHHHhcCCccee
Q 035104 17 SFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 17 Sfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
.-.++| |.++...+...|.+.|+++-
T Consensus 4 ~v~~~D-r~gLl~~i~~~l~~~~lnI~ 29 (74)
T cd04925 4 ELTGTD-RPGLLSEVFAVLADLHCNVV 29 (74)
T ss_pred EEEECC-CCCHHHHHHHHHHHCCCcEE
Confidence 344666 67899999999999998764
No 209
>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=22.80 E-value=1.4e+02 Score=16.10 Aligned_cols=29 Identities=21% Similarity=0.154 Sum_probs=18.6
Q ss_pred ccEEeeceeccchhchHHHHHHHHhcCCcce
Q 035104 12 YDVFLSFRGEDTRDNFLSHLVEALRQKKIKS 42 (73)
Q Consensus 12 ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~ 42 (73)
-.|+++..-.| ..=+..|.++|+++|+.+
T Consensus 38 ~~v~v~ie~~~--~~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 38 ARVLVGIQVPD--REDLAELKERLEALGYPY 66 (68)
T ss_pred eEEEEEEEeCC--HHHHHHHHHHHHHcCCCc
Confidence 44666665444 235667888888888753
No 210
>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=22.44 E-value=1e+02 Score=19.03 Aligned_cols=32 Identities=31% Similarity=0.560 Sum_probs=16.7
Q ss_pred cEEeece-eccchhchHHHHHHHHhcCCcceeecc
Q 035104 13 DVFLSFR-GEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 13 dVFiSfr-g~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
++.++|+ |+|. .-+-||...+..+.--+|.|-
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 3567777 5663 344566666655544566664
No 211
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=22.37 E-value=92 Score=19.73 Aligned_cols=20 Identities=25% Similarity=0.335 Sum_probs=18.0
Q ss_pred hchHHHHHHHHhcCCcceee
Q 035104 25 DNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~ 44 (73)
+.++..+.++++++||++..
T Consensus 43 ~Dllge~v~a~h~~Girv~a 62 (132)
T PF14871_consen 43 RDLLGEQVEACHERGIRVPA 62 (132)
T ss_pred cCHHHHHHHHHHHCCCEEEE
Confidence 47999999999999999875
No 212
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=22.36 E-value=2.8e+02 Score=20.15 Aligned_cols=35 Identities=31% Similarity=0.345 Sum_probs=26.3
Q ss_pred cccEEeeceeccchhchHHHHHHHHhcCCcceeecc
Q 035104 11 RYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 11 ~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
..||.|-.-+++.. ..+-.+.+.|+++|+++-+|.
T Consensus 318 ~~~vlI~~~~~~~~-~~a~~i~~~Lr~~Gi~v~i~~ 352 (412)
T PRK00037 318 PVDVYVVPLGEDAE-LAALKLAEKLRAAGIRVELDY 352 (412)
T ss_pred CCCEEEEEeChHHH-HHHHHHHHHHHHCCCeEEEeC
Confidence 46888877554432 357789999999999998865
No 213
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=22.26 E-value=1.1e+02 Score=19.07 Aligned_cols=29 Identities=24% Similarity=0.489 Sum_probs=20.4
Q ss_pred Eeeceeccc--hhchHHHHHHHHhcCCccee
Q 035104 15 FLSFRGEDT--RDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 15 FiSfrg~D~--r~~f~~~L~~~L~~~gi~~f 43 (73)
||.+-|.|. +.+++..|.+.|..+|..+.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~ 32 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVV 32 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEE
Confidence 344555543 45688999999998888764
No 214
>PRK05670 anthranilate synthase component II; Provisional
Probab=22.24 E-value=77 Score=20.65 Aligned_cols=23 Identities=26% Similarity=0.364 Sum_probs=18.3
Q ss_pred cchhchHHHHHHHHhcCCcceee
Q 035104 22 DTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 22 D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
|...+|+..+...|+++|+.+-+
T Consensus 6 d~~d~f~~~i~~~l~~~g~~~~v 28 (189)
T PRK05670 6 DNYDSFTYNLVQYLGELGAEVVV 28 (189)
T ss_pred ECCCchHHHHHHHHHHCCCcEEE
Confidence 34468999999999999987643
No 215
>PRK07524 hypothetical protein; Provisional
Probab=22.21 E-value=1.9e+02 Score=21.98 Aligned_cols=37 Identities=19% Similarity=0.187 Sum_probs=26.4
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceE
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKIS 69 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~ 69 (73)
.+.|.+.|.+.|++...-- +|+.+. .++.+++++++-
T Consensus 5 a~~l~~~L~~~Gv~~vFg~----pG~~~~-~~~dal~~~~i~ 41 (535)
T PRK07524 5 GEALVRLLEAYGVETVFGI----PGVHTV-ELYRGLAGSGIR 41 (535)
T ss_pred HHHHHHHHHHcCCCEEEeC----CCcchH-HHHHHHhhcCCc
Confidence 5688899999999776542 677765 556777766653
No 216
>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=22.17 E-value=86 Score=21.50 Aligned_cols=29 Identities=14% Similarity=0.315 Sum_probs=20.1
Q ss_pred CcccEEeece---------eccchhchHHHHHHHHhcC
Q 035104 10 CRYDVFLSFR---------GEDTRDNFLSHLVEALRQK 38 (73)
Q Consensus 10 ~~ydVFiSfr---------g~D~r~~f~~~L~~~L~~~ 38 (73)
..-|.|++|+ +.....-|+..|.+.|.+.
T Consensus 158 ~~~D~li~ysT~pG~va~r~~~~gS~fi~~L~~~l~~~ 195 (241)
T smart00115 158 VEADFLAAYSTTPGYVSWRNPTRGSWFIQSLCQVLKEY 195 (241)
T ss_pred CcCcEEEEEeCCCCeEeecCCCCCchHHHHHHHHHHHc
Confidence 3446776654 5555567889999999874
No 217
>PRK08156 type III secretion system protein SpaS; Validated
Probab=22.16 E-value=1.8e+02 Score=21.72 Aligned_cols=44 Identities=11% Similarity=-0.027 Sum_probs=34.6
Q ss_pred eeccchhchHHHHHHHHhcCCcceeecc-------cccCCCCCCcHHHHHHHhh
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKSFIDN-------EELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~f~D~-------~~l~~G~~i~~~i~~aI~~ 65 (73)
.|.| ..+..+.+.-+++||.+.-|. +..+-|+.|+.++++|+-+
T Consensus 280 KG~d---~~A~~IreiA~e~~VPiven~pLARaLY~~vevg~~IP~ely~AVA~ 330 (361)
T PRK08156 280 RETN---QRALAVRAYAEKVGVPVVRDIKLARRLYKTHRRYSFVSLEDLDEVLR 330 (361)
T ss_pred ecCc---HHHHHHHHHHHHCCCCEeeCHHHHHHHHHhCCCCCcCCHHHHHHHHH
Confidence 3555 467788888899999998872 3467899999999999864
No 218
>PF08414 NADPH_Ox: Respiratory burst NADPH oxidase; InterPro: IPR013623 This domain is found in plant proteins such as respiratory burst NADPH oxidase proteins which produce reactive oxygen species as a defence mechanism. It tends to occur to the N terminus of an EF-hand (IPR002048 from INTERPRO), which suggests a direct regulatory effect of Ca2+ on the activity of the NADPH oxidase in plants []. ; GO: 0004601 peroxidase activity, 0050664 oxidoreductase activity, acting on NADH or NADPH, oxygen as acceptor, 0055114 oxidation-reduction process; PDB: 3A8R_A.
Probab=22.15 E-value=67 Score=20.00 Aligned_cols=18 Identities=33% Similarity=0.569 Sum_probs=12.7
Q ss_pred hhchHHHHHHHHhc-CCcc
Q 035104 24 RDNFLSHLVEALRQ-KKIK 41 (73)
Q Consensus 24 r~~f~~~L~~~L~~-~gi~ 41 (73)
.+.|+..|+.+|.+ +||.
T Consensus 59 SkeFA~eLFdALaRrr~i~ 77 (100)
T PF08414_consen 59 SKEFAGELFDALARRRGIK 77 (100)
T ss_dssp -HHHHHHHHHHHHHHTT--
T ss_pred cHHHHHHHHHHHHHhcCCc
Confidence 45799999999965 5664
No 219
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=22.09 E-value=1e+02 Score=19.73 Aligned_cols=32 Identities=19% Similarity=0.323 Sum_probs=24.9
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeecc
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
.++|.|=+.-..++..|.+.++++|++++++-
T Consensus 64 gVt~SGGEl~~~~l~~ll~~lk~~Gl~i~l~T 95 (147)
T TIGR02826 64 CVLFLGGEWNREALLSLLKIFKEKGLKTCLYT 95 (147)
T ss_pred EEEEechhcCHHHHHHHHHHHHHCCCCEEEEC
Confidence 46777655555678889999999999998874
No 220
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=22.01 E-value=1.3e+02 Score=15.46 Aligned_cols=25 Identities=16% Similarity=0.282 Sum_probs=19.2
Q ss_pred ceeccchhchHHHHHHHHhcCCccee
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
..++| +.+.+..|...|.+.|+++.
T Consensus 5 i~~~d-~~g~l~~i~~~l~~~~~~I~ 29 (70)
T cd04873 5 VYAPD-RPGLLADITRVLADLGLNIH 29 (70)
T ss_pred EEeCC-CCCHHHHHHHHHHHCCCeEE
Confidence 34555 45788999999999998774
No 221
>cd08355 Glo_EDI_BRP_like_14 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=22.01 E-value=1.7e+02 Score=16.77 Aligned_cols=32 Identities=13% Similarity=0.126 Sum_probs=21.9
Q ss_pred eeceeccchhchHHHHHHHHhcCCcceeecccccCCC
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRG 52 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G 52 (73)
|+|.-+| +..++++|..+|..+-...++...|
T Consensus 72 ~~~~v~d-----~d~~~~~l~~~G~~v~~~~~~~~~g 103 (122)
T cd08355 72 VYVVVDD-----VDAHYERARAAGAEILREPTDTPYG 103 (122)
T ss_pred EEEEECC-----HHHHHHHHHHCCCEEeeCccccCCC
Confidence 5566665 4789999999998877654434444
No 222
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=21.89 E-value=1.2e+02 Score=18.49 Aligned_cols=24 Identities=17% Similarity=0.407 Sum_probs=18.1
Q ss_pred HHHHHHHHhcCCcceeecccccCC
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSR 51 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~ 51 (73)
+..++..|...||.+.+|-+...+
T Consensus 2 ~e~f~~~l~~~~i~~lVDVR~~P~ 25 (122)
T PF04343_consen 2 IERFYDLLKKNGIRVLVDVRLWPR 25 (122)
T ss_pred HHHHHHHHHHCCCeEEEEECCCCC
Confidence 356788899999999999554444
No 223
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=21.78 E-value=3.1e+02 Score=19.88 Aligned_cols=36 Identities=25% Similarity=0.268 Sum_probs=26.0
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecc
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
...||++..-+++... -+-.+...|.++|+.|-++.
T Consensus 321 ~~~~vlV~~~~~~~~~-~~~~i~~~Lr~~gi~v~~~~ 356 (397)
T TIGR00442 321 SSPDVYVVPLGEEAEL-EALKLAQKLRKAGIRVEVDL 356 (397)
T ss_pred CCCcEEEEEeCHHHHH-HHHHHHHHHHhCCCeEEEeC
Confidence 3468888665554433 46689999999999997764
No 224
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=21.65 E-value=2.2e+02 Score=20.69 Aligned_cols=41 Identities=29% Similarity=0.438 Sum_probs=28.9
Q ss_pred HHHHHHhcCCcceeecccccCCCC-------CCcHHHHHHHhhcceEE
Q 035104 30 HLVEALRQKKIKSFIDNEELSRGD-------GISPSLLKAIKESKISV 70 (73)
Q Consensus 30 ~L~~~L~~~gi~~f~D~~~l~~G~-------~i~~~i~~aI~~Sri~I 70 (73)
+..+.|+++|+++--|-.+++.|. .++++..+.+++-.+-|
T Consensus 44 ~vv~~L~~~GV~~v~~~~~v~~~~~ViirAHGv~~~~~~~~~~~g~~v 91 (298)
T PRK01045 44 YVVERLEKKGAIFVEELDEVPDGAIVIFSAHGVSPAVREEAKERGLTV 91 (298)
T ss_pred HHHHHHHHCCCEEecCcccCCCCCEEEEeCCCCCHHHHHHHHHCCCeE
Confidence 567889999998876665666554 35778877777655544
No 225
>cd06066 H2MP_NAD-link-bidir Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit assembly. These bidirectional hydrogenases are heteropentamers encoded by the hox (hydrogen oxidation) genes, in which complex HoxEFU shows the diaphorase activity, and HoxYH constitutes the NiFe-hydrogenase.
Probab=21.61 E-value=2.1e+02 Score=17.76 Aligned_cols=46 Identities=15% Similarity=0.352 Sum_probs=25.7
Q ss_pred ceeccchhchHHHHHHHHhcCCcc--eeecccccCCCCCCcHHHHHHHhhcceEEEE
Q 035104 18 FRGEDTRDNFLSHLVEALRQKKIK--SFIDNEELSRGDGISPSLLKAIKESKISVII 72 (73)
Q Consensus 18 frg~D~r~~f~~~L~~~L~~~gi~--~f~D~~~l~~G~~i~~~i~~aI~~Sri~IvV 72 (73)
++++| +|=-++.++|+++.-. .++|. .....++...++.....|+|
T Consensus 9 l~~DD---GvG~~v~~~L~~~~~~~v~~id~------g~~g~~l~~~l~~~d~vIiv 56 (139)
T cd06066 9 LRGDD---GLGPAVAERIEEWLLPGVEVLAV------HQLTPELAEDLAGADRVIFI 56 (139)
T ss_pred ccccc---chhHHHHHHHHhhCCCCeEEEEc------CCCCHHHHHHhcCCCEEEEE
Confidence 45555 4666788888765311 12332 22334566677777776665
No 226
>COG2130 Putative NADP-dependent oxidoreductases [General function prediction only]
Probab=21.57 E-value=2e+02 Score=21.60 Aligned_cols=50 Identities=26% Similarity=0.464 Sum_probs=33.9
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh-cce
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE-SKI 68 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~-Sri 68 (73)
-.+|+=|+|+-+| |...|-++-- +||.+|+|+- |..+.+..+.-+.. .||
T Consensus 195 lGfD~~idyk~~d----~~~~L~~a~P-~GIDvyfeNV----Gg~v~DAv~~~ln~~aRi 245 (340)
T COG2130 195 LGFDAGIDYKAED----FAQALKEACP-KGIDVYFENV----GGEVLDAVLPLLNLFARI 245 (340)
T ss_pred cCCceeeecCccc----HHHHHHHHCC-CCeEEEEEcC----CchHHHHHHHhhccccce
Confidence 4689999998875 6655555544 8999999973 66666566555443 344
No 227
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=21.54 E-value=1.5e+02 Score=17.29 Aligned_cols=30 Identities=20% Similarity=0.290 Sum_probs=20.1
Q ss_pred ccEEeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 12 YDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 12 ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
.=+++|++|... . +-.+.+.++++|+++..
T Consensus 63 ~~i~iS~~g~~~--~-~~~~~~~a~~~g~~iv~ 92 (139)
T cd05013 63 VVIAISFSGETK--E-TVEAAEIAKERGAKVIA 92 (139)
T ss_pred EEEEEeCCCCCH--H-HHHHHHHHHHcCCeEEE
Confidence 446788888752 2 34556778888887754
No 228
>COG2861 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.52 E-value=1.1e+02 Score=21.99 Aligned_cols=34 Identities=24% Similarity=0.505 Sum_probs=24.3
Q ss_pred HHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHh
Q 035104 28 LSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIK 64 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~ 64 (73)
...|+++|.++|+ .|+|+.. .|.++...|-+++.
T Consensus 140 M~~~m~~Lk~r~l-~flDs~T--~a~S~a~~iAk~~g 173 (250)
T COG2861 140 MEKLMEALKERGL-YFLDSGT--IANSLAGKIAKEIG 173 (250)
T ss_pred HHHHHHHHHHCCe-EEEcccc--cccchhhhhHhhcC
Confidence 4678999999998 7888864 35556666655554
No 229
>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=21.50 E-value=1.3e+02 Score=15.28 Aligned_cols=32 Identities=16% Similarity=0.251 Sum_probs=22.7
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCccee
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
..+.+++.+...|.. =...+.+.|+++|+.+.
T Consensus 41 ~~~~~~i~v~~~~~~--~l~~l~~~l~~~g~~~~ 72 (73)
T cd04886 41 GEVEVELTLETRGAE--HIEEIIAALREAGYDVR 72 (73)
T ss_pred ceEEEEEEEEeCCHH--HHHHHHHHHHHcCCEEe
Confidence 456677777776532 35688899999998764
No 230
>PF00879 Defensin_propep: Defensin propeptide The pattern for this Prosite entry doesn't match the propeptide.; InterPro: IPR002366 Defensins are 2-6 kDa, cationic, microbicidal peptides active against many Gram-negative and Gram-positive bacteria, fungi, and enveloped viruses [], containing three pairs of intramolecular disulphide bonds []. On the basis of their size and pattern of disulphide bonding, mammalian defensins are classified into alpha, beta and theta categories. Alpha-defensins, which have been identified in humans, monkeys and several rodent species, are particularly abundant in neutrophils, certain macrophage populations and Paneth cells of the small intestine. Every mammalian species explored thus far has beta-defensins. In cows, as many as 13 beta-defensins exist in neutrophils. However, in other species, beta-defensins are more often produced by epithelial cells lining various organs (e.g. the epidermis, bronchial tree and genitourinary tract). Theta-defensins are cyclic and have so far only been identified in primate phagocytes. Defensins are produced constitutively and/or in response to microbial products or proinflammatory cytokines. Some defensins are also called corticostatins (CS) because they inhibit corticotropin-stimulated corticosteroid production. The mechanism(s) by which microorganisms are killed and/or inactivated by defensins is not understood completely. However, it is generally believed that killing is a consequence of disruption of the microbial membrane. The polar topology of defensins, with spatially separated charged and hydrophobic regions, allows them to insert themselves into the phospholipid membranes so that their hydrophobic regions are buried within the lipid membrane interior and their charged (mostly cationic) regions interact with anionic phospholipid head groups and water. Subsequently, some defensins can aggregate to form `channel-like' pores; others might bind to and cover the microbial membrane in a `carpet-like' manner. The net outcome is the disruption of membrane integrity and function, which ultimately leads to the lysis of microorganisms. Some defensins are synthesized as propeptides which may be relevant to this process - in neutrophils only the mature peptides have been identified but in Paneth cells, the propeptide is stored in vesicles [] and appears to be cleaved by trypsin on activation. ; GO: 0006952 defense response
Probab=21.43 E-value=54 Score=18.08 Aligned_cols=13 Identities=38% Similarity=0.608 Sum_probs=10.6
Q ss_pred CcccEEeeceecc
Q 035104 10 CRYDVFLSFRGED 22 (73)
Q Consensus 10 ~~ydVFiSfrg~D 22 (73)
..-||-|||.|++
T Consensus 38 edQdv~ISf~~~e 50 (52)
T PF00879_consen 38 EDQDVSISFAGDE 50 (52)
T ss_pred cCCcEEEEecCCC
Confidence 4579999999875
No 231
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=21.40 E-value=1.1e+02 Score=16.47 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=22.8
Q ss_pred hHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 27 FLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
.+..|.+......|..+.|.+ ..|+.+...+.+.+..
T Consensus 37 ~~~~l~~~~~~~~Iii~~D~D--~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 37 IIKLLKRLAKKKEVILATDPD--REGEAIAWKLAELLKP 73 (76)
T ss_pred HHHHHHHHhcCCEEEEEcCCC--hhHHHHHHHHHHHhhh
Confidence 444555444445688888865 3588777777666543
No 232
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.37 E-value=1.5e+02 Score=17.50 Aligned_cols=26 Identities=19% Similarity=0.499 Sum_probs=18.3
Q ss_pred CCcccEEeeceec-cchhchHHHHHHHHhc
Q 035104 9 SCRYDVFLSFRGE-DTRDNFLSHLVEALRQ 37 (73)
Q Consensus 9 ~~~ydVFiSfrg~-D~r~~f~~~L~~~L~~ 37 (73)
.|.|..||-+.|. |. =+.++.+.|++
T Consensus 54 ~~~Y~FfVDieg~~~~---~~~~~l~~L~~ 80 (90)
T cd04931 54 KDEYEFFINLDKKSAP---ALDPIIKSLRN 80 (90)
T ss_pred CceEEEEEEEEcCCCH---HHHHHHHHHHH
Confidence 7999999999986 32 23455566654
No 233
>KOG0139 consensus Short-chain acyl-CoA dehydrogenase [Lipid transport and metabolism]
Probab=21.35 E-value=1.4e+02 Score=22.86 Aligned_cols=50 Identities=26% Similarity=0.333 Sum_probs=31.7
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHhcCCcceeecccc---cCCCCCCcHHHHHHHhhcceEEE
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEE---LSRGDGISPSLLKAIKESKISVI 71 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~---l~~G~~i~~~i~~aI~~Sri~Iv 71 (73)
.+.-|+|+-|...|... .-+||.+|+-+++ +..|++-. . -.|+.|..+=+
T Consensus 191 ~~~A~~~lVfan~d~~~----------~~Kgit~fiV~rd~~Gl~~~k~eD-K--LGmRaSsTcql 243 (398)
T KOG0139|consen 191 AGEADWFLVFANADPSK----------GYKGITCFIVPRDTPGLSLGKKED-K--LGMRASSTCQL 243 (398)
T ss_pred CcccceEEEEEecChhh----------ccCceeEEEeeCCCCCcccCCccc-c--ccccccceeeE
Confidence 67889999999988654 3499999996543 33443321 1 25665555433
No 234
>PRK13862 putative crown gall tumor protein VirC2; Provisional
Probab=21.28 E-value=1.2e+02 Score=20.84 Aligned_cols=25 Identities=28% Similarity=0.308 Sum_probs=18.4
Q ss_pred CCcccEEeeceeccchhchHHHHHHHHh
Q 035104 9 SCRYDVFLSFRGEDTRDNFLSHLVEALR 36 (73)
Q Consensus 9 ~~~ydVFiSfrg~D~r~~f~~~L~~~L~ 36 (73)
+.+.+||+|-|-+.- =++..|..|.
T Consensus 79 PEKvQVFLSArpPAp---~vSk~yD~Li 103 (201)
T PRK13862 79 PEKVQVFLSARPPAP---EVSKIYDNLI 103 (201)
T ss_pred chheEEeeecCCCCc---cHHHHHHHHH
Confidence 678999999987753 2566676664
No 235
>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=21.24 E-value=1.3e+02 Score=19.22 Aligned_cols=30 Identities=23% Similarity=0.275 Sum_probs=20.3
Q ss_pred ccE--EeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 12 YDV--FLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 12 ydV--FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
-|| .+|++|+. + -+-...+.++++|+++.-
T Consensus 102 ~Dv~I~iS~SG~t-~--~~i~~~~~ak~~Ga~vI~ 133 (177)
T cd05006 102 GDVLIGISTSGNS-P--NVLKALEAAKERGMKTIA 133 (177)
T ss_pred CCEEEEEeCCCCC-H--HHHHHHHHHHHCCCEEEE
Confidence 455 67777864 2 455777788888887653
No 236
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=21.18 E-value=1.2e+02 Score=23.02 Aligned_cols=36 Identities=11% Similarity=0.022 Sum_probs=27.0
Q ss_pred CcccEEeeceecc-chhchHHHHHHHHhcCCcceeecc
Q 035104 10 CRYDVFLSFRGED-TRDNFLSHLVEALRQKKIKSFIDN 46 (73)
Q Consensus 10 ~~ydVFiSfrg~D-~r~~f~~~L~~~L~~~gi~~f~D~ 46 (73)
.+++|+|---+++ .-...+..|++.|+++ +++.+|+
T Consensus 362 AP~qV~Iipi~~~~e~~~~A~~la~~LR~~-irVelD~ 398 (456)
T PRK04173 362 APVKVAVLPLVKKEKLSEKAREIYAELRKD-FNVDYDD 398 (456)
T ss_pred CCCEEEEEEecCcHHHHHHHHHHHHHHHhc-CEEEEeC
Confidence 4578877665542 1346788999999999 9999985
No 237
>PRK08617 acetolactate synthase; Reviewed
Probab=21.02 E-value=2.1e+02 Score=21.75 Aligned_cols=40 Identities=20% Similarity=0.278 Sum_probs=28.2
Q ss_pred hHHHHHHHHhcCCcceeecccccCCCCCCcHHHHHHHhhcceEEE
Q 035104 27 FLSHLVEALRQKKIKSFIDNEELSRGDGISPSLLKAIKESKISVI 71 (73)
Q Consensus 27 f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~i~~aI~~Sri~Iv 71 (73)
-...|.+.|++.|++...-- +|..+. .++.+++++++-++
T Consensus 7 ~~~~l~~~L~~~GV~~vFg~----pG~~~~-~l~~al~~~~i~~i 46 (552)
T PRK08617 7 GADLVVDSLINQGVKYVFGI----PGAKID-RVFDALEDSGPELI 46 (552)
T ss_pred HHHHHHHHHHHcCCCEEEeC----CCccHH-HHHHHHhhCCCCEE
Confidence 46788899999999776542 677765 66777776665443
No 238
>PRK10291 glyoxalase I; Provisional
Probab=20.99 E-value=1.5e+02 Score=17.45 Aligned_cols=25 Identities=12% Similarity=0.198 Sum_probs=19.1
Q ss_pred eeceeccchhchHHHHHHHHhcCCcceeec
Q 035104 16 LSFRGEDTRDNFLSHLVEALRQKKIKSFID 45 (73)
Q Consensus 16 iSfrg~D~r~~f~~~L~~~L~~~gi~~f~D 45 (73)
|+|+-+|. ..+++.|+++|+.+...
T Consensus 69 laf~V~d~-----~~~~~~l~~~G~~~~~~ 93 (129)
T PRK10291 69 IALSVDNA-----AEACEKIRQNGGNVTRE 93 (129)
T ss_pred EEEEeCCH-----HHHHHHHHHcCCccccC
Confidence 67777763 57899999999987644
No 239
>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydro
Probab=20.96 E-value=1.1e+02 Score=17.13 Aligned_cols=21 Identities=14% Similarity=0.341 Sum_probs=18.3
Q ss_pred hhchHHHHHHHHhcCCcceee
Q 035104 24 RDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 24 r~~f~~~L~~~L~~~gi~~f~ 44 (73)
..+|+..+...|.+.||++-+
T Consensus 14 ~~g~~~~If~~la~~~I~vd~ 34 (73)
T cd04934 14 SHGFLARIFAILDKYRLSVDL 34 (73)
T ss_pred ccCHHHHHHHHHHHcCCcEEE
Confidence 357999999999999998865
No 240
>cd05402 NT_PAP_TUTase Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases. Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxyla
Probab=20.93 E-value=1.3e+02 Score=17.66 Aligned_cols=32 Identities=22% Similarity=0.298 Sum_probs=25.4
Q ss_pred CCcccEEeeceec-cchhchHHHHHHHHhcCCc
Q 035104 9 SCRYDVFLSFRGE-DTRDNFLSHLVEALRQKKI 40 (73)
Q Consensus 9 ~~~ydVFiSfrg~-D~r~~f~~~L~~~L~~~gi 40 (73)
.-.-|+.|.+... .....+...|++.|++.+.
T Consensus 36 ~SDiDl~i~~~~~~~~~~~~l~~l~~~l~~~~~ 68 (114)
T cd05402 36 GSDIDLCLLGPNHRVDREDFLRKLAKLLKKSGE 68 (114)
T ss_pred CCCeeEEEEeCCCCccHHHHHHHHHHHHHhCCC
Confidence 4568899998775 4456799999999999884
No 241
>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=20.74 E-value=1.2e+02 Score=18.55 Aligned_cols=52 Identities=13% Similarity=0.290 Sum_probs=29.4
Q ss_pred ccEEeeceeccchhchHHHHHHHHhc---CCcceeecccccCCCCCCcHHHHHHHhh
Q 035104 12 YDVFLSFRGEDTRDNFLSHLVEALRQ---KKIKSFIDNEELSRGDGISPSLLKAIKE 65 (73)
Q Consensus 12 ydVFiSfrg~D~r~~f~~~L~~~L~~---~gi~~f~D~~~l~~G~~i~~~i~~aI~~ 65 (73)
++.+++..-.+.-...+.+||..|++ .|+.+-+=+ .+. ...+...+...+++
T Consensus 68 ~~~~~~l~~~~d~~~~A~~Lf~~LR~~D~~~~~~I~ie-~~~-~~~~g~Ai~dRL~R 122 (125)
T PF03481_consen 68 FDIVYSLSLPGDPEEAARNLFAALRELDELGVDLILIE-GPP-ETGLGLAIMDRLRR 122 (125)
T ss_dssp GSEEEEEESTTSHHHHHHHHHHHHHHHHHTT-SEEEEE-EES-GCCCHHHHHHHHHH
T ss_pred cceEEEecCCCCHHHHHHHHHHHHHHHhhcCCCEEEEe-eCC-CcCcHHHHHHHHHH
Confidence 35555555444456799999999965 466544432 122 34455566655544
No 242
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=20.69 E-value=2.2e+02 Score=19.36 Aligned_cols=54 Identities=22% Similarity=0.279 Sum_probs=31.2
Q ss_pred EeeceeccchhchHHHHHHHHhcCCcceeec--ccccCCCCCCcHHHHHHHhhcceEEEEC
Q 035104 15 FLSFRGEDTRDNFLSHLVEALRQKKIKSFID--NEELSRGDGISPSLLKAIKESKISVIIF 73 (73)
Q Consensus 15 FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D--~~~l~~G~~i~~~i~~aI~~Sri~IvVf 73 (73)
++=.||+..|. .|-+.|+++|+.+-.- .+ -.........+.+.++.-++.+|+|
T Consensus 133 vLi~rg~~~r~----~L~~~L~~~G~~v~~~~vY~-~~~~~~~~~~~~~~~~~~~~d~v~f 188 (255)
T PRK05752 133 VLIMRGEGGRE----LLAERLREQGASVDYLELYR-RCLPDYPAGTLLQRVEAERLNGLVV 188 (255)
T ss_pred EEEEccCccHH----HHHHHHHHCCCEEeEEEEEe-ecCCCCCHHHHHHHHHhCCCCEEEE
Confidence 33367776664 5788899999775331 11 1222333456667777666655554
No 243
>PF09682 Holin_LLH: Phage holin protein (Holin_LLH); InterPro: IPR010026 This entry represents the Bacteriophage LL-H, Orf107, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=20.65 E-value=72 Score=19.42 Aligned_cols=24 Identities=29% Similarity=0.502 Sum_probs=18.7
Q ss_pred eeccchhchHHHHHHHHhcCCcce
Q 035104 19 RGEDTRDNFLSHLVEALRQKKIKS 42 (73)
Q Consensus 19 rg~D~r~~f~~~L~~~L~~~gi~~ 42 (73)
.|+|.+..-+..+...|.+.||++
T Consensus 65 ~G~~K~~~A~~~v~~~L~~~gi~~ 88 (108)
T PF09682_consen 65 KGEEKKAEAVQYVKERLKKKGIKV 88 (108)
T ss_pred CcHHHHHHHHHHHHHHHHHcCCCC
Confidence 577766656688999999999943
No 244
>PRK13188 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed
Probab=20.64 E-value=2e+02 Score=22.32 Aligned_cols=43 Identities=30% Similarity=0.348 Sum_probs=31.7
Q ss_pred chHHHHHHHHhcCCcc---eeecccccCCCCCCcHHHHHHHhhcce
Q 035104 26 NFLSHLVEALRQKKIK---SFIDNEELSRGDGISPSLLKAIKESKI 68 (73)
Q Consensus 26 ~f~~~L~~~L~~~gi~---~f~D~~~l~~G~~i~~~i~~aI~~Sri 68 (73)
.=+.||.+||..-||. +-+|-.|+.-.|.-+..-+++|+++.+
T Consensus 75 ~TvEHllaAl~~~gIdn~~iei~g~E~Pi~DGSa~~f~~~i~~agi 120 (464)
T PRK13188 75 HTVEHVLAALYGLGIDNCLIELDGPEPPIMDGSSKPFVEAIEEAGI 120 (464)
T ss_pred EeHHHHHHHHHhCCCcEEEEEeCCCCCCccCCCHHHHHHHHHHcCC
Confidence 3579999999998864 445666676666666677788888765
No 245
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=20.60 E-value=1e+02 Score=17.27 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=14.4
Q ss_pred HHHHHHHhcCCcceeec
Q 035104 29 SHLVEALRQKKIKSFID 45 (73)
Q Consensus 29 ~~L~~~L~~~gi~~f~D 45 (73)
...+..|.++||+++..
T Consensus 64 ~~~~~~L~~~gI~v~~~ 80 (94)
T PF02579_consen 64 EGAFRALKEAGIKVYQG 80 (94)
T ss_dssp HHHHHHHHHTTSEEEES
T ss_pred HHHHHHHHHCCCEEEEc
Confidence 36788999999999975
No 246
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=20.59 E-value=51 Score=22.47 Aligned_cols=24 Identities=21% Similarity=0.284 Sum_probs=19.0
Q ss_pred eeccchhchH-HHHHHHHhcCCcce
Q 035104 19 RGEDTRDNFL-SHLVEALRQKKIKS 42 (73)
Q Consensus 19 rg~D~r~~f~-~~L~~~L~~~gi~~ 42 (73)
..+|.+..++ ..|-++|.+.||++
T Consensus 145 ~~kdkK~tLtmeDL~~AL~EyGinv 169 (176)
T KOG3423|consen 145 QAKDKKYTLTMEDLSPALAEYGINV 169 (176)
T ss_pred cccccceeeeHHHHHHHHHHhCccc
Confidence 3567666666 88999999999976
No 247
>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=20.56 E-value=1.8e+02 Score=18.46 Aligned_cols=23 Identities=35% Similarity=0.355 Sum_probs=19.8
Q ss_pred hchHHHHHHHHhcCCcceeeccc
Q 035104 25 DNFLSHLVEALRQKKIKSFIDNE 47 (73)
Q Consensus 25 ~~f~~~L~~~L~~~gi~~f~D~~ 47 (73)
..|-..|-++|+++|.-+--++.
T Consensus 35 d~Fg~aL~~~LR~~GYaV~e~~~ 57 (121)
T PF07283_consen 35 DPFGQALENALRAKGYAVIEDDP 57 (121)
T ss_pred ChHHHHHHHHHHhcCcEEEecCC
Confidence 37999999999999998877653
No 248
>PLN02891 IMP cyclohydrolase
Probab=20.54 E-value=1.5e+02 Score=23.60 Aligned_cols=46 Identities=17% Similarity=0.332 Sum_probs=35.2
Q ss_pred cEEeeceeccchhchHHHHHHHHhcCCcceeecccccCCCCCCc-HHHHHHHhhcceEEE
Q 035104 13 DVFLSFRGEDTRDNFLSHLVEALRQKKIKSFIDNEELSRGDGIS-PSLLKAIKESKISVI 71 (73)
Q Consensus 13 dVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f~D~~~l~~G~~i~-~~i~~aI~~Sri~Iv 71 (73)
|-|.=|+|.|.- ..+.+.||+.- +|||-+|. .+..+|-.+-.|+++
T Consensus 492 DAFFPF~~~D~v--------e~aa~~Gv~aI-----IQPGGSiRD~evI~aane~giaMv 538 (547)
T PLN02891 492 DAFFPFAWNDAV--------EEACQAGVKVI-----AEPGGSMRDQDAIDCCNKYGVALL 538 (547)
T ss_pred cccCCCCCCccH--------HHHHHhCCEEE-----ECCCCCCCcHHHHHHHHHhCCEEE
Confidence 778889888853 34567899884 77888886 667788888888876
No 249
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=20.32 E-value=1.1e+02 Score=21.99 Aligned_cols=33 Identities=24% Similarity=0.349 Sum_probs=21.9
Q ss_pred HhcCCcceeecccccCCCC-CCcHHHHHHHhhcceEE
Q 035104 35 LRQKKIKSFIDNEELSRGD-GISPSLLKAIKESKISV 70 (73)
Q Consensus 35 L~~~gi~~f~D~~~l~~G~-~i~~~i~~aI~~Sri~I 70 (73)
|...|| |++|+ +..-+ .-...|.+|+|+-.++|
T Consensus 119 lad~Gi-ccIDe--~dk~~~~~~~~l~eaMEqq~isi 152 (331)
T PF00493_consen 119 LADGGI-CCIDE--FDKMKEDDRDALHEAMEQQTISI 152 (331)
T ss_dssp HCTTSE-EEECT--TTT--CHHHHHHHHHHHCSCEEE
T ss_pred cccCce-eeecc--cccccchHHHHHHHHHHcCeecc
Confidence 446666 88996 43322 24568899999988876
No 250
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=20.25 E-value=1.5e+02 Score=16.54 Aligned_cols=30 Identities=13% Similarity=0.181 Sum_probs=15.4
Q ss_pred EEeeceeccchhchHHHHHHHHhcCCc-cee
Q 035104 14 VFLSFRGEDTRDNFLSHLVEALRQKKI-KSF 43 (73)
Q Consensus 14 VFiSfrg~D~r~~f~~~L~~~L~~~gi-~~f 43 (73)
||.+..|..........++..|...|+ +++
T Consensus 71 v~yc~~~~~~~~~~~~~~~~~l~~~g~~~v~ 101 (113)
T PF00581_consen 71 VFYCSSGWRSGSAAAARVAWILKKLGFKNVY 101 (113)
T ss_dssp EEEESSSCHHHHHHHHHHHHHHHHTTTSSEE
T ss_pred eeeeecccccchhHHHHHHHHHHHcCCCCEE
Confidence 566655554443333334444666666 444
No 251
>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=20.23 E-value=1.8e+02 Score=17.01 Aligned_cols=32 Identities=22% Similarity=0.185 Sum_probs=23.3
Q ss_pred CcccEEeeceeccchhchHHHHHHHHhcCCccee
Q 035104 10 CRYDVFLSFRGEDTRDNFLSHLVEALRQKKIKSF 43 (73)
Q Consensus 10 ~~ydVFiSfrg~D~r~~f~~~L~~~L~~~gi~~f 43 (73)
..-.||+++.-++... ...|.+.|++.|+.+.
T Consensus 48 ~~a~vlvgi~v~~~~~--~~~l~~~L~~~gy~~~ 79 (91)
T PF00585_consen 48 DFARVLVGIEVPDAED--LEELIERLKALGYPYE 79 (91)
T ss_dssp SCSEEEEEEE-SSTHH--HHHHHHHHTSSS-EEE
T ss_pred CeeeEEEEEEeCCHHH--HHHHHHHHHHcCCCeE
Confidence 4567999998776543 6789999999998653
No 252
>PRK09441 cytoplasmic alpha-amylase; Reviewed
Probab=20.16 E-value=89 Score=23.57 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=16.4
Q ss_pred HHHHHHHHhcCCcceeec
Q 035104 28 LSHLVEALRQKKIKSFID 45 (73)
Q Consensus 28 ~~~L~~~L~~~gi~~f~D 45 (73)
...|.++++++||++.+|
T Consensus 83 l~~Li~~~H~~Gi~vi~D 100 (479)
T PRK09441 83 LLNAIDALHENGIKVYAD 100 (479)
T ss_pred HHHHHHHHHHCCCEEEEE
Confidence 468999999999999998
No 253
>PRK02947 hypothetical protein; Provisional
Probab=20.04 E-value=1.3e+02 Score=20.70 Aligned_cols=31 Identities=16% Similarity=0.165 Sum_probs=22.3
Q ss_pred cccE--EeeceeccchhchHHHHHHHHhcCCcceee
Q 035104 11 RYDV--FLSFRGEDTRDNFLSHLVEALRQKKIKSFI 44 (73)
Q Consensus 11 ~ydV--FiSfrg~D~r~~f~~~L~~~L~~~gi~~f~ 44 (73)
+-|| +||++|.. .-+-.+.+.++++|+++.-
T Consensus 106 ~~Dv~i~iS~sG~t---~~~i~~~~~a~~~g~~vI~ 138 (246)
T PRK02947 106 PGDVLIVVSNSGRN---PVPIEMALEAKERGAKVIA 138 (246)
T ss_pred CCCEEEEEeCCCCC---HHHHHHHHHHHHCCCEEEE
Confidence 3465 67788874 3566888889999987754
Done!