Query 033334
Match_columns 121
No_of_seqs 124 out of 885
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 12:38:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033334.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033334hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00450 macrophage migration 100.0 5.7E-43 1.2E-47 225.2 13.1 112 1-115 1-113 (113)
2 PTZ00397 macrophage migration 100.0 1.9E-42 4.2E-47 224.3 14.5 116 1-116 1-116 (116)
3 PF01187 MIF: Macrophage migra 100.0 8E-43 1.7E-47 225.5 11.9 114 2-116 1-114 (114)
4 KOG1759 Macrophage migration i 100.0 1.6E-40 3.4E-45 210.0 12.8 115 1-116 1-115 (115)
5 PF14552 Tautomerase_2: Tautom 99.6 4.5E-15 9.7E-20 90.5 8.0 75 37-111 2-82 (82)
6 PRK01964 4-oxalocrotonate taut 99.6 6.4E-15 1.4E-19 85.8 6.0 60 60-119 3-62 (64)
7 PF01361 Tautomerase: Tautomer 99.6 1.5E-14 3.3E-19 83.1 6.7 58 60-117 2-59 (60)
8 TIGR00013 taut 4-oxalocrotonat 99.6 1.4E-14 3.1E-19 83.9 6.4 60 60-119 2-62 (63)
9 cd00491 4Oxalocrotonate_Tautom 99.6 2.6E-14 5.7E-19 81.4 7.3 57 60-116 2-58 (58)
10 PRK02220 4-oxalocrotonate taut 99.5 2E-14 4.4E-19 82.8 6.6 58 60-117 3-60 (61)
11 PRK00745 4-oxalocrotonate taut 99.5 2.7E-14 5.9E-19 82.5 6.4 58 60-117 3-60 (62)
12 PRK02289 4-oxalocrotonate taut 99.4 3.1E-12 6.7E-17 73.6 7.1 57 60-116 3-59 (60)
13 COG1942 Uncharacterized protei 99.3 5.6E-12 1.2E-16 74.2 7.0 60 60-119 3-63 (69)
14 cd00580 CHMI 5-carboxymethyl-2 99.3 8.5E-11 1.8E-15 75.6 13.2 105 2-106 1-112 (113)
15 PF14832 Tautomerase_3: Putati 99.2 5.8E-10 1.2E-14 73.9 9.6 114 1-115 1-120 (136)
16 PRK01271 4-oxalocrotonate taut 99.1 4.1E-10 8.8E-15 67.6 5.9 51 60-110 3-54 (76)
17 PF08921 DUF1904: Domain of un 99.0 4.1E-09 8.8E-14 67.3 9.1 107 1-113 1-107 (108)
18 PRK01964 4-oxalocrotonate taut 99.0 8.5E-10 1.8E-14 64.0 5.5 55 1-55 1-57 (64)
19 PRK00745 4-oxalocrotonate taut 99.0 1.7E-09 3.6E-14 62.3 5.3 55 1-55 1-57 (62)
20 PRK02289 4-oxalocrotonate taut 99.0 3.3E-09 7E-14 60.9 6.1 54 1-54 1-56 (60)
21 PRK02220 4-oxalocrotonate taut 98.9 4.9E-09 1.1E-13 60.1 5.8 55 1-55 1-57 (61)
22 PRK15031 5-carboxymethyl-2-hyd 98.9 1.6E-07 3.5E-12 61.5 13.1 112 1-112 1-120 (126)
23 COG1942 Uncharacterized protei 98.9 1E-08 2.2E-13 60.3 6.0 55 1-55 1-58 (69)
24 PF01361 Tautomerase: Tautomer 98.7 8.2E-08 1.8E-12 54.8 5.7 54 2-55 1-56 (60)
25 TIGR00013 taut 4-oxalocrotonat 98.6 1E-07 2.2E-12 54.8 5.7 54 2-55 1-57 (63)
26 cd00491 4Oxalocrotonate_Tautom 98.6 1.3E-07 2.8E-12 53.4 6.0 54 2-55 1-56 (58)
27 PRK01271 4-oxalocrotonate taut 98.6 8.2E-08 1.8E-12 57.6 5.3 45 1-45 1-46 (76)
28 PF02962 CHMI: 5-carboxymethyl 98.5 7.4E-06 1.6E-10 53.5 11.3 106 2-107 1-113 (124)
29 PTZ00397 macrophage migration 97.7 9.8E-05 2.1E-09 47.5 5.5 53 3-55 60-114 (116)
30 COG3232 HpaF 5-carboxymethyl-2 97.6 0.00087 1.9E-08 43.3 7.8 106 1-106 1-113 (127)
31 PF14552 Tautomerase_2: Tautom 97.5 0.00031 6.8E-09 42.7 4.6 50 3-52 31-82 (82)
32 PF14832 Tautomerase_3: Putati 97.2 0.0013 2.7E-08 43.7 5.4 51 65-116 9-59 (136)
33 PTZ00450 macrophage migration 96.2 0.013 2.9E-07 37.6 4.8 51 4-54 61-111 (113)
34 PF01187 MIF: Macrophage migra 95.3 0.043 9.4E-07 35.1 4.6 53 3-55 58-112 (114)
35 TIGR02544 III_secr_YscJ type I 92.7 2.5 5.4E-05 29.6 9.5 83 19-105 107-190 (193)
36 cd00580 CHMI 5-carboxymethyl-2 92.3 0.37 8.1E-06 30.6 4.6 43 3-45 62-108 (113)
37 TIGR02830 spore_III_AG stage I 91.0 4 8.7E-05 28.6 9.2 83 17-99 59-183 (186)
38 PRK00647 hypothetical protein; 89.6 3.6 7.7E-05 25.7 7.1 58 38-100 7-65 (96)
39 KOG1759 Macrophage migration i 89.1 1.7 3.7E-05 28.0 5.3 49 3-51 59-107 (115)
40 PF11090 DUF2833: Protein of u 88.5 2.5 5.4E-05 25.8 5.5 52 40-91 3-55 (86)
41 PRK05090 hypothetical protein; 87.7 4.9 0.00011 25.0 7.1 58 38-100 12-70 (95)
42 PF08921 DUF1904: Domain of un 87.6 1.4 3.1E-05 28.1 4.2 46 66-114 6-51 (108)
43 KOG4493 Uncharacterized conser 87.2 7.9 0.00017 27.5 8.0 67 48-114 44-117 (219)
44 PF02594 DUF167: Uncharacteris 85.7 1.1 2.5E-05 26.7 2.9 57 38-99 5-63 (77)
45 cd00673 AlaRS_core Alanyl-tRNA 84.6 1.9 4E-05 31.2 4.1 32 72-103 94-125 (232)
46 COG3887 Predicted signaling pr 83.9 14 0.0003 30.5 9.0 81 8-101 265-345 (655)
47 PRK15348 type III secretion sy 82.3 17 0.00037 26.6 8.4 77 22-103 110-187 (249)
48 PRK14538 putative bifunctional 82.0 26 0.00056 30.2 10.3 87 5-104 292-378 (838)
49 PF09581 Spore_III_AF: Stage I 81.5 14 0.00031 25.2 8.1 83 17-99 85-187 (188)
50 PRK01310 hypothetical protein; 79.9 3 6.4E-05 26.4 3.3 57 38-99 13-75 (104)
51 PRK01530 hypothetical protein; 79.8 2.6 5.7E-05 26.7 3.0 58 38-100 15-77 (105)
52 COG0245 IspF 2C-methyl-D-eryth 79.5 4.1 8.9E-05 27.7 4.0 90 17-113 37-142 (159)
53 COG4631 XdhB Xanthine dehydrog 76.9 23 0.00051 29.2 8.1 87 5-99 476-567 (781)
54 PF01514 YscJ_FliF: Secretory 75.2 13 0.00028 26.2 5.8 78 20-102 116-195 (206)
55 TIGR02610 PHA_gran_rgn putativ 74.0 18 0.00039 22.3 7.1 59 1-65 1-67 (91)
56 cd06411 PB1_p51 The PB1 domain 73.7 4.2 9.2E-05 24.4 2.6 40 80-119 21-63 (78)
57 cd06406 PB1_P67 A PB1 domain i 73.6 7.2 0.00016 23.5 3.6 28 80-107 25-52 (80)
58 PF03780 Asp23: Asp23 family; 73.1 19 0.00041 22.1 6.0 47 57-103 58-107 (108)
59 PHA00432 internal virion prote 72.6 23 0.0005 23.6 6.1 60 32-91 31-92 (137)
60 PF14535 AMP-binding_C_2: AMP- 72.4 11 0.00024 23.0 4.4 63 23-93 8-72 (96)
61 TIGR00206 fliF flagellar basal 72.4 35 0.00076 27.9 8.3 77 18-99 134-213 (555)
62 KOG0188 Alanyl-tRNA synthetase 71.2 7.5 0.00016 32.9 4.3 35 69-103 97-131 (895)
63 COG3643 Glutamate formiminotra 71.2 7.4 0.00016 28.6 3.8 54 35-92 69-122 (302)
64 PRK07193 fliF flagellar MS-rin 70.8 36 0.00078 27.8 8.0 77 19-99 138-217 (552)
65 TIGR00344 alaS alanine--tRNA l 69.4 4 8.7E-05 34.9 2.5 31 73-103 93-123 (851)
66 TIGR00151 ispF 2C-methyl-D-ery 68.6 14 0.0003 25.2 4.5 90 17-113 36-141 (155)
67 TIGR03196 pucD xanthine dehydr 68.5 12 0.00025 31.8 5.0 79 17-97 490-568 (768)
68 PRK00084 ispF 2-C-methyl-D-ery 68.4 35 0.00076 23.3 7.4 48 18-65 108-156 (159)
69 TIGR03795 chp_BMA0021 conserve 68.4 20 0.00043 23.1 5.0 38 69-106 26-64 (114)
70 PF10057 DUF2294: Uncharacteri 67.9 17 0.00037 23.2 4.7 31 72-102 7-37 (118)
71 COG1766 fliF Flagellar basal b 67.8 44 0.00095 27.4 7.9 78 17-99 133-213 (545)
72 PF10015 DUF2258: Uncharacteri 67.7 18 0.0004 21.5 4.3 26 75-100 38-66 (75)
73 PRK00084 ispF 2-C-methyl-D-ery 67.2 15 0.00032 25.1 4.4 90 17-113 39-144 (159)
74 PF01411 tRNA-synt_2c: tRNA sy 67.1 6.6 0.00014 31.9 3.2 46 57-105 82-130 (552)
75 cd00554 MECDP_synthase MECDP_s 66.9 16 0.00034 24.8 4.5 90 17-113 36-141 (153)
76 PRK06007 fliF flagellar MS-rin 65.6 61 0.0013 26.4 8.4 77 18-99 134-213 (542)
77 TIGR00151 ispF 2C-methyl-D-ery 65.0 41 0.00089 22.9 7.5 46 18-63 105-151 (155)
78 PF13222 DUF4030: Protein of u 65.0 12 0.00026 24.8 3.5 36 1-36 85-121 (142)
79 PLN02900 alanyl-tRNA synthetas 62.7 8.9 0.00019 33.3 3.3 29 73-101 116-144 (936)
80 COG1550 Uncharacterized protei 62.5 26 0.00055 21.8 4.4 36 59-94 6-41 (95)
81 PRK00252 alaS alanyl-tRNA synt 62.5 8 0.00017 33.2 3.0 30 73-102 98-127 (865)
82 PF02733 Dak1: Dak1 domain; I 62.0 31 0.00067 26.3 5.7 77 18-106 218-294 (325)
83 TIGR01547 phage_term_2 phage t 61.9 42 0.00091 25.7 6.6 93 17-109 46-147 (396)
84 COG0245 IspF 2C-methyl-D-eryth 61.3 50 0.0011 22.6 6.3 47 18-64 106-153 (159)
85 PF04787 Pox_H7: Late protein 61.3 43 0.00094 22.5 5.7 64 23-87 21-87 (147)
86 COG0381 WecB UDP-N-acetylgluco 61.2 63 0.0014 25.3 7.3 59 40-99 95-173 (383)
87 PF04456 DUF503: Protein of un 60.6 31 0.00067 21.1 4.6 34 59-92 5-38 (90)
88 PF02542 YgbB: YgbB family; I 60.3 7.8 0.00017 26.4 2.1 89 17-112 37-141 (157)
89 cd03485 MutL_Trans_hPMS_1_like 60.0 44 0.00096 21.6 7.1 49 64-112 53-104 (132)
90 PF02542 YgbB: YgbB family; I 59.7 29 0.00064 23.6 4.8 40 17-56 105-144 (157)
91 PRK05934 type III secretion sy 59.7 77 0.0017 24.3 8.8 75 17-99 69-146 (341)
92 PF04466 Terminase_3: Phage te 59.5 3 6.6E-05 32.2 0.0 71 37-110 70-145 (387)
93 KOG2426 Dihydroxyacetone kinas 59.4 69 0.0015 26.0 7.3 77 24-110 239-315 (582)
94 PF01520 Amidase_3: N-acetylmu 59.4 39 0.00084 22.5 5.5 67 17-86 101-174 (175)
95 COG1872 Uncharacterized conser 59.1 16 0.00034 23.1 3.2 26 74-99 48-73 (102)
96 PF11165 DUF2949: Protein of u 58.1 4 8.7E-05 23.1 0.3 21 78-98 2-22 (58)
97 PRK09490 metH B12-dependent me 57.7 16 0.00035 32.7 4.0 31 69-99 495-525 (1229)
98 PRK09800 putative hypoxanthine 57.6 25 0.00053 30.7 5.1 80 17-98 687-766 (956)
99 TIGR02965 xanthine_xdhB xanthi 57.2 11 0.00025 31.7 3.0 80 17-98 470-549 (758)
100 COG3579 PepC Aminopeptidase C 57.1 13 0.00028 28.8 3.0 42 71-112 200-241 (444)
101 TIGR03194 4hydrxCoA_A 4-hydrox 56.8 14 0.0003 31.2 3.4 80 17-98 467-546 (746)
102 cd00554 MECDP_synthase MECDP_s 56.8 59 0.0013 22.0 7.1 40 17-56 104-143 (153)
103 COG3509 LpqC Poly(3-hydroxybut 56.5 15 0.00033 27.7 3.2 25 75-99 125-149 (312)
104 PF09932 DUF2164: Uncharacteri 56.0 22 0.00048 21.1 3.3 25 69-93 3-27 (76)
105 PF02738 Ald_Xan_dh_C2: Molybd 55.2 7.7 0.00017 31.2 1.6 77 17-97 342-420 (547)
106 PF10023 DUF2265: Predicted am 55.0 14 0.0003 28.3 2.8 43 69-111 44-88 (337)
107 PLN02862 2-C-methyl-D-erythrit 54.5 31 0.00068 24.7 4.4 90 17-113 96-201 (216)
108 PF14581 SseB_C: SseB protein 54.5 25 0.00054 21.8 3.6 82 6-104 8-89 (108)
109 PF14813 NADH_B2: NADH dehydro 54.5 6.1 0.00013 23.3 0.7 11 85-95 59-69 (71)
110 COG0013 AlaS Alanyl-tRNA synth 54.4 13 0.00029 32.0 2.9 34 73-106 102-135 (879)
111 TIGR02416 CO_dehy_Mo_lg carbon 54.1 17 0.00036 30.8 3.5 80 17-98 498-577 (770)
112 TIGR00557 pdxA 4-hydroxythreon 54.1 96 0.0021 23.6 8.3 69 25-103 132-205 (320)
113 TIGR03313 Se_sel_red_Mo probab 53.4 19 0.00041 31.4 3.8 80 17-98 683-762 (951)
114 PF14804 Jag_N: Jag N-terminus 53.4 33 0.00071 18.8 3.5 31 84-114 13-44 (52)
115 cd01612 APG12_C Ubiquitin-like 53.4 16 0.00034 22.2 2.5 39 78-120 28-68 (87)
116 smart00213 UBQ Ubiquitin homol 52.6 20 0.00043 19.3 2.7 25 78-102 22-46 (64)
117 PF14468 DUF4427: Protein of u 52.3 44 0.00094 21.9 4.4 40 59-98 67-107 (132)
118 COG1995 PdxA Pyridoxal phospha 52.0 1.1E+02 0.0023 23.5 8.2 59 49-107 152-215 (332)
119 PF00240 ubiquitin: Ubiquitin 51.5 26 0.00057 19.5 3.1 24 79-102 19-42 (69)
120 PF00809 Pterin_bind: Pterin b 51.3 16 0.00034 25.7 2.5 42 58-99 117-169 (210)
121 PRK09970 xanthine dehydrogenas 50.2 29 0.00063 29.4 4.3 80 17-98 483-563 (759)
122 PF10503 Esterase_phd: Esteras 50.1 19 0.00041 25.7 2.8 25 75-99 78-102 (220)
123 PRK01584 alanyl-tRNA synthetas 50.0 14 0.0003 30.5 2.4 30 73-102 96-127 (594)
124 TIGR01215 minE cell division t 49.8 53 0.0011 19.7 4.3 35 69-103 33-67 (81)
125 PRK13988 cell division topolog 49.4 63 0.0014 20.2 5.7 36 68-103 35-70 (97)
126 PRK13991 cell division topolog 49.1 60 0.0013 19.8 6.0 37 68-104 33-70 (87)
127 PF02738 Ald_Xan_dh_C2: Molybd 49.1 12 0.00026 30.1 1.9 45 58-102 321-370 (547)
128 PRK01310 hypothetical protein; 48.7 37 0.00079 21.5 3.6 35 6-41 40-74 (104)
129 PRK12800 fliF flagellar MS-rin 48.5 1.6E+02 0.0034 24.4 8.6 76 19-99 144-222 (574)
130 PF10057 DUF2294: Uncharacteri 48.3 70 0.0015 20.3 7.0 30 17-46 9-38 (118)
131 TIGR02883 spore_cwlD N-acetylm 48.0 88 0.0019 21.4 8.4 67 17-86 114-187 (189)
132 PRK05883 acyl carrier protein; 47.7 20 0.00044 21.8 2.3 28 70-97 8-35 (91)
133 PF11694 DUF3290: Protein of u 47.4 42 0.00091 22.6 4.0 28 78-105 81-108 (149)
134 TIGR02024 FtcD glutamate formi 47.4 33 0.00072 25.8 3.8 35 55-92 88-122 (298)
135 PF00691 OmpA: OmpA family; I 47.2 25 0.00055 20.9 2.8 23 76-99 54-76 (97)
136 PF04954 SIP: Siderophore-inte 46.9 28 0.00062 22.0 3.0 25 75-99 89-113 (119)
137 PRK15324 type III secretion sy 46.7 1.1E+02 0.0025 22.4 9.1 85 19-106 108-193 (252)
138 PTZ00380 microtubule-associate 45.8 18 0.00039 23.6 1.9 37 80-120 55-91 (121)
139 PRK05312 pdxA 4-hydroxythreoni 45.6 1.4E+02 0.003 23.0 8.0 40 67-106 181-220 (336)
140 PRK09382 ispDF bifunctional 2- 44.6 47 0.001 25.7 4.4 91 17-113 254-359 (378)
141 PF14560 Ubiquitin_2: Ubiquiti 43.5 65 0.0014 19.0 4.1 36 59-101 14-49 (87)
142 PRK06495 enoyl-CoA hydratase; 42.9 1.2E+02 0.0027 21.7 6.4 52 3-54 14-65 (257)
143 PF04414 tRNA_deacylase: D-ami 42.7 1.1E+02 0.0025 21.8 5.8 68 19-92 57-128 (213)
144 PF07837 FTCD_N: Formiminotran 42.6 34 0.00073 23.8 3.0 28 65-92 93-120 (178)
145 COG5499 Predicted transcriptio 42.6 23 0.0005 22.8 2.0 23 72-94 94-116 (120)
146 cd03482 MutL_Trans_MutL MutL_T 42.3 90 0.0019 19.9 4.9 48 66-114 50-97 (123)
147 TIGR02082 metH 5-methyltetrahy 42.3 40 0.00086 30.3 4.0 31 69-99 479-509 (1178)
148 PRK05350 acyl carrier protein; 42.0 21 0.00044 21.1 1.7 24 74-97 4-27 (82)
149 PF05121 GvpK: Gas vesicle pro 42.0 32 0.0007 21.1 2.5 37 67-103 40-82 (88)
150 PF09581 Spore_III_AF: Stage I 41.4 46 0.001 22.7 3.6 29 15-43 160-188 (188)
151 TIGR03189 dienoyl_CoA_hyt cycl 41.4 1.3E+02 0.0029 21.6 7.1 52 3-54 11-62 (251)
152 cd02413 40S_S3_KH K homology R 41.4 77 0.0017 18.9 4.5 27 78-104 52-78 (81)
153 PF04166 PdxA: Pyridoxal phosp 41.2 1.2E+02 0.0027 22.8 6.0 71 24-100 112-183 (298)
154 PRK07938 enoyl-CoA hydratase; 40.7 1.4E+02 0.0029 21.5 6.8 52 3-54 12-63 (249)
155 PF01282 Ribosomal_S24e: Ribos 40.5 82 0.0018 18.9 4.7 37 61-102 3-39 (84)
156 PRK13987 cell division topolog 40.4 88 0.0019 19.3 4.7 37 68-104 31-67 (91)
157 PF08652 RAI1: RAI1 like PD-(D 40.2 74 0.0016 18.3 5.8 49 55-103 13-62 (69)
158 PF13439 Glyco_transf_4: Glyco 40.1 31 0.00068 22.0 2.5 30 78-108 147-176 (177)
159 cd01806 Nedd8 Nebb8-like ubiq 39.6 44 0.00096 18.8 2.9 25 78-102 23-47 (76)
160 cd01763 Sumo Small ubiquitin-r 39.5 50 0.0011 19.7 3.2 24 79-102 35-58 (87)
161 cd01791 Ubl5 UBL5 ubiquitin-li 39.3 44 0.00096 19.4 2.8 24 78-101 24-47 (73)
162 PRK05863 sulfur carrier protei 39.0 33 0.00072 19.3 2.2 28 81-109 18-47 (65)
163 PRK13989 cell division topolog 39.0 89 0.0019 18.9 4.7 35 69-103 35-69 (84)
164 cd01812 BAG1_N Ubiquitin-like 38.8 39 0.00084 18.8 2.5 25 78-102 22-46 (71)
165 PF12685 SpoIIIAH: SpoIIIAH-li 38.7 1.3E+02 0.0028 20.9 5.5 37 58-99 160-196 (196)
166 PRK02746 pdxA 4-hydroxythreoni 38.7 1.8E+02 0.004 22.4 8.0 37 67-103 179-215 (345)
167 PLN02862 2-C-methyl-D-erythrit 38.5 1.5E+02 0.0032 21.3 7.5 39 18-56 165-203 (216)
168 cd01804 midnolin_N Ubiquitin-l 38.5 45 0.00098 19.4 2.8 25 78-102 24-48 (78)
169 PTZ00487 ceramidase; Provision 38.4 1.5E+02 0.0032 25.3 6.6 51 48-103 79-133 (715)
170 COG1794 RacX Aspartate racemas 38.3 59 0.0013 23.6 3.8 30 63-92 4-33 (230)
171 cd01769 UBL Ubiquitin-like dom 38.1 50 0.0011 17.9 2.9 25 78-102 20-44 (69)
172 cd03081 TRX_Fd_NuoE_FDH_gamma 37.9 85 0.0018 18.3 4.6 60 18-79 18-78 (80)
173 cd01809 Scythe_N Ubiquitin-lik 37.7 44 0.00095 18.6 2.6 24 78-101 23-46 (72)
174 PF11976 Rad60-SLD: Ubiquitin- 37.7 66 0.0014 18.0 3.4 23 80-102 25-48 (72)
175 smart00318 SNc Staphylococcal 37.1 1.1E+02 0.0024 19.4 8.0 73 38-119 5-87 (138)
176 KOG0005 Ubiquitin-like protein 37.0 17 0.00036 20.8 0.7 24 78-101 23-46 (70)
177 PF07208 DUF1414: Protein of u 36.2 71 0.0015 17.0 3.1 21 68-88 23-43 (44)
178 PRK12449 acyl carrier protein; 35.4 49 0.0011 19.1 2.6 23 74-96 3-25 (80)
179 PRK01909 pdxA 4-hydroxythreoni 35.3 2E+02 0.0044 22.0 8.2 37 67-103 172-208 (329)
180 COG2136 IMP4 Predicted exosome 35.2 44 0.00095 23.5 2.7 27 1-28 1-27 (191)
181 PLN02664 enoyl-CoA hydratase/d 35.2 1.8E+02 0.0038 21.2 7.0 53 2-54 17-70 (275)
182 cd04011 C2B_Ferlin C2 domain s 35.2 56 0.0012 20.0 3.0 26 38-64 5-30 (111)
183 PRK00296 minE cell division to 35.1 1.1E+02 0.0023 18.6 4.2 33 70-102 35-67 (86)
184 TIGR00133 gatB glutamyl-tRNA(G 35.1 1.1E+02 0.0024 24.7 5.2 65 1-70 151-223 (478)
185 cd01803 Ubiquitin Ubiquitin. U 35.1 47 0.001 18.7 2.5 24 78-101 23-46 (76)
186 PRK07658 enoyl-CoA hydratase; 34.8 1.7E+02 0.0037 20.9 7.2 52 3-54 12-63 (257)
187 PRK00341 hypothetical protein; 34.7 69 0.0015 19.6 3.3 36 57-96 14-49 (91)
188 KOG2250 Glutamate/leucine/phen 34.6 68 0.0015 26.0 3.9 44 68-119 154-197 (514)
189 cd00419 Ferrochelatase_C Ferro 34.5 1.3E+02 0.0029 19.6 5.7 29 75-103 40-68 (135)
190 PRK07535 methyltetrahydrofolat 34.5 86 0.0019 22.9 4.3 29 70-99 132-160 (261)
191 PF01227 GTP_cyclohydroI: GTP 34.1 1.2E+02 0.0027 21.0 4.8 62 17-79 112-176 (179)
192 PF08774 VRR_NUC: VRR-NUC doma 34.0 1.1E+02 0.0024 18.4 4.4 21 57-77 62-83 (100)
193 KOG2112 Lysophospholipase [Lip 33.9 91 0.002 22.2 4.1 66 34-99 29-98 (206)
194 COG1529 CoxL Aerobic-type carb 33.8 48 0.001 28.0 3.1 43 74-116 466-510 (731)
195 PF07387 Seadorna_VP7: Seadorn 33.7 1.6E+02 0.0035 21.9 5.4 40 67-106 203-248 (308)
196 cd01798 parkin_N amino-termina 33.6 52 0.0011 18.5 2.5 26 77-102 20-45 (70)
197 PF07985 SRR1: SRR1; InterPro 33.4 88 0.0019 17.2 4.9 35 65-99 6-40 (56)
198 PF10107 Endonuc_Holl: Endonuc 33.0 1E+02 0.0022 21.0 4.0 38 30-73 97-136 (156)
199 COG0851 MinE Septum formation 33.0 1.2E+02 0.0026 18.6 4.1 36 68-103 33-68 (88)
200 PRK05250 S-adenosylmethionine 32.9 2.4E+02 0.0053 22.1 7.1 37 6-42 4-42 (384)
201 COG1907 Predicted archaeal sug 32.2 1.9E+02 0.0041 22.0 5.7 60 55-118 33-94 (312)
202 PF00378 ECH: Enoyl-CoA hydrat 32.2 70 0.0015 22.7 3.5 83 3-93 8-91 (245)
203 PF13092 CENP-L: Kinetochore c 32.0 1.1E+02 0.0025 20.6 4.3 43 70-112 110-154 (162)
204 cd01789 Alp11_N Ubiquitin-like 31.9 1.1E+02 0.0025 18.0 4.3 40 58-104 12-51 (84)
205 PF03776 MinE: Septum formatio 31.7 1.1E+02 0.0023 17.7 5.3 36 67-102 18-55 (70)
206 KOG2255 Peptidyl-tRNA hydrolas 31.6 2E+02 0.0042 20.7 5.6 37 70-106 98-134 (224)
207 PF08968 DUF1885: Domain of un 31.6 89 0.0019 20.5 3.4 44 53-97 78-125 (130)
208 PF07293 DUF1450: Protein of u 31.5 1.2E+02 0.0026 18.1 5.0 33 53-88 43-75 (78)
209 PTZ00044 ubiquitin; Provisiona 31.4 60 0.0013 18.4 2.5 25 78-102 23-47 (76)
210 PF04110 APG12: Ubiquitin-like 31.4 87 0.0019 19.1 3.3 24 79-102 29-53 (87)
211 PF10850 DUF2653: Protein of u 30.8 1.3E+02 0.0029 18.5 7.7 75 17-99 7-81 (91)
212 KOG2772 Transaldolase [Carbohy 30.8 1.1E+02 0.0024 23.3 4.3 24 78-102 124-147 (337)
213 PF07579 DUF1548: Domain of Un 30.7 74 0.0016 21.1 3.0 25 69-94 79-103 (135)
214 cd00740 MeTr MeTr subgroup of 30.7 1.1E+02 0.0023 22.3 4.2 31 69-99 134-164 (252)
215 COG5488 Integral membrane prot 30.7 78 0.0017 21.5 3.2 22 66-87 139-161 (164)
216 COG0796 MurI Glutamate racemas 30.5 90 0.0019 23.2 3.8 39 45-89 29-67 (269)
217 COG3252 Methenyltetrahydrometh 30.4 48 0.001 24.6 2.3 39 57-103 132-170 (314)
218 cd01796 DDI1_N DNA damage indu 30.3 63 0.0014 18.4 2.5 24 78-101 22-45 (71)
219 PF03147 FDX-ACB: Ferredoxin-f 30.3 1.3E+02 0.0028 18.1 4.0 34 59-92 58-92 (94)
220 COG5609 Uncharacterized conser 30.2 96 0.0021 20.2 3.4 31 72-102 7-37 (124)
221 cd01813 UBP_N UBP ubiquitin pr 30.0 63 0.0014 18.7 2.4 23 78-100 22-44 (74)
222 PRK04980 hypothetical protein; 29.9 1.5E+02 0.0032 18.7 6.4 54 44-98 33-96 (102)
223 cd01807 GDX_N ubiquitin-like d 29.8 64 0.0014 18.4 2.4 25 78-102 23-47 (74)
224 TIGR03311 Se_dep_Molyb_1 selen 29.6 51 0.0011 28.4 2.7 30 75-104 617-646 (848)
225 PRK07110 polyketide biosynthes 29.5 2.1E+02 0.0046 20.4 6.8 52 3-54 15-67 (249)
226 PF05670 DUF814: Domain of unk 29.5 1E+02 0.0023 18.4 3.5 36 63-107 8-43 (90)
227 PRK13878 conjugal transfer rel 29.5 3.7E+02 0.008 23.2 11.6 86 2-94 67-157 (746)
228 CHL00124 acpP acyl carrier pro 29.2 47 0.001 19.3 1.8 22 74-95 3-24 (82)
229 PRK03743 pdxA 4-hydroxythreoni 29.1 2.7E+02 0.0058 21.4 8.0 36 67-103 177-212 (332)
230 PF13462 Thioredoxin_4: Thiore 29.1 1.6E+02 0.0035 18.8 7.7 53 47-104 3-55 (162)
231 PRK00232 pdxA 4-hydroxythreoni 28.8 2.7E+02 0.0059 21.4 8.0 36 67-103 177-212 (332)
232 TIGR00874 talAB transaldolase. 28.7 2.2E+02 0.0048 21.7 5.7 41 59-100 91-131 (317)
233 PRK13902 alaS alanyl-tRNA synt 28.6 59 0.0013 28.3 2.9 25 74-98 162-186 (900)
234 cd06927 RNAP_L L subunit of Ar 28.5 1.3E+02 0.0029 17.9 3.8 26 2-29 51-76 (83)
235 PRK12346 transaldolase A; Prov 28.4 2E+02 0.0044 21.8 5.4 41 59-100 92-132 (316)
236 cd01799 Hoil1_N Ubiquitin-like 28.2 71 0.0015 18.6 2.5 23 79-102 26-48 (75)
237 PF06395 CDC24: CDC24 Calponin 28.2 1.1E+02 0.0023 18.8 3.3 32 71-103 39-70 (89)
238 cd01805 RAD23_N Ubiquitin-like 28.1 91 0.002 17.6 2.9 24 78-101 23-48 (77)
239 TIGR03194 4hydrxCoA_A 4-hydrox 28.0 58 0.0013 27.6 2.7 30 76-105 469-498 (746)
240 cd01800 SF3a120_C Ubiquitin-li 28.0 75 0.0016 18.2 2.6 25 78-102 20-44 (76)
241 cd00585 Peptidase_C1B Peptidas 28.0 1.9E+02 0.004 23.1 5.4 33 73-105 199-231 (437)
242 COG5493 Uncharacterized conser 27.7 2.3E+02 0.0051 20.3 8.2 77 17-99 116-202 (231)
243 cd01611 GABARAP Ubiquitin doma 27.7 69 0.0015 20.4 2.5 38 79-120 54-92 (112)
244 cd01793 Fubi Fubi ubiquitin-li 27.6 81 0.0017 17.9 2.6 25 77-101 20-44 (74)
245 cd00957 Transaldolase_TalAB Tr 27.5 2.3E+02 0.005 21.5 5.6 41 59-100 91-131 (313)
246 PTZ00411 transaldolase-like pr 27.5 2.1E+02 0.0046 21.9 5.4 41 59-100 103-143 (333)
247 cd00196 UBQ Ubiquitin-like pro 27.5 87 0.0019 15.5 2.6 24 79-102 21-44 (69)
248 PRK01146 DNA-directed RNA poly 27.3 1.5E+02 0.0032 17.9 3.8 26 2-29 53-78 (85)
249 COG0192 MetK S-adenosylmethion 27.3 92 0.002 24.2 3.4 50 1-50 1-54 (388)
250 PF01076 Mob_Pre: Plasmid reco 27.3 96 0.0021 21.5 3.4 39 68-106 94-133 (196)
251 PF12260 PIP49_C: Protein-kina 27.2 1.6E+02 0.0034 20.2 4.4 42 69-112 56-97 (188)
252 COG5435 Uncharacterized conser 27.1 1.5E+02 0.0033 20.0 4.1 32 53-84 108-139 (147)
253 KOG3109 Haloacid dehalogenase- 27.1 1.3E+02 0.0027 22.0 3.9 41 56-96 15-56 (244)
254 COG1908 FrhD Coenzyme F420-red 27.1 86 0.0019 20.6 2.8 61 26-103 44-104 (132)
255 cd01808 hPLIC_N Ubiquitin-like 27.0 81 0.0018 17.7 2.5 24 78-101 22-45 (71)
256 KOG0747 Putative NAD+-dependen 26.8 1.5E+02 0.0032 22.6 4.4 43 60-102 242-284 (331)
257 PF12249 AftA_C: Arabinofurano 26.7 82 0.0018 21.9 2.8 47 71-117 28-78 (178)
258 KOG0006 E3 ubiquitin-protein l 26.6 81 0.0017 24.3 3.0 25 78-102 26-50 (446)
259 PRK05477 gatB aspartyl/glutamy 26.5 2E+02 0.0043 23.2 5.3 65 1-70 148-220 (474)
260 PRK09800 putative hypoxanthine 26.4 88 0.0019 27.5 3.6 31 75-105 688-718 (956)
261 PRK09382 ispDF bifunctional 2- 26.4 3.1E+02 0.0067 21.3 7.5 39 18-56 323-361 (378)
262 PF15658 Latrotoxin_C: Latroto 26.4 31 0.00066 22.7 0.7 37 67-103 29-72 (127)
263 COG4306 Uncharacterized protei 26.4 1.1E+02 0.0024 20.2 3.2 70 19-88 25-117 (160)
264 cd07027 RNAP_RPB11_like RPB11 26.4 1.5E+02 0.0033 17.7 3.8 26 2-29 51-76 (83)
265 cd01336 MDH_cytoplasmic_cytoso 26.1 91 0.002 23.5 3.3 19 78-96 158-176 (325)
266 PF09623 Cas_NE0113: CRISPR-as 26.1 1.9E+02 0.0042 20.8 4.8 32 69-100 88-119 (224)
267 PLN02243 S-adenosylmethionine 26.1 3.3E+02 0.0071 21.4 7.5 47 6-53 5-55 (386)
268 PF08541 ACP_syn_III_C: 3-Oxoa 26.0 43 0.00092 19.7 1.2 24 79-102 21-44 (90)
269 PRK13430 F0F1 ATP synthase sub 25.9 1.4E+02 0.0031 21.9 4.2 37 4-45 203-239 (271)
270 COG2854 Ttg2D ABC-type transpo 25.9 78 0.0017 22.5 2.7 24 67-90 85-108 (202)
271 PRK05864 enoyl-CoA hydratase; 25.9 2.6E+02 0.0057 20.3 6.8 52 3-54 20-72 (276)
272 PF14894 Lsm_C: Lsm C-terminal 25.9 83 0.0018 18.1 2.3 20 79-98 2-21 (64)
273 cd06407 PB1_NLP A PB1 domain i 25.7 1.6E+02 0.0034 17.6 4.2 29 79-108 23-52 (82)
274 COG0334 GdhA Glutamate dehydro 25.6 59 0.0013 25.7 2.2 42 69-118 112-153 (411)
275 PF11144 DUF2920: Protein of u 25.6 1.4E+02 0.0031 23.6 4.3 43 48-92 25-67 (403)
276 PF02698 DUF218: DUF218 domain 25.4 95 0.002 20.1 3.0 25 74-99 52-76 (155)
277 TIGR02416 CO_dehy_Mo_lg carbon 25.2 71 0.0015 27.2 2.8 38 76-113 500-539 (770)
278 TIGR01759 MalateDH-SF1 malate 25.2 90 0.002 23.6 3.1 19 78-96 159-177 (323)
279 PF06163 DUF977: Bacterial pro 25.2 1E+02 0.0022 20.3 2.9 21 68-88 4-24 (127)
280 PRK07260 enoyl-CoA hydratase; 25.1 2.6E+02 0.0057 20.0 6.4 52 3-54 12-64 (255)
281 PF07368 DUF1487: Protein of u 25.1 2.7E+02 0.0057 20.1 6.6 58 45-106 103-174 (215)
282 PF06364 DUF1068: Protein of u 25.1 68 0.0015 22.2 2.2 26 67-92 72-97 (176)
283 TIGR02965 xanthine_xdhB xanthi 25.0 68 0.0015 27.2 2.6 48 57-104 448-500 (758)
284 PF01903 CbiX: CbiX; InterPro 24.9 1.6E+02 0.0036 17.6 4.5 39 67-109 2-40 (105)
285 cd07367 CarBb CarBb is the B s 24.9 2.2E+02 0.0048 20.8 5.1 41 1-41 132-175 (268)
286 COG1410 MetH Methionine syntha 24.8 1E+02 0.0022 26.5 3.5 30 69-99 162-191 (842)
287 PF02289 MCH: Cyclohydrolase ( 24.8 1E+02 0.0023 23.4 3.3 24 80-103 146-169 (313)
288 PF03704 BTAD: Bacterial trans 24.7 1E+02 0.0022 19.6 3.0 24 71-94 112-135 (146)
289 COG4099 Predicted peptidase [G 24.5 1.1E+02 0.0023 23.6 3.3 25 75-99 250-274 (387)
290 PF14509 GH97_C: Glycosyl-hydr 24.4 83 0.0018 19.7 2.4 32 33-64 11-45 (103)
291 PF01785 Closter_coat: Closter 24.3 92 0.002 21.5 2.8 32 65-96 9-40 (188)
292 PRK05988 formate dehydrogenase 24.3 2.3E+02 0.005 19.0 5.5 62 18-81 92-154 (156)
293 KOG3332 N-acetylglucosaminyl p 24.1 2.9E+02 0.0063 20.2 6.5 63 35-102 36-109 (247)
294 PRK08252 enoyl-CoA hydratase; 23.8 2.8E+02 0.006 19.8 6.9 53 2-54 12-65 (254)
295 PRK11783 rlmL 23S rRNA m(2)G24 23.8 2.7E+02 0.0058 23.5 5.8 44 56-99 436-480 (702)
296 PRK05442 malate dehydrogenase; 23.7 96 0.0021 23.5 3.0 20 78-97 160-179 (326)
297 PRK07509 enoyl-CoA hydratase; 23.7 2.8E+02 0.0061 19.8 6.4 52 3-54 13-65 (262)
298 TIGR03196 pucD xanthine dehydr 23.6 73 0.0016 27.1 2.6 46 58-103 467-519 (768)
299 PRK05269 transaldolase B; Prov 23.6 3E+02 0.0066 20.9 5.6 41 59-100 93-133 (318)
300 PF02662 FlpD: Methyl-viologen 23.4 1.1E+02 0.0025 19.6 3.0 19 85-103 85-103 (124)
301 COG3221 PhnD ABC-type phosphat 23.3 2.1E+02 0.0046 21.4 4.7 32 61-92 37-68 (299)
302 PF11010 DUF2848: Protein of u 23.3 1.3E+02 0.0027 21.4 3.3 38 67-109 4-41 (194)
303 TIGR01756 LDH_protist lactate 23.2 1.2E+02 0.0025 22.9 3.4 19 78-96 140-158 (313)
304 cd00175 SNc Staphylococcal nuc 22.9 2E+02 0.0044 17.9 6.2 39 74-119 41-79 (129)
305 PF00061 Lipocalin: Lipocalin 22.8 1.9E+02 0.0041 17.9 4.0 32 69-101 111-142 (144)
306 PF01545 Cation_efflux: Cation 22.8 2.9E+02 0.0063 19.7 5.6 49 53-103 232-281 (284)
307 cd01810 ISG15_repeat2 ISG15 ub 22.7 1.1E+02 0.0025 17.3 2.6 24 78-101 21-44 (74)
308 PF03460 NIR_SIR_ferr: Nitrite 22.6 30 0.00064 19.4 0.1 24 59-82 10-34 (69)
309 PRK02264 N(5),N(10)-methenylte 22.6 1.2E+02 0.0027 23.0 3.3 39 57-103 132-170 (317)
310 TIGR01758 MDH_euk_cyt malate d 22.6 1E+02 0.0023 23.2 3.0 19 78-96 155-173 (324)
311 cd00545 MCH Methenyltetrahydro 22.6 1.3E+02 0.0028 22.9 3.4 24 80-103 146-169 (312)
312 PF09967 DUF2201: VWA-like dom 22.6 2.2E+02 0.0048 18.2 7.5 88 4-104 3-93 (126)
313 PRK03580 carnitinyl-CoA dehydr 22.5 3E+02 0.0065 19.8 7.0 52 3-54 13-65 (261)
314 TIGR03120 one_C_mch methenylte 22.4 1.3E+02 0.0028 22.9 3.4 39 57-103 131-169 (312)
315 PF02934 GatB_N: GatB/GatE cat 22.4 3.5E+02 0.0075 20.4 6.4 65 1-70 147-219 (289)
316 TIGR03683 A-tRNA_syn_arch alan 22.2 1E+02 0.0022 27.0 3.1 24 74-98 159-182 (902)
317 PRK14683 hypothetical protein; 22.2 2.3E+02 0.005 18.3 6.5 49 55-103 53-106 (122)
318 PF15518 L_protein_N: L protei 22.1 2.8E+02 0.0061 19.3 5.7 77 38-119 71-149 (183)
319 PLN02994 1-aminocyclopropane-1 21.9 1.2E+02 0.0025 20.3 2.9 26 74-99 94-123 (153)
320 cd07029 RNAP_I_III_AC19 AC19 s 21.9 1.9E+02 0.0042 17.3 3.8 26 2-29 51-76 (85)
321 cd05290 LDH_3 A subgroup of L- 21.9 1.4E+02 0.0029 22.4 3.5 22 78-99 149-170 (307)
322 PRK13689 hypothetical protein; 21.9 1.8E+02 0.0039 17.3 3.3 25 68-92 48-72 (75)
323 PF15643 Tox-PL-2: Papain fold 21.9 1.7E+02 0.0037 18.4 3.3 31 69-100 16-46 (100)
324 PLN02267 enoyl-CoA hydratase/i 21.8 3E+02 0.0066 19.6 6.6 52 3-54 10-62 (239)
325 TIGR00568 alkb DNA alkylation 21.8 2.5E+02 0.0054 19.2 4.5 35 76-111 74-111 (169)
326 cd08677 C2A_Synaptotagmin-13 C 21.6 1.3E+02 0.0029 19.2 3.0 29 36-64 13-41 (118)
327 COG5460 Uncharacterized conser 21.5 1.1E+02 0.0023 18.4 2.2 23 69-91 6-28 (82)
328 PRK07117 acyl carrier protein; 21.4 80 0.0017 18.6 1.8 23 74-96 3-26 (79)
329 PF05773 RWD: RWD domain; Int 21.3 1.1E+02 0.0023 18.4 2.5 35 1-35 65-100 (113)
330 TIGR00251 conserved hypothetic 21.3 2.1E+02 0.0045 17.4 7.2 49 38-91 9-60 (87)
331 PRK11789 N-acetyl-anhydromuran 21.2 1.4E+02 0.003 20.9 3.2 31 69-100 127-157 (185)
332 PRK13364 protocatechuate 4,5-d 21.2 3.5E+02 0.0076 20.0 6.7 57 2-60 143-201 (278)
333 PRK02858 germination protease; 21.2 4E+02 0.0087 20.8 5.8 50 57-109 68-122 (369)
334 PF13656 RNA_pol_L_2: RNA poly 21.2 1.8E+02 0.004 17.0 3.3 25 2-28 43-67 (77)
335 PF02866 Ldh_1_C: lactate/mala 21.1 1.2E+02 0.0025 20.4 2.8 23 78-100 5-27 (174)
336 PF08502 LeuA_dimer: LeuA allo 21.0 2.4E+02 0.0052 18.1 4.5 68 18-89 58-133 (133)
337 PRK05659 sulfur carrier protei 21.0 77 0.0017 17.5 1.6 28 81-109 18-47 (66)
338 PRK04452 acetyl-CoA decarbonyl 20.9 84 0.0018 23.9 2.2 24 75-99 186-209 (319)
339 PF10138 vWA-TerF-like: vWA fo 20.8 3.2E+02 0.0069 19.4 8.7 78 2-87 105-193 (200)
340 COG1109 {ManB} Phosphomannomut 20.8 4.3E+02 0.0093 20.9 6.9 50 38-90 412-462 (464)
341 KOG3276 Uncharacterized conser 20.8 1E+02 0.0023 20.0 2.3 22 77-98 71-92 (125)
342 PRK06806 fructose-bisphosphate 20.7 3E+02 0.0066 20.4 5.1 69 19-92 60-130 (281)
343 PRK09674 enoyl-CoA hydratase-i 20.6 3.3E+02 0.0071 19.5 6.9 52 3-54 12-64 (255)
344 PRK08345 cytochrome-c3 hydroge 20.6 99 0.0021 22.7 2.5 27 75-102 221-247 (289)
345 PF10939 DUF2631: Protein of u 20.5 46 0.00099 19.2 0.6 18 99-116 13-30 (65)
346 PF11212 DUF2999: Protein of u 20.5 96 0.0021 18.4 1.9 27 69-95 13-45 (82)
347 smart00591 RWD domain in RING 20.5 1.4E+02 0.0031 17.8 2.9 34 1-34 57-90 (107)
348 COG4631 XdhB Xanthine dehydrog 20.4 1.8E+02 0.004 24.3 4.0 32 80-114 217-248 (781)
349 cd01794 DC_UbP_C dendritic cel 20.4 1.2E+02 0.0027 17.2 2.4 24 78-101 21-44 (70)
350 PRK06023 enoyl-CoA hydratase; 20.3 3.3E+02 0.0072 19.4 6.7 51 3-54 16-68 (251)
351 KOG1030 Predicted Ca2+-depende 20.3 2.2E+02 0.0047 19.7 3.9 11 53-63 25-35 (168)
352 TIGR01441 GPR GPR endopeptidas 20.3 4.2E+02 0.0092 20.6 5.8 50 57-109 58-112 (358)
353 PLN02833 glycerol acyltransfer 20.3 2.2E+02 0.0049 22.1 4.5 47 57-103 302-353 (376)
354 PF14516 AAA_35: AAA-like doma 20.2 1.7E+02 0.0036 22.1 3.7 69 25-93 20-97 (331)
No 1
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=100.00 E-value=5.7e-43 Score=225.16 Aligned_cols=112 Identities=31% Similarity=0.534 Sum_probs=103.7
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHH-HHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHH
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEA-TSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSA 79 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l-~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~ 79 (121)
||+++++||++.+++++ +++++. ++++++++||||+|+||++++++.|+|||+++||||++|+++|++++++|+++++
T Consensus 1 MP~~~i~tNv~~~~~~~-~~l~~~~~~~~a~~lgKPe~yvmV~~~~~~~m~fgGs~~P~A~~~l~siG~~~~~~n~~~s~ 79 (113)
T PTZ00450 1 MPFLQTIVSVSLDDQKR-ANLSQAYRMICREELGKPEDFVMTAFSDSTPMSFQGSTAPAAYVRVEAWGEYAPSKPKMMTP 79 (113)
T ss_pred CCEEEEEecCCCcccCH-HHHHHHHHHHHHHhhCCCHHHEEEEEeCCceEEEcCCCCCEEEEEEEEecCcCHHHHHHHHH
Confidence 99999999999877644 555555 5577799999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCcee
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCL 115 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~ 115 (121)
+||++++++||||++||||.|+|. .+|||||+||
T Consensus 80 ~i~~~l~~~LgIp~dRiYI~f~d~--~~~G~nG~tF 113 (113)
T PTZ00450 80 RITAAITKECGIPAERIYVFYYST--KHCGWNGTNF 113 (113)
T ss_pred HHHHHHHHHcCCCcccEEEEEEcH--HHcccCcEeC
Confidence 999999999999999999999995 7899999997
No 2
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=100.00 E-value=1.9e-42 Score=224.32 Aligned_cols=116 Identities=32% Similarity=0.549 Sum_probs=113.9
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHH
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
||+++|+||++.+++++++|++++++++++++|||++|+||+++++++|+|||+++|+++++|+++|++++++|++++++
T Consensus 1 MP~~~i~tn~~~~~~~~~~~~~~~~~~l~~~lgkPe~~~~v~~~~~~~m~f~g~~~p~a~v~i~~~g~~~~e~k~~l~~~ 80 (116)
T PTZ00397 1 MPCCQVSTNVNATDDQADAALSDIENAIADVLGKPLSYIMSGYDYQKHMRFGGSHDGCCFVRVTSIGGISRSNNSSIAAA 80 (116)
T ss_pred CCeEEEEecCCCccccHHHHHHHHHHHHHHHhCCChHHEEEEEeCCceEEECCCCCceEEEEEEEecCCCHHHHHHHHHH
Confidence 99999999999888889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceee
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~ 116 (121)
|+++++++|||+++||||.|++++++||||||+||+
T Consensus 81 i~~~l~~~lgi~~~rv~I~f~~~~~~~w~~~G~~f~ 116 (116)
T PTZ00397 81 ITKILASHLKVKSERVYIEFKDCSAQNWAFNGSTFG 116 (116)
T ss_pred HHHHHHHHhCcCcccEEEEEEECChhheeEcceeCC
Confidence 999999999999999999999999999999999984
No 3
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=100.00 E-value=8e-43 Score=225.53 Aligned_cols=114 Identities=45% Similarity=0.768 Sum_probs=105.1
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAI 81 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i 81 (121)
|+++|+||++.++. +++|++++++++|+.+|||++|+||++.++++|+|||+++||||++|+++|++++++|++++++|
T Consensus 1 P~~~i~TNv~~~~~-~~~f~~~ls~~va~~lgKpe~~i~V~v~~~~~m~fgGs~~P~a~v~l~sig~~~~~~n~~~s~~i 79 (114)
T PF01187_consen 1 PCLEIKTNVSASKV-PDDFLKELSKLVAELLGKPESYIMVTVEDGQRMSFGGSDDPAAFVELKSIGGLDPEQNKKYSAAI 79 (114)
T ss_dssp -EEEEEESS-GGGS-HTTHHHHHHHHHHHHHTSTGGGEEEEEEESTEEEETTB-SS-EEEEEEESSSSSHHHHHHHHHHH
T ss_pred CEEEEEcCCCchhc-hHHHHHHHHHHHHHHhCcchhhEEEEeeCCceEEECCCCCCEEEEEEEEccCCCHHHHHHHHHHH
Confidence 99999999997654 88999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceee
Q 033334 82 SAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 82 ~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~ 116 (121)
+++++++||||++|+||.|+|+++++|||||+||+
T Consensus 80 ~~~l~~~LgIp~~Riyi~f~d~~~~~~g~nG~tf~ 114 (114)
T PF01187_consen 80 TEFLEEELGIPPDRIYINFHDLPAWNVGWNGTTFA 114 (114)
T ss_dssp HHHHHHHHT--GGGEEEEEEEETGGGEEETTEESC
T ss_pred HHHHHHHhCCCcCceEEEEEECCHHHeeeCcEEcC
Confidence 99999999999999999999999999999999985
No 4
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=100.00 E-value=1.6e-40 Score=209.99 Aligned_cols=115 Identities=47% Similarity=0.732 Sum_probs=112.4
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHH
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
||+++|+||++.+.+ ++.|.+++++++|+++|||+++|||++..+.+|.|||+++||||++++|+|++++++|++|+++
T Consensus 1 MP~l~i~TNv~~~~V-~~~fe~elt~~lAkimgkP~~~i~V~l~~~~~i~fggt~eP~A~~~l~Sig~v~~~~N~~~sa~ 79 (115)
T KOG1759|consen 1 MPVLRIQTNVPVDKV-PDGFEKELTKALAKIMGKPEDYIMVELAGGVRIAFGGTTEPAAYASLKSIGGVGAIVNRSYSAA 79 (115)
T ss_pred CCeEEEeccCCcccC-CccHHHHHHHHHHHHhCCChhhEEEEecCCceEeccCCCCccEEEEEEeccccChhHhHHHHHH
Confidence 999999999998887 6779999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceee
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~ 116 (121)
+|++|+++|+++++|+||+|+++++..+||||+|++
T Consensus 80 l~~il~~~L~l~~~rv~I~f~dl~~~~ig~nG~t~a 115 (115)
T KOG1759|consen 80 LTEILEKELSLDPDRVYIKFYDLNAAFIGFNGSTLA 115 (115)
T ss_pred HHHHHHHHhCCCCCeEEEEEecCChhHccccCeecC
Confidence 999999999999999999999999999999999985
No 5
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=99.61 E-value=4.5e-15 Score=90.45 Aligned_cols=75 Identities=15% Similarity=0.151 Sum_probs=57.8
Q ss_pred cEEEEEEeCCceeeecC------CCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCcee
Q 033334 37 AYVMIVLKGSVPMSFGG------TEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSRE 110 (121)
Q Consensus 37 ~~i~v~v~~~~~~~~gg------~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~ 110 (121)
.+..++-++..+|.+.. +++...+|+|++..|++.|+|++++++|++.|++.+||+|++|+|.+.+.+++||||
T Consensus 2 rfqi~~~~~~~~~~~~~~ylg~~Rs~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~~~gi~p~Dv~I~l~e~~~edWSF 81 (82)
T PF14552_consen 2 RFQIIHEHEPDEFIYDPTYLGIDRSDDFVIIQITSGAGRSTEQKKALYRALAERLAEKLGIRPEDVMIVLVENPREDWSF 81 (82)
T ss_dssp SEEEEEEE-GGGEEE-TTTS--TS-TT-EEEEEEECS---HHHHHHHHHHHHHHHHHHH---GGGEEEEEEEE-GGGEEE
T ss_pred eeEEEEEeCcccEEECCccCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHcCCCHHHEEEEEEECCcccCCC
Confidence 35667777777777773 789999999999989999999999999999999999999999999999999999998
Q ss_pred C
Q 033334 111 H 111 (121)
Q Consensus 111 ~ 111 (121)
+
T Consensus 82 g 82 (82)
T PF14552_consen 82 G 82 (82)
T ss_dssp C
T ss_pred C
Confidence 6
No 6
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=99.57 E-value=6.4e-15 Score=85.82 Aligned_cols=60 Identities=13% Similarity=0.144 Sum_probs=55.9
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeehh
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAVH 119 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~~ 119 (121)
+|+|+...|++++++++++++|++.+.+.||+|+++++|.|.++++++||++|.+++++.
T Consensus 3 ~v~i~l~~grt~eqk~~l~~~it~~l~~~lg~p~~~v~V~i~e~~~~~w~~gg~~~~~~~ 62 (64)
T PRK01964 3 IVQIQLLEGRPEEKIKNLIREVTEAISATLDVPKERVRVIVNEVPSSHWGVAGVPKSELK 62 (64)
T ss_pred EEEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEcChHHeeECCEEHHHcc
Confidence 567777778999999999999999999999999999999999999999999999988764
No 7
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=99.56 E-value=1.5e-14 Score=83.11 Aligned_cols=58 Identities=14% Similarity=0.213 Sum_probs=52.3
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeee
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHA 117 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~ 117 (121)
+|+|+...|+++++|+++++++++.+.+.||+|+++++|.|++++++|||.+|..+++
T Consensus 2 ~I~i~~~~g~~~e~K~~l~~~it~~~~~~lg~~~~~i~V~i~E~~~~~w~~gG~~~~~ 59 (60)
T PF01361_consen 2 FITIKIPEGRTAEQKRELAEAITDAVVEVLGIPPERISVVIEEVPPENWGIGGKSLSD 59 (60)
T ss_dssp EEEEEEESTS-HHHHHHHHHHHHHHHHHHHTS-GGGEEEEEEEE-CCCEEETTEETTH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCCCeEEEEEEEEChhheEECCEEcCc
Confidence 6888888889999999999999999999999999999999999999999999998765
No 8
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=99.56 E-value=1.4e-14 Score=83.90 Aligned_cols=60 Identities=5% Similarity=0.135 Sum_probs=55.7
Q ss_pred EEEEEee-eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeehh
Q 033334 60 YGELVSI-GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAVH 119 (121)
Q Consensus 60 ~v~i~~~-g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~~ 119 (121)
+++|+.. .|++++++++++++|++.+.+.||+++++++|.+.++++++||++|.+++++.
T Consensus 2 ~i~i~i~~~grt~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG~~~~~~~ 62 (63)
T TIGR00013 2 FVNIYILKEGRTDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMPKNNYGIGGELVSDRR 62 (63)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcCHHHeeECCEEhhHhc
Confidence 5677777 68999999999999999999999999999999999999999999999988753
No 9
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=99.56 E-value=2.6e-14 Score=81.41 Aligned_cols=57 Identities=7% Similarity=0.184 Sum_probs=53.4
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceee
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~ 116 (121)
+++|+...|+++|+|++++++|++.+.+.+|+++++++|.|.++++++||++|.+++
T Consensus 2 ~i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg~~~~ 58 (58)
T cd00491 2 FVQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKENWGIGGESAS 58 (58)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCchhceECCEECc
Confidence 577887778999999999999999999999999999999999999999999998764
No 10
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=99.55 E-value=2e-14 Score=82.80 Aligned_cols=58 Identities=16% Similarity=0.217 Sum_probs=54.1
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeee
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHA 117 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~ 117 (121)
+++|+...|+++++|++++++|++.+.+.+|+|+++++|.|.++++++||++|.++++
T Consensus 3 ~i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG~~~~~ 60 (61)
T PRK02220 3 YVHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGGKRLSD 60 (61)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECCEECCC
Confidence 5777877789999999999999999999999999999999999999999999998763
No 11
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=99.54 E-value=2.7e-14 Score=82.51 Aligned_cols=58 Identities=16% Similarity=0.133 Sum_probs=54.7
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeee
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHA 117 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~ 117 (121)
+++|+...|+++|++++++++|++.+.+.||+|+++++|.|.+++++|||++|.+.++
T Consensus 3 ~i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~w~~gG~~~~~ 60 (62)
T PRK00745 3 TFHIELFEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRENWATGGKLWSD 60 (62)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChHHeeECCEEcCc
Confidence 5778877789999999999999999999999999999999999999999999998875
No 12
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=99.38 E-value=3.1e-12 Score=73.57 Aligned_cols=57 Identities=9% Similarity=0.178 Sum_probs=52.7
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceee
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~ 116 (121)
+++++...|+++||+++++++|++.+.+.+|+|++.|.|.|.|+++++|+.+|.+.+
T Consensus 3 ~i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~~~~~~~~g~~~~ 59 (60)
T PRK02289 3 FVRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMPEGTYYPQGEMKT 59 (60)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeChhheEECCEEcC
Confidence 567777778999999999999999999999999999999999999999999997653
No 13
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=99.35 E-value=5.6e-12 Score=74.23 Aligned_cols=60 Identities=8% Similarity=0.140 Sum_probs=54.2
Q ss_pred EEEEEeee-CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeehh
Q 033334 60 YGELVSIG-GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAVH 119 (121)
Q Consensus 60 ~v~i~~~g-~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~~ 119 (121)
||+|+... ..++++|+++++++++.+.+.||-+++.+.|.|.+++++|||.+|...+...
T Consensus 3 ~v~Ik~~~g~~~~~~K~~la~~vT~~~~~~lg~~~~~i~Viieev~~~~w~~gG~~~~~~~ 63 (69)
T COG1942 3 FVNIKLFEGRLDEEQKAELAAEVTEVTVETLGKDPSAIHVIIEEVPPENWGVGGESVSEQR 63 (69)
T ss_pred EEEEEecCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEecChhheeEccEEhhhcc
Confidence 67888884 4678889999999999999999999999999999999999999999877543
No 14
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=99.35 E-value=8.5e-11 Score=75.65 Aligned_cols=105 Identities=16% Similarity=0.149 Sum_probs=92.0
Q ss_pred CeEEEEeCCCC-CCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC--CCCeeEEEEEeeeCCChhHHHHHH
Q 033334 2 PCLNISTNVKL-DGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT--EDPAAYGELVSIGGLNPDVNKKLS 78 (121)
Q Consensus 2 P~i~i~tn~~~-~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~--~~p~~~v~i~~~g~~~~e~~~~~~ 78 (121)
|.|.|...... +..+.+++++.+.+++.+...-|+.-+.+.........-|.. ++...+++|+...|++.|+|++++
T Consensus 1 PH~~Ieys~~l~~~~~~~~l~~~v~~al~~~~~~p~~dik~r~~~~~~y~~~~~~~~~~fi~i~i~l~~GRs~eqK~~l~ 80 (113)
T cd00580 1 PHLIIEYSANLEGRADIPELLRALHDALVASGLFPLGGIKVRAIRADHYRVGDGDEDDAFIHVTLRILAGRSEEQKQELS 80 (113)
T ss_pred CeEEEEeCCCccccCCHHHHHHHHHHHHHhcCCCChhccEEeeEEcceEEECCCCCCCcEEEEEEEEcCCCCHHHHHHHH
Confidence 88999998887 567799999999999999999999988887776666555555 678899999988999999999999
Q ss_pred HHHHHHHHHHhCCCCC----eEEEEEEeCCCC
Q 033334 79 AAISAILEKKLSVPKS----RFFIKFYDTKAH 106 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~----ri~i~f~~~~~~ 106 (121)
++|++.|.+.++-+++ .+.|.+.|++++
T Consensus 81 ~~i~~~l~~~~~~~~~~~~~~~svei~e~~~~ 112 (113)
T cd00580 81 EALLAALRAHLAPVFAKRYLSLSVEIRELDPA 112 (113)
T ss_pred HHHHHHHHHhhhhhhhccceEEEEEEEecCCC
Confidence 9999999999999977 899999999864
No 15
>PF14832 Tautomerase_3: Putative oxalocrotonate tautomerase enzyme; PDB: 3C6V_C 3N4D_I 3N4G_C 3N4H_A 2FLZ_C 3MF8_A 3MF7_A 2FLT_A.
Probab=99.15 E-value=5.8e-10 Score=73.95 Aligned_cols=114 Identities=17% Similarity=0.182 Sum_probs=92.5
Q ss_pred CCeEEEEeCC-CCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEe--CCceeeecCCCC-CeeEEEEEeee--CCChhHH
Q 033334 1 MPCLNISTNV-KLDGVDTSSILSEATSTVANIIGKPEAYVMIVLK--GSVPMSFGGTED-PAAYGELVSIG--GLNPDVN 74 (121)
Q Consensus 1 MP~i~i~tn~-~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~--~~~~~~~gg~~~-p~~~v~i~~~g--~~~~e~~ 74 (121)
||+-+|+... ..+++++++|.++++++.+.. |.|.-|+.|.+. +..+++.||... +...+.+..+. ..+.|.+
T Consensus 1 MPlw~I~h~~~~lt~~~K~~LA~~IT~~y~~~-glP~FyV~V~F~~~~~~~~fvGG~~~~~fvrI~i~hiaR~~~~~e~~ 79 (136)
T PF14832_consen 1 MPLWQIYHPPGTLTPEQKQALAEAITDIYTSI-GLPAFYVNVRFIEVPPGDFFVGGKPRDNFVRIVIDHIARTGPDDEQR 79 (136)
T ss_dssp --EEEEEEETTSS-HHHHHHHHHHHHHHHHHT-TTTGGG-EEEEEEE-TTSEEETTEE-SSCEEEEEEEEEEST-SHHHH
T ss_pred CCcEEEEeCCCCCCHHHHHHHHHHHHHHHhCC-CCCCEEEEEEEEEcCCCCeEECCcCcCceEEEEEEEEeecCCCHHHH
Confidence 9999999998 588888999999999999999 999999999874 567999999764 44456665543 2468889
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCcee
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCL 115 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~ 115 (121)
+++.+++.+.+....+.+.-+..+.+.+.+...|-.+|-..
T Consensus 80 ~~~~~~i~~~l~p~~~~~g~~~e~~i~etp~~lw~~~G~~p 120 (136)
T PF14832_consen 80 RRLLDRIDEVLKPHTADKGYDWEFHIDETPRDLWKENGLVP 120 (136)
T ss_dssp HHHHHHHHHHHHHHHCCGGGEEEEEEEEE-GGGEEETTEEE
T ss_pred HHHHHHHHHHhcccccCCCceEEEEEecCCHHHHHHCCcCC
Confidence 99999999999999999999999999999999999999654
No 16
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=99.08 E-value=4.1e-10 Score=67.58 Aligned_cols=51 Identities=14% Similarity=0.199 Sum_probs=47.4
Q ss_pred EEEEEeeeC-CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCcee
Q 033334 60 YGELVSIGG-LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSRE 110 (121)
Q Consensus 60 ~v~i~~~g~-~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~ 110 (121)
+|+|+..+| ++.||++++++++++.+.+.||.+++.+.|.|.++++++|+-
T Consensus 3 ~I~I~~~~g~~s~EqK~~La~~iT~a~~~~lg~~~e~v~V~I~ev~~~~W~~ 54 (76)
T PRK01271 3 HIDIKCFPRELDEEQKAALAADITDVIIRHLNSKDSSISIALQQIQPESWQA 54 (76)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEcCHHHhhH
Confidence 567777776 899999999999999999999999999999999999999983
No 17
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=99.02 E-value=4.1e-09 Score=67.29 Aligned_cols=107 Identities=18% Similarity=0.209 Sum_probs=67.7
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHH
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
||.+++.-- +.++-.++.+.|.+-||++.+-|.+++.+.+.+...+.-|+..++..||+|.=.. |+++.+.+.++.
T Consensus 1 MPhlr~rGi---~~e~v~~~S~~LideLa~i~~~p~e~ftlE~i~s~~i~~G~~~~~~pfVEV~WF~-R~qe~qd~vA~~ 76 (108)
T PF08921_consen 1 MPHLRFRGI---EEEQVQELSKELIDELAEICGCPRENFTLEWINSTFIFDGEISEGYPFVEVLWFD-RGQEVQDKVAQA 76 (108)
T ss_dssp --EEEEESS----HHHHHHHHHHHHHHHHHHHT--GGG-EEEE-------TT-B-----EEEEEES----HHHHHHHHHH
T ss_pred CCeEEEecC---CHHHHHHHhHHHHHHHHHHHCCCcceEEEEEeceEEEEcCcccccceeEEEEEec-CCHHHHHHHHHH
Confidence 999998743 3344678999999999999999999999988875544444456777899998776 899999999999
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
|++.+.+. ..-.+|-|.|.++++.++--||.
T Consensus 77 It~~v~~~--~g~~~V~V~F~~l~~~~YY~nG~ 107 (108)
T PF08921_consen 77 ITEHVKKA--NGYQDVAVIFTDLNPSNYYENGE 107 (108)
T ss_dssp HHHHHHHH---TT---EEEEEE--GGG-EETTE
T ss_pred HHHHHHhc--CCCCeEEEEEEEcCccccccCCc
Confidence 99999988 66789999999999999999884
No 18
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=99.02 E-value=8.5e-10 Score=64.02 Aligned_cols=55 Identities=16% Similarity=0.256 Sum_probs=49.5
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEE--eCCceeeecCCC
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVL--KGSVPMSFGGTE 55 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v--~~~~~~~~gg~~ 55 (121)
||+++|++..+.+.+++++|.+++++++++.+|+|.+.+.|.+ .+..+|.+||.+
T Consensus 1 MP~v~i~l~~grt~eqk~~l~~~it~~l~~~lg~p~~~v~V~i~e~~~~~w~~gg~~ 57 (64)
T PRK01964 1 MPIVQIQLLEGRPEEKIKNLIREVTEAISATLDVPKERVRVIVNEVPSSHWGVAGVP 57 (64)
T ss_pred CCEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEcChHHeeECCEE
Confidence 9999999999999999999999999999999999999777665 467899999853
No 19
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=98.97 E-value=1.7e-09 Score=62.29 Aligned_cols=55 Identities=20% Similarity=0.244 Sum_probs=49.6
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEE--eCCceeeecCCC
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVL--KGSVPMSFGGTE 55 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v--~~~~~~~~gg~~ 55 (121)
||+++|++..+.+.+++++|.+.+++++++.+|+|.+.+.|.+ .+..+|.+||..
T Consensus 1 MP~i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~w~~gG~~ 57 (62)
T PRK00745 1 MPTFHIELFEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRENWATGGKL 57 (62)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChHHeeECCEE
Confidence 9999999999999999999999999999999999999777766 467899999964
No 20
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=98.95 E-value=3.3e-09 Score=60.90 Aligned_cols=54 Identities=17% Similarity=0.207 Sum_probs=48.9
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEe--CCceeeecCC
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLK--GSVPMSFGGT 54 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~--~~~~~~~gg~ 54 (121)
||+++|+...+.++++++++.+++++++++.+|.|++.+.|.+. +..++..||.
T Consensus 1 MP~i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~~~~~~~~g~ 56 (60)
T PRK02289 1 MPFVRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMPEGTYYPQGE 56 (60)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeChhheEECCE
Confidence 99999999999999999999999999999999999998888775 5677887873
No 21
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=98.91 E-value=4.9e-09 Score=60.12 Aligned_cols=55 Identities=16% Similarity=0.327 Sum_probs=49.2
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEE--eCCceeeecCCC
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVL--KGSVPMSFGGTE 55 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v--~~~~~~~~gg~~ 55 (121)
||+++|+...+.+.+++.+|.+++++++++.+|.|.+.+.|.+ .+..+|.+||..
T Consensus 1 MP~i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG~~ 57 (61)
T PRK02220 1 MPYVHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGGKR 57 (61)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECCEE
Confidence 9999999999999999999999999999999999999777665 467899999853
No 22
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=98.89 E-value=1.6e-07 Score=61.47 Aligned_cols=112 Identities=7% Similarity=0.042 Sum_probs=87.9
Q ss_pred CCeEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC--CeeEEEEEeeeCCChhHHHHH
Q 033334 1 MPCLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED--PAAYGELVSIGGLNPDVNKKL 77 (121)
Q Consensus 1 MP~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~--p~~~v~i~~~g~~~~e~~~~~ 77 (121)
||.+.|..+.... ..+.+++++.+.+++.+.===|..-|-+...+...+..|...+ .+..+.++...||+.|+|+++
T Consensus 1 MPH~iiEyS~nL~~~~d~~~Ll~~l~~~l~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~Fihv~l~i~~GRs~e~k~~l 80 (126)
T PRK15031 1 MPHFIAECTENIREQADLPGLFAKVNQALAATGIFPLGGIRSRAHWLDTWQMADGKHDYAFVHMTLKIGAGRSLESRQEV 80 (126)
T ss_pred CCeEEEEeCCCccccCCHHHHHHHHHHHHHhCCCCCccccEeeeeecCcEEEcCCCCCCcEEEEEeeecCCCCHHHHHHH
Confidence 9999999888865 4668999999999988832246667888877777788875444 566666677789999999999
Q ss_pred HHHHHHHHHHHhC----CCCCeEEEEEEeCCCC-CceeCC
Q 033334 78 SAAISAILEKKLS----VPKSRFFIKFYDTKAH-QSREHA 112 (121)
Q Consensus 78 ~~~i~~~l~~~lg----i~~~ri~i~f~~~~~~-~~g~~G 112 (121)
++.+.+.+++.+. -+.-.+-+.+.|++++ +|-.+.
T Consensus 81 ~~~l~~~l~~~~~~~~~~~~~~LS~Ei~d~d~~~s~k~~~ 120 (126)
T PRK15031 81 GEMLFALIKAHFAALMESRYLALSFEIEELHPTLNFKQNN 120 (126)
T ss_pred HHHHHHHHHHHhhhhhcccceEEEEEEEEcCCccChhhhh
Confidence 9999999887764 3446788999999988 887653
No 23
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=98.86 E-value=1e-08 Score=60.34 Aligned_cols=55 Identities=18% Similarity=0.294 Sum_probs=47.2
Q ss_pred CCeEEEEeCCCCCC-cChHHHHHHHHHHHHHHhCCCCcEEEEEEe--CCceeeecCCC
Q 033334 1 MPCLNISTNVKLDG-VDTSSILSEATSTVANIIGKPEAYVMIVLK--GSVPMSFGGTE 55 (121)
Q Consensus 1 MP~i~i~tn~~~~~-~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~--~~~~~~~gg~~ 55 (121)
||+++|+...+.++ .++++|.+++++++++.+|+|.+.+.|.++ +..++..||.+
T Consensus 1 MP~v~Ik~~~g~~~~~~K~~la~~vT~~~~~~lg~~~~~i~Viieev~~~~w~~gG~~ 58 (69)
T COG1942 1 MPFVNIKLFEGRLDEEQKAELAAEVTEVTVETLGKDPSAIHVIIEEVPPENWGVGGES 58 (69)
T ss_pred CCEEEEEecCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEecChhheeEccEE
Confidence 99999999987444 448999999999999999999999988875 56788888853
No 24
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=98.67 E-value=8.2e-08 Score=54.82 Aligned_cols=54 Identities=17% Similarity=0.316 Sum_probs=44.3
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEE--eCCceeeecCCC
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVL--KGSVPMSFGGTE 55 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v--~~~~~~~~gg~~ 55 (121)
|+++|++..+.+++++++|.+++++++++.+|+|.+.+.|.+ .+..+|..||..
T Consensus 1 P~I~i~~~~g~~~e~K~~l~~~it~~~~~~lg~~~~~i~V~i~E~~~~~w~~gG~~ 56 (60)
T PF01361_consen 1 PFITIKIPEGRTAEQKRELAEAITDAVVEVLGIPPERISVVIEEVPPENWGIGGKS 56 (60)
T ss_dssp -EEEEEEESTS-HHHHHHHHHHHHHHHHHHHTS-GGGEEEEEEEE-CCCEEETTEE
T ss_pred CEEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCCCeEEEEEEEEChhheEECCEE
Confidence 899999999998898999999999999999999999666655 567899999853
No 25
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=98.65 E-value=1e-07 Score=54.83 Aligned_cols=54 Identities=15% Similarity=0.250 Sum_probs=47.9
Q ss_pred CeEEEEeC-CCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEE--eCCceeeecCCC
Q 033334 2 PCLNISTN-VKLDGVDTSSILSEATSTVANIIGKPEAYVMIVL--KGSVPMSFGGTE 55 (121)
Q Consensus 2 P~i~i~tn-~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v--~~~~~~~~gg~~ 55 (121)
|+++|++. .+.+.+++++|.+++++++++.+|+|.+.+.|.+ .+..+|.+||.+
T Consensus 1 P~i~i~i~~~grt~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG~~ 57 (63)
T TIGR00013 1 PFVNIYILKEGRTDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMPKNNYGIGGEL 57 (63)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcCHHHeeECCEE
Confidence 89999999 7889999999999999999999999999777766 467899999864
No 26
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=98.65 E-value=1.3e-07 Score=53.43 Aligned_cols=54 Identities=20% Similarity=0.391 Sum_probs=48.0
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEE--eCCceeeecCCC
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVL--KGSVPMSFGGTE 55 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v--~~~~~~~~gg~~ 55 (121)
|+++|+...+.+.+++++|.+++++++++.+|+|.+.+.|.+ .+..++.+||.+
T Consensus 1 P~i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg~~ 56 (58)
T cd00491 1 PFVQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKENWGIGGES 56 (58)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCchhceECCEE
Confidence 899999999988899999999999999999999999777765 467889999853
No 27
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=98.65 E-value=8.2e-08 Score=57.60 Aligned_cols=45 Identities=18% Similarity=0.365 Sum_probs=42.2
Q ss_pred CCeEEEEeCCC-CCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeC
Q 033334 1 MPCLNISTNVK-LDGVDTSSILSEATSTVANIIGKPEAYVMIVLKG 45 (121)
Q Consensus 1 MP~i~i~tn~~-~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~ 45 (121)
||+++|+.-.+ .+.+++++|.+++++++++++|+|++.+.|.+.+
T Consensus 1 MP~I~I~~~~g~~s~EqK~~La~~iT~a~~~~lg~~~e~v~V~I~e 46 (76)
T PRK01271 1 MPHIDIKCFPRELDEEQKAALAADITDVIIRHLNSKDSSISIALQQ 46 (76)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEE
Confidence 99999999986 7899999999999999999999999999998864
No 28
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=98.47 E-value=7.4e-06 Score=53.54 Aligned_cols=106 Identities=18% Similarity=0.186 Sum_probs=76.7
Q ss_pred CeEEEEeCCCCCCc-ChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC--CCCeeEEEEEeeeCCChhHHHHHH
Q 033334 2 PCLNISTNVKLDGV-DTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT--EDPAAYGELVSIGGLNPDVNKKLS 78 (121)
Q Consensus 2 P~i~i~tn~~~~~~-~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~--~~p~~~v~i~~~g~~~~e~~~~~~ 78 (121)
|.+.|..+...... +.++|++.+.+++.+.=-=|+.-|-+...+...+..|.. ++..+.+++....||++|+|++++
T Consensus 1 PH~viEYS~nL~~~~d~~~ll~~l~~~~~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~FvHv~l~il~GRs~e~k~~l~ 80 (124)
T PF02962_consen 1 PHLVIEYSANLEDDVDIPALLRALHDALLASGLFPEGGIKVRAIRCDHYRVGDGQPDDAFVHVTLRILAGRSEEQKKALS 80 (124)
T ss_dssp -EEEEEEECCGCCTTTHHHHHHHHHHHHHCTTSS-GGG-EEEEEEESSEEETTSSS-EEEEEEEEEEETT--HHHHHHHH
T ss_pred CeEEEEeCCCccccCCHHHHHHHHHHHHHHcCCcChhceeeeeEecccEEEccCCCCCcEEEEEeeecCCCCHHHHHHHH
Confidence 77788777775543 688999999999998733577788888777777777743 345666777777899999999999
Q ss_pred HHHHHHHHHHhCCCCC----eEEEEEEeCCCCC
Q 033334 79 AAISAILEKKLSVPKS----RFFIKFYDTKAHQ 107 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~----ri~i~f~~~~~~~ 107 (121)
+++.+.+++.+.-..+ .+-+.+.|+++..
T Consensus 81 ~~l~~~l~~~~~~~~~~~~~~LsvEi~E~~~~~ 113 (124)
T PF02962_consen 81 EALLAVLKAHLAPLFAQRYLQLSVEIREMDPAL 113 (124)
T ss_dssp HHHHHHHHHHCCCHCCHSEEEEEEEEEEE-CCC
T ss_pred HHHHHHHHHHhhHhhcCCeeEEEEEEEEcCccc
Confidence 9999999999875443 5667788888753
No 29
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=97.74 E-value=9.8e-05 Score=47.47 Aligned_cols=53 Identities=19% Similarity=0.248 Sum_probs=43.9
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeC--CceeeecCCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKG--SVPMSFGGTE 55 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~--~~~~~~gg~~ 55 (121)
+++|+...+.+.+++++|.+++++++.+.+|.|.++++|.+.+ ..+|.+||+.
T Consensus 60 ~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lgi~~~rv~I~f~~~~~~~w~~~G~~ 114 (116)
T PTZ00397 60 FVRVTSIGGISRSNNSSIAAAITKILASHLKVKSERVYIEFKDCSAQNWAFNGST 114 (116)
T ss_pred EEEEEEecCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEECChhheeEccee
Confidence 4566655667778899999999999999999999999998865 4559999853
No 30
>COG3232 HpaF 5-carboxymethyl-2-hydroxymuconate isomerase [Amino acid transport and metabolism]
Probab=97.56 E-value=0.00087 Score=43.34 Aligned_cols=106 Identities=11% Similarity=0.102 Sum_probs=68.9
Q ss_pred CCeEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEE--EeeeCCChhHHHHH
Q 033334 1 MPCLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGEL--VSIGGLNPDVNKKL 77 (121)
Q Consensus 1 MP~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i--~~~g~~~~e~~~~~ 77 (121)
||.+.+....... ......|++++.+++...-==|..-|......-..+..|...++.+||++ ++..|+++|++++.
T Consensus 1 MPHli~EyT~Nl~~~~~~~~L~~~vn~~l~asG~FplggIRsRa~rld~y~maD~~~~~aFvH~tl~IgaGRs~e~rq~v 80 (127)
T COG3232 1 MPHLIMEYTDNLREEADLPGLLEKVNAALIASGLFPLGGIRSRALRLDAYRMADGAEDDAFVHMTLKIGAGRSEEQRQEV 80 (127)
T ss_pred CCceehhhhcCccccCCcHHHHHHHHHHHHhcCCCcccceeehhhhhhHHHhcccCCCcceEEEEEEecCCCCHHHHHHH
Confidence 8888775444433 34467999999998887555577766665433223333322233455555 55567999999999
Q ss_pred HHHHHHHHHHHhCCCCCe----EEEEEEeCCCC
Q 033334 78 SAAISAILEKKLSVPKSR----FFIKFYDTKAH 106 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~r----i~i~f~~~~~~ 106 (121)
.+++++.|...+.---++ +.+.+.|++++
T Consensus 81 ge~Lf~~l~~~~A~l~a~r~lals~Ei~E~d~~ 113 (127)
T COG3232 81 GEALFAVLTAHFAPLFAQRYLALSFEIRELDPT 113 (127)
T ss_pred HHHHHHHHHHHHhhhhhccceeEEEEHHHhCch
Confidence 999999999988544333 33335666654
No 31
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=97.45 E-value=0.00031 Score=42.67 Aligned_cols=50 Identities=22% Similarity=0.283 Sum_probs=38.0
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEe--CCceeeec
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLK--GSVPMSFG 52 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~--~~~~~~~g 52 (121)
+|+|++..+.+.+++++|-+.+.+.+++.+|.+.+-+||.+. +..+|.||
T Consensus 31 ~I~It~~~gRs~e~K~~ly~~l~~~L~~~~gi~p~Dv~I~l~e~~~edWSFg 82 (82)
T PF14552_consen 31 IIQITSGAGRSTEQKKALYRALAERLAEKLGIRPEDVMIVLVENPREDWSFG 82 (82)
T ss_dssp EEEEEECS---HHHHHHHHHHHHHHHHHHH---GGGEEEEEEEE-GGGEEEC
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHcCCCHHHEEEEEEECCcccCCCC
Confidence 689999999999999999999999999999999998887764 56788886
No 32
>PF14832 Tautomerase_3: Putative oxalocrotonate tautomerase enzyme; PDB: 3C6V_C 3N4D_I 3N4G_C 3N4H_A 2FLZ_C 3MF8_A 3MF7_A 2FLT_A.
Probab=97.17 E-value=0.0013 Score=43.73 Aligned_cols=51 Identities=18% Similarity=0.242 Sum_probs=43.2
Q ss_pred eeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceee
Q 033334 65 SIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 65 ~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~ 116 (121)
+.|.+++++|++++++||++-... |+|.==|.|.|.++++.+.=.+|..-.
T Consensus 9 ~~~~lt~~~K~~LA~~IT~~y~~~-glP~FyV~V~F~~~~~~~~fvGG~~~~ 59 (136)
T PF14832_consen 9 PPGTLTPEQKQALAEAITDIYTSI-GLPAFYVNVRFIEVPPGDFFVGGKPRD 59 (136)
T ss_dssp ETTSS-HHHHHHHHHHHHHHHHHT-TTTGGG-EEEEEEE-TTSEEETTEE-S
T ss_pred CCCCCCHHHHHHHHHHHHHHHhCC-CCCCEEEEEEEEEcCCCCeEECCcCcC
Confidence 446799999999999999999888 999999999999999999999998754
No 33
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=96.20 E-value=0.013 Score=37.60 Aligned_cols=51 Identities=10% Similarity=0.190 Sum_probs=40.8
Q ss_pred EEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 4 LNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 4 i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
++|..--..++++.+++.+.+++++.+.||.|.++|.+.+.+..++-+.|+
T Consensus 61 ~~l~siG~~~~~~n~~~s~~i~~~l~~~LgIp~dRiYI~f~d~~~~G~nG~ 111 (113)
T PTZ00450 61 VRVEAWGEYAPSKPKMMTPRITAAITKECGIPAERIYVFYYSTKHCGWNGT 111 (113)
T ss_pred EEEEEecCcCHHHHHHHHHHHHHHHHHHcCCCcccEEEEEEcHHHcccCcE
Confidence 444444445555577999999999999999999999999998777777775
No 34
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=95.35 E-value=0.043 Score=35.06 Aligned_cols=53 Identities=15% Similarity=0.219 Sum_probs=38.3
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEe--CCceeeecCCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLK--GSVPMSFGGTE 55 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~--~~~~~~~gg~~ 55 (121)
+++|..--..+.++.+++.+++++.+.+.||.|.+++.+.+. +..++-+.|++
T Consensus 58 ~v~l~sig~~~~~~n~~~s~~i~~~l~~~LgIp~~Riyi~f~d~~~~~~g~nG~t 112 (114)
T PF01187_consen 58 FVELKSIGGLDPEQNKKYSAAITEFLEEELGIPPDRIYINFHDLPAWNVGWNGTT 112 (114)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHHHHHHHHT--GGGEEEEEEEETGGGEEETTEE
T ss_pred EEEEEEccCCCHHHHHHHHHHHHHHHHHHhCCCcCceEEEEEECCHHHeeeCcEE
Confidence 344544343455656799999999999999999999999886 56777777753
No 35
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=92.70 E-value=2.5 Score=29.65 Aligned_cols=83 Identities=18% Similarity=0.137 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh-CCCCCeEE
Q 033334 19 SILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL-SVPKSRFF 97 (121)
Q Consensus 19 ~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l-gi~~~ri~ 97 (121)
++..+|++.+..+-|.-..++.+.+.... ........|.|-|-|+.-++.+.+. -..+|..++.... |+++++|.
T Consensus 107 ale~EL~rtI~~i~~V~~ArVhl~~P~~~-~f~~~~~~~sASV~l~~~~g~~l~~---qv~~I~~LVa~SV~~L~~enVt 182 (193)
T TIGR02544 107 AIEQRLEQTLSQIDGVISARVHVVLPEND-NNGRPKKPSSASVFIKYRPGLNLDA---LIPKIKRLVANSIPGLDYDNVS 182 (193)
T ss_pred HHHHHHHHHHHhcCCeeeeEEEEECCCCC-cccccCCCCcEEEEEEeCCCCCcHH---HHHHHHHHHHHhcCCCCccceE
Confidence 44556666666666766667766655443 3333455778888888777765442 6678888888666 79999999
Q ss_pred EEEEeCCC
Q 033334 98 IKFYDTKA 105 (121)
Q Consensus 98 i~f~~~~~ 105 (121)
|...+.++
T Consensus 183 Vv~~~~~~ 190 (193)
T TIGR02544 183 VVLVPAEE 190 (193)
T ss_pred EEEecccc
Confidence 99888654
No 36
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=92.31 E-value=0.37 Score=30.63 Aligned_cols=43 Identities=2% Similarity=-0.008 Sum_probs=35.0
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCc----EEEEEEeC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEA----YVMIVLKG 45 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~----~i~v~v~~ 45 (121)
+++|++..+.+.+++++|.+.+.+.+.+.++.+-+ .+.|.+.+
T Consensus 62 ~i~i~l~~GRs~eqK~~l~~~i~~~l~~~~~~~~~~~~~~~svei~e 108 (113)
T cd00580 62 HVTLRILAGRSEEQKQELSEALLAALRAHLAPVFAKRYLSLSVEIRE 108 (113)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHhhhhhhhccceEEEEEEEe
Confidence 46778788899999999999999999999998755 66665543
No 37
>TIGR02830 spore_III_AG stage III sporulation protein AG. CC A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is found in a spore formation operon and is designated stage III sporulation protein AG.
Probab=91.01 E-value=4 Score=28.55 Aligned_cols=83 Identities=22% Similarity=0.278 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeee-----------------c-------------------C-CCCCee
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSF-----------------G-------------------G-TEDPAA 59 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~-----------------g-------------------g-~~~p~~ 59 (121)
.+.+.++|.++|..+-|.-.-.+||++..+..-.+ | | ...|..
T Consensus 59 e~~lE~~L~~iL~~I~GvG~V~VmItl~s~~e~v~a~n~~~~~~~t~E~D~~Gg~R~~~~~~~~~~~V~~~~g~~~~P~v 138 (186)
T TIGR02830 59 EKQYENELKEILEKIEGVGDVTVMVNLDSSEEKVYAKNTSKGQQTTEETDKEGGKRSVEDESDGEEVVIIRNGDQETPVV 138 (186)
T ss_pred HHHHHHHHHHHHHhccCcceeEEEEEECCCceEEEEecccccceeeeeccCCCCceeccccccCceEEEECCCCCccceE
Confidence 45688889999999999988899998876555444 1 1 223555
Q ss_pred EEEEE--eeeCC---ChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 60 YGELV--SIGGL---NPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 60 ~v~i~--~~g~~---~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.=+++ ..|.+ .-..+...-..|++.++..|+||++||.|.
T Consensus 139 ~ke~~P~I~GVlVVAeGa~~~~Vk~~I~~AV~~ll~v~~hkI~V~ 183 (186)
T TIGR02830 139 LKTEKPEIRGVLVVAEGAENPQIKYRIVEAVSRVLDVPAHKVSVL 183 (186)
T ss_pred EEEecCCceEEEEEeeCCCCHHHHHHHHHHHHHHhCCCcceEEEE
Confidence 44432 11211 123445566677888888999999999874
No 38
>PRK00647 hypothetical protein; Validated
Probab=89.56 E-value=3.6 Score=25.71 Aligned_cols=58 Identities=19% Similarity=0.157 Sum_probs=36.1
Q ss_pred EEEEEEeCCc-eeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 38 YVMIVLKGSV-PMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 38 ~i~v~v~~~~-~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
.+.|.+.|+. .-.+.|-.+...-|.|+... .+-+-.++++++|.+.||+|+.+|.|.-
T Consensus 7 ~l~V~V~P~Ak~~~I~g~~~~~Lkvrv~ApP-----vdGKAN~ali~~LAk~l~vpks~I~Iv~ 65 (96)
T PRK00647 7 ILEVKVTPKARENKIVGFEGGILKVRVTEVP-----EKGKANDAVIALLAKFLSLPKRDVTLIA 65 (96)
T ss_pred EEEEEEeeCCCcceeccccCCEEEEEEecCC-----CCChHHHHHHHHHHHHhCCChhhEEEEe
Confidence 3455666642 22344544455555555443 2233456788899999999999998864
No 39
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=89.07 E-value=1.7 Score=27.97 Aligned_cols=49 Identities=8% Similarity=-0.015 Sum_probs=39.6
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeee
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSF 51 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~ 51 (121)
++.+++--..+.++.++..+.++..+.+.|+-|.+++.+.+.+=....+
T Consensus 59 ~~~l~Sig~v~~~~N~~~sa~l~~il~~~L~l~~~rv~I~f~dl~~~~i 107 (115)
T KOG1759|consen 59 YASLKSIGGVGAIVNRSYSAALTEILEKELSLDPDRVYIKFYDLNAAFI 107 (115)
T ss_pred EEEEEeccccChhHhHHHHHHHHHHHHHHhCCCCCeEEEEEecCChhHc
Confidence 4667777777777788999999999999999999999998875333333
No 40
>PF11090 DUF2833: Protein of unknown function (DUF2833); InterPro: IPR020335 This entry contains proteins with no known function.
Probab=88.55 E-value=2.5 Score=25.84 Aligned_cols=52 Identities=15% Similarity=0.262 Sum_probs=40.1
Q ss_pred EEEEeCCceeeecCCC-CCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCC
Q 033334 40 MIVLKGSVPMSFGGTE-DPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSV 91 (121)
Q Consensus 40 ~v~v~~~~~~~~gg~~-~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi 91 (121)
++.-..|..+..||+. +-+=|+.-.-+..++++++.++.+.+.+.+.+.+..
T Consensus 3 v~~~~~g~~lAiGG~~g~~~Wfvtt~~v~~~~~~~~~eF~k~i~~~~d~~l~~ 55 (86)
T PF11090_consen 3 VTIEHKGRPLAIGGNNGGCLWFVTTNKVKSLTKKERREFRKLIKEYLDKMLKQ 55 (86)
T ss_pred EEEecCCeEEEEccccCCeEEEEECcHHhhcCHhhhHHHHHHHHHHHHHHHHH
Confidence 4445678899999988 555566656666688999999999999888877765
No 41
>PRK05090 hypothetical protein; Validated
Probab=87.65 E-value=4.9 Score=24.99 Aligned_cols=58 Identities=14% Similarity=0.151 Sum_probs=35.8
Q ss_pred EEEEEEeCCc-eeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 38 YVMIVLKGSV-PMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 38 ~i~v~v~~~~-~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
.+.|.+.|+. .-...|-.+...-+.|+... .. -+-.++++++|.+.||+++.+|.|.-
T Consensus 12 ~l~i~V~P~A~~~~i~~~~~~~lkv~v~ApP-ve----GkAN~ali~~LAk~l~v~ks~I~i~~ 70 (95)
T PRK05090 12 VLRLYIQPKASRDQIVGLHGDELKVAITAPP-VD----GQANAHLLKFLAKQFRVAKSQVVIEK 70 (95)
T ss_pred EEEEEEeeCCCcceeccccCCEEEEEEecCC-CC----ChHHHHHHHHHHHHhCCChhhEEEEe
Confidence 4556666653 23334434444455555432 22 33456788899999999999998863
No 42
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=87.59 E-value=1.4 Score=28.06 Aligned_cols=46 Identities=13% Similarity=0.262 Sum_probs=30.1
Q ss_pred eeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCce
Q 033334 66 IGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQC 114 (121)
Q Consensus 66 ~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~ 114 (121)
+.|++.++-+++|+.|.+-|.+.++.|++++.+.+.+. .+=.+|..
T Consensus 6 ~rGi~~e~v~~~S~~LideLa~i~~~p~e~ftlE~i~s---~~i~~G~~ 51 (108)
T PF08921_consen 6 FRGIEEEQVQELSKELIDELAEICGCPRENFTLEWINS---TFIFDGEI 51 (108)
T ss_dssp EESS-HHHHHHHHHHHHHHHHHHHT--GGG-EEEE----------TT-B
T ss_pred EecCCHHHHHHHhHHHHHHHHHHHCCCcceEEEEEece---EEEEcCcc
Confidence 35699999999999999999999999999999998773 44444443
No 43
>KOG4493 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.23 E-value=7.9 Score=27.50 Aligned_cols=67 Identities=16% Similarity=0.341 Sum_probs=52.1
Q ss_pred eeeec--C-CCCCeeEEEEEeeeCCChhHHHHHHHHHHHH---HHHHhCCCCCeEEEEEEeC-CCCCceeCCce
Q 033334 48 PMSFG--G-TEDPAAYGELVSIGGLNPDVNKKLSAAISAI---LEKKLSVPKSRFFIKFYDT-KAHQSREHAQC 114 (121)
Q Consensus 48 ~~~~g--g-~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~---l~~~lgi~~~ri~i~f~~~-~~~~~g~~G~~ 114 (121)
+..+| | ++-.|=+++++-+...+.|.++++.++|-+| ++++.|-....+-+.|.+. +..+|-+.+.+
T Consensus 44 ~~s~GtVg~kdvdce~iDiTYV~~~s~EL~~kl~~~i~qF~~~ir~~~~~g~gQi~L~FYekskK~~Wf~~~e~ 117 (219)
T KOG4493|consen 44 HRSFGTVGAKDVDCEFIDITYVRCVSAELNEKLDEKIAQFIDTIRNEAGAGVGQISLEFYEKSKKKRWFFKDET 117 (219)
T ss_pred EEEeccccccccceeEEEEEEEEechHHHHHHHHHHHHHHHHHHHhCCCCCcceEeeeeeecccCCCCCcCCCC
Confidence 55666 3 5678999999999888889998888887777 5566666657899999999 77889875544
No 44
>PF02594 DUF167: Uncharacterised ACR, YggU family COG1872; InterPro: IPR003746 This entry describes proteins of unknown function. Structures for two of these proteins, YggU from Escherichia coli and MTH637 from the archaea Methanobacterium thermoautotrophicum, have been determined; they have a core 2-layer alpha/beta structure consisting of beta(2)-loop-alpha-beta(2)-alpha [, ].; PDB: 1YH5_A 1N91_A 1JRM_A.
Probab=85.73 E-value=1.1 Score=26.70 Aligned_cols=57 Identities=23% Similarity=0.210 Sum_probs=30.9
Q ss_pred EEEEEEeCCc-eeeecC-CCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 38 YVMIVLKGSV-PMSFGG-TEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 38 ~i~v~v~~~~-~~~~gg-~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+.|.+.|+. .-.+.| ..++...+.|+... .+-+ -.++++++|.+.||+|+.+|.|.
T Consensus 5 ~l~v~V~P~ak~~~i~~~~~~~~l~i~v~app-~~Gk----AN~ali~~La~~l~v~ks~i~i~ 63 (77)
T PF02594_consen 5 ILSVRVKPGAKRNAIVGVEGDGALKIRVTAPP-VDGK----ANKALIRFLAKALGVPKSDIEIV 63 (77)
T ss_dssp EEEEECEBSSSS-EEEEE-TTT-EEEEBSTTC-CCCC----HHHHHHHHHHHHCT--TTCEEEC
T ss_pred EEEEEEEeCCCccccccccCceEEEEEEecCC-CcCh----hHHHHHHHHHHHhCCCcccEEEE
Confidence 3455566642 122222 23345555555443 2223 34668889999999999999875
No 45
>cd00673 AlaRS_core Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its predicted structure and the presence of three characteristic sequence motifs.
Probab=84.60 E-value=1.9 Score=31.22 Aligned_cols=32 Identities=19% Similarity=0.407 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 72 DVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 72 e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
=-|++-++-.-++|.+.||++++|+|+++..-
T Consensus 94 YFK~eaI~~awe~LT~~l~l~~~rl~vTv~~~ 125 (232)
T cd00673 94 YFKEEAIAFAWELLTEVLGLPKDRLYVSVFEG 125 (232)
T ss_pred hhHHHHHHHHHHHHHhhcCCCccceEEEEeCC
Confidence 34566666678889999999999999999863
No 46
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=83.92 E-value=14 Score=30.52 Aligned_cols=81 Identities=19% Similarity=0.199 Sum_probs=59.0
Q ss_pred eCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHH
Q 033334 8 TNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEK 87 (121)
Q Consensus 8 tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~ 87 (121)
.-++....+..++-+-.-..+--++|+-.+.+.+-...++..+|||.++|. ..++.-+-|.++.+|.+.+.+
T Consensus 265 iGvg~g~~~~~elg~vA~~~L~lAlgRGGDQVvIke~~~k~~fyGG~s~~~--------ekrTRvRaRvis~al~d~i~e 336 (655)
T COG3887 265 IGVGYGENNLIELGEVAQSNLDLALGRGGDQVVIKENNGKVRFYGGKSNPM--------EKRTRVRARVISTALSDIIKE 336 (655)
T ss_pred EEeccCcccHHHHHHHHHHhHHHHhccCCceEEEEcCCCceeeeCCCcchh--------HHhHHHHHHHHHHHHHHHHhh
Confidence 333344444455555555566668999999999988888888999999884 347777778888888888887
Q ss_pred HhCCCCCeEEEEEE
Q 033334 88 KLSVPKSRFFIKFY 101 (121)
Q Consensus 88 ~lgi~~~ri~i~f~ 101 (121)
.++|+|.=|
T Consensus 337 -----~d~VfImGH 345 (655)
T COG3887 337 -----SDNVFIMGH 345 (655)
T ss_pred -----cCcEEEEcc
Confidence 578887644
No 47
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=82.25 E-value=17 Score=26.60 Aligned_cols=77 Identities=13% Similarity=0.070 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh-CCCCCeEEEEE
Q 033334 22 SEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL-SVPKSRFFIKF 100 (121)
Q Consensus 22 ~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l-gi~~~ri~i~f 100 (121)
.+|.+.+..+-|.-..++.+.+..... +.....|.|-|-|+..++.+.++.+- +|..++.... |+++++|-|..
T Consensus 110 gELarTI~~idgV~~ArVhL~lP~~~~--~~~~~~asASV~I~~~~~~~~~~~~v---~I~~LVA~SV~gL~~enVTVvd 184 (249)
T PRK15348 110 QRIEGMLSQMEGVINAKVTIALPTYDE--GSNASPSSVAVFIKYSPQVNMEAFRV---KIKDLIEMSIPGLQYSKISILM 184 (249)
T ss_pred HHHHHHHHhCCCeeEeEEEEECCCCCc--ccCCCCccEEEEEEeCCCCChHHHHH---HHHHHHHHhcCCCCccceEEEe
Confidence 356666766667666666665544333 44445677877788777776665432 5888887665 89999999987
Q ss_pred EeC
Q 033334 101 YDT 103 (121)
Q Consensus 101 ~~~ 103 (121)
.+.
T Consensus 185 ~~~ 187 (249)
T PRK15348 185 QPA 187 (249)
T ss_pred cCC
Confidence 764
No 48
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=81.96 E-value=26 Score=30.19 Aligned_cols=87 Identities=9% Similarity=0.081 Sum_probs=55.9
Q ss_pred EEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHH
Q 033334 5 NISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAI 84 (121)
Q Consensus 5 ~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~ 84 (121)
.+..-.+.......++.+-...++--++|+-.+.+.|--..+.--+|||.+++. ..+|.-.-|-.+.++.+.
T Consensus 292 TLSiGig~g~~~~~e~~~~A~~aldlAlgRGGDQvvvk~~~~~~~fyGGks~~~--------eKrtrVraRvia~~L~el 363 (838)
T PRK14538 292 TLSMGIACWNLSYDKLATYSQNAIELAQKRGGDQAVVNIENEKIKYFGAKIASL--------SKQSKVNARVNAQNLVDI 363 (838)
T ss_pred EEEEEEeCCCCCHHHHHHHHHHHHHHHhccCCCEEEEEcCCCCceEeCCCCCcc--------cchhhHHHHHHHHHHHHH
Confidence 333334444445677777888888889999988987765535677899988763 234444445556666666
Q ss_pred HHHHhCCCCCeEEEEEEeCC
Q 033334 85 LEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 85 l~~~lgi~~~ri~i~f~~~~ 104 (121)
+.+ .++|.|.-|..|
T Consensus 364 I~~-----~d~ViI~gH~nP 378 (838)
T PRK14538 364 LKK-----NPHCFIMGHNHT 378 (838)
T ss_pred Hhc-----CCeEEEEecCCC
Confidence 543 356666655543
No 49
>PF09581 Spore_III_AF: Stage III sporulation protein AF (Spore_III_AF); InterPro: IPR014245 This family represents the stage III sporulation protein AF (SpoIIIAF) of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of these proteins is poorly conserved.
Probab=81.46 E-value=14 Score=25.21 Aligned_cols=83 Identities=8% Similarity=0.099 Sum_probs=53.6
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCc----------eeeecCCC-------CCeeEEEEEe---eeCCChhHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSV----------PMSFGGTE-------DPAAYGELVS---IGGLNPDVNKK 76 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~----------~~~~gg~~-------~p~~~v~i~~---~g~~~~e~~~~ 76 (121)
++.+.+.+.+.+....|.+...+.|.+..+. .+...... .|.-=|.|.. -..-......+
T Consensus 85 ~~~l~~~i~~~l~~~~g~~~~~V~v~~~~~~~~~~~~I~~I~v~l~~~~~~~~~~~~~Ve~V~I~~~~~~~~~~~~~~~~ 164 (188)
T PF09581_consen 85 EEQLEKQIKALLEDKYGVEVVKVEVEIDEDEESPDFEIKEIKVTLSEEEEQKEEAVEPVEPVEIDIEKESDSSKSPEDSE 164 (188)
T ss_pred HHHHHHHHHHHHhhhcCCceEEEEEEEEcCCCccccceeEEEEEEcCCCccccccCCcccceEecccccccccccccchH
Confidence 4566667777777788888888888887553 11222100 1222333333 11123556677
Q ss_pred HHHHHHHHHHHHhCCCCCeEEEE
Q 033334 77 LSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 77 ~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
....|.+++.+.+|+++++|-|.
T Consensus 165 ~~~~i~~~la~~~~i~~~~I~V~ 187 (188)
T PF09581_consen 165 EEEEIKQYLADFYGISPEQIKVY 187 (188)
T ss_pred HHHHHHHHHHHHhCCCHHHeEEe
Confidence 88889999999999999999875
No 50
>PRK01310 hypothetical protein; Validated
Probab=79.89 E-value=3 Score=26.43 Aligned_cols=57 Identities=19% Similarity=0.169 Sum_probs=35.0
Q ss_pred EEEEEEeCCcee-eecCCC-C----CeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 38 YVMIVLKGSVPM-SFGGTE-D----PAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 38 ~i~v~v~~~~~~-~~gg~~-~----p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+.|++.|+..- .+.|-. + ...-|.|++.. . .-+-.++++++|.+.||+|+.+|.|.
T Consensus 13 ~i~v~V~P~A~~~~i~g~~~~~~g~~~lkv~v~apP-v----~GkAN~ali~~LA~~l~v~ks~I~iv 75 (104)
T PRK01310 13 RLAVRLTPRGGRDAIDGIETLADGRAVLKVRVRAVP-E----GGEANRALIELLAKALGVPKSSVRLL 75 (104)
T ss_pred EEEEEEeeCCCcceeccccccCCCccEEEEEEecCC-C----CChHHHHHHHHHHHHhCCChhhEEEE
Confidence 667777775332 234432 2 23344454432 2 23345678889999999999999886
No 51
>PRK01530 hypothetical protein; Reviewed
Probab=79.83 E-value=2.6 Score=26.73 Aligned_cols=58 Identities=16% Similarity=0.072 Sum_probs=34.9
Q ss_pred EEEEEEeCCce-eeecCC----CCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 38 YVMIVLKGSVP-MSFGGT----EDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 38 ~i~v~v~~~~~-~~~gg~----~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
.+.|.+.|+.. -...|- .+...-|.|++.. .+-+-.++++++|.+.||+|+.+|.|.-
T Consensus 15 ~l~V~V~P~Akk~~i~g~~~~~~~~~Lki~v~ApP-----vdGkAN~ali~~LAk~l~v~ks~I~Ivs 77 (105)
T PRK01530 15 LLNLKVKPNAKQNLISNFVIINNIPYLKLSIKAIP-----EQGKANEEIINYLAKEWKLSRSNIEIIK 77 (105)
T ss_pred EEEEEEeeCCCcccccceeccCCCCEEEEEEecCC-----CCChHHHHHHHHHHHHhCCChhhEEEEe
Confidence 45566666532 222332 1344555555433 2233456788899999999999998853
No 52
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=79.53 E-value=4.1 Score=27.74 Aligned_cols=90 Identities=13% Similarity=0.092 Sum_probs=57.8
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCC--------------C--CeeEEEEEeeeCCChhHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTE--------------D--PAAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~--------------~--p~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
-+-++-++++++..+.+.-.-- - +-|..+..|.|.+ . ...-+.++.++..+ .-.=+-.+
T Consensus 37 gDVllHAi~DAllgA~glGDIG--~-~Fp~~d~~~kgadS~~lL~~~~~~v~~~g~~i~Nvd~tii~~~P--K~~P~~~a 111 (159)
T COG0245 37 GDVLLHALTDALLGAAGLGDIG--K-HFPDTDPRWKGADSRILLKEAVELVREKGYRIGNVDITIIAQRP--KLGPYREA 111 (159)
T ss_pred HHHHHHHHHHHHHHhhccCcch--h-cCCCCCcccCCCchHHHHHHHHHHHHHhCcEEEeEEEEEEEecC--cccchHHH
Confidence 4678888899988887763321 1 2233445556532 1 22344455555332 11235567
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
+.+.+.+.|++++++|.|..... +..||-|+
T Consensus 112 mr~~ia~~L~i~~~~invKatT~--E~LGf~Gr 142 (159)
T COG0245 112 MRANIAELLGIPVDRINVKATTT--EKLGFTGR 142 (159)
T ss_pred HHHHHHHHhCCCchheEEEEecc--Cccccccc
Confidence 88899999999999999998876 77777654
No 53
>COG4631 XdhB Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]
Probab=76.92 E-value=23 Score=29.16 Aligned_cols=87 Identities=17% Similarity=0.192 Sum_probs=60.8
Q ss_pred EEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC-CC----hhHHHHHHH
Q 033334 5 NISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG-LN----PDVNKKLSA 79 (121)
Q Consensus 5 ~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~-~~----~e~~~~~~~ 79 (121)
.|.+|.+-+.- -+.|..++.|.+++.++.+.+++-++-..-. -.|-.-..-.|.|. ++ ....+++-+
T Consensus 476 Si~lNHGGTEM-GQGL~tKvaQVvA~~fqvd~~rVkitaT~T~-------KVpNTSaTAASSGsDLNGmAa~dAa~qIk~ 547 (781)
T COG4631 476 SIHLNHGGTEM-GQGLYTKVAQVVAEEFQVDIDRVKITATTTD-------KVPNTSATAASSGSDLNGMAAQDAARQIKE 547 (781)
T ss_pred eEEEcCCCccc-ccchhHHHHHHHHHHhCcccceEEEeccccC-------CCCCCccccccccCCcccHHHHHHHHHHHH
Confidence 36678776654 5689999999999999999999988654210 01222222223332 32 566788889
Q ss_pred HHHHHHHHHhCCCCCeEEEE
Q 033334 80 AISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~ 99 (121)
.|.++-.+.++++.++|...
T Consensus 548 RLv~fAA~~~~V~~~~v~F~ 567 (781)
T COG4631 548 RLVAFAAEHWGVPEEDVAFL 567 (781)
T ss_pred HHHHHHHHhcCCCHHHeEec
Confidence 99999999999999887643
No 54
>PF01514 YscJ_FliF: Secretory protein of YscJ/FliF family; InterPro: IPR006182 This domain is found in proteins that are related to the YscJ lipoprotein, where it covers most of the sequence, and the flagellar M-ring protein FliF, where it covers the N-terminal region. The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flagellar proteins, based on the similarity to YscJ proteins [].; PDB: 1YJ7_A 2Y9J_d.
Probab=75.15 E-value=13 Score=26.24 Aligned_cols=78 Identities=19% Similarity=0.202 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh-CCCCCeEE
Q 033334 20 ILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL-SVPKSRFF 97 (121)
Q Consensus 20 ~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l-gi~~~ri~ 97 (121)
+..+|.+.+..+-|.-..++.+.+... -.|+- ...|.|-|-|+..++.+.. +-.+.|..++...- |+.+++|.
T Consensus 116 le~eL~~tI~~i~gV~~A~V~l~~Pe~--~~f~~~~~~~sASV~l~~~~g~~l~---~qv~~I~~LVa~sV~gL~~enVt 190 (206)
T PF01514_consen 116 LEGELERTIESIDGVESARVHLVLPER--SVFGENQQPPSASVVLKLKPGSELS---EQVQGIQNLVASSVPGLKPENVT 190 (206)
T ss_dssp HHHHHHHHHTTSTTEEEEEEEEEE------BTTB----EEEEEEEEE-TTS--G---GGHHHHHHHHHHHSTT--GGGEE
T ss_pred HHHHHHHHHHcCCCeeEEEEEEecCCc--cccccCCCCCeEEEEEEECCCCChH---HHHHHHHHHHHHhcCCCCcccEE
Confidence 344455555555444334444444433 34443 4578888888888776544 34556677766444 89999999
Q ss_pred EEEEe
Q 033334 98 IKFYD 102 (121)
Q Consensus 98 i~f~~ 102 (121)
|.-.+
T Consensus 191 VvD~~ 195 (206)
T PF01514_consen 191 VVDQN 195 (206)
T ss_dssp EEEEE
T ss_pred EEeCC
Confidence 98665
No 55
>TIGR02610 PHA_gran_rgn putative polyhydroxyalkanoic acid system protein. All members of this family are encoded by genes polyhydroxyalkanoic acid (PHA) biosynthesis and utilization genes, including proteins at found at the surface of PHA granules. Examples so far are found in the Pseudomonales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=74.05 E-value=18 Score=22.26 Aligned_cols=59 Identities=5% Similarity=0.093 Sum_probs=40.0
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC--------CCCeeEEEEEe
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT--------EDPAAYGELVS 65 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~--------~~p~~~v~i~~ 65 (121)
||-|.|....++..++..+-++.+.+.+.+.+|....| . +..+.|.++ .+..+-++++.
T Consensus 1 M~~I~I~r~H~Lg~~eAr~~~e~~a~~l~~~~~~e~~W-----~-GD~l~F~~~gv~G~l~V~~d~v~v~v~L 67 (91)
T TIGR02610 1 MSSISVERDHSLGPAAARAKAEDLARKLTDRYGLASHW-----E-GDTLRIARSGVDGAVHLGPQSIRVTAEL 67 (91)
T ss_pred CCceEEEecCCCCHHHHHHHHHHHHHHHHHHhCCEeEE-----e-CCEEEEEEeeeeEEEEEcCCeEEEEEEh
Confidence 88999999999887666677777888888888753323 3 446666643 24455555553
No 56
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. 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 mo
Probab=73.68 E-value=4.2 Score=24.39 Aligned_cols=40 Identities=13% Similarity=0.159 Sum_probs=30.7
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeCCCC-CceeCC--ceeeehh
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDTKAH-QSREHA--QCLHAVH 119 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~~~~-~~g~~G--~~~~~~~ 119 (121)
.+.+.+.++|..+++++.+.|.+.+.+ .|.... ..+.++|
T Consensus 21 ~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW 63 (78)
T cd06411 21 SLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAW 63 (78)
T ss_pred HHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHH
Confidence 478889999999999999999999887 775433 3444444
No 57
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role 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, animals, and plants. The p67 proteins contain
Probab=73.65 E-value=7.2 Score=23.52 Aligned_cols=28 Identities=11% Similarity=0.304 Sum_probs=23.7
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeCCCCC
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDTKAHQ 107 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~~~~~ 107 (121)
.+.+.+.+.|++|++++.+.|.+-+...
T Consensus 25 ~L~~ki~~kLkl~~e~i~LsYkde~s~~ 52 (80)
T cd06406 25 TLLQKISSKLELPAEHITLSYKSEASGE 52 (80)
T ss_pred HHHHHHHHHhCCCchhcEEEeccCCCCC
Confidence 3788889999999999999999876543
No 58
>PF03780 Asp23: Asp23 family; InterPro: IPR005531 This entry represents the alkaline shock protein 23 family. These small proteins are involved in alkaline pH tolerance of Staphylococcus aureus [,].
Probab=73.11 E-value=19 Score=22.14 Aligned_cols=47 Identities=17% Similarity=0.239 Sum_probs=37.2
Q ss_pred CeeEEEEE--eeeCCC-hhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 57 PAAYGELV--SIGGLN-PDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 57 p~~~v~i~--~~g~~~-~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
....+++. ...|.+ ++.-+++-+++.+.+++.+|++..+|.|.+.++
T Consensus 58 ~~i~v~l~v~v~~g~~i~~v~~~iq~~V~~~v~~~tg~~v~~V~V~V~~v 107 (108)
T PF03780_consen 58 GGITVDLHVVVEYGVNIPEVAEEIQEKVKEAVEEMTGIEVSEVNVHVEDV 107 (108)
T ss_pred cceEEEEEEEEECCccHHHHHHHHHHHHHHHHHHHHCCeeEEEEEEEEec
Confidence 34444444 334555 888899999999999999999999999999876
No 59
>PHA00432 internal virion protein A
Probab=72.63 E-value=23 Score=23.59 Aligned_cols=60 Identities=12% Similarity=0.109 Sum_probs=44.9
Q ss_pred hCCCCc-EEEEEEeCCceeeecC-CCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCC
Q 033334 32 IGKPEA-YVMIVLKGSVPMSFGG-TEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSV 91 (121)
Q Consensus 32 ~~kp~~-~i~v~v~~~~~~~~gg-~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi 91 (121)
.+-|.+ .++..+..|.....|| ..+|+=+|.=..+..++...++++.+.+.+.+.+.+..
T Consensus 31 ~~~~~s~~~~~~~~~G~~~aI~Gn~G~~vW~v~T~~v~~~~~~~~reF~k~~~~~ld~ml~~ 92 (137)
T PHA00432 31 PSFPPDSECVTLSLDGFVLAIGGNQGDQVWFVTSDQVWRLTKKEKREFRKLIMEYRDMMLDQ 92 (137)
T ss_pred CCCCCCceEEEEecCCeEEEEecCCCCceEEEecHHhhhCChhhhHHHHHHHHHHHHHHHHh
Confidence 554444 6666666777666666 56887887777778889999999999999988777654
No 60
>PF14535 AMP-binding_C_2: AMP-binding enzyme C-terminal domain; PDB: 2Y27_A 2Y4N_A 3QOV_B 3S89_D 3LAX_A 2Y4O_B.
Probab=72.43 E-value=11 Score=23.01 Aligned_cols=63 Identities=19% Similarity=0.333 Sum_probs=37.7
Q ss_pred HHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCC--ChhHHHHHHHHHHHHHHHHhCCCC
Q 033334 23 EATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGL--NPDVNKKLSAAISAILEKKLSVPK 93 (121)
Q Consensus 23 ~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~--~~e~~~~~~~~i~~~l~~~lgi~~ 93 (121)
++.+++.+..+....|..+--.+ ++.+.-...|++.. +. +.+...++.++|.+.|++.||+.+
T Consensus 8 ~Ie~vl~~~~~~~~~y~i~v~~~------~~~D~l~v~vE~~~--~~~~~~~~~~~l~~~i~~~lk~~lgv~~ 72 (96)
T PF14535_consen 8 QIEEVLREFPEVSPEYQIVVTRE------GGLDELTVRVELRP--GFSDDAEDLEALAERIAERLKERLGVRP 72 (96)
T ss_dssp HHHHHHCTSTTEEEEEEEEEEEE------TTEEEEEEEEEEST--TCCTTHHHHHHHHHHHHHHHHHHHSS-E
T ss_pred HHHHHHHhCcCCCCcEEEEEEcC------CCCcEEEEEEEECC--ccCcchHHHHHHHHHHHHHHHhhcCceE
Confidence 45556666555443444442222 22334444444443 33 346889999999999999999986
No 61
>TIGR00206 fliF flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF). Component of the M (cytoplasmic associated) ring, one of four rings (L,P,S,M) which make up the flagellar hook-basal body which is a major portion of the flagellar organelle. Although the basic structure of the flagella appears to be similar for all bacteria, additional rings and structures surrounding the basal body have been observed for some bacteria (eg Vibrio cholerae and Treponema pallidum).
Probab=72.36 E-value=35 Score=27.91 Aligned_cols=77 Identities=16% Similarity=0.156 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHHHH-hCCCCC
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG--LNPDVNKKLSAAISAILEKK-LSVPKS 94 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~~~-lgi~~~ 94 (121)
.++-.+|++.|..+-+....++.+.+.....|. .....|.|-|-|+..+| ++++| .++|..++... -|++++
T Consensus 134 rALegELartI~~l~~V~~ArVhLalPe~s~F~-~~~~~~tASV~l~l~~g~~L~~~Q----V~aI~~LVA~SVpgL~~e 208 (555)
T TIGR00206 134 RAIEGELSRTIEALDPVKAASVHLAMPKDALFV-EEQEPPSASVRLTLRPGSDLDTNQ----IEGLVHLISYAVPGLESD 208 (555)
T ss_pred HHHHHHHHHHHHhcCCeeeEEEEEECCCCCccc-cCCCCCCEEEEEecCCCCCCCHHH----HHHHHHHHHhhcCCCCcc
Confidence 355667777777777766667776665544443 44567888888887765 56666 66677777654 589999
Q ss_pred eEEEE
Q 033334 95 RFFIK 99 (121)
Q Consensus 95 ri~i~ 99 (121)
+|.|.
T Consensus 209 nVtVv 213 (555)
T TIGR00206 209 NIAIV 213 (555)
T ss_pred ceEEE
Confidence 99876
No 62
>KOG0188 consensus Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=71.24 E-value=7.5 Score=32.86 Aligned_cols=35 Identities=11% Similarity=0.319 Sum_probs=29.7
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
++.=-|++.++-.-++|.+.+|||++|.||+|..=
T Consensus 97 FGdYfK~Eac~~AwelLt~vygi~~dRLYVtYF~G 131 (895)
T KOG0188|consen 97 FGDYFKEEACAWAWELLTFVYGIPTDRLYVTYFGG 131 (895)
T ss_pred cchHHHHHHHHHHHHHHHHhhcCCCceEEEEEecC
Confidence 44556777788888999999999999999999873
No 63
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=71.20 E-value=7.4 Score=28.58 Aligned_cols=54 Identities=11% Similarity=0.180 Sum_probs=38.6
Q ss_pred CCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 35 PEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 35 p~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
-.+.|-...+.|++=.+|.. |=+-|+-++ ..+-|++-++++.+-+.+.++||||
T Consensus 69 AaelIDM~~H~GeHpRmGA~-DViPfvPl~---d~tteecveiske~gkrvgeelgiP 122 (302)
T COG3643 69 AAELIDMRNHKGEHPRMGAA-DVIPFVPLK---DTTTEECVEISKELGKRVGEELGIP 122 (302)
T ss_pred HHHhhchhccCCCCCCCCcc-ceeceeecc---cccHHHHHHHHHHHHHHhhHhhCCc
Confidence 33444555666777676643 334455454 3667999999999999999999998
No 64
>PRK07193 fliF flagellar MS-ring protein; Reviewed
Probab=70.77 E-value=36 Score=27.84 Aligned_cols=77 Identities=18% Similarity=0.160 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHHH-HhCCCCCe
Q 033334 19 SILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG--LNPDVNKKLSAAISAILEK-KLSVPKSR 95 (121)
Q Consensus 19 ~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~~-~lgi~~~r 95 (121)
++-.+|.+.|..+-+....++.+.+.....|.......|.|-|-|+..+| ++++|-+ +|..++.- .-|+++++
T Consensus 138 ALEgELaRTI~~l~~V~~ARVhLalPe~s~F~~~~~~~~sASV~l~l~~g~~Ls~~QV~----aI~~LVA~SVpgL~pen 213 (552)
T PRK07193 138 SLEGELAQSIMALDAVESARVHLAIPKSSSFVRQDPELPSASVVLRLKPGQKLSPEQVE----AIVNLVAGSVPGLKPAN 213 (552)
T ss_pred HHHHHHHHHHHhcCCceeEEEEEEcCCCCcccccCCCCCCeEEEEecCCCCCCCHHHHH----HHHHHHHHhcCCCCccc
Confidence 44455666666666655556666555444443343467888888887765 6666644 45666654 44899999
Q ss_pred EEEE
Q 033334 96 FFIK 99 (121)
Q Consensus 96 i~i~ 99 (121)
|.|.
T Consensus 214 VtVv 217 (552)
T PRK07193 214 VSVV 217 (552)
T ss_pred eEEE
Confidence 9886
No 65
>TIGR00344 alaS alanine--tRNA ligase. The model describes alanine--tRNA ligase. This enzyme catalyzes the reaction (tRNAala + L-alanine + ATP = L-alanyl-tRNAala + pyrophosphate + AMP).
Probab=69.40 E-value=4 Score=34.93 Aligned_cols=31 Identities=19% Similarity=0.387 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 73 VNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 73 ~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
-|++-+.-.-++|.+.||||++|+|+++..=
T Consensus 93 fK~eai~~awe~lT~~~~i~~~rl~vTv~~~ 123 (851)
T TIGR00344 93 FKEEAIAFAWELLTSVLGLDKERLYVTVYED 123 (851)
T ss_pred hHHHHHHHHHHHHhhhcCCChHHEEEEEcCC
Confidence 4566677778899999999999999988754
No 66
>TIGR00151 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase. Members of this protein family are 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, the IspF protein of the deoxyxylulose (non-mevalonate) pathway of IPP biosynthesis. This protein occurs as an IspDF bifunctional fusion protein in about 20 percent of bacterial genomes.
Probab=68.64 E-value=14 Score=25.15 Aligned_cols=90 Identities=11% Similarity=0.062 Sum_probs=56.3
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CC-------------CCe--eEEEEEeeeCCChhHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TE-------------DPA--AYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~-------------~p~--~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
-+-++-++++++.-+.+.+.--.. + |+.+-.+.| ++ .-+ .-+.++.+.... .-..|..+
T Consensus 36 gDVl~HAi~DAlLGA~glgDIG~~--F-pdtd~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P--Ki~p~~~~ 110 (155)
T TIGR00151 36 GDVLLHALTDALLGALGLGDIGKH--F-PDTDPRWKGADSRVLLRHAVALIKEKGYRIGNVDITIIAQRP--KLLPHIPA 110 (155)
T ss_pred HHHHHHHHHHHHHHHccCCcCccc--C-CCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC--cchHHHHH
Confidence 477888999999999988653221 2 222222222 21 122 234445554322 22347788
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
+.+.+.+.|++++++|.|...-. +..|+-|+
T Consensus 111 m~~~la~~L~~~~~~V~iKatT~--E~lg~~Gr 141 (155)
T TIGR00151 111 MRENIAELLGIPLDSVNVKATTT--EKLGFTGR 141 (155)
T ss_pred HHHHHHHHhCCCcceEEEEEecC--CCCCCCcC
Confidence 89999999999999999998865 55666553
No 67
>TIGR03196 pucD xanthine dehydrogenase D subunit. This gene has been characterized in B. subtilis as the molybdopterin binding-subunit of xanthine dehydrogenase (pucD), acting in conjunction with pucC, the FAD-binding subunit and pucE, the FeS-binding subunit. The more common XDH complex (GenProp0640) includes the xdhB gene which is related to pucD. It appears that most of the relatives of pucD outside of this narrow clade are involved in other processes as they are found in unrelated genomic contexts, contain the more common XDH complex and/or do not appear to process purines to allantoin.
Probab=68.52 E-value=12 Score=31.76 Aligned_cols=79 Identities=14% Similarity=0.138 Sum_probs=47.9
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
-+.....+.|..|+.||.|.+.|.|..-+-...-+++.+- +--.....|.--....+++-++|.++..+.|+++++.+
T Consensus 490 GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt~--~Sr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~~~~~ 567 (768)
T TIGR03196 490 GQGFLAAAEQIAMEELGCAAEDISIAIADTAKGPKAGSSS--ASRGTSMSGGAIQGACAAFAAQLKARAAETAGLPAEVV 567 (768)
T ss_pred CCCHHHHHHHHHHHHhCCCHHHEEEecCCCCCCCCCCCCc--hhhhhHhHHHHHHHHHHHHHHHHHHHHHHHhCCChhhE
Confidence 4578889999999999999999999765533333332110 00001111222245556666667666677788776543
Q ss_pred E
Q 033334 97 F 97 (121)
Q Consensus 97 ~ 97 (121)
-
T Consensus 568 ~ 568 (768)
T TIGR03196 568 E 568 (768)
T ss_pred E
Confidence 3
No 68
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=68.43 E-value=35 Score=23.30 Aligned_cols=48 Identities=19% Similarity=0.231 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCC-CCeeEEEEEe
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTE-DPAAYGELVS 65 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~-~p~~~v~i~~ 65 (121)
.....++.+.++++++-|++.|.|...+++.+-|-|+. .-+|+..+..
T Consensus 108 ~p~~~~m~~~la~~L~i~~~~V~iKatT~E~lg~~Gr~egi~~~avv~l 156 (159)
T PRK00084 108 APHIEEMRANIAEDLGIPLDDVNVKATTTEKLGFTGRGEGIAAQAVVLL 156 (159)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCcCCCceEEEEEEEE
Confidence 46788999999999999999999999999999888865 3455555443
No 69
>TIGR03795 chp_BMA0021 conserved hypothetical protein, BMA_0021 family. Members of this protein family are found sparsely, mostly in members of the genus Burkholderia. Members often occur as tandem homologous genes, such as BMA_0021 and BMA_0022 in Burkholderia mallei ATCC 23344. The genes regularly are encoded near the so-called docking protein of TOMM (thiazole/oxazole-modified microcins) biosynthetic clusters, suggesting a role in bacteriocin biosynthesis. The function is unknown.
Probab=68.42 E-value=20 Score=23.10 Aligned_cols=38 Identities=18% Similarity=0.183 Sum_probs=33.9
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCC-CCeEEEEEEeCCCC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVP-KSRFFIKFYDTKAH 106 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~-~~ri~i~f~~~~~~ 106 (121)
-+++.+.++.+.-...|++.+|.. |..+.|.+++-++.
T Consensus 26 ~DpaFr~eLl~DPk~~L~e~Fgy~~P~~v~l~v~E~~~d 64 (114)
T TIGR03795 26 HSPEFKDELLADPVDALEKYFDYRCPWILDLKVTENSSD 64 (114)
T ss_pred CCHHHHHHHHHCHHHHHHHHhCCCCCCceEEEEEecCCC
Confidence 578999999999999999999977 78899999998766
No 70
>PF10057 DUF2294: Uncharacterized conserved protein (DUF2294); InterPro: IPR018745 This domain of unknown function is found in a family of hypothetical bacterial proteins with no known function. It is also found at the C terminus of proteins provisionally annotated as response regulators.
Probab=67.86 E-value=17 Score=23.23 Aligned_cols=31 Identities=13% Similarity=0.249 Sum_probs=27.3
Q ss_pred hHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 72 DVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 72 e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+.-++++..+..+..+.+|-.|+.|.+.|.+
T Consensus 7 ~lE~~is~~i~k~~ke~~GkGP~~i~~~i~~ 37 (118)
T PF10057_consen 7 ELEQEISNAIRKFYKEYFGKGPKSIKVTISD 37 (118)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCcEEEEEEEC
Confidence 4457889999999999999999999999876
No 71
>COG1766 fliF Flagellar basal body M-ring protein [Cell motility and secretion]
Probab=67.78 E-value=44 Score=27.36 Aligned_cols=78 Identities=19% Similarity=0.162 Sum_probs=56.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHH-HHhCCCC
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG--LNPDVNKKLSAAISAILE-KKLSVPK 93 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~-~~lgi~~ 93 (121)
+.++--+|++.+..+=+....++++.+.....|..+ ...|.|-|-|+.-.| ++++| ..+|..++. ..-|+++
T Consensus 133 ~RAlegELartI~~l~~V~~ArVhl~lPk~s~Fv~~-q~~psASV~l~l~pG~~l~~~q----V~aI~~LVs~aVpgL~~ 207 (545)
T COG1766 133 QRALEGELARTIVAIDGVKAARVHLVLPKDSLFVRD-QQPPSASVVLKLKPGRNLSREQ----VRAIVHLVSSAVPGLKP 207 (545)
T ss_pred HHHHHHHHHHHHHHhhchhheeEEEecCCcchhhcc-cCCCceEEEEEccCCCCCCHHH----HHHHHHHHHhhcCCCCc
Confidence 446667788888888877666777766666655555 778999999988877 45665 445566655 4569999
Q ss_pred CeEEEE
Q 033334 94 SRFFIK 99 (121)
Q Consensus 94 ~ri~i~ 99 (121)
++|.|.
T Consensus 208 enVtVv 213 (545)
T COG1766 208 ENVTVV 213 (545)
T ss_pred cceEEe
Confidence 999886
No 72
>PF10015 DUF2258: Uncharacterized protein conserved in archaea (DUF2258); InterPro: IPR017140 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=67.70 E-value=18 Score=21.47 Aligned_cols=26 Identities=19% Similarity=0.361 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHhCCCCC---eEEEEE
Q 033334 75 KKLSAAISAILEKKLSVPKS---RFFIKF 100 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~---ri~i~f 100 (121)
-++.+.|++.|.+++|+++. ||.|.|
T Consensus 38 aeLNk~ly~~lv~~~~i~K~DVVRI~v~y 66 (75)
T PF10015_consen 38 AELNKKLYEKLVNKMKIDKLDVVRIRVEY 66 (75)
T ss_pred HHHHHHHHHHHHHHhCCCcccEEEEEEEE
Confidence 45677888899999999987 444543
No 73
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=67.15 E-value=15 Score=25.12 Aligned_cols=90 Identities=10% Similarity=0.069 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CC-------------C--CeeEEEEEeeeCCChhHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TE-------------D--PAAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~-------------~--p~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
-+-++-++++++..+.|.+.--. .+. +.+-.+.| ++ . --.-+.++.+...+ . -..+..+
T Consensus 39 gDVl~HAi~DAlLGA~glgDIG~--~Fp-~td~~~kg~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P-K-i~p~~~~ 113 (159)
T PRK00084 39 GDVLLHAICDALLGAAALGDIGK--HFP-DTDPAFKGADSRVLLREVARLLRAKGYRIGNVDITIIAQRP-K-MAPHIEE 113 (159)
T ss_pred HHHHHHHHHHHHHHHccCCchhh--hCC-CCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC-c-chHHHHH
Confidence 47788899999999988654211 122 11222222 21 1 22344445554332 2 2347788
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
+.+.+.+.|+++.++|.|...-. +..|+-|+
T Consensus 114 m~~~la~~L~i~~~~V~iKatT~--E~lg~~Gr 144 (159)
T PRK00084 114 MRANIAEDLGIPLDDVNVKATTT--EKLGFTGR 144 (159)
T ss_pred HHHHHHHHhCCCcceEEEEEecC--CCCCCCcC
Confidence 89999999999999999998775 55666554
No 74
>PF01411 tRNA-synt_2c: tRNA synthetases class II (A); InterPro: IPR018164 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Alanyl-tRNA synthetase (6.1.1.7 from EC) is an alpha4 tetramer that belongs to class IIc. ; GO: 0000166 nucleotide binding, 0004813 alanine-tRNA ligase activity, 0005524 ATP binding, 0006419 alanyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3HY1_A 3HXZ_C 3HXY_A 3HXU_A 3HY0_B 3HXV_A 3HXX_A 3HXW_A 2E1B_A 2ZZG_B ....
Probab=67.12 E-value=6.6 Score=31.93 Aligned_cols=46 Identities=15% Similarity=0.335 Sum_probs=28.9
Q ss_pred CeeEEEE---EeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCC
Q 033334 57 PAAYGEL---VSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKA 105 (121)
Q Consensus 57 p~~~v~i---~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~ 105 (121)
-..+++. .|.|. =-|++-++-.-++|.+.||||++|+|+++..=+.
T Consensus 82 H~T~FEMlGn~sfgd---YfK~eai~~awe~lt~~l~i~~~~l~vt~~~~d~ 130 (552)
T PF01411_consen 82 HHTFFEMLGNFSFGD---YFKEEAIEYAWEFLTEVLGIPPDRLYVTVFEWDG 130 (552)
T ss_dssp --SEEEEEEEEEECS---S-HHHHHHHHHHHHHCTTT--GGGEEEEEECCEC
T ss_pred Eeeehhhcccccccc---ccHHHHHHHHHHHHHhhcCCChHhEEEEEeCCch
Confidence 3445554 34453 3445556666788999999999999999987544
No 75
>cd00554 MECDP_synthase MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis. This pathway is present in bacteria, plants and some protozoa but is distinct from that used by mammals and Archaea. MECDP_synthase forms a homotrimer, carrying three active sites, each of which is formed in a cleft between pairs of subunits.
Probab=66.88 E-value=16 Score=24.83 Aligned_cols=90 Identities=18% Similarity=0.169 Sum_probs=57.4
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CC-------------CC--eeEEEEEeeeCCChhHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TE-------------DP--AAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~-------------~p--~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
-+-++-++++++.-+.+.+.--.. + |+.+-.+.| ++ .- ..-+.++.+... |.- ..+..+
T Consensus 36 gDVl~HAl~DAlLGA~glgDIG~~--F-p~~d~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~-PKi-~p~~~~ 110 (153)
T cd00554 36 GDVLLHALTDALLGAAGLGDIGEH--F-PDTDPKWKGADSRILLEEALKLIREKGYEIVNIDITIIAER-PKI-SPYREA 110 (153)
T ss_pred HHHHHHHHHHHHHHHccCCccccc--C-CCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEecC-Ccc-hHHHHH
Confidence 477888999999999987653221 2 222222232 21 11 234445555543 222 347788
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
+.+.+.+.|+++.++|.|...-. +..|+-|+
T Consensus 111 m~~~ls~~L~~~~~~V~iKatT~--E~lg~~Gr 141 (153)
T cd00554 111 MRANLAELLGIPPSRVNIKATTT--EGLGFTGR 141 (153)
T ss_pred HHHHHHHHhCCCCceEEEEEecC--CCCCCCcC
Confidence 99999999999999999998876 66776443
No 76
>PRK06007 fliF flagellar MS-ring protein; Reviewed
Probab=65.60 E-value=61 Score=26.41 Aligned_cols=77 Identities=19% Similarity=0.217 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHHHH-hCCCCC
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG--LNPDVNKKLSAAISAILEKK-LSVPKS 94 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~~~-lgi~~~ 94 (121)
.++-.+|.+.|..+-+.-..++.+.+.....|. .....|.|-|-|+..+| ++++| .++|..++... -|++++
T Consensus 134 rAlegELartI~~i~~V~~ArVhl~lP~~s~F~-~~~~~~tASV~l~l~~g~~L~~~q----V~aI~~LVA~sVpgL~~e 208 (542)
T PRK06007 134 RALEGELARTIESLDGVKAARVHLALPKESVFV-REQQPPSASVVLTLKPGRALDPEQ----VKAIVHLVASAVPGLKPE 208 (542)
T ss_pred HHHHHHHHHHHHhcCCcceeEEEEECCCCcccc-ccCCCCcEEEEEeccCCCCCCHHH----HHHHHHHHHhccCCCCcc
Confidence 355667777777777666666666555544333 44567888888887765 45555 55666776654 489999
Q ss_pred eEEEE
Q 033334 95 RFFIK 99 (121)
Q Consensus 95 ri~i~ 99 (121)
+|.|.
T Consensus 209 nVtVv 213 (542)
T PRK06007 209 NVTIV 213 (542)
T ss_pred ceEEE
Confidence 99887
No 77
>TIGR00151 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase. Members of this protein family are 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, the IspF protein of the deoxyxylulose (non-mevalonate) pathway of IPP biosynthesis. This protein occurs as an IspDF bifunctional fusion protein in about 20 percent of bacterial genomes.
Probab=65.00 E-value=41 Score=22.86 Aligned_cols=46 Identities=15% Similarity=0.248 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC-CeeEEEE
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED-PAAYGEL 63 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~-p~~~v~i 63 (121)
.....++.+.++++++-|...|.|...+++.|-|-|+.+ -+|+..+
T Consensus 105 ~p~~~~m~~~la~~L~~~~~~V~iKatT~E~lg~~Gr~egia~~av~ 151 (155)
T TIGR00151 105 LPHIPAMRENIAELLGIPLDSVNVKATTTEKLGFTGRGEGIACQAVV 151 (155)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCcCCCceEEEEEE
Confidence 467889999999999999999999999999998888654 3444433
No 78
>PF13222 DUF4030: Protein of unknown function (DUF4030)
Probab=64.96 E-value=12 Score=24.82 Aligned_cols=36 Identities=11% Similarity=0.243 Sum_probs=29.9
Q ss_pred CC-eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCC
Q 033334 1 MP-CLNISTNVKLDGVDTSSILSEATSTVANIIGKPE 36 (121)
Q Consensus 1 MP-~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~ 36 (121)
|| ++.|+|..+.++.-.++|-+++.+-+-+.|..++
T Consensus 85 qp~~v~I~t~in~~d~~AKE~g~kiEkei~~~lkt~e 121 (142)
T PF13222_consen 85 QPVTVTIKTKINSSDPGAKEFGKKIEKEINEVLKTEE 121 (142)
T ss_pred CcEEEEEeccccccccchHHHHHHHHHHHHHHHccHH
Confidence 67 7888887776666678999999999999998876
No 79
>PLN02900 alanyl-tRNA synthetase
Probab=62.74 E-value=8.9 Score=33.28 Aligned_cols=29 Identities=17% Similarity=0.398 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 73 VNKKLSAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 73 ~~~~~~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
-|++-+.-.-++|.+.||+|++|+||++.
T Consensus 116 fK~eaI~~awe~lT~~l~i~~~~l~vTv~ 144 (936)
T PLN02900 116 FKKEAIGWAWELLTKVYGLPADRLYATYF 144 (936)
T ss_pred hHHHHHHHHHHHHHHhcCCCHHHEEEEEe
Confidence 45566666788999999999999999966
No 80
>COG1550 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.54 E-value=26 Score=21.80 Aligned_cols=36 Identities=17% Similarity=0.074 Sum_probs=30.1
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCC
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKS 94 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ 94 (121)
..+++...+..+-.+|+++.+.+.+.|++.++|.-.
T Consensus 6 ~~~~l~~~~v~sLKeKRavlr~iv~rLk~KFnvSva 41 (95)
T COG1550 6 LECELRLYDVRSLKEKRAVLRPIVTRLKNKFNVSVA 41 (95)
T ss_pred EEEEEEecccccHHHHHHHHHHHHHHHHHhcceeee
Confidence 456666777789999999999999999999987643
No 81
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=62.53 E-value=8 Score=33.24 Aligned_cols=30 Identities=17% Similarity=0.429 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 73 VNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 73 ~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
-|++-+.-.-++|.+.||+|++|+||++..
T Consensus 98 fK~eai~~awe~lt~~~~i~~~~l~vt~~~ 127 (865)
T PRK00252 98 FKEEAIEWAWELLTSVLGLPKEKLYVTVYE 127 (865)
T ss_pred hHHHHHHHHHHHHHHHhCCCHHHEEEEEcC
Confidence 345666667888999999999999998875
No 82
>PF02733 Dak1: Dak1 domain; InterPro: IPR004006 Dihydroxyacetone kinase (glycerone kinase) 2.7.1.29 from EC catalyses the phosphorylation of glycerone in the presence of ATP to glycerone phosphate in the glycerol utilization pathway. This is the kinase domain of the dihydroxyacetone kinase family.; GO: 0004371 glycerone kinase activity, 0006071 glycerol metabolic process; PDB: 1UN8_A 1UN9_B 3PNM_A 1UOD_B 3PNO_D 3PNK_A 3PNQ_B 1OI2_B 1OI3_A 3PNL_A ....
Probab=61.96 E-value=31 Score=26.31 Aligned_cols=77 Identities=12% Similarity=0.142 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEE
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFF 97 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~ 97 (121)
+++.+.+.+.+.+.+.+...+ ..-+...-..+-|...|+.+.-+-..++.++.+.|++..||.+.|+|
T Consensus 218 ~elv~~ml~~ll~~~~~~r~~------------~~~~~gd~v~llVNnLG~ts~lEl~ii~~~v~~~L~~~~gi~v~r~~ 285 (325)
T PF02733_consen 218 DELVDEMLDKLLDDLDPDRAF------------LPLKEGDEVALLVNNLGGTSQLELYIIAREVLEQLEEEKGIKVVRVY 285 (325)
T ss_dssp HHHHHHHHHHHHHCCHCCEEE------------HTG-TT-EEEEEEEE-BSS-HHHHHHHHHHHHHHH-HHTTEEEEEEE
T ss_pred HHHHHHHHHHHhccCcccccc------------cccCCCCeEEEEecCCCCCcHHHHHHHHHHHHHHHHHhcCceEEEeE
Confidence 556666666655544332222 12223334555577889999888899999999999888899999999
Q ss_pred EEEEeCCCC
Q 033334 98 IKFYDTKAH 106 (121)
Q Consensus 98 i~f~~~~~~ 106 (121)
+--.-.+-+
T Consensus 286 vG~~~TSLd 294 (325)
T PF02733_consen 286 VGNFMTSLD 294 (325)
T ss_dssp EE-SS--TT
T ss_pred EEcccCCCC
Confidence 864443333
No 83
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=61.89 E-value=42 Score=25.67 Aligned_cols=93 Identities=11% Similarity=0.052 Sum_probs=46.5
Q ss_pred hHHHHHHHHHHHHH-----HhCCCCcEEEEEEeC-CceeeecCC-CCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh
Q 033334 17 TSSILSEATSTVAN-----IIGKPEAYVMIVLKG-SVPMSFGGT-EDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL 89 (121)
Q Consensus 17 ~~~~~~~l~~~~~~-----~~~kp~~~i~v~v~~-~~~~~~gg~-~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l 89 (121)
++.....+..++.. .+...+....+.+.. ++.+.|+|. ++|.-......++..=-++-..+.....+.+...|
T Consensus 46 ~~sv~~~l~~~i~~~g~~~~~~~~~~~~~i~~~~~g~~i~f~g~~d~~~~ik~~~~~~~~~idEa~~~~~~~~~~l~~rl 125 (396)
T TIGR01547 46 RDSVFKDIENLLSIEGINYEFKKSKSSMEIKILNTGKKFIFKGLNDKPNKLKSGAGIAIIWFEEASQLTFEDIKELIPRL 125 (396)
T ss_pred HHHHHHHHHHHHHHcCChhheeecCCccEEEecCCCeEEEeecccCChhHhhCcceeeeehhhhhhhcCHHHHHHHHHHh
Confidence 45566666555543 222233322344544 888999987 66755444433322211221222223333333333
Q ss_pred CCCCC--eEEEEEEeCCCCCce
Q 033334 90 SVPKS--RFFIKFYDTKAHQSR 109 (121)
Q Consensus 90 gi~~~--ri~i~f~~~~~~~~g 109 (121)
--+.. ++++.+++-.+.+|-
T Consensus 126 r~~~~~~~i~~t~NP~~~~~w~ 147 (396)
T TIGR01547 126 RETGGKKFIIFSSNPESPLHWV 147 (396)
T ss_pred hccCCccEEEEEcCcCCCccHH
Confidence 32333 488888887777884
No 84
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=61.34 E-value=50 Score=22.57 Aligned_cols=47 Identities=13% Similarity=0.258 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC-CeeEEEEE
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED-PAAYGELV 64 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~-p~~~v~i~ 64 (121)
.-...++.+.+|++|+-|.+.|.|...+++.+-|=|+.+ =+|+..+.
T Consensus 106 ~P~~~amr~~ia~~L~i~~~~invKatT~E~LGf~Gr~eGia~~avvl 153 (159)
T COG0245 106 GPYREAMRANIAELLGIPVDRINVKATTTEKLGFTGRGEGIACQAVVL 153 (159)
T ss_pred cchHHHHHHHHHHHhCCCchheEEEEeccCccccccccCceEEEEEEE
Confidence 456778999999999999999999999999999988654 34444443
No 85
>PF04787 Pox_H7: Late protein H7; InterPro: IPR006872 This is a family of poxvirus late H7 proteins.
Probab=61.27 E-value=43 Score=22.54 Aligned_cols=64 Identities=16% Similarity=0.169 Sum_probs=43.1
Q ss_pred HHHHHHHHHhCCCCcEEEEEEeCCceeeec---CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHH
Q 033334 23 EATSTVANIIGKPEAYVMIVLKGSVPMSFG---GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEK 87 (121)
Q Consensus 23 ~l~~~~~~~~~kp~~~i~v~v~~~~~~~~g---g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~ 87 (121)
.+..+...++|+-.....-.+..+..+... ++....-|+..... .++|++..+++..|++.|..
T Consensus 21 DI~~l~~~L~~~~P~~tifsid~~g~f~iDF~Yd~~~AS~YL~~~~~-~i~pde~~~~~~~IA~eLT~ 87 (147)
T PF04787_consen 21 DIMVLKRHLLNKHPNDTIFSIDEDGKFFIDFEYDDCLASDYLNMKTR-PITPDEYKKYSSAIAKELTN 87 (147)
T ss_pred HHHHHHHHHhcCCCcceeeeEcCCCCEEEEeeeCCchHhhhhcCCCc-cCCHHHHHHHHHHHHHHHHH
Confidence 456677888987666555555554433333 44555667665543 48899999999999888764
No 86
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=61.17 E-value=63 Score=25.27 Aligned_cols=59 Identities=24% Similarity=0.503 Sum_probs=36.6
Q ss_pred EEEEeCCceeeecCC------CCCeeEEEEEee-eCC--ChhHHHHHHHHHHHH-----------HHHHhCCCCCeEEEE
Q 033334 40 MIVLKGSVPMSFGGT------EDPAAYGELVSI-GGL--NPDVNKKLSAAISAI-----------LEKKLSVPKSRFFIK 99 (121)
Q Consensus 40 ~v~v~~~~~~~~gg~------~~p~~~v~i~~~-g~~--~~e~~~~~~~~i~~~-----------l~~~lgi~~~ri~i~ 99 (121)
+|.|+.+..-.++|. .-|.+.||--.. +.+ +.|.||.++..++++ |.+ -|+++++|++.
T Consensus 95 ~VlVhGDT~t~lA~alaa~~~~IpV~HvEAGlRt~~~~~PEE~NR~l~~~~S~~hfapte~ar~nLl~-EG~~~~~Ifvt 173 (383)
T COG0381 95 LVLVHGDTNTTLAGALAAFYLKIPVGHVEAGLRTGDLYFPEEINRRLTSHLSDLHFAPTEIARKNLLR-EGVPEKRIFVT 173 (383)
T ss_pred EEEEeCCcchHHHHHHHHHHhCCceEEEecccccCCCCCcHHHHHHHHHHhhhhhcCChHHHHHHHHH-cCCCccceEEe
Confidence 444444444444432 368888886433 223 344599999998876 222 38999999885
No 87
>PF04456 DUF503: Protein of unknown function (DUF503); InterPro: IPR007546 This is a family of conserved hypothetical bacterial proteins, including TT1725 from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579), which has a ferredoxin-like alpha+beta-sandwich fold [].; PDB: 1J27_A.
Probab=60.65 E-value=31 Score=21.10 Aligned_cols=34 Identities=15% Similarity=0.155 Sum_probs=25.7
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
+.+++...+..|-..||+..+.|.+.+.+.+++.
T Consensus 5 l~l~l~lp~~~SLKeKR~vvksl~~klr~rfnvS 38 (90)
T PF04456_consen 5 LRLELRLPGAHSLKEKRQVVKSLIDKLRNRFNVS 38 (90)
T ss_dssp EEEEEE----SSHHHHHHHHHHHHHHHHHHSS-E
T ss_pred EEEEEEeccccchhHhHHHHHHHHHHHHhhCCeE
Confidence 4567778888999999999999999999998865
No 88
>PF02542 YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C-methyl-D-erythritol 2,4-cyclodiphosphate) synthetase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis, isoprenoids being essential in all organisms. Isoprenoids can also be synthesized through the mevalonate pathway. The non-mevolante route is used by many bacteria and human pathogens, including Mycobacterium tuberculosis and Plasmodium falciparum. This route appears to involve seven enzymes. MECDP synthetase catalyses the intramolecular attack by a phosphate group on a diphosphate, with cytidine monophosphate (CMP) acting as the leaving group to give the cyclic diphosphate product MEDCP. The enzyme is a trimer with three active sites shared between adjacent copies of the protein. The enzyme also has two metal binding sites, the metals playing key roles in catalysis[]. A number of proteins from eukaryotes and prokaryotes share this common N-terminal signature and appear to be involved in terpenoid biosynthesis. The YgbB protein is a putative enzyme of this type [].; GO: 0008685 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity, 0016114 terpenoid biosynthetic process; PDB: 3T80_B 3GHZ_A 2PMP_A 3F6M_A 3FPI_A 3RE3_A 1T0A_C 1W57_A 1W55_A 3B6N_A ....
Probab=60.27 E-value=7.8 Score=26.40 Aligned_cols=89 Identities=15% Similarity=0.064 Sum_probs=49.8
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CC-------------CCe--eEEEEEeeeCCChhHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TE-------------DPA--AYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~-------------~p~--~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
-+-++-++++++.-+.+.+.--. +-|+.+-.+.| ++ .-+ .-+.++.+.... .-..|..+
T Consensus 37 gDVl~HAi~DAlLGA~glgDIG~---~Fpd~d~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P--Ki~p~~~~ 111 (157)
T PF02542_consen 37 GDVLLHAIIDALLGAAGLGDIGT---HFPDTDPKYKGADSRILLKEVVELLREKGYRIVNIDITIIAERP--KISPYRPA 111 (157)
T ss_dssp --HHHHHHHHHHHHHTTS-THHH---HSTTTSGGGTTCSHHHHHHHHHHHHHHTTEEEEEEEEEEESSSS--TTGGGHHH
T ss_pred HHHHHHHHHHHHHHhccCCcccc---cCCCCChhhCCCCHHHHHHHHHHHHHHcCcEEEEEEEEEEcCCC--ccHHHHHH
Confidence 46788888888888888764210 11111111222 11 122 334455555432 22346778
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCC
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHA 112 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G 112 (121)
+.+.+.+.|++++++|.|...-. +..|+-|
T Consensus 112 m~~~la~~L~~~~~~V~iKatT~--E~lg~~G 141 (157)
T PF02542_consen 112 MRENLAKLLGIPPDRVNIKATTT--EGLGFIG 141 (157)
T ss_dssp HHHHHHHHHTS-GGGEEEEEE-T--TTSHHHH
T ss_pred HHHHHHHHhCCCcceEEEEEecC--CCCCccc
Confidence 89999999999999999998865 4555533
No 89
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=59.97 E-value=44 Score=21.55 Aligned_cols=49 Identities=8% Similarity=0.060 Sum_probs=34.9
Q ss_pred EeeeCCChhHHHHHHHHHHHHHHHHh---CCCCCeEEEEEEeCCCCCceeCC
Q 033334 64 VSIGGLNPDVNKKLSAAISAILEKKL---SVPKSRFFIKFYDTKAHQSREHA 112 (121)
Q Consensus 64 ~~~g~~~~e~~~~~~~~i~~~l~~~l---gi~~~ri~i~f~~~~~~~~g~~G 112 (121)
..+.++.-+..+.+.++|.+.....+ .....-+++.+-+++++.+=+|=
T Consensus 53 ~fVN~R~v~~~~~l~k~i~~~y~~~~~~~~~~~~P~~~L~i~~~~~~vDVNV 104 (132)
T cd03485 53 ISVNSRPVSLGKDIGKLLRQYYSSAYRKSSLRRYPVFFLNILCPPGLVDVNI 104 (132)
T ss_pred EEECCeecccchHHHHHHHHHHHHHhccccccCCCEEEEEEEcCCCceeecc
Confidence 34555654433778888888888877 66667788888888887766553
No 90
>PF02542 YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C-methyl-D-erythritol 2,4-cyclodiphosphate) synthetase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis, isoprenoids being essential in all organisms. Isoprenoids can also be synthesized through the mevalonate pathway. The non-mevolante route is used by many bacteria and human pathogens, including Mycobacterium tuberculosis and Plasmodium falciparum. This route appears to involve seven enzymes. MECDP synthetase catalyses the intramolecular attack by a phosphate group on a diphosphate, with cytidine monophosphate (CMP) acting as the leaving group to give the cyclic diphosphate product MEDCP. The enzyme is a trimer with three active sites shared between adjacent copies of the protein. The enzyme also has two metal binding sites, the metals playing key roles in catalysis[]. A number of proteins from eukaryotes and prokaryotes share this common N-terminal signature and appear to be involved in terpenoid biosynthesis. The YgbB protein is a putative enzyme of this type [].; GO: 0008685 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity, 0016114 terpenoid biosynthetic process; PDB: 3T80_B 3GHZ_A 2PMP_A 3F6M_A 3FPI_A 3RE3_A 1T0A_C 1W57_A 1W55_A 3B6N_A ....
Probab=59.69 E-value=29 Score=23.61 Aligned_cols=40 Identities=20% Similarity=0.274 Sum_probs=32.8
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED 56 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~ 56 (121)
-.....++.+.++++++-|.+.|.|-..+++.+-|-|+.+
T Consensus 105 i~p~~~~m~~~la~~L~~~~~~V~iKatT~E~lg~~Gr~e 144 (157)
T PF02542_consen 105 ISPYRPAMRENLAKLLGIPPDRVNIKATTTEGLGFIGRGE 144 (157)
T ss_dssp TGGGHHHHHHHHHHHHTS-GGGEEEEEE-TTTSHHHHTTS
T ss_pred cHHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCcccCCC
Confidence 3567889999999999999999999999988888877664
No 91
>PRK05934 type III secretion system protein; Validated
Probab=59.67 E-value=77 Score=24.25 Aligned_cols=75 Identities=12% Similarity=0.088 Sum_probs=50.6
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHHHHh-CCCC
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG--LNPDVNKKLSAAISAILEKKL-SVPK 93 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~~~l-gi~~ 93 (121)
..++..++.+.+...-+....+|.+.+.... .-...|.|-|-++..+| ++++| .++|..++.... |.++
T Consensus 69 ~~ALEGELaRTIesld~VesARVHLAlPe~s----~~~~~pTASVvLtL~~G~tLs~~Q----V~gIvnLVAsSVpGLtp 140 (341)
T PRK05934 69 SLAKKEQLEKDLTMFHPVAQATVALSLETED----DPMSPAEISVILSLPKAETLSPSL----LHSITDYLTSSVPGLTK 140 (341)
T ss_pred HHHHHHHHHHHHHcccCcceeEEEEeCCCCC----ccCCCCceEEEEecCCCCcCCHHH----HHHHHHHHHhcCCCCCc
Confidence 4466678888887777766666666554432 23457888888887766 56666 455666666444 7999
Q ss_pred CeEEEE
Q 033334 94 SRFFIK 99 (121)
Q Consensus 94 ~ri~i~ 99 (121)
++|.|.
T Consensus 141 EnVTVV 146 (341)
T PRK05934 141 EHITLS 146 (341)
T ss_pred cCeEEE
Confidence 998875
No 92
>PF04466 Terminase_3: Phage terminase large subunit; InterPro: IPR006701 Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possesses an endonuclease and ATPase activity that requires Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences [, ].; GO: 0006323 DNA packaging; PDB: 2WBN_A 2WC9_A.
Probab=59.54 E-value=3 Score=32.18 Aligned_cols=71 Identities=18% Similarity=0.265 Sum_probs=0.0
Q ss_pred cEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCC---hhHHHHHHHHHHHHHHHHhC--CCCCeEEEEEEeCCCCCcee
Q 033334 37 AYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLN---PDVNKKLSAAISAILEKKLS--VPKSRFFIKFYDTKAHQSRE 110 (121)
Q Consensus 37 ~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~---~e~~~~~~~~i~~~l~~~lg--i~~~ri~i~f~~~~~~~~g~ 110 (121)
+.+.+....|+.+.|-|-++| -.|+|+.+++ -|+-.+++..-.+.|...+- -+...+++.|.+..+.+|=.
T Consensus 70 s~~~i~~~~Gs~i~F~Gld~~---~kiKS~~~~~~~w~EEa~e~~~~~~~~l~~tir~~~~~~~i~~s~NP~~~~~wv~ 145 (387)
T PF04466_consen 70 SPIEIYKPNGSKIIFRGLDDP---EKIKSIKGIDIIWVEEAEEFSEEDFDQLIPTIRPKGPGSQIWLSFNPKSESHWVY 145 (387)
T ss_dssp -------------------------------------------------------------------------------
T ss_pred CCceEEccCCCEEEEeCCCCh---hhcCCcccccEEEEechhhccHHHHHHHHHHhccCCCcEEEEEEECcCCCCcchH
Confidence 344445566788999998887 3678876554 45556666666677766665 66678999999888888854
No 93
>KOG2426 consensus Dihydroxyacetone kinase/glycerone kinase [Carbohydrate transport and metabolism]
Probab=59.41 E-value=69 Score=26.04 Aligned_cols=77 Identities=9% Similarity=0.109 Sum_probs=51.7
Q ss_pred HHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 24 ATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 24 l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
+++.+-.+++-.+++-.|-++++. -+.+-+...||++--+--..+.++.+.|+++.||.+.|++.-+.-.
T Consensus 239 Vs~mL~~ll~~~~drs~V~~~~~d----------~VVllVNNLGG~S~lEl~~ia~~v~~~L~~~y~I~p~R~~~G~fmT 308 (582)
T KOG2426|consen 239 VSQMLPQLLDPTKDRSYVKFEEGD----------EVVLLVNNLGGVSNLELGIIAGKVVEQLEDEYGIGPVRTFAGTFMT 308 (582)
T ss_pred HHHHHHHhcCCccccccccccCCC----------eEEEEEcCCCCcchhhhHHHHHHHHHHHHhhcCccceEEEeeeeee
Confidence 344555555544445555555432 2455567789998777778889999999999999999999766554
Q ss_pred CCCCcee
Q 033334 104 KAHQSRE 110 (121)
Q Consensus 104 ~~~~~g~ 110 (121)
+-+.=||
T Consensus 309 sLng~Gf 315 (582)
T KOG2426|consen 309 SLNGPGF 315 (582)
T ss_pred eccCCcc
Confidence 3333333
No 94
>PF01520 Amidase_3: N-acetylmuramoyl-L-alanine amidase; InterPro: IPR002508 The cell wall envelope of Gram-positive bacteria is a macromolecular, exoskeletal organelle that is assembled and turned over at designated sites. The cell wall also functions as a surface organelle that allows Gram-positive pathogens to interact with their environment, in particular the tissues of the infected host. All of these functions require that surface proteins and enzymes be properly targeted to the cell wall envelope. Two basic mechanisms, cell wall sorting and targeting, have been identified. Cell well sorting is the covalent attachment of surface proteins to the peptidoglycan via a C-terminal sorting signal that contains a consensus LPXTG sequence. More than 100 proteins that possess cell wall-sorting signals, including the M proteins of Streptococcus pyogenes, protein A of Staphylococcus aureus, and several internalins of Listeria monocytogenes, have been identified. Cell wall targeting involves the noncovalent attachment of proteins to the cell surface via specialised binding domains. Several of these wall-binding domains appear to interact with secondary wall polymers that are associated with the peptidoglycan, for example teichoic acids and polysaccharides. Proteins that are targeted to the cell surface include muralytic enzymes such as autolysins, lysostaphin, and phage lytic enzymes. Other examples for targeted proteins are the surface S-layer proteins of bacilli and clostridia, as well as virulence factors required for the pathogenesis of L. monocytogenes (internalin B) and Streptococcus pneumoniae (PspA) infections []. Autolysin 3.5.1.28 from EC hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain bacterial cell wall glycopeptides.; GO: 0008745 N-acetylmuramoyl-L-alanine amidase activity, 0009253 peptidoglycan catabolic process; PDB: 3QAY_A 3CZX_A 1JWQ_A 1XOV_A 3NE8_A.
Probab=59.40 E-value=39 Score=22.49 Aligned_cols=67 Identities=19% Similarity=0.235 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC-------CChhHHHHHHHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG-------LNPDVNKKLSAAISAILE 86 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~-------~~~e~~~~~~~~i~~~l~ 86 (121)
.+.|.+.+...+.+.++.+...+.. .++-... -.+..|++++|+-.+.. .++..+++++++|.+-+.
T Consensus 101 s~~lA~~i~~~l~~~~~~~~rgv~~--~~~~~~l-~~~~~pavliE~gfi~n~~D~~~l~~~~~~~~~A~ai~~gI~ 174 (175)
T PF01520_consen 101 SKKLAKSIQKELSKRTGLPNRGVKE--RNNLYVL-RNTNMPAVLIELGFIDNPEDAKKLNDPKFQQKIAEAIAKGIA 174 (175)
T ss_dssp HHHHHHHHHHHHHHCHTTEEEEEEE--ECT-HHH-HCCSSCEEEEEEEETTSHHHHHHHTHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHhhhhccccCCccc--chHHHHH-hcCCCCEEEEEeccCCCHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence 5788899999999999887444322 2211111 23678999999987643 234455667777776554
No 95
>COG1872 Uncharacterized conserved protein [Function unknown]
Probab=59.07 E-value=16 Score=23.08 Aligned_cols=26 Identities=31% Similarity=0.386 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
+-+-.++|..+|.+.|++|+.+|.|.
T Consensus 48 ~GKAN~~li~~Lak~~~v~kS~V~iv 73 (102)
T COG1872 48 DGKANEELIKFLAKTFGVPKSSVEIV 73 (102)
T ss_pred CcchhHHHHHHHHHHhCCCcccEEEE
Confidence 34455678889999999999999875
No 96
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=58.14 E-value=4 Score=23.07 Aligned_cols=21 Identities=14% Similarity=0.355 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhCCCCCeEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i 98 (121)
+.++..|++++++|+++.+-+
T Consensus 2 ~~~l~~fL~~el~ls~~~i~l 22 (58)
T PF11165_consen 2 STQLIRFLQEELGLSEASIAL 22 (58)
T ss_pred cHHHHHHHHHHcCCCHHHHHH
Confidence 357899999999999876543
No 97
>PRK09490 metH B12-dependent methionine synthase; Provisional
Probab=57.70 E-value=16 Score=32.72 Aligned_cols=31 Identities=10% Similarity=0.196 Sum_probs=28.4
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+.+++-++++++.+.+.++.|+++++|++-
T Consensus 495 ~t~e~r~~ia~r~~~~~~~~~Gi~~~dIi~D 525 (1229)
T PRK09490 495 DTRERKIEICKRAYDILTEEVGFPPEDIIFD 525 (1229)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCHHHEEEc
Confidence 5799999999999999998899999999874
No 98
>PRK09800 putative hypoxanthine oxidase; Provisional
Probab=57.57 E-value=25 Score=30.73 Aligned_cols=80 Identities=13% Similarity=0.054 Sum_probs=50.4
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
-+.....+.|..|+.||.|.+.|.|...+-...-+++.+-- --.-...|.--....+++-++|.+...+.|+.+++.+
T Consensus 687 GqG~~T~~~QiaAe~LGip~d~V~v~~~DT~~~p~~~gt~a--Sr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~~~~~ 764 (956)
T PRK09800 687 GTGLDTVVTKLAAEVLHCPPQDVHVISGDTDHALFDKGAYA--SSGTCFSGNAARLAAENLREKILFHGAQMLGEPVADV 764 (956)
T ss_pred CccHHHHHHHHHHHHHCCCceeEEEEeCCCCCCCCCCCcch--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHE
Confidence 45788899999999999999999997655333333321100 0000111222245666677777777788889888754
Q ss_pred EE
Q 033334 97 FI 98 (121)
Q Consensus 97 ~i 98 (121)
.+
T Consensus 765 ~~ 766 (956)
T PRK09800 765 QL 766 (956)
T ss_pred EE
Confidence 44
No 99
>TIGR02965 xanthine_xdhB xanthine dehydrogenase, molybdopterin binding subunit. Members of the protein family are the molybdopterin-containing large subunit (or, in, eukaryotes, the molybdopterin-binding domain) of xanthine dehydrogenase, and enzyme that reduces the purine pool by catabolizing xanthine to urate. This model is based primarily on bacterial sequences; it does not manage to include all eukaryotic xanthine dehydrogenases and thereby discriminate them from the closely related enzyme aldehyde dehydrogenase.
Probab=57.20 E-value=11 Score=31.75 Aligned_cols=80 Identities=13% Similarity=0.077 Sum_probs=48.3
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
-+.....++|.+|+.||.|.+.|.|..-+.....+++.+-- --.....|.--....+++-++|.++..+.|+++++.+
T Consensus 470 GQG~~T~laQIaAe~LGi~~d~V~v~~~DT~~~p~~~gT~g--Sr~t~~~g~Av~~Aa~~lr~~l~~~Aa~~l~~~~~~l 547 (758)
T TIGR02965 470 GQGLNTKVAQVVAEEFQVDIDRVKITATDTDKVPNTSATAA--SSGSDLNGMAAQDAARQIKERLVAFAAEKWQVPAEDV 547 (758)
T ss_pred CCCHHHHHHHHHHHHhCCCHHHEEEEecCccCCCCCCCCch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHE
Confidence 35778899999999999999999997654333233321100 0000111111134455566666666688889888765
Q ss_pred EE
Q 033334 97 FI 98 (121)
Q Consensus 97 ~i 98 (121)
.+
T Consensus 548 ~~ 549 (758)
T TIGR02965 548 RF 549 (758)
T ss_pred EE
Confidence 54
No 100
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=57.12 E-value=13 Score=28.77 Aligned_cols=42 Identities=19% Similarity=0.351 Sum_probs=34.4
Q ss_pred hhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCC
Q 033334 71 PDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHA 112 (121)
Q Consensus 71 ~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G 112 (121)
.+.|+++-.+|+.+|...||+||+..-..|.+-+.+-=-..|
T Consensus 200 ~~~kEe~l~eif~~l~~~lg~PP~~Fdf~YrdKd~~~h~~k~ 241 (444)
T COG3579 200 EALKEELLQEIFNFLAMTLGLPPEKFDFAYRDKDNKYHKEKG 241 (444)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCchhcceEEeccccchhhhcC
Confidence 567889999999999999999999999988887654433344
No 101
>TIGR03194 4hydrxCoA_A 4-hydroxybenzoyl-CoA reductase, alpha subunit. This model represents the largest chain, alpha, of the enzyme 4-hydroxybenzoyl-CoA reductase. In species capable of degrading various aromatic compounds by way of benzoyl-CoA, this enzyme can convert 4-hydroxybenzoyl-CoA to benzoyl-CoA.
Probab=56.83 E-value=14 Score=31.21 Aligned_cols=80 Identities=14% Similarity=0.119 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
-+.....++|..|+.||.|.+.|.|..-+....-+++.+ ++--.....|.--....+++-++|.+...+.|+++++.+
T Consensus 467 GqG~~T~~~qiaAe~LGip~d~V~v~~~DT~~~p~~~gt--~~Sr~t~~~G~Av~~Aa~~l~~~l~~~aa~~l~~~~~~l 544 (746)
T TIGR03194 467 GQGSSTIASQVAAEVLGVRLSRIRVISADSALTPKDNGS--YSSRVTFMVGNAAIDAAEELKGVLVAAAAKKLDAREEDI 544 (746)
T ss_pred CCCHHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCCC--hhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHE
Confidence 457788999999999999999999966543222222111 000000011211245566777777777788888888754
Q ss_pred EE
Q 033334 97 FI 98 (121)
Q Consensus 97 ~i 98 (121)
.+
T Consensus 545 ~~ 546 (746)
T TIGR03194 545 EC 546 (746)
T ss_pred EE
Confidence 33
No 102
>cd00554 MECDP_synthase MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis. This pathway is present in bacteria, plants and some protozoa but is distinct from that used by mammals and Archaea. MECDP_synthase forms a homotrimer, carrying three active sites, each of which is formed in a cleft between pairs of subunits.
Probab=56.78 E-value=59 Score=22.03 Aligned_cols=40 Identities=20% Similarity=0.321 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED 56 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~ 56 (121)
-..+..++.+.++++++-|.+.|.|...+++.+-|-|+.+
T Consensus 104 i~p~~~~m~~~ls~~L~~~~~~V~iKatT~E~lg~~Gr~e 143 (153)
T cd00554 104 ISPYREAMRANLAELLGIPPSRVNIKATTTEGLGFTGRGE 143 (153)
T ss_pred chHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCCcCCC
Confidence 3568889999999999999999999999999998877654
No 103
>COG3509 LpqC Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=56.45 E-value=15 Score=27.69 Aligned_cols=25 Identities=16% Similarity=0.288 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
-.+..++.+-+..+.||+++||||.
T Consensus 125 Vgflr~lva~l~~~~gidp~RVyvt 149 (312)
T COG3509 125 VGFLRALVAKLVNEYGIDPARVYVT 149 (312)
T ss_pred HHHHHHHHHHHHHhcCcCcceEEEE
Confidence 4577788888999999999999996
No 104
>PF09932 DUF2164: Uncharacterized conserved protein (DUF2164); InterPro: IPR018680 This family of various hypothetical prokaryotic proteins has no known function.
Probab=56.03 E-value=22 Score=21.14 Aligned_cols=25 Identities=16% Similarity=0.208 Sum_probs=22.2
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPK 93 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~ 93 (121)
++++++..++.+|..++.++++.+-
T Consensus 3 l~ke~k~~li~~iq~yf~~E~d~ei 27 (76)
T PF09932_consen 3 LSKEEKAELIDKIQRYFAEELDEEI 27 (76)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCcH
Confidence 6889999999999999999988653
No 105
>PF02738 Ald_Xan_dh_C2: Molybdopterin-binding domain of aldehyde dehydrogenase; InterPro: IPR008274 Aldehyde oxidase (1.2.3.1 from EC) catalyses the conversion of an aldehyde in the presence of oxygen and water to an acid and hydrogen peroxide. The enzyme is a homodimer, and requires FAD, molybdenum and two 2FE-2S clusters as cofactors. Xanthine dehydrogenase (1.1.1.204 from EC) catalyses the hydrogenation of xanthine to urate, and also requires FAD, molybdenum and two 2FE-2S clusters as cofactors. This activity is often found in a bifunctional enzyme with xanthine oxidase (1.1.3.22 from EC) activity too. The enzyme can be converted from the dehydrogenase form to the oxidase form irreversibly by proteolysis or reversibly through oxidation of sulphydryl groups.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3NVZ_C 3NVY_C 1FO4_B 3NRZ_L 3AM9_A 3B9J_C 3AX7_B 3NVW_L 3BDJ_A 3ETR_N ....
Probab=55.18 E-value=7.7 Score=31.24 Aligned_cols=77 Identities=16% Similarity=0.191 Sum_probs=46.3
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCC--CCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCC
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTE--DPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKS 94 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~--~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ 94 (121)
-......+.+.+|+.||.|.+.|.|...+...+-+++.+ -..++ ..|.--....+++-+++.+.-.+.++++++
T Consensus 342 GqG~~T~~~qiaAe~Lgi~~~~V~v~~~dT~~~p~~~~t~gSr~t~----~~g~Av~~Aa~~lr~~l~~~Aa~~~~~~~~ 417 (547)
T PF02738_consen 342 GQGSRTALAQIAAEELGIPPEDVRVVSGDTDTTPYDGGTGGSRSTY----MSGNAVRKAAEDLREKLLEIAAEILGVDPE 417 (547)
T ss_dssp SSSHHHHHHHHHHHHHTS-GGGEEEEECBTTTS-SB--S-TTTHHH----HHHHHHHHHHHHHHHHHHHHHHHHTTSSGG
T ss_pred CcchhhhHHHHHHHHhCCChhhEEEEeCCCcCCCCCCCCccchhhH----hhHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 356788999999999999999999876543333333211 00000 001111345566667777777788998887
Q ss_pred eEE
Q 033334 95 RFF 97 (121)
Q Consensus 95 ri~ 97 (121)
++.
T Consensus 418 ~l~ 420 (547)
T PF02738_consen 418 DLE 420 (547)
T ss_dssp GEE
T ss_pred hhh
Confidence 764
No 106
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=54.97 E-value=14 Score=28.34 Aligned_cols=43 Identities=14% Similarity=0.231 Sum_probs=36.0
Q ss_pred CChhHH--HHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeC
Q 033334 69 LNPDVN--KKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREH 111 (121)
Q Consensus 69 ~~~e~~--~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~ 111 (121)
++++.+ -+++..|-+|-.++||+|.++.|-.|.+++.....|+
T Consensus 44 ~~~~lr~rL~~~~~iR~FA~~~L~Lpdn~sY~~YadL~Rp~vvWn 88 (337)
T PF10023_consen 44 TPPALRARLRLAQQIRRFASEELGLPDNGSYRSYADLDRPYVVWN 88 (337)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhcCCCCCCChhhhhhcCCCcEEEE
Confidence 444444 4588999999999999999999999999998887765
No 107
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=54.53 E-value=31 Score=24.72 Aligned_cols=90 Identities=13% Similarity=0.073 Sum_probs=56.1
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CC-------------CCe--eEEEEEeeeCCChhHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TE-------------DPA--AYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~-------------~p~--~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
-+-++-.+++++..+.|.+.--.. + |+.+-.|-| ++ .-+ .-+.++.+.... . -..+..+
T Consensus 96 gDVllHAi~DALLGA~glGDIG~~--F-Pdtd~~~Kg~~S~~lL~~a~~ll~~~G~~I~NvD~tII~q~P-K-i~p~~~~ 170 (216)
T PLN02862 96 GDVLLHCVVDAILGALGLPDIGQI--F-PDTDPKWKGADSSVFIKEAVRLMHEAGYEIGNLDATLILQRP-K-LSPHKEA 170 (216)
T ss_pred HHHHHHHHHHHHHHHccCCccccc--C-CCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC-c-chHHHHH
Confidence 477888999999999888653211 1 222222222 21 122 334445554332 2 2347788
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
+.+.|.+.|++++++|.|...-. +..|+-|+
T Consensus 171 m~~~La~lL~i~~~~VnIKAtT~--E~LG~~Gr 201 (216)
T PLN02862 171 IRSNLSKLLGADPSVVNLKAKTH--EKVDSLGE 201 (216)
T ss_pred HHHHHHHHhCCCcceEEEEEecC--CCCCCCcc
Confidence 89999999999999999998875 55666443
No 108
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=54.48 E-value=25 Score=21.78 Aligned_cols=82 Identities=11% Similarity=0.110 Sum_probs=50.2
Q ss_pred EEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHH
Q 033334 6 ISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAIL 85 (121)
Q Consensus 6 i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l 85 (121)
|.+..+ ...+.+|...|++.+.+.-..-.-|+.-... ...+|..++-|...| +..+++..+|...+
T Consensus 8 v~l~~P--~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~--------~~~~~~~li~vd~~~----~~~~~~~~~i~~~~ 73 (108)
T PF14581_consen 8 VLLGEP--EEEPTDLLAALSEYFKQHKNVRAAYLALMQD--------EDEQPSLLIGVDFDG----EDIEEIFQEIGRAA 73 (108)
T ss_pred EEecCC--ccCHHHHHHHHHHHHhhCccHHHhHHHHhhc--------cCCCceEEEEEeccC----hhHHHHHHHHHHHh
Confidence 444444 4558889988888887665544444433222 345788888777665 56677777777766
Q ss_pred HHHhCCCCCeEEEEEEeCC
Q 033334 86 EKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 86 ~~~lgi~~~ri~i~f~~~~ 104 (121)
.+.++ +..+|.|..++
T Consensus 74 ~~~~~---~~~~vd~~~~~ 89 (108)
T PF14581_consen 74 RPYLP---DGWPVDFVLLD 89 (108)
T ss_pred hhcCC---CCceEEEEEcc
Confidence 66543 33445554443
No 109
>PF14813 NADH_B2: NADH dehydrogenase 1 beta subcomplex subunit 2
Probab=54.48 E-value=6.1 Score=23.29 Aligned_cols=11 Identities=18% Similarity=0.561 Sum_probs=7.9
Q ss_pred HHHHhCCCCCe
Q 033334 85 LEKKLSVPKSR 95 (121)
Q Consensus 85 l~~~lgi~~~r 95 (121)
--++||||||+
T Consensus 59 TDeELGIppdd 69 (71)
T PF14813_consen 59 TDEELGIPPDD 69 (71)
T ss_pred chhhcCCCCCC
Confidence 34788888875
No 110
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=54.44 E-value=13 Score=32.01 Aligned_cols=34 Identities=18% Similarity=0.410 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCC
Q 033334 73 VNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAH 106 (121)
Q Consensus 73 ~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~ 106 (121)
-|++-..--.++|.+.||+|++++|++.++-+.+
T Consensus 102 FKeeAI~~AwEflT~~lgl~~ekL~vtvy~~Dde 135 (879)
T COG0013 102 FKEEAIEFAWEFLTKVLGLPKEKLYVTVYEDDDE 135 (879)
T ss_pred HHHHHHHHHHHHHHhhcCCCHHHEEEEEecCchH
Confidence 3555566667888899999999999998886644
No 111
>TIGR02416 CO_dehy_Mo_lg carbon-monoxide dehydrogenase, large subunit. This model represents the large subunits of group of carbon-monoxide dehydrogenases that include molybdenum as part of the enzymatic cofactor. There are various forms of carbon-monoxide dehydrogenase; Salicibacter pomeroyi DSS-3, for example, has two forms. Note that, at least in some species, the active site Cys is modified with a selenium attached to (rather than replacing) the sulfur atom. This is termed selanylcysteine, and created post-translationally, in contrast to selenocysteine incorporation during translation as for many other selenoproteins.
Probab=54.14 E-value=17 Score=30.83 Aligned_cols=80 Identities=14% Similarity=0.116 Sum_probs=48.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
-+.....++|.+|+.||.|-+.|.|..-+-...-+++.+ ++--...+.|.--....+++-+++.++..+.|+++++++
T Consensus 498 GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt--~~Sr~t~~~G~Av~~Aa~~l~~~l~~~aa~~l~~~~~~l 575 (770)
T TIGR02416 498 GQGHETTYAQIIATELGIPAEDIMVEEGDTDTAPYGLGT--YGSRSTPVAGAATALAARKIKAKAQMIAAHMLEVHEGDL 575 (770)
T ss_pred CCCchHHHHHHHHHHHCCCHHHEEEEecCCCCCCCCCCC--chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHE
Confidence 456778999999999999999999976543232233111 000000111222245566677777777778888888765
Q ss_pred EE
Q 033334 97 FI 98 (121)
Q Consensus 97 ~i 98 (121)
.+
T Consensus 576 ~~ 577 (770)
T TIGR02416 576 EW 577 (770)
T ss_pred EE
Confidence 44
No 112
>TIGR00557 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis.
Probab=54.11 E-value=96 Score=23.62 Aligned_cols=69 Identities=17% Similarity=0.253 Sum_probs=44.0
Q ss_pred HHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEee-----eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 25 TSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSI-----GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 25 ~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~-----g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
++.+++.+|..+ ++|. +.+..-..++++.+.. ..++.+.-.+..+.+.+.+++.+|++..||-|.
T Consensus 132 Te~La~~~g~~~-~~Mm---------l~~~~LrV~lvT~HipL~~v~~~it~~~i~~~i~~~~~~l~~~~gi~~PrIaV~ 201 (320)
T TIGR00557 132 TEFLAELTGVKD-VVMM---------LAGPGLRVALATTHIPLKDVPAALTPELLVEKLRILHADLRRDFGIARPRIAVA 201 (320)
T ss_pred HHHHHHHhCCCC-eEEE---------EecCCeEEEEEeccccHHHHHHHhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 566777776432 2332 2222233444444322 347788888888889999999999999998765
Q ss_pred EEeC
Q 033334 100 FYDT 103 (121)
Q Consensus 100 f~~~ 103 (121)
=-+.
T Consensus 202 gLNP 205 (320)
T TIGR00557 202 GLNP 205 (320)
T ss_pred ecCC
Confidence 4443
No 113
>TIGR03313 Se_sel_red_Mo probable selenate reductase, molybdenum-binding subunit. Our comparative genomics suggests this protein family to be a subunit of a selenium-dependent molybdenum hydroxylase, although the substrate is not specified. This protein is suggested by Bebien, et al., to be the molybdenum-binding subunit of a molydbopterin-containing selenate reductase. Xi, et al, however, show that mutation of this gene in E. coli conferred sensitivity to adenine, suggesting a defect in purine interconversion. This finding, plus homology of nearby genes in a 23-gene purine catabolism region in E. coli to xanthine dehydrogase subunits suggests xanthine dehydrogenase activity.
Probab=53.45 E-value=19 Score=31.36 Aligned_cols=80 Identities=11% Similarity=0.062 Sum_probs=49.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
-+.....+.|.+|+.||.|.+.|.|...+-...-+++.+--. -.-...|.--....+++-++|.+...+.|+.+++.+
T Consensus 683 GqG~~T~~~QiaAe~LGvp~d~V~v~~~DT~~~p~~~gt~aS--r~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~~~~~ 760 (951)
T TIGR03313 683 GTGLDTVVSKLTAEVLHCPMDDVHVISGDTDHALFDKGAYAS--SGTCFSGNAAKRAAENLREKILFHGAEMLGEPVADV 760 (951)
T ss_pred CccHHHHHHHHHHHHHCCCHHhEEEEeCCCCCCCCCCCCcHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHE
Confidence 457888999999999999999999977543333333211000 000011211244556666777777788889988765
Q ss_pred EE
Q 033334 97 FI 98 (121)
Q Consensus 97 ~i 98 (121)
.+
T Consensus 761 ~~ 762 (951)
T TIGR03313 761 DL 762 (951)
T ss_pred EE
Confidence 44
No 114
>PF14804 Jag_N: Jag N-terminus; PDB: 3GKU_B.
Probab=53.41 E-value=33 Score=18.76 Aligned_cols=31 Identities=16% Similarity=0.059 Sum_probs=14.9
Q ss_pred HHHHHhCCCCCeEEEEEEeC-CCCCceeCCce
Q 033334 84 ILEKKLSVPKSRFFIKFYDT-KAHQSREHAQC 114 (121)
Q Consensus 84 ~l~~~lgi~~~ri~i~f~~~-~~~~~g~~G~~ 114 (121)
.-.+.||++.+++-+.+-+- ...-+|++.+.
T Consensus 13 ~A~~~l~~~~~~~~~eVi~~g~kGf~G~g~k~ 44 (52)
T PF14804_consen 13 KALKELGVPREELEYEVIEEGKKGFFGFGKKP 44 (52)
T ss_dssp HHHHHTT--GGGEEEEEEE--B--------B-
T ss_pred HHHHHhCCChHHEEEEEEEcCCCcEEeeccee
Confidence 34567999999999998887 45567766554
No 115
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=53.40 E-value=16 Score=22.25 Aligned_cols=39 Identities=15% Similarity=0.267 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhCCCCC-eEEEEEEeC-CCCCceeCCceeeehhc
Q 033334 78 SAAISAILEKKLSVPKS-RFFIKFYDT-KAHQSREHAQCLHAVHQ 120 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~-ri~i~f~~~-~~~~~g~~G~~~~~~~~ 120 (121)
...+..+|++.|+++++ .+|+.+.+. .|. ...++.+||+
T Consensus 28 v~~~~~~lrk~L~l~~~~slflyvnn~f~p~----~d~~~g~LY~ 68 (87)
T cd01612 28 FQAVIDFLRKRLKLKASDSLFLYINNSFAPS----PDENVGNLYR 68 (87)
T ss_pred HHHHHHHHHHHhCCCccCeEEEEECCccCCC----chhHHHHHHH
Confidence 34578889999998765 477777653 222 2245666664
No 116
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=52.62 E-value=20 Score=19.34 Aligned_cols=25 Identities=4% Similarity=0.143 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.+.+.+.+.+|+|+++..+.|..
T Consensus 22 v~~lk~~i~~~~~~~~~~~~L~~~g 46 (64)
T smart00213 22 VSELKEKIAELTGIPVEQQRLIYKG 46 (64)
T ss_pred HHHHHHHHHHHHCCCHHHEEEEECC
Confidence 4557777888899999998887653
No 117
>PF14468 DUF4427: Protein of unknown function (DUF4427)
Probab=52.25 E-value=44 Score=21.93 Aligned_cols=40 Identities=10% Similarity=0.139 Sum_probs=30.8
Q ss_pred eEEEEEeeeC-CChhHHHHHHHHHHHHHHHHhCCCCCeEEE
Q 033334 59 AYGELVSIGG-LNPDVNKKLSAAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 59 ~~v~i~~~g~-~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i 98 (121)
-+..|...+. ++..+++++++++.+.|.+++||..-+.-+
T Consensus 67 YLl~l~~~~s~~plr~kE~~ak~vA~~L~~rF~vea~yfSV 107 (132)
T PF14468_consen 67 YLLDLDLFDSDWPLRKKEAMAKHVAGWLRHRFGVEAGYFSV 107 (132)
T ss_pred eeeecccccCCCchHHHHHHHHHHHHHHHHHhCcceeEEEe
Confidence 3455555555 678899999999999999999997655443
No 118
>COG1995 PdxA Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]
Probab=51.97 E-value=1.1e+02 Score=23.54 Aligned_cols=59 Identities=15% Similarity=0.152 Sum_probs=39.3
Q ss_pred eeecCCCCCeeEEEEEe-----eeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCC
Q 033334 49 MSFGGTEDPAAYGELVS-----IGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQ 107 (121)
Q Consensus 49 ~~~gg~~~p~~~v~i~~-----~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~ 107 (121)
|.+++.+--.++++.+. .+.++++.-.+..+.+.+.|.+.+|+...||.|.=-+..+.+
T Consensus 152 Mmla~~~Lrv~lvTtHipL~~V~~~iT~e~l~~~~~i~~~~L~~~fGi~~PriaVaGLNPHaGE 215 (332)
T COG1995 152 MMLAVPELRVALVTTHIPLKDVPDAITPELLLEVLRILDKDLRKKFGIAEPRIAVAGLNPHAGE 215 (332)
T ss_pred EEeeccccEEEEEeecccHHHHHhhhCHHHHHHHHHHHHHHHHHhhCCCCcceEEeccCCCCCc
Confidence 34444333444444432 244778888888888888899999999999998755543333
No 119
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=51.45 E-value=26 Score=19.48 Aligned_cols=24 Identities=8% Similarity=0.245 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 79 AAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
..|.+.+.+..|+|++++.+.|..
T Consensus 19 ~~lK~~i~~~~~~~~~~~~L~~~G 42 (69)
T PF00240_consen 19 ADLKQKIAEETGIPPEQQRLIYNG 42 (69)
T ss_dssp HHHHHHHHHHHTSTGGGEEEEETT
T ss_pred HHhhhhcccccccccccceeeeee
Confidence 457778889999999999998753
No 120
>PF00809 Pterin_bind: Pterin binding enzyme This Prosite entry is a subset of the Pfam family; InterPro: IPR000489 The ~250-residue pterin-binding domain has been shown to adopt a (beta/alpha)8 barrel fold, which has the overall shape of a distorted cylinder. It has eight alpha-helices stacked around the outside of an inner cylinder of parallel beta-strands. The pterin ring binds at the bottom of the (beta/alpha;)8 barrel in a polar cup-like region that is relatively solvent exposed and fairly negatively charged. The pterin ring is partially buried within the (beta/alpha)8 barrel. The pterin binding residues are highly conserved and include aspartate and asparagine residues located at the C terminus of the beta-strands of the barrel, which are predicted to form hydrogen bonds with the nitrogen and oxygen atoms of the pterin ring [, , ]. Some proteins known to contain a pterin-binding domain are listed below: Prokaryotic and eukaryotic B12-dependent methionine synthase (MetH) (2.1.1.13 from EC), a large, modular protein that catalyzes the transfer of a methyl group from methyltetrahydrofolate (CH3-H4folate) to Hcy to form methionine, using cobalamin as an intermediate methyl carrier. Prokaryotic and eukaryotic dihydropteroate synthase (DHPS) (2.5.1.15 from EC). It catalyzes the condensation of para-aminobenzoic acid (pABA) with 7,8- dihydropterin-pyrophosphate (DHPPP), eliminating pyrophosphate to form 7,8- dihydropteroate which is subsequently converted to tetrahydrofolate. Moorella thermoacetica 5-methyltetrahydrofolate corrinoid/iron sulphur protein methyltransferase (MeTr). It transfers the N5-methyl group from CH3-H4folate to a cob(I)amide centre in another protein, the corrinoid iron sulphur protein. ; GO: 0042558 pteridine-containing compound metabolic process; PDB: 2VP8_B 2BMB_A 2Y5S_B 2Y5J_A 3BOF_B 1Q7Q_B 1Q85_B 1Q7Z_A 1Q7M_A 1Q8A_B ....
Probab=51.29 E-value=16 Score=25.75 Aligned_cols=42 Identities=24% Similarity=0.439 Sum_probs=29.2
Q ss_pred eeEEEEEeee---CC--ChhHHHHHHHHHHHHHHHH------hCCCCCeEEEE
Q 033334 58 AAYGELVSIG---GL--NPDVNKKLSAAISAILEKK------LSVPKSRFFIK 99 (121)
Q Consensus 58 ~~~v~i~~~g---~~--~~e~~~~~~~~i~~~l~~~------lgi~~~ri~i~ 99 (121)
+.+|-+++-| +. +++.+......+.+++.++ .||+++||++-
T Consensus 117 ~~vV~m~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~i~~l~~~Gi~~~~Ii~D 169 (210)
T PF00809_consen 117 APVVLMHSDGNPKGMPETADYRLDIAEEIIEFLEERIEALEKAGIPRERIILD 169 (210)
T ss_dssp SEEEEESESSETTTTTSSHHHSHSHHHHHHHHHHHHHHHHHHTT--GGGEEEE
T ss_pred CEEEEEecccccccccccchhhhhHHHHHHHHHHHHHHHHHHcCCCHHHEeec
Confidence 4566566552 22 3666668899999999987 89999999874
No 121
>PRK09970 xanthine dehydrogenase subunit XdhA; Provisional
Probab=50.17 E-value=29 Score=29.38 Aligned_cols=80 Identities=16% Similarity=0.064 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEe-CCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCe
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLK-GSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSR 95 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~-~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~r 95 (121)
-+.....+.|.+|+.||.|.+.|.|... +....-+++. .++--.....|.--....+++-+++.+...+.|+++++.
T Consensus 483 GQG~~T~~aQiaAe~LGi~~~~V~v~~~~dT~~~p~~~g--t~aSr~t~~~g~Av~~Aa~~lr~~l~~~aa~~l~~~~~~ 560 (759)
T PRK09970 483 GQGSDTVFSQMVAETVGIPVSDVRVISTQDTDVTPFDPG--AYASRQSYVAGPAIRKAALELKEKILAHAAVMLHQSAMN 560 (759)
T ss_pred CCCHHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCCC--CchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCChHH
Confidence 4567889999999999999999999654 2211111110 000000001111112344566666667777888988875
Q ss_pred EEE
Q 033334 96 FFI 98 (121)
Q Consensus 96 i~i 98 (121)
+-+
T Consensus 561 l~~ 563 (759)
T PRK09970 561 LDI 563 (759)
T ss_pred EEE
Confidence 543
No 122
>PF10503 Esterase_phd: Esterase PHB depolymerase
Probab=50.11 E-value=19 Score=25.73 Aligned_cols=25 Identities=16% Similarity=0.345 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
..+.+.+.+.+....+|+++|||+.
T Consensus 78 ~~~i~~lv~~v~~~~~iD~~RVyv~ 102 (220)
T PF10503_consen 78 VAFIAALVDYVAARYNIDPSRVYVT 102 (220)
T ss_pred hhhHHHHHHhHhhhcccCCCceeeE
Confidence 3467778888889999999999985
No 123
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=50.04 E-value=14 Score=30.46 Aligned_cols=30 Identities=13% Similarity=0.410 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHH--hCCCCCeEEEEEEe
Q 033334 73 VNKKLSAAISAILEKK--LSVPKSRFFIKFYD 102 (121)
Q Consensus 73 ~~~~~~~~i~~~l~~~--lgi~~~ri~i~f~~ 102 (121)
-|++-+.-.-++|.+. ||++++|+||++..
T Consensus 96 fK~eai~~awe~lt~~~~l~l~~~rl~vTv~~ 127 (594)
T PRK01584 96 FKEESIKYSFEFLTSPDYLNIPKDKLYVTVFE 127 (594)
T ss_pred hHHHHHHHHHHHhccchhcCCCHHHeEEEEeC
Confidence 4566666678889887 99999999999985
No 124
>TIGR01215 minE cell division topological specificity factor MinE. This protein is involved in the process of cell division. This protein prevents the proteins MinC and MinD to inhibit cell division at internal sites, but allows inhibiton at polar sites. This allows for correct cell division at the proper sites.
Probab=49.76 E-value=53 Score=19.68 Aligned_cols=35 Identities=14% Similarity=0.252 Sum_probs=31.5
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
.+++.-.++-+.|.+.+.+...|+++.+-|.+..-
T Consensus 33 ~~p~~l~~mk~dil~VIskY~~id~~~v~v~l~~~ 67 (81)
T TIGR01215 33 LAPEYLEELRKEILEVISKYVEIDPEMVEVSLESQ 67 (81)
T ss_pred CCHHHHHHHHHHHHHHHHHheecchHhEEEEEEeC
Confidence 66788889999999999999999999999999874
No 125
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=49.38 E-value=63 Score=20.16 Aligned_cols=36 Identities=8% Similarity=0.225 Sum_probs=32.1
Q ss_pred CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 68 GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
+.+|+.-.++-+.|.+.+.+...|.++.+-|.+..-
T Consensus 35 ~~sp~~l~~mk~dIl~VIskYv~Id~~~v~V~l~~~ 70 (97)
T PRK13988 35 DLSPELLEQMRKEILEVVARYVEIDPEEGEVSLETE 70 (97)
T ss_pred CCCHHHHHHHHHHHHHHHHHHeeeCccceEEEEEeC
Confidence 467888899999999999999999999999999774
No 126
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=49.14 E-value=60 Score=19.82 Aligned_cols=37 Identities=8% Similarity=0.329 Sum_probs=32.2
Q ss_pred CCChhHHHHHHHHHHHHHHHHhC-CCCCeEEEEEEeCC
Q 033334 68 GLNPDVNKKLSAAISAILEKKLS-VPKSRFFIKFYDTK 104 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lg-i~~~ri~i~f~~~~ 104 (121)
..+|+.-..+-+.|.+.+.+... |.++++-|.+..-+
T Consensus 33 ~~~p~~l~~lk~eil~VIsKYv~~Id~~~i~V~l~~~~ 70 (87)
T PRK13991 33 KLTPEMMEQMKADLAEVIKRYVPAIDAEAIEVTLSRGE 70 (87)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhcccCccceEEEEEeCC
Confidence 35788888999999999999997 99999999988754
No 127
>PF02738 Ald_Xan_dh_C2: Molybdopterin-binding domain of aldehyde dehydrogenase; InterPro: IPR008274 Aldehyde oxidase (1.2.3.1 from EC) catalyses the conversion of an aldehyde in the presence of oxygen and water to an acid and hydrogen peroxide. The enzyme is a homodimer, and requires FAD, molybdenum and two 2FE-2S clusters as cofactors. Xanthine dehydrogenase (1.1.1.204 from EC) catalyses the hydrogenation of xanthine to urate, and also requires FAD, molybdenum and two 2FE-2S clusters as cofactors. This activity is often found in a bifunctional enzyme with xanthine oxidase (1.1.3.22 from EC) activity too. The enzyme can be converted from the dehydrogenase form to the oxidase form irreversibly by proteolysis or reversibly through oxidation of sulphydryl groups.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3NVZ_C 3NVY_C 1FO4_B 3NRZ_L 3AM9_A 3B9J_C 3AX7_B 3NVW_L 3BDJ_A 3ETR_N ....
Probab=49.10 E-value=12 Score=30.11 Aligned_cols=45 Identities=18% Similarity=0.223 Sum_probs=28.3
Q ss_pred eeEEEEEeeeCC-----ChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 58 AAYGELVSIGGL-----NPDVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 58 ~~~v~i~~~g~~-----~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.++|..-|.+ ..|.=+-....+...+.++||+++++|.|..-|
T Consensus 321 ~a~v~l~~DG~v~v~~~~~e~GqG~~T~~~qiaAe~Lgi~~~~V~v~~~d 370 (547)
T PF02738_consen 321 SARVRLNPDGSVTVYTGGVEMGQGSRTALAQIAAEELGIPPEDVRVVSGD 370 (547)
T ss_dssp EEEEEE-TTS-EEEEES--BSSSSHHHHHHHHHHHHHTS-GGGEEEEECB
T ss_pred cEEEEEEeCCCEEEEEecccCCcchhhhHHHHHHHHhCCChhhEEEEeCC
Confidence 566666533321 122223345568888999999999999999877
No 128
>PRK01310 hypothetical protein; Validated
Probab=48.70 E-value=37 Score=21.46 Aligned_cols=35 Identities=14% Similarity=0.180 Sum_probs=25.3
Q ss_pred EEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEE
Q 033334 6 ISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMI 41 (121)
Q Consensus 6 i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v 41 (121)
+...+..+++ .-+--+++..++|+.||.|.+.|.+
T Consensus 40 lkv~v~apPv-~GkAN~ali~~LA~~l~v~ks~I~i 74 (104)
T PRK01310 40 LKVRVRAVPE-GGEANRALIELLAKALGVPKSSVRL 74 (104)
T ss_pred EEEEEecCCC-CChHHHHHHHHHHHHhCCChhhEEE
Confidence 3444444444 3456778999999999999998766
No 129
>PRK12800 fliF flagellar MS-ring protein; Reviewed
Probab=48.49 E-value=1.6e+02 Score=24.41 Aligned_cols=76 Identities=17% Similarity=0.179 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHHHH-hCCCCCe
Q 033334 19 SILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG--LNPDVNKKLSAAISAILEKK-LSVPKSR 95 (121)
Q Consensus 19 ~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~~~-lgi~~~r 95 (121)
++-.+|.+.|..+-+....++.+.+....-| ......|.|-|-|+..+| ++++| .++|..++... -|+++++
T Consensus 144 ALEgELaRTI~~l~~V~~ArVhLalPe~s~F-~~~~~~~tASV~l~l~~g~~L~~~Q----V~aI~~LVAsSVpgL~pen 218 (574)
T PRK12800 144 ALETELSRTIGTLRPVREARVHLAIPKPSAF-TRQRDVASASVVLELRGGQGLERNQ----VDAIVNLVASSIPDMTPER 218 (574)
T ss_pred HHHHHHHHHHHhcCCcceEEEEEECCCCCcc-ccCCCCCCEEEEEecCCCCCCCHHH----HHHHHHHHHhhcCCCCccc
Confidence 4555667777766666555666655544433 344567888888887665 55555 45566666644 5899999
Q ss_pred EEEE
Q 033334 96 FFIK 99 (121)
Q Consensus 96 i~i~ 99 (121)
|.|.
T Consensus 219 VtVv 222 (574)
T PRK12800 219 VTVV 222 (574)
T ss_pred eEEE
Confidence 9885
No 130
>PF10057 DUF2294: Uncharacterized conserved protein (DUF2294); InterPro: IPR018745 This domain of unknown function is found in a family of hypothetical bacterial proteins with no known function. It is also found at the C terminus of proteins provisionally annotated as response regulators.
Probab=48.26 E-value=70 Score=20.34 Aligned_cols=30 Identities=10% Similarity=0.151 Sum_probs=25.3
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCC
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGS 46 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~ 46 (121)
..+|...+++..-+.+||..+.+.+.+.++
T Consensus 9 E~~is~~i~k~~ke~~GkGP~~i~~~i~~~ 38 (118)
T PF10057_consen 9 EQEISNAIRKFYKEYFGKGPKSIKVTISDD 38 (118)
T ss_pred HHHHHHHHHHHHHHHhCCCCcEEEEEEECC
Confidence 356777888888899999999999998775
No 131
>TIGR02883 spore_cwlD N-acetylmuramoyl-L-alanine amidase CwlD. Members of this protein family are the CwlD family of N-acetylmuramoyl-L-alanine amidase. This family has been called the germination-specific N-acetylmuramoyl-L-alanine amidase. CwlD is required, along with the putative deactylase PdaA, to make muramic delta-lactam, a novel peptidoglycan constituent found only in spores. CwlD mutants show a germination defect.
Probab=47.96 E-value=88 Score=21.43 Aligned_cols=67 Identities=12% Similarity=0.032 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeC-------CChhHHHHHHHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGG-------LNPDVNKKLSAAISAILE 86 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~-------~~~e~~~~~~~~i~~~l~ 86 (121)
.+.|.+.+...+.+.++.+....-- . +.......+.-|+++||+-.+.. .+++.+++++++|.+-+.
T Consensus 114 s~~lA~~i~~~l~~~~~~~~rg~~~--~-~~l~vLr~t~~PavLvE~gFisn~~D~~~l~~~~~~~~~A~aia~gI~ 187 (189)
T TIGR02883 114 NKRLAKFIQDELRRNLDNTNRRAKK--I-NDYYLLRNAEVPGVIVECGFLSNPEEAELLKDEDYQQKIAAAIYKGVL 187 (189)
T ss_pred HHHHHHHHHHHHHHhcCcCCCCccc--c-CCEEEEcCCCCCEEEEEecccCCHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 4578888888888877755443221 1 22233344678999999976642 134455677777777654
No 132
>PRK05883 acyl carrier protein; Validated
Probab=47.69 E-value=20 Score=21.80 Aligned_cols=28 Identities=25% Similarity=0.293 Sum_probs=23.0
Q ss_pred ChhHHHHHHHHHHHHHHHHhCCCCCeEE
Q 033334 70 NPDVNKKLSAAISAILEKKLSVPKSRFF 97 (121)
Q Consensus 70 ~~e~~~~~~~~i~~~l~~~lgi~~~ri~ 97 (121)
.+..+.++...+.+.+.+.|+++++++.
T Consensus 8 ~~~~~~~I~~~l~~iia~~l~v~~~~I~ 35 (91)
T PRK05883 8 MTSSPSTVSATLLSILRDDLNVDLTRVT 35 (91)
T ss_pred CCCCHHHHHHHHHHHHHHHhCCChhhCC
Confidence 3455677899999999999999988754
No 133
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=47.40 E-value=42 Score=22.59 Aligned_cols=28 Identities=14% Similarity=0.185 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEeCCC
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYDTKA 105 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~~~~ 105 (121)
...+.+-+.+++++++++|+++=..+..
T Consensus 81 ~~~fi~~vA~~~~V~~~~v~VNst~l~d 108 (149)
T PF11694_consen 81 MVHFIESVAKDLGVSKEEVYVNSTALTD 108 (149)
T ss_pred HHHHHHHHHHHhCCChheEEEecccccC
Confidence 3345677889999999999998766543
No 134
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=47.35 E-value=33 Score=25.83 Aligned_cols=35 Identities=17% Similarity=0.253 Sum_probs=28.0
Q ss_pred CCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 55 EDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 55 ~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
.|-+.|+=| ++.+.++.-++++.+-+.+.++|+||
T Consensus 88 vDvipf~Pl---~~~t~eec~~lA~~vg~~i~~~l~VP 122 (298)
T TIGR02024 88 ADVIPFIPV---RNVTMEECVELAKEFGKRLGEELGVP 122 (298)
T ss_pred cceeeeeeC---CCCCHHHHHHHHHHHHHHHHHhhCCC
Confidence 344444433 56889999999999999999999988
No 135
>PF00691 OmpA: OmpA family; InterPro: IPR006665 This entry represents domain with a beta/alpha/beta/alpha-beta(2) structure found in the C-terminal region of many Gram-negative bacterial outer membrane proteins [], such as porin-like integral membrane proteins (such as ompA) [], small lipid-anchored proteins (such as pal) [], and MotB proton channels []. The N-terminal half is variable although some of the proteins in this group have the OmpA-like transmembrane domain IPR000498 from INTERPRO at the N terminus. OmpA from Escherichia coli is required for pathogenesis, and can interact with host receptor molecules []. MotB (and MotA) serves two functions in E. coli, the MotA(4)-MotB(2) complex attaches to the cell wall via MotB to form the stator of the flagellar motor, and the MotA-MotB complex couples the flow of ions across the cell membrane to movement of the rotor [].; GO: 0009279 cell outer membrane; PDB: 1OAP_A 2W8B_G 2HQS_C 4ERH_A 2ZF8_A 2ZOV_A 2ZVZ_B 2ZVY_A 3TD4_B 3TD5_D ....
Probab=47.24 E-value=25 Score=20.88 Aligned_cols=23 Identities=17% Similarity=0.314 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 76 KLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 76 ~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
+-+.++.++|.+ .||+++|+.+.
T Consensus 54 ~RA~~V~~~L~~-~gi~~~ri~~~ 76 (97)
T PF00691_consen 54 RRAEAVKQYLVE-NGIPPERISVV 76 (97)
T ss_dssp HHHHHHHHHHHH-TTSSGGGEEEE
T ss_pred HHHHHHHHHHHH-cCCChHhEEEE
Confidence 334567778888 79999999774
No 136
>PF04954 SIP: Siderophore-interacting protein; InterPro: IPR007037 This entry includes the vibriobactin utilization protein viuB, which is involved in the removal of iron from iron-vibriobactin complexes, as well as several hypothetical proteins.; PDB: 2GPJ_A.
Probab=46.86 E-value=28 Score=22.03 Aligned_cols=25 Identities=16% Similarity=0.359 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
...+++|-.++.+++|++++++++.
T Consensus 89 ~~~~r~lR~~l~~~~g~~~~~~~~~ 113 (119)
T PF04954_consen 89 ASAVRALRRHLREERGLPRDRIYAS 113 (119)
T ss_dssp HHHHHHHHHHHHHH----GGGEEEE
T ss_pred HHHHHHHHHHHHHhhCCCHHHeEEE
Confidence 4577889999999999999999875
No 137
>PRK15324 type III secretion system lipoprotein PrgK; Provisional
Probab=46.74 E-value=1.1e+02 Score=22.36 Aligned_cols=85 Identities=13% Similarity=0.107 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh-CCCCCeEE
Q 033334 19 SILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL-SVPKSRFF 97 (121)
Q Consensus 19 ~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l-gi~~~ri~ 97 (121)
++..+|++.+..+-|.-..++.+.+..... ..+-...|..---+....+ ....+....+|..++.... |+++++|-
T Consensus 108 ALe~ELarTI~~IdgV~~ARVHl~lP~~s~-~~~~~~~~~~aSv~~~~~~--~~~~~~qv~~I~~LVA~SV~gL~~enVt 184 (252)
T PRK15324 108 AIEQRLEQSLQTMEGVLSARVHISYDIDAG-ENGRPPKPVHLSALAVYER--GSPLAHQISDIKRFLKNSFADVDYDNIS 184 (252)
T ss_pred HHHHHHHHHHHhcCCcceEEEEEECCCCcc-ccccccCCcceeEEEecCC--CCCCHHHHHHHHHHHHhcCCCCCcccEE
Confidence 344456666666666655566665533222 1121122221111111222 1222566778888888666 79999999
Q ss_pred EEEEeCCCC
Q 033334 98 IKFYDTKAH 106 (121)
Q Consensus 98 i~f~~~~~~ 106 (121)
|.+.+.++.
T Consensus 185 VV~~~~~~~ 193 (252)
T PRK15324 185 VVLSERSDA 193 (252)
T ss_pred EEEEEcccc
Confidence 999986654
No 138
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=45.75 E-value=18 Score=23.57 Aligned_cols=37 Identities=5% Similarity=0.154 Sum_probs=26.3
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeehhc
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAVHQ 120 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~~~ 120 (121)
.+...+.+.++++++.+++.+.+.-+ -.+.++++||+
T Consensus 55 qF~~iIRkrl~l~~~k~flfVnn~lp----~~s~~mg~lYe 91 (121)
T PTZ00380 55 ELEAAVRQALGTSAKKVTLAIEGSTP----AVTATVGDIAD 91 (121)
T ss_pred HHHHHHHHHcCCChhHEEEEECCccC----CccchHHHHHH
Confidence 36667789999999997776655322 25567777775
No 139
>PRK05312 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=45.61 E-value=1.4e+02 Score=22.97 Aligned_cols=40 Identities=15% Similarity=0.269 Sum_probs=31.3
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAH 106 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~ 106 (121)
..++++.-.+..+.+.+.|.+.+|+...||-|.=-+..+.
T Consensus 181 ~~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~GLNPHAG 220 (336)
T PRK05312 181 AALTPELIVATARITAADLRRRFGIASPRLAVAGLNPHAG 220 (336)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeeCCCCC
Confidence 3478888888889999999999999999987765444333
No 140
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional
Probab=44.62 E-value=47 Score=25.72 Aligned_cols=91 Identities=18% Similarity=0.128 Sum_probs=55.2
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCC-------------C--CeeEEEEEeeeCCChhHHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTE-------------D--PAAYGELVSIGGLNPDVNKKLSAAI 81 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~-------------~--p~~~v~i~~~g~~~~e~~~~~~~~i 81 (121)
-+-++-.+++++..+.|.+.-- .++.+...-+-|-++ . --.-+.++.+.... .-..+..++
T Consensus 254 ~dv~~ha~~da~lga~~~gdig--~~fp~~d~~~k~~~s~~~l~~~~~~~~~~~~~~~n~d~~i~~~~p--k~~~~~~~~ 329 (378)
T PRK09382 254 ADVALHALTDALLGAIGAGDIG--EHFPDSDPQWKGAASKILLEHAADFVREAGGEIINADVTIIAEAP--KIGPHKQAM 329 (378)
T ss_pred HHHHHHHHHHHHHHHccCCcCc--ccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEecCC--cchHHHHHH
Confidence 4677778888888888765421 112222111222221 1 12334445554332 223477788
Q ss_pred HHHHHHHhCCCCCeEEEEEEeCCCCCceeCCc
Q 033334 82 SAILEKKLSVPKSRFFIKFYDTKAHQSREHAQ 113 (121)
Q Consensus 82 ~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~ 113 (121)
.+.+.+.||++.++|.|...-. +..||-|+
T Consensus 330 ~~~~~~~l~~~~~~v~~ka~t~--e~lg~~g~ 359 (378)
T PRK09382 330 RENLAEILGIPKDRVSVKATTT--EKLGFVGR 359 (378)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCcCCcC
Confidence 9999999999999999988775 77787664
No 141
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=43.50 E-value=65 Score=19.05 Aligned_cols=36 Identities=17% Similarity=0.124 Sum_probs=25.4
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
..++.+.....+- ..|...|+...|+++++..+.+.
T Consensus 14 ~~~ekr~~~~~Tv-------~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 14 RSVEKRFPKSITV-------SELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp SEEEEEEETTSBH-------HHHHHHHHHHHTS-TTTEEEEEE
T ss_pred eeEEEEcCCCCCH-------HHHHHHHHHHhCCCcccEEEEEE
Confidence 4555555444443 34778889999999999999998
No 142
>PRK06495 enoyl-CoA hydratase; Provisional
Probab=42.89 E-value=1.2e+02 Score=21.71 Aligned_cols=52 Identities=10% Similarity=0.136 Sum_probs=35.4
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+.-..-..+++.++.+++.++-..|+-++.|.--.+..|+-|++
T Consensus 14 v~~itlnrp~~Nal~~~~~~~l~~al~~~~~d~~vr~vVl~g~g~~FcaG~D 65 (257)
T PRK06495 14 VAVVTLDNPPVNALSRELRDELIAVFDEISERPDVRVVVLTGAGKVFCAGAD 65 (257)
T ss_pred EEEEEECCCccccCCHHHHHHHHHHHHHHhhCCCceEEEEECCCCCcccCcC
Confidence 5677788763233356788899999988877776666665445566666664
No 143
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=42.69 E-value=1.1e+02 Score=21.79 Aligned_cols=68 Identities=15% Similarity=0.232 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC--CCCeeEEEEEeeeC--CChhHHHHHHHHHHHHHHHHhCCC
Q 033334 19 SILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT--EDPAAYGELVSIGG--LNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 19 ~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~--~~p~~~v~i~~~g~--~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
.+++.+-+.+.+.-.. . .-|.++. ..+|.+ ..|+.||||=|... .+++.-+.+++++.+.+....+..
T Consensus 57 ~~~~~~l~~l~~~~~e--~-y~v~~Ea---THHGPt~~~~Ps~FvEIGSte~eW~d~~a~~~vA~avl~~~~~~~~~~ 128 (213)
T PF04414_consen 57 RLMKALLRALKKHAPE--G-YEVSYEA---THHGPTDLSVPSVFVEIGSTEEEWNDPDAAEAVARAVLEVLESDEKAE 128 (213)
T ss_dssp HHHHHHHHHHHHHGGC--T--EEEE-----S-SS-----SBEEEEEEEESHHHHT-HHHHHHHHHHHHHHHHHTTCST
T ss_pred HHHHHHHHHHHHhccC--C-CEEEEEe---eccCCCCCCCCcEEEEeCCCHHHhCChHHHHHHHHHHHHHhccccccc
Confidence 4556666666665543 3 3343432 123544 48999999988753 678888888888888888776544
No 144
>PF07837 FTCD_N: Formiminotransferase domain, N-terminal subdomain; InterPro: IPR012886 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. This entry represents the N-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 2PFD_C 1QD1_B.
Probab=42.64 E-value=34 Score=23.82 Aligned_cols=28 Identities=18% Similarity=0.418 Sum_probs=21.5
Q ss_pred eeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 65 SIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 65 ~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
-+++.+-++.-++++.+.+.+.++|+||
T Consensus 93 Pl~~~t~eec~~~A~~~g~~i~~~l~vP 120 (178)
T PF07837_consen 93 PLSGVTMEECAELARELGERIGEELGVP 120 (178)
T ss_dssp EEES--HHHHHHHHHHHHHHHHHHHT--
T ss_pred eCCCCCHHHHHHHHHHHHHHHHHhhCCC
Confidence 3356889999999999999999999987
No 145
>COG5499 Predicted transcription regulator containing HTH domain [Transcription]
Probab=42.64 E-value=23 Score=22.76 Aligned_cols=23 Identities=13% Similarity=0.283 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHHHHhCCCCC
Q 033334 72 DVNKKLSAAISAILEKKLSVPKS 94 (121)
Q Consensus 72 e~~~~~~~~i~~~l~~~lgi~~~ 94 (121)
..+++++-.....|.+++|||++
T Consensus 94 ~~rraLTle~ikkL~q~~gIpa~ 116 (120)
T COG5499 94 SGRRALTLEHIKKLHQRFGIPAD 116 (120)
T ss_pred hhhhHhhHHHHHHHHHHhCcCHH
Confidence 46789999999999999999976
No 146
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=42.28 E-value=90 Score=19.89 Aligned_cols=48 Identities=13% Similarity=0.169 Sum_probs=32.6
Q ss_pred eeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCce
Q 033334 66 IGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQC 114 (121)
Q Consensus 66 ~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~ 114 (121)
+.++.-. ++.+.++|.+.....+.-..-=+++.+-+++++.+=+|-++
T Consensus 50 VN~R~V~-~~~l~~ai~~~y~~~~~~~~~P~~vL~l~ipp~~vDvNVhP 97 (123)
T cd03482 50 VNGRMVR-DKLISHAVRQAYSDVLHGGRHPAYVLYLELDPAQVDVNVHP 97 (123)
T ss_pred EcCcEEC-ChHHHHHHHHHHHHhccCCCCcEEEEEEEcChHheeeccCC
Confidence 4444432 46688888887777665555558899999988877666543
No 147
>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase. S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase.
Probab=42.27 E-value=40 Score=30.25 Aligned_cols=31 Identities=16% Similarity=0.271 Sum_probs=27.7
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+.+.+.++++++.+.+.++.||+++||++-
T Consensus 479 ~t~e~r~~i~~~~~~~~~~~~Gi~~edIi~D 509 (1178)
T TIGR02082 479 RTADRKIEICKRAYNILTEKVGFPPEDIIFD 509 (1178)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCHHHEEEe
Confidence 4688999999999999998899999999874
No 148
>PRK05350 acyl carrier protein; Provisional
Probab=42.01 E-value=21 Score=21.06 Aligned_cols=24 Identities=13% Similarity=0.220 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEE
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFF 97 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~ 97 (121)
+.+..+.+.+.+.+.++++++++-
T Consensus 4 ~~~i~~~v~~ii~~~~~~~~~~i~ 27 (82)
T PRK05350 4 REEILERLRAILVELFEIDPEDIT 27 (82)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHCC
Confidence 456777889999999999887654
No 149
>PF05121 GvpK: Gas vesicle protein K ; InterPro: IPR007805 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in liquid to access oxygen and/or light. Proteins containing this domain are involved in the formation of gas vesicles [].; GO: 0031412 gas vesicle organization
Probab=41.98 E-value=32 Score=21.10 Aligned_cols=37 Identities=11% Similarity=0.265 Sum_probs=28.9
Q ss_pred eCCChhHHHHHHHHHHHH------HHHHhCCCCCeEEEEEEeC
Q 033334 67 GGLNPDVNKKLSAAISAI------LEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~------l~~~lgi~~~ri~i~f~~~ 103 (121)
|.+|+++-+++...+..+ +.+.+|+.+++..+..-++
T Consensus 40 G~Lse~qiErlG~tLm~Le~~~~~l~~~~gl~~~dLn~dLgpl 82 (88)
T PF05121_consen 40 GSLSEEQIERLGETLMKLEEAMEELCERFGLTPEDLNLDLGPL 82 (88)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHhccccccc
Confidence 568889888888877665 8889999999877765443
No 150
>PF09581 Spore_III_AF: Stage III sporulation protein AF (Spore_III_AF); InterPro: IPR014245 This family represents the stage III sporulation protein AF (SpoIIIAF) of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of these proteins is poorly conserved.
Probab=41.43 E-value=46 Score=22.66 Aligned_cols=29 Identities=14% Similarity=0.164 Sum_probs=24.8
Q ss_pred cChHHHHHHHHHHHHHHhCCCCcEEEEEE
Q 033334 15 VDTSSILSEATSTVANIIGKPEAYVMIVL 43 (121)
Q Consensus 15 ~~~~~~~~~l~~~~~~~~~kp~~~i~v~v 43 (121)
........++.+.+++.+|.|.+.|.|.+
T Consensus 160 ~~~~~~~~~i~~~la~~~~i~~~~I~V~~ 188 (188)
T PF09581_consen 160 PEDSEEEEEIKQYLADFYGISPEQIKVYV 188 (188)
T ss_pred ccchHHHHHHHHHHHHHhCCCHHHeEEeC
Confidence 34678899999999999999999988763
No 151
>TIGR03189 dienoyl_CoA_hyt cyclohexa-1,5-dienecarbonyl-CoA hydratase. This enzyme, cyclohexa-1,5-dienecarbonyl-CoA hydratase, also called dienoyl-CoA hydratase, acts on the product of benzoyl-CoA reductase (EC 1.3.99.15). Benzoyl-CoA is a common intermediate in the degradation of many aromatic compounds, and this enzyme is part of an anaerobic pathway for dearomatization and degradation.
Probab=41.40 E-value=1.3e+02 Score=21.57 Aligned_cols=52 Identities=8% Similarity=0.187 Sum_probs=36.0
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+....-..++..++.+++.++-..|.-++.|.--.+..|+-|++
T Consensus 11 v~~itlnrp~~Nal~~~~~~~l~~~l~~~~~~~~vr~vVl~g~g~~FcaG~D 62 (251)
T TIGR03189 11 LLRLRLARPKANIVDAAMIAALSAALGEHLEDSALRAVLLDAEGPHFSFGAS 62 (251)
T ss_pred EEEEEeCCCCcCCCCHHHHHHHHHHHHHHHcCCCceEEEEECCCCceecCcC
Confidence 5678888763333356888999999998877777676665445566666654
No 152
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=41.37 E-value=77 Score=18.86 Aligned_cols=27 Identities=7% Similarity=0.239 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
.++|.+.|++.++++++++-|.+.+++
T Consensus 52 i~~L~~~L~k~~~~~~~~i~v~~~~v~ 78 (81)
T cd02413 52 IRELTSLVQKRFNFPEGSVELYAEKVA 78 (81)
T ss_pred HHHHHHHHHHHhCCCCCeEEEEEEEcc
Confidence 467888899999999999999888774
No 153
>PF04166 PdxA: Pyridoxal phosphate biosynthetic protein PdxA; InterPro: IPR005255 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents 4-hydroxythreonine-4-phosphate dehydrogenase (PdxA, 1.1.1.262 from EC). PdxA takes part in vitamin B6 biosynthesis, forming pyridoxine 5'-phosphate from 4-(phosphohydroxy)-L-threonine and 1-deoxy-D-xylulose-5-phosphate.; GO: 0050570 4-hydroxythreonine-4-phosphate dehydrogenase activity, 0051287 NAD binding, 0008615 pyridoxine biosynthetic process, 0055114 oxidation-reduction process; PDB: 1YXO_A 1PS6_A 1PS7_C 1PTM_B 1R8K_B 2HI1_A 3LXY_A 3TSN_B.
Probab=41.15 E-value=1.2e+02 Score=22.80 Aligned_cols=71 Identities=14% Similarity=0.233 Sum_probs=41.0
Q ss_pred HHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEee-eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 24 ATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSI-GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 24 l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~-g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
-++.+++.+|.. +++|....++-+..+--+--| ++.+ ..++.+.-.+....+.+.|++.+|++..||=|.=
T Consensus 112 hTe~la~~~g~~-~~~mml~~~~lrv~~vT~Hip-----L~~V~~~it~~~i~~~i~~~~~~l~~~~gi~~PrIaV~g 183 (298)
T PF04166_consen 112 HTEYLAELTGTK-DVLMMLVSGKLRVALVTTHIP-----LKDVPKLITKERILEKIRLLHKSLKRDFGIENPRIAVAG 183 (298)
T ss_dssp HHHHHHHHTT-S---EEEEEETTEEEEESS-SS------GGGHHHH--HHHHHHHHHHHHHHHHHTTT-SS-EEEEE-
T ss_pred hHHHHHHHhCCC-CeEEEEEcCCcEEEEeccCcc-----HHHHHHhcCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEE
Confidence 577888888853 455555555444333322222 3322 3478888888888888999999999999977653
No 154
>PRK07938 enoyl-CoA hydratase; Provisional
Probab=40.65 E-value=1.4e+02 Score=21.47 Aligned_cols=52 Identities=8% Similarity=0.040 Sum_probs=35.5
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+....-..++..++.+++.++-..|.-++.|.--.+..|+-|++
T Consensus 12 v~~itlnrp~~Nal~~~~~~~l~~~l~~~~~d~~vr~vVltg~G~~F~aG~D 63 (249)
T PRK07938 12 IAEVTVDYPPVNALPSAGWFALADAITAAGADPDTRVVVLRAEGRGFNAGVD 63 (249)
T ss_pred EEEEEECCCCcccCCHHHHHHHHHHHHHhhcCCCeEEEEEECCCCceecCcC
Confidence 5677888773233356788889888888777776666665555666776664
No 155
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=40.49 E-value=82 Score=18.92 Aligned_cols=37 Identities=19% Similarity=0.122 Sum_probs=23.2
Q ss_pred EEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 61 GELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 61 v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
++|.-.|.-+|.. +.|.+.|.+.++++++.|+|.=-.
T Consensus 3 ~~v~h~g~~Tpsr-----~ei~~klA~~~~~~~~~ivv~~~~ 39 (84)
T PF01282_consen 3 FEVLHPGKPTPSR-----KEIREKLAAMLNVDPDLIVVFGIK 39 (84)
T ss_dssp EEEE-SSSSS--H-----HHHHHHHHHHHTSTGCCEEEEEEE
T ss_pred EEEECCCCCCCCH-----HHHHHHHHHHhCCCCCeEEEeccE
Confidence 4444445444544 346677888899999999887555
No 156
>PRK13987 cell division topological specificity factor MinE; Provisional
Probab=40.37 E-value=88 Score=19.25 Aligned_cols=37 Identities=19% Similarity=0.347 Sum_probs=32.6
Q ss_pred CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 68 GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
+.+|+.-..+-+.|.+.+.+...|.++++-|.+..-+
T Consensus 31 ~~sp~~l~~lk~eIl~VI~kYv~Id~~~v~i~l~~~~ 67 (91)
T PRK13987 31 DISPDVLEMIKEDILKVISKYVEIDNEDVDIKMTKSE 67 (91)
T ss_pred CCCHHHHHHHHHHHHHHHHHheeeCccceEEEEEeCC
Confidence 4678888899999999999999999999999998743
No 157
>PF08652 RAI1: RAI1 like PD-(D/E)XK nuclease; InterPro: IPR013961 RAI1 is homologous to Caenorhabditis elegans DOM-3 and human DOM3Z and binds to a nuclear exoribonuclease []. It is required for 5.8S rRNA processing []. ; PDB: 3FQD_B 3FQG_A 3FQI_A 3FQJ_A.
Probab=40.16 E-value=74 Score=18.32 Aligned_cols=49 Identities=18% Similarity=0.295 Sum_probs=36.1
Q ss_pred CCCeeEEEEEeeeC-CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 55 EDPAAYGELVSIGG-LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 55 ~~p~~~v~i~~~g~-~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
+.|.-|||++.... .++.+...+-+++...-.+.+=+.-++|++-|.|-
T Consensus 13 ~~~~~yvELKT~~~~~~~~~~~~f~rKllkwW~QsfL~Gi~~IvvG~Rd~ 62 (69)
T PF08652_consen 13 DSPGNYVELKTSKDIMSPKQWSNFERKLLKWWLQSFLVGIPRIVVGFRDD 62 (69)
T ss_dssp STTCCEEEEEEEE---SHCCCHHHHHHHHHHHHHHHCTT--EEEEEEE-T
T ss_pred CCCCcEEEEeeeccccCchHHHHHhHHHHHHHHHHhccCCCEEEEEEeCC
Confidence 46789999998765 35777778888888888888778888999999885
No 158
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=40.13 E-value=31 Score=21.99 Aligned_cols=30 Identities=13% Similarity=0.279 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEeCCCCCc
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYDTKAHQS 108 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~ 108 (121)
|....+.+.+ +|++++++.+...-++.+.+
T Consensus 147 S~~~~~~l~~-~~~~~~ki~vI~ngid~~~F 176 (177)
T PF13439_consen 147 SESTKDELIK-FGIPPEKIHVIYNGIDTDRF 176 (177)
T ss_dssp SHHHHHHHHH-HT--SS-EEE----B-CCCH
T ss_pred CHHHHHHHHH-hCCcccCCEEEECCccHHHc
Confidence 5567788888 99999999999988876543
No 159
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=39.65 E-value=44 Score=18.79 Aligned_cols=25 Identities=16% Similarity=0.235 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.+.+.+++..|+|+++..+.|..
T Consensus 23 v~~lK~~i~~~~g~~~~~qrL~~~g 47 (76)
T cd01806 23 VERIKERVEEKEGIPPQQQRLIYSG 47 (76)
T ss_pred HHHHHHHHhHhhCCChhhEEEEECC
Confidence 4556777778889999998888653
No 160
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=39.47 E-value=50 Score=19.68 Aligned_cols=24 Identities=4% Similarity=0.022 Sum_probs=18.8
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 79 AAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+.+.+.+.+.-|++++++.+.|.-
T Consensus 35 ~~l~~~y~~~~gi~~~~~rf~f~G 58 (87)
T cd01763 35 KKLMEAYCQRQGLSMNSVRFLFDG 58 (87)
T ss_pred HHHHHHHHHHhCCCccceEEEECC
Confidence 345667777789999999999864
No 161
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=39.29 E-value=44 Score=19.37 Aligned_cols=24 Identities=4% Similarity=0.224 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
...+.+.+++..|++++|..+.|.
T Consensus 24 V~~LK~~I~~~~~~~~~~qrLi~~ 47 (73)
T cd01791 24 IGDLKKLIAAQTGTRPEKIVLKKW 47 (73)
T ss_pred HHHHHHHHHHHhCCChHHEEEEeC
Confidence 445667777777999999999876
No 162
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=39.01 E-value=33 Score=19.32 Aligned_cols=28 Identities=14% Similarity=0.230 Sum_probs=22.2
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeC--CCCCce
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDT--KAHQSR 109 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~--~~~~~g 109 (121)
+.++|. .|+++++.+-+.+..- +.++|.
T Consensus 18 l~~ll~-~l~~~~~~vav~~N~~iv~r~~~~ 47 (65)
T PRK05863 18 VAALLD-SLGFPEKGIAVAVDWSVLPRSDWA 47 (65)
T ss_pred HHHHHH-HcCCCCCcEEEEECCcCcChhHhh
Confidence 455555 4899999999999887 888887
No 163
>PRK13989 cell division topological specificity factor MinE; Provisional
Probab=38.99 E-value=89 Score=18.88 Aligned_cols=35 Identities=14% Similarity=0.239 Sum_probs=31.4
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
.+|+.-..+-+.|.+.+.+...|.++.+-|.+..-
T Consensus 35 ~~p~~l~~lk~dil~VIsKYv~Id~~~v~i~l~~~ 69 (84)
T PRK13989 35 QPPDYLPALQKELVAVISKYVKISPDDIRVSLERQ 69 (84)
T ss_pred CCHHHHHHHHHHHHHHHHHheeeCccceEEEEEeC
Confidence 57888889999999999999999999999998764
No 164
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=38.76 E-value=39 Score=18.83 Aligned_cols=25 Identities=12% Similarity=0.066 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.+.+.+++..|+|+++..+.|..
T Consensus 22 v~~lK~~i~~~~gi~~~~q~L~~~g 46 (71)
T cd01812 22 FGDLKKMLAPVTGVEPRDQKLIFKG 46 (71)
T ss_pred HHHHHHHHHHhhCCChHHeEEeeCC
Confidence 4456777888889999999888764
No 165
>PF12685 SpoIIIAH: SpoIIIAH-like protein; InterPro: IPR024232 Stage III sporulation protein AH (SpoIIIAH) is a protein that is involved in forespore engulfment. It forms a channel with SpoIIIAH that is open on the forespore end and closed (or gated) on the mother cell end. This allows sigma-E-directed gene expression in the mother-cell compartment of the sporangium to trigger the activation of sigma-G forespore-specific gene expression by a pathway of intercellular signaling. This family of proteins is found in bacteria, archaea and eukaryotes and so must have a wider function than in sporulation. Proteins in this family are typically between 174 and 223 amino acids in length.; PDB: 3UZ0_A 3TUF_A.
Probab=38.70 E-value=1.3e+02 Score=20.90 Aligned_cols=37 Identities=16% Similarity=0.146 Sum_probs=24.0
Q ss_pred eeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 58 AAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 58 ~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+-|-|.+-. +++++ ...|.+.+.+++|++.++|.|.
T Consensus 160 ~v~VvV~~~~-L~~~~----~~~I~diV~~~~~v~~~~I~V~ 196 (196)
T PF12685_consen 160 SVDVVVKADK-LSDAE----AAQIIDIVMRETGVPAENISVT 196 (196)
T ss_dssp EEEEEEE-S----HHH----HHHHHHHHHHHHC-STSEEEEE
T ss_pred EEEEEEeCCC-CCHHH----HHHHHHHHHHHhCCCcCeEEeC
Confidence 4555555433 65544 5678999999999999999874
No 166
>PRK02746 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=38.66 E-value=1.8e+02 Score=22.42 Aligned_cols=37 Identities=16% Similarity=0.266 Sum_probs=28.9
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..++++.-.+....+.+.|++.+|+...||-|.=-+.
T Consensus 179 ~~it~~~I~~~i~~~~~~l~~~~gi~~PrIaV~GLNP 215 (345)
T PRK02746 179 KTLTPELITSKLDLLIDFLQRDFGIEKPRIAIAGLNP 215 (345)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHcCCCCCcEEEEeeCC
Confidence 3467888788888889999999999999987664443
No 167
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=38.53 E-value=1.5e+02 Score=21.34 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED 56 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~ 56 (121)
.....++.+.++++++-|...|.|--.+++.+-|-|+.+
T Consensus 165 ~p~~~~m~~~La~lL~i~~~~VnIKAtT~E~LG~~Gr~e 203 (216)
T PLN02862 165 SPHKEAIRSNLSKLLGADPSVVNLKAKTHEKVDSLGENR 203 (216)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCccCC
Confidence 467889999999999999999999999999888878653
No 168
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=38.51 E-value=45 Score=19.43 Aligned_cols=25 Identities=20% Similarity=0.417 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.+.+.+++..|++++|..+.|..
T Consensus 24 V~~LK~~I~~~~~~~~~~qrL~~~G 48 (78)
T cd01804 24 VEGLKKRISQRLKVPKERLALLHRE 48 (78)
T ss_pred HHHHHHHHHHHhCCChHHEEEEECC
Confidence 5567778888889999999998763
No 169
>PTZ00487 ceramidase; Provisional
Probab=38.42 E-value=1.5e+02 Score=25.29 Aligned_cols=51 Identities=12% Similarity=0.128 Sum_probs=35.7
Q ss_pred eeeec-CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCC---CCCeEEEEEEeC
Q 033334 48 PMSFG-GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSV---PKSRFFIKFYDT 103 (121)
Q Consensus 48 ~~~~g-g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi---~~~ri~i~f~~~ 103 (121)
-+.+. .....++||.+.+.+ .+ +.+..++.+.|.+++|| +.++|.|.-.--
T Consensus 79 AfVl~d~~~~rvv~Vs~Dl~~-i~----~~v~~~V~~~L~~~~Gi~~y~~~NVllsATHT 133 (715)
T PTZ00487 79 AFVFADSPGNRAVYVSTDSCM-IF----QEVKIGVVPKLQEIFGPDLYTLDNVLLSGTHT 133 (715)
T ss_pred EEEEEeCCCCEEEEEEEcccC-CC----HHHHHHHHHHHHHHhCcCcCChhhEEEEeeec
Confidence 34442 234678888888765 33 34566667777889998 999999998764
No 170
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=38.29 E-value=59 Score=23.57 Aligned_cols=30 Identities=20% Similarity=0.342 Sum_probs=26.9
Q ss_pred EEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 63 LVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 63 i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
|-.+||.+++....|++.|.+...+.+|=.
T Consensus 4 iGilGGMgpeST~~yyr~ine~~~~~~g~~ 33 (230)
T COG1794 4 IGILGGMGPESTAPYYRKINEAVRAKLGGL 33 (230)
T ss_pred eEeccCCChHHHHHHHHHHHHHHHHHhCCc
Confidence 557899999999999999999999999744
No 171
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=38.08 E-value=50 Score=17.91 Aligned_cols=25 Identities=20% Similarity=0.239 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
...+.+.+.+..|++++++.+.|..
T Consensus 20 i~~lK~~i~~~~~~~~~~~~l~~~g 44 (69)
T cd01769 20 VAELKAKIAAKEGVPPEQQRLIYAG 44 (69)
T ss_pred HHHHHHHHHHHHCcChHHEEEEECC
Confidence 4556677888889999998886643
No 172
>cd03081 TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidat
Probab=37.91 E-value=85 Score=18.34 Aligned_cols=60 Identities=17% Similarity=0.137 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CCCCeeEEEEEeeeCCChhHHHHHHH
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TEDPAAYGELVSIGGLNPDVNKKLSA 79 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~~p~~~v~i~~~g~~~~e~~~~~~~ 79 (121)
+++++.+.+.+...+|.....-.+.+... ...|- ...|++.|+=..+++.+++.-+++.+
T Consensus 18 ~~ll~~l~~~l~~~~g~~~~dg~~~l~~~--~ClG~C~~gP~~~v~~~~~~~~~~e~i~~il~ 78 (80)
T cd03081 18 EALAAHIKARLGIDFHETTADGSVTLEPV--YCLGLCACSPAAMIDGEVHGRVDPEKFDALLA 78 (80)
T ss_pred HHHHHHHHHHhCCCCCCcCCCCeEEEEEe--eecCccCCCCEEEECCEEECCCCHHHHHHHHH
Confidence 45555555555444342221123334332 24454 45799998877888888888666554
No 173
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=37.70 E-value=44 Score=18.58 Aligned_cols=24 Identities=4% Similarity=0.203 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
.+.+.+.+++..|+|+++..+.|.
T Consensus 23 v~~lK~~i~~~~gi~~~~q~L~~~ 46 (72)
T cd01809 23 VLDLKEKIAEEVGIPVEQQRLIYS 46 (72)
T ss_pred HHHHHHHHHHHHCcCHHHeEEEEC
Confidence 555667777788999999988874
No 174
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=37.68 E-value=66 Score=18.01 Aligned_cols=23 Identities=13% Similarity=0.163 Sum_probs=18.4
Q ss_pred HHHHHHHHHhCCCC-CeEEEEEEe
Q 033334 80 AISAILEKKLSVPK-SRFFIKFYD 102 (121)
Q Consensus 80 ~i~~~l~~~lgi~~-~ri~i~f~~ 102 (121)
.+.+.+.+..|+++ +++.+.|..
T Consensus 25 ~l~~~~~~~~~i~~~~~~~l~fdG 48 (72)
T PF11976_consen 25 KLIEKYCEKKGIPPEESIRLIFDG 48 (72)
T ss_dssp HHHHHHHHHHTTTT-TTEEEEETT
T ss_pred HHHHHHHHhhCCCccceEEEEECC
Confidence 35577888899999 999988864
No 175
>smart00318 SNc Staphylococcal nuclease homologues.
Probab=37.07 E-value=1.1e+02 Score=19.42 Aligned_cols=73 Identities=11% Similarity=0.058 Sum_probs=43.9
Q ss_pred EEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHH----------HHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCC
Q 033334 38 YVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVN----------KKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQ 107 (121)
Q Consensus 38 ~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~----------~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~ 107 (121)
-..+.|.+|..+.....+.. -..|...|--.||.. ..+..+-.+++.+.| ...+|.+.+...+ .
T Consensus 5 ~~V~~V~DGDT~~v~~~~~~--~~~vrL~gIdaPe~~~~~~~~~~~~~~~g~~A~~~l~~~l--~g~~V~~~~~~~D--~ 78 (138)
T smart00318 5 GVVERVLDGDTIRVRLPKNK--LITIRLSGIDAPETARPNKGDGTTDEPFGEEAKEFLKKLL--LGKKVQVEVDSKD--R 78 (138)
T ss_pred EEEEEEecCCEEEEEeCCCC--EEEEEEEeccCCccCCCCCCCccccCcHHHHHHHHHHHHh--CCCEEEEEEeccC--C
Confidence 45566777766666533322 344555554445543 678888999999988 3466877776632 2
Q ss_pred ceeCCceeeehh
Q 033334 108 SREHAQCLHAVH 119 (121)
Q Consensus 108 ~g~~G~~~~~~~ 119 (121)
+ |+.+..+|
T Consensus 79 ~---gr~~a~v~ 87 (138)
T smart00318 79 Y---GRFLGTVY 87 (138)
T ss_pred C---CCEEEEEE
Confidence 2 45555543
No 176
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=36.98 E-value=17 Score=20.78 Aligned_cols=24 Identities=17% Similarity=0.239 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
...|.+.+++.-||||..-.+.|.
T Consensus 23 verIKErvEEkeGIPp~qqrli~~ 46 (70)
T KOG0005|consen 23 VERIKERVEEKEGIPPQQQRLIYA 46 (70)
T ss_pred HHHHHHHhhhhcCCCchhhhhhhc
Confidence 456888999999999988777763
No 177
>PF07208 DUF1414: Protein of unknown function (DUF1414); InterPro: IPR009857 This family consists of several hypothetical bacterial proteins of around 70 residues in length. Members of this family are often referred to as YejL. The function of this family is unknown.; PDB: 2JPQ_A 2JUZ_B 2JUW_B 2QTI_A 2OTA_A 2JR2_A 2JRX_A.
Probab=36.16 E-value=71 Score=16.96 Aligned_cols=21 Identities=10% Similarity=0.295 Sum_probs=16.7
Q ss_pred CCChhHHHHHHHHHHHHHHHH
Q 033334 68 GLNPDVNKKLSAAISAILEKK 88 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~ 88 (121)
..+++|++.+++.+++.|...
T Consensus 23 ~V~~~qR~~iAe~Fa~AL~~S 43 (44)
T PF07208_consen 23 SVPPAQRQAIAEKFAQALKSS 43 (44)
T ss_dssp CS-HHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHHHhc
Confidence 467899999999999988753
No 178
>PRK12449 acyl carrier protein; Provisional
Probab=35.42 E-value=49 Score=19.12 Aligned_cols=23 Identities=9% Similarity=0.144 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeE
Q 033334 74 NKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
+.++.+++.+.+.+.++++++++
T Consensus 3 ~~~i~~~l~~il~~~~~~~~~~i 25 (80)
T PRK12449 3 REEIFERLINLIQKQRSYLSLAI 25 (80)
T ss_pred HHHHHHHHHHHHHHHhCCCcccc
Confidence 45677889999999999987763
No 179
>PRK01909 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=35.28 E-value=2e+02 Score=21.98 Aligned_cols=37 Identities=16% Similarity=0.175 Sum_probs=30.0
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..++.+.-.+..+.+.+.|.+.+|++..||-|.=-+.
T Consensus 172 ~~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~GLNP 208 (329)
T PRK01909 172 AALTIDGLVETLAIIDRDLRRDFGLAAPRILVTGLNP 208 (329)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCC
Confidence 3467888888888889999999999999987765444
No 180
>COG2136 IMP4 Predicted exosome subunit/U3 small nucleolar ribonucleoprotein (snoRNP) component, contains IMP4 domain [Translation, ribosomal structure and biogenesis / RNA processing and modification]
Probab=35.21 E-value=44 Score=23.47 Aligned_cols=27 Identities=22% Similarity=0.273 Sum_probs=22.6
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHH
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTV 28 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (121)
||-+-|+|+...|.. ...|++.|+..+
T Consensus 1 ~~~~liTTSRkPS~R-tr~Fak~L~~~l 27 (191)
T COG2136 1 MPKMLLTTSRKPSRR-TRSFAKDLSRVL 27 (191)
T ss_pred CCcEEEEecCCccHH-HHHHHHHHHHhC
Confidence 789999999998876 778998888654
No 181
>PLN02664 enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase
Probab=35.19 E-value=1.8e+02 Score=21.20 Aligned_cols=53 Identities=11% Similarity=0.157 Sum_probs=36.2
Q ss_pred CeEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 2 PCLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 2 P~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
++..|+.|-+.. ..-..++..++.+++.++-..|+-++.|.--.+..|+-|++
T Consensus 17 ~v~~itlnrp~~~Nal~~~~~~~l~~al~~~~~d~~vrvvVltg~g~~FcaG~D 70 (275)
T PLN02664 17 SVFHLNLNRPSQRNALSLDFFTEFPKALSSLDQNPNVSVIILSGAGDHFCSGID 70 (275)
T ss_pred CEEEEEECCCCccCCCCHHHHHHHHHHHHHHHhCCCcEEEEEECCCCceeeCcC
Confidence 356788887631 22356888999999988877776666665445667777764
No 182
>cd04011 C2B_Ferlin C2 domain second repeat in Ferlin. Ferlins are involved in vesicle fusion events. Ferlins and other proteins, such as Synaptotagmins, are implicated in facilitating the fusion process when cell membranes fuse together. There are six known human Ferlins: Dysferlin (Fer1L1), Otoferlin (Fer1L2), Myoferlin (Fer1L3), Fer1L4, Fer1L5, and Fer1L6. Defects in these genes can lead to a wide range of diseases including muscular dystrophy (dysferlin), deafness (otoferlin), and infertility (fer-1, fertilization factor-1). Structurally they have 6 tandem C2 domains, designated as (C2A-C2F) and a single C-terminal transmembrane domain, though there is a new study that disputes this and claims that there are actually 7 tandem C2 domains with another C2 domain inserted between C2D and C2E. In a subset of them (Dysferlin, Myoferlin, and Fer1) there is an additional conserved domain called DysF. C2 domains fold into an 8-standed beta-sandwich that can adopt 2 structural arrangeme
Probab=35.19 E-value=56 Score=19.98 Aligned_cols=26 Identities=23% Similarity=0.270 Sum_probs=18.6
Q ss_pred EEEEEEeCCceeeecCCCCCeeEEEEE
Q 033334 38 YVMIVLKGSVPMSFGGTEDPAAYGELV 64 (121)
Q Consensus 38 ~i~v~v~~~~~~~~gg~~~p~~~v~i~ 64 (121)
.+.|.+..+..+. +|..||++-+.+.
T Consensus 5 ~l~V~v~~a~~L~-~~~~dpyv~v~~~ 30 (111)
T cd04011 5 QVRVRVIEARQLV-GGNIDPVVKVEVG 30 (111)
T ss_pred EEEEEEEEcccCC-CCCCCCEEEEEEC
Confidence 5667777777766 7788997766664
No 183
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=35.13 E-value=1.1e+02 Score=18.62 Aligned_cols=33 Identities=15% Similarity=0.314 Sum_probs=28.8
Q ss_pred ChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 70 NPDVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 70 ~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+|+.-.++-+.|.+.+.+...|+++++-|.+..
T Consensus 35 ~p~~l~~lk~dIl~VIsKY~~Id~~~v~i~l~~ 67 (86)
T PRK00296 35 EPDYLPQLRKEILEVIAKYVQIDPDKVSVQLDK 67 (86)
T ss_pred CHHHHHHHHHHHHHHHHHheecChhhEEEEEEe
Confidence 366678888999999999999999999999884
No 184
>TIGR00133 gatB glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, B subunit. The heterotrimer GatABC is responsible for transferring the NH2 group that converts Glu to Gln, or Asp to Asn after the Glu or Asp has been ligated to the tRNA for Gln or Asn, respectively. In Lactobacillus, GatABC is responsible only for tRNA(Gln). In the Archaea, GatABC is responsible only for tRNA(Asn), while GatDE is responsible for tRNA(Gln). In lineages that include Thermus, Chlamydia, or Acidithiobacillus, the GatABC complex catalyzes both.
Probab=35.13 E-value=1.1e+02 Score=24.65 Aligned_cols=65 Identities=14% Similarity=0.240 Sum_probs=43.1
Q ss_pred CCeEEEEeCCC-CCCcChHHHHHHHHHHHHHHhCCCCc-------EEEEEEeCCceeeecCCCCCeeEEEEEeeeCCC
Q 033334 1 MPCLNISTNVK-LDGVDTSSILSEATSTVANIIGKPEA-------YVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLN 70 (121)
Q Consensus 1 MP~i~i~tn~~-~~~~~~~~~~~~l~~~~~~~~~kp~~-------~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~ 70 (121)
+|+++|.|--. .++++..+|++.|.+.+--. |.... ++-|.|. +...|+....+.+||+.+..+.
T Consensus 151 vPLiEIVTePd~~s~eeA~~~~~~L~~ilr~~-gvsdg~me~GslR~DvNVS----ir~~g~~~~g~RvEIKNlnS~~ 223 (478)
T TIGR00133 151 APLIEIVTKPDINSPKEARAFLKKLRQILRYL-GISDGNLEEGSMRCDVNVS----IRLKGQEHLGTRVEIKNINSFK 223 (478)
T ss_pred CceEEEecCCCCCCHHHHHHHHHHHHHHHHHh-CCCCCCcccCceeeeeeee----cccCCCCCCcCeeEEeCcccHH
Confidence 69999988777 45566778999988777655 65443 2222222 2223555678899999988764
No 185
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=35.08 E-value=47 Score=18.67 Aligned_cols=24 Identities=17% Similarity=0.266 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
.+.+.+.+++..|+|+++..+.|.
T Consensus 23 V~~lK~~i~~~~g~~~~~q~L~~~ 46 (76)
T cd01803 23 IENVKAKIQDKEGIPPDQQRLIFA 46 (76)
T ss_pred HHHHHHHHHHHhCCCHHHeEEEEC
Confidence 566777888888999999888874
No 186
>PRK07658 enoyl-CoA hydratase; Provisional
Probab=34.79 E-value=1.7e+02 Score=20.91 Aligned_cols=52 Identities=15% Similarity=0.134 Sum_probs=34.8
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+....-..+++.++.+++.++-..|.-++.|---.+..|+-|++
T Consensus 12 v~~itl~rp~~Nal~~~~~~~l~~~l~~~~~d~~vr~vvl~g~g~~F~aG~D 63 (257)
T PRK07658 12 VAVITLNHPPANALSSQVLHELSELLDQVEKDDNVRVVVIHGEGRFFSAGAD 63 (257)
T ss_pred EEEEEECCCCCCCCCHHHHHHHHHHHHHHHhCCCceEEEEECCCCceEeCcC
Confidence 4567777663333356888999999988877676666664445566776664
No 187
>PRK00341 hypothetical protein; Provisional
Probab=34.72 E-value=69 Score=19.57 Aligned_cols=36 Identities=22% Similarity=0.254 Sum_probs=22.9
Q ss_pred CeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 57 PAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 57 p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
||.-..++.+|.- ...+..++.+.++++.....+.+
T Consensus 14 Pc~~~~~KViG~~----~~~~~~~V~~iv~~~~~~~~~~~ 49 (91)
T PRK00341 14 PCEDYPIKVIGDT----GVGFKDLVIEILQKHADVDLSTL 49 (91)
T ss_pred CCCCccEEEEEcC----chhHHHHHHHHHHHhCCCcccce
Confidence 7765689999943 34455667777777665444433
No 188
>KOG2250 consensus Glutamate/leucine/phenylalanine/valine dehydrogenases [Amino acid transport and metabolism]
Probab=34.60 E-value=68 Score=26.00 Aligned_cols=44 Identities=7% Similarity=0.052 Sum_probs=36.0
Q ss_pred CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeehh
Q 033334 68 GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAVH 119 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~~ 119 (121)
+.+..+-++++.++++.+.+..|...| ++++++|.+++.++.+.
T Consensus 154 ~~s~nEi~r~~~~f~~el~~~iGp~~D--------vPapdig~G~rEm~~if 197 (514)
T KOG2250|consen 154 GKSDNEIERITRRFTDELIDIIGPDTD--------VPAPDIGTGPREMGWIF 197 (514)
T ss_pred ccchHHHHHHHHHHHHHHHHHcCCCCC--------CCccccccCcchhhhhH
Confidence 345677888999999999998887776 99999999998887653
No 189
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=34.52 E-value=1.3e+02 Score=19.55 Aligned_cols=29 Identities=7% Similarity=0.295 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..-+.+.++.+.+.||++.+++.+.|+..
T Consensus 40 ~~~~~~~~~~v~~~l~~~~~~~~~~fqS~ 68 (135)
T cd00419 40 PDQCEETARLVAERLGLPFDEYELAYQSR 68 (135)
T ss_pred HHHHHHHHHHHHHHhCCCCCCEEEEecCC
Confidence 44555667778888898888899999873
No 190
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=34.46 E-value=86 Score=22.95 Aligned_cols=29 Identities=7% Similarity=0.300 Sum_probs=22.5
Q ss_pred ChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 70 NPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 70 ~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
+.+.+.++.+.+.+.+. +.||+++++++-
T Consensus 132 t~~~~~~~l~~~v~~a~-~~GI~~~~IilD 160 (261)
T PRK07535 132 DAEDRLAVAKELVEKAD-EYGIPPEDIYID 160 (261)
T ss_pred CHHHHHHHHHHHHHHHH-HcCCCHhHEEEe
Confidence 45666777777777776 779999999874
No 191
>PF01227 GTP_cyclohydroI: GTP cyclohydrolase I; InterPro: IPR020602 GTP cyclohydrolase I (3.5.4.16 from EC) catalyses the biosynthesis of formic acid and dihydroneopterin triphosphate from GTP. This reaction is the first step in the biosynthesis of tetrahydrofolate in prokaryotes, of tetrahydrobiopterin in vertebrates, and of pteridine-containing pigments in insects. The comparison of the sequence of the enzyme from bacterial and eukaryotic sources shows that the structure of this enzyme has been extremely well conserved throughout evolution []. NADPH-dependent nitrile oxidoreductases are involved in the biosynthesis of queuosine, a 7-deazaguanine-modified nucleoside found in tRNA(GUN) of bacteria and eukaryotes []. This entry represents a common fold found in GTP cyclohydrolase I and NADPH-dependent nitrile oxidoreducases [].; PDB: 1A8R_E 1GTP_L 1N3R_O 1N3T_O 1FBX_I 1N3S_B 1A9C_I 1IS8_E 1IS7_G 1WPL_F ....
Probab=34.09 E-value=1.2e+02 Score=21.00 Aligned_cols=62 Identities=13% Similarity=0.228 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCee-EEEEEeeeCC--ChhHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAA-YGELVSIGGL--NPDVNKKLSA 79 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~-~v~i~~~g~~--~~e~~~~~~~ 79 (121)
++.+..++.+++.+.++-..-.+.+.-..-+...+ |.-++.+ .+.....|.+ +++.+.++-.
T Consensus 112 QERLT~qIa~~l~~~l~p~gV~V~i~A~H~Cm~~R-Gv~~~~s~t~T~a~~G~f~~d~~~r~ef~~ 176 (179)
T PF01227_consen 112 QERLTRQIADALEEILGPKGVAVVIEAEHMCMTMR-GVRKPGSRTVTSAFRGAFAEDPSLRQEFLS 176 (179)
T ss_dssp HHHHHHHHHHHHHHHHTSSEEEEEEEEEEHHHHSS-TTT-SS-EEEEEEEEEHHHHSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEeccCCcccc-CccCCCCEEEEEEEEeEeCCCHHHHHHHHH
Confidence 57888999999999996322233333333343344 4444444 4444445555 5666665544
No 192
>PF08774 VRR_NUC: VRR-NUC domain; InterPro: IPR014883 This entry contains proteins with the VRR-NUC domain. It is associated with members of the PD-(D/E)XK nuclease superfamily, which include the type III restriction modification enzymes, for example StyLTI: (P40815 from SWISSPROT).; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=34.01 E-value=1.1e+02 Score=18.45 Aligned_cols=21 Identities=19% Similarity=0.275 Sum_probs=16.7
Q ss_pred CeeEEEEEeeeC-CChhHHHHH
Q 033334 57 PAAYGELVSIGG-LNPDVNKKL 77 (121)
Q Consensus 57 p~~~v~i~~~g~-~~~e~~~~~ 77 (121)
.+.+||++..++ ++++|+.-+
T Consensus 62 ~~~~iEvK~p~~~ls~~Q~~~~ 83 (100)
T PF08774_consen 62 IFLFIEVKGPGDRLSPNQKEWI 83 (100)
T ss_pred EEEEEEEcCCCCCcCHHHHHHH
Confidence 489999999976 678886555
No 193
>KOG2112 consensus Lysophospholipase [Lipid transport and metabolism]
Probab=33.94 E-value=91 Score=22.24 Aligned_cols=66 Identities=15% Similarity=0.114 Sum_probs=42.1
Q ss_pred CCCcEEEEEEeCCceeeecCCCCCe--eEEEEEeeeCCChhHHHHHHHHHHHHHHHHh--CCCCCeEEEE
Q 033334 34 KPEAYVMIVLKGSVPMSFGGTEDPA--AYGELVSIGGLNPDVNKKLSAAISAILEKKL--SVPKSRFFIK 99 (121)
Q Consensus 34 kp~~~i~v~v~~~~~~~~gg~~~p~--~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l--gi~~~ri~i~ 99 (121)
+..+||+=+-.......++|-.-|+ -.+++..-+..+.+...+-+..+..++.++. ||+++||.|-
T Consensus 29 ~NiKwIcP~aP~rpvt~~~G~~~~aWfd~~~~~~~~~~d~~~~~~aa~~i~~Li~~e~~~Gi~~~rI~ig 98 (206)
T KOG2112|consen 29 PNIKWICPTAPSRPVTLNGGAFMNAWFDIMELSSDAPEDEEGLHRAADNIANLIDNEPANGIPSNRIGIG 98 (206)
T ss_pred CCeeEEcCCCCCCcccccCCCcccceecceeeCcccchhhhHHHHHHHHHHHHHHHHHHcCCCccceeEc
Confidence 3345665543333345556554443 2344444455677788888888999998877 7999999874
No 194
>COG1529 CoxL Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]
Probab=33.78 E-value=48 Score=28.04 Aligned_cols=43 Identities=9% Similarity=0.075 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEEEEE--EeCCCCCceeCCceee
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFFIKF--YDTKAHQSREHAQCLH 116 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~i~f--~~~~~~~~g~~G~~~~ 116 (121)
-......+.+.+.+.||||.++|.+.. .++.+..||-.|++..
T Consensus 466 G~G~~t~~~q~~ae~lgip~~~V~v~~gDt~~~~~~~~s~GS~~~ 510 (731)
T COG1529 466 GQGTDTVLAQIAAEELGIPPDDVEVVHGDTDVPVGGWGSVGSRGT 510 (731)
T ss_pred CCcHHHHHHHHHHHHhCCCHHHEEEEecCCCCCCCCCCCcCcccc
Confidence 346667788888999999999999999 5566667777776544
No 195
>PF07387 Seadorna_VP7: Seadornavirus VP7; InterPro: IPR009973 This family consists of several Seadornavirus specific VP7 proteins of around 305 residues in length. The function of this family is unknown.
Probab=33.67 E-value=1.6e+02 Score=21.93 Aligned_cols=40 Identities=13% Similarity=0.217 Sum_probs=33.2
Q ss_pred eCCC-hhHHHHHHHHHHHHHHHHhCCCCCeE-----EEEEEeCCCC
Q 033334 67 GGLN-PDVNKKLSAAISAILEKKLSVPKSRF-----FIKFYDTKAH 106 (121)
Q Consensus 67 g~~~-~e~~~~~~~~i~~~l~~~lgi~~~ri-----~i~f~~~~~~ 106 (121)
.+++ .+++..|...+.+..++.+.++.+.+ |+...+..+.
T Consensus 203 ~~lT~~aE~~~fv~s~l~~v~~~~~~~~~eifi~~~Yl~L~e~~~~ 248 (308)
T PF07387_consen 203 ESLTQEAEVKVFVKSCLKLVEKQRSAETEEIFIKDGYLNLKEVNPD 248 (308)
T ss_pred cccChHHHHHHHHHHHHHHHHHHhcCcHhhhcccccEEEccccCCC
Confidence 3454 77899999999999999999999999 7777776543
No 196
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=33.60 E-value=52 Score=18.46 Aligned_cols=26 Identities=15% Similarity=0.299 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 77 LSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 77 ~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
-.+.+.+.+++..|+|+++..+.|.-
T Consensus 20 tV~~lK~~i~~~~gi~~~~q~Li~~G 45 (70)
T cd01798 20 DIKQLKEVVAKRQGVPPDQLRVIFAG 45 (70)
T ss_pred hHHHHHHHHHHHHCCCHHHeEEEECC
Confidence 34567788888899999998887653
No 197
>PF07985 SRR1: SRR1; InterPro: IPR012942 Sensitivity To Red Light Reduced proteins (SRR1) are signalling proteins thought to be involved in regulating the circadian clock input pathway, which is required for normal oscillator function. In Arabidopsis thaliana it regulates the expression of clock-regulated genes such as CCA1 and TOC1. It is also involved in both the phytochrome B (PHYB) and PHYB-independent signaling pathways [].
Probab=33.35 E-value=88 Score=17.16 Aligned_cols=35 Identities=20% Similarity=0.451 Sum_probs=25.9
Q ss_pred eeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 65 SIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 65 ~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
-+|..+......+--++.-.+.+.++++..++++.
T Consensus 6 GLGsf~~~~~a~~QLA~ll~l~~~l~~~~~~v~~y 40 (56)
T PF07985_consen 6 GLGSFSSSRSARYQLALLLLLKEELSIPRDQVSIY 40 (56)
T ss_pred EecCccccccHHHHHHHHHHHHHHhCCCCCcEEEE
Confidence 34556656666666777888999999998888765
No 198
>PF10107 Endonuc_Holl: Endonuclease related to archaeal Holliday junction resolvase; InterPro: IPR019287 This domain is found in various predicted bacterial endonucleases which are distantly related to archaeal Holliday junction resolvases.
Probab=32.99 E-value=1e+02 Score=21.02 Aligned_cols=38 Identities=13% Similarity=0.193 Sum_probs=23.3
Q ss_pred HHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEee-eC-CChhH
Q 033334 30 NIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSI-GG-LNPDV 73 (121)
Q Consensus 30 ~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~-g~-~~~e~ 73 (121)
.-+|+|-+||.-.=..+ |...-..|++|++- ++ ++..+
T Consensus 97 RFlG~PVD~IvF~Gls~------~~~~eIvfiEVKtGk~~~Lt~rE 136 (156)
T PF10107_consen 97 RFLGSPVDFIVFDGLSD------GNIIEIVFIEVKTGKSARLTKRE 136 (156)
T ss_pred eecCCCceEEEEcCCCC------CCcceEEEEEeccCCCcccCHHH
Confidence 45677777765422211 45677899999986 33 55444
No 199
>COG0851 MinE Septum formation topological specificity factor [Cell division and chromosome partitioning]
Probab=32.98 E-value=1.2e+02 Score=18.62 Aligned_cols=36 Identities=19% Similarity=0.373 Sum_probs=30.5
Q ss_pred CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 68 GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
+..|+.-..+=++|.+.+.+...|.++.+-+.+..-
T Consensus 33 ~~~pd~l~~Lr~eIl~VI~KYV~id~d~v~v~~e~~ 68 (88)
T COG0851 33 GLQPDYLEQLRKEILEVISKYVQIDPDKVEVSLERD 68 (88)
T ss_pred CCCcchHHHHHHHHHHHHHHHheeCcccEEEEEcCC
Confidence 356778888899999999999999999999987653
No 200
>PRK05250 S-adenosylmethionine synthetase; Validated
Probab=32.89 E-value=2.4e+02 Score=22.13 Aligned_cols=37 Identities=16% Similarity=0.212 Sum_probs=28.0
Q ss_pred EEeCCCCCCcChHHHHHHHHHHHHHHh--CCCCcEEEEE
Q 033334 6 ISTNVKLDGVDTSSILSEATSTVANII--GKPEAYVMIV 42 (121)
Q Consensus 6 i~tn~~~~~~~~~~~~~~l~~~~~~~~--~kp~~~i~v~ 42 (121)
+.|+.+.+.--|+.++.++++++.+.. .-|..++.+.
T Consensus 4 lfTSESV~eGHPDKicDqISDaILD~~L~~Dp~srVA~E 42 (384)
T PRK05250 4 LFTSESVSEGHPDKIADQISDAILDAILAQDPNARVACE 42 (384)
T ss_pred eEeecCCCCCCCcHHHHHHHHHHHHHHHhhCCCCcEEEE
Confidence 578888777669999999999998843 3455566654
No 201
>COG1907 Predicted archaeal sugar kinases [General function prediction only]
Probab=32.24 E-value=1.9e+02 Score=22.00 Aligned_cols=60 Identities=12% Similarity=0.040 Sum_probs=38.2
Q ss_pred CCCeeEEEEEeeeCCC--hhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeeh
Q 033334 55 EDPAAYGELVSIGGLN--PDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAV 118 (121)
Q Consensus 55 ~~p~~~v~i~~~g~~~--~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~ 118 (121)
..|..-|+++-..... .+..+ .++.+.+...|..+ ..++|.+...-|.+.|.+.+|.-.|
T Consensus 33 e~P~l~i~~~~s~~~~~~ge~~~---~~~~~~a~~~le~~-~gv~I~I~~~~P~HvGLGS~TQlaL 94 (312)
T COG1907 33 EEPRLEIEAKPSDDIEVDGEDRR---ERVEKAARLVLEVG-EGVKIEIRSDIPAHVGLGSTTQLAL 94 (312)
T ss_pred eCCceEEEEeccccccccchhhH---HHHHHHHHHhhccc-CceEEEEEecCchhcCCChHHHHHH
Confidence 3676666665332221 12221 44555555666555 7789999999999999999886543
No 202
>PF00378 ECH: Enoyl-CoA hydratase/isomerase family; InterPro: IPR001753 The crotonase superfamily is comprised of mechanistically diverse proteins that share a conserved trimeric quaternary structure (sometimes a hexamer consisting of a dimer of trimers), the core of which consists of 4 turns of a (beta/beta/alpha)n superhelix. Some enzymes in the superfamily have been shown to display dehalogenase, hydratase, and isomerase activities, while others have been implicated in carbon-carbon bond formation and cleavage as well as the hydrolysis of thioesters []. However, these different enzymes share the need to stabilise an enolate anion intermediate derived from an acyl-CoA substrate. This is accomplished by two structurally conserved peptidic NH groups that provide hydrogen bonds to the carbonyl moieties of the acyl-CoA substrates and form an "oxyanion hole". The CoA thioester derivatives bind in a characteristic hooked shape and a conserved tunnel binds the pantetheine group of CoA, which links the 3'-phosphate ADP binding site to the site of reaction []. Enzymes in the crotonase superfamily include: Enoyl-CoA hydratase (crotonase; 4.2.1.17 from EC), which catalyses the hydratation of 2-trans-enoyl-CoA into 3-hydroxyacyl-CoA []. 3-2trans-enoyl-CoA isomerase (or dodecenoyl-CoA isomerise; 5.3.3.8 from EC), which shifts the 3-double bond of the intermediates of unsaturated fatty acid oxidation to the 2-trans position []. 3-hydroxbutyryl-CoA dehydratase (crotonase; 4.2.1.55 from EC), a bacterial enzyme involved in the butyrate/butanol-producing pathway. 4-Chlorobenzoyl-CoA dehalogenase (3.8.1.6 from EC), a Pseudomonas enzyme which catalyses the conversion of 4-chlorobenzoate-CoA to 4-hydroxybenzoate-CoA []. Dienoyl-CoA isomerise, which catalyses the isomerisation of 3-trans,5-cis-dienoyl-CoA to 2-trans,4-trans-dienoyl-CoA []. Naphthoate synthase (MenB, or DHNA synthetase; 4.1.3.36 from EC), a bacterial enzyme involved in the biosynthesis of menaquinone (vitamin K2) []. Carnitine racemase (gene caiD), which catalyses the reversible conversion of crotonobetaine to L-carnitine in Escherichia coli []. Methylmalonyl CoA decarboxylase (MMCD; 4.1.1.41 from EC), which has a hexameric structure (dimer of trimers) []. Carboxymethylproline synthase (CarB), which is involved in carbapenem biosynthesis []. 6-oxo camphor hydrolase, which catalyses the desymmetrisation of bicyclic beta-diketones to optically active keto acids []. The alpha subunit of fatty oxidation complex, a multi-enzyme complex that catalyses the last three reactions in the fatty acid beta-oxidation cycle []. AUH protein, a bifunctional RNA-binding homologue of enoyl-CoA hydratase []. This entry represents the core domain found in crotonase superfamily members.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2VRE_B 3RSI_A 1HZD_F 2ZQR_E 2ZQQ_D 3R9S_C 1O8U_E 1SZO_C 3MOY_A 2UZF_A ....
Probab=32.18 E-value=70 Score=22.65 Aligned_cols=83 Identities=13% Similarity=0.212 Sum_probs=53.5
Q ss_pred eEEEEeCCC-CCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHH
Q 033334 3 CLNISTNVK-LDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAI 81 (121)
Q Consensus 3 ~i~i~tn~~-~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i 81 (121)
+..|+.|-+ ....-..+++.++.+++.++-.-+.-++.|.-..+..|+.|++- ..+...+.+..+.+...+
T Consensus 8 v~~i~ln~p~~~N~l~~~~~~~l~~~l~~~~~d~~v~vvv~~~~~~~F~~G~Dl--------~~~~~~~~~~~~~~~~~~ 79 (245)
T PF00378_consen 8 VATITLNRPEKRNALNPEMLDELEEALDEAEADPDVKVVVISGGGKAFCAGADL--------KEFLNSDEEEAREFFRRF 79 (245)
T ss_dssp EEEEEEECGGGTTEBSHHHHHHHHHHHHHHHHSTTESEEEEEESTSESBESB-H--------HHHHHHHHHHHHHHHHHH
T ss_pred EEEEEECCCCCCCCCCHHHHHHHHHHHHHHHhcCCccEEEEeecccccccccch--------hhhhccccccccccchhh
Confidence 456777776 22233568999999999998877765555544445556555431 111112566778888888
Q ss_pred HHHHHHHhCCCC
Q 033334 82 SAILEKKLSVPK 93 (121)
Q Consensus 82 ~~~l~~~lgi~~ 93 (121)
.+++......|+
T Consensus 80 ~~l~~~l~~~~k 91 (245)
T PF00378_consen 80 QELLSRLANFPK 91 (245)
T ss_dssp HHHHHHHHHSSS
T ss_pred ccccccchhhhh
Confidence 888888777775
No 203
>PF13092 CENP-L: Kinetochore complex Sim4 subunit Fta1
Probab=32.01 E-value=1.1e+02 Score=20.64 Aligned_cols=43 Identities=7% Similarity=0.041 Sum_probs=31.4
Q ss_pred ChhHHHHHHHHHHHHHHHHhCCCCC--eEEEEEEeCCCCCceeCC
Q 033334 70 NPDVNKKLSAAISAILEKKLSVPKS--RFFIKFYDTKAHQSREHA 112 (121)
Q Consensus 70 ~~e~~~~~~~~i~~~l~~~lgi~~~--ri~i~f~~~~~~~~g~~G 112 (121)
+.++..-+.+++.+++.+++++.-+ .+.+.=..+..--.|..|
T Consensus 110 ~~~~~~~F~~aL~~y~~~hl~l~L~~~~~~L~kI~~~~~~l~~eG 154 (162)
T PF13092_consen 110 TQEEVSPFMEALSSYFYRHLALDLDHPAVRLSKISCGGFVLGSEG 154 (162)
T ss_pred ccccccHHHHHHHHHHHHHhCCCcccceeEEEEEecceeEeecCC
Confidence 4566688999999999999999998 666665555444444444
No 204
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=31.95 E-value=1.1e+02 Score=18.03 Aligned_cols=40 Identities=20% Similarity=0.206 Sum_probs=25.8
Q ss_pred eeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 58 AAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 58 ~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
....+.+...+.+-. .+.+.|....|++++...+.+.+-.
T Consensus 12 ~~~~ekr~~~~~Tv~-------~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 12 SFSFEKKYSRGLTIA-------ELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred ceeeeEecCCCCcHH-------HHHHHHHHHHCCCccceEEEEEcCC
Confidence 344554444444433 3566677778999999999876654
No 205
>PF03776 MinE: Septum formation topological specificity factor MinE; InterPro: IPR005527 Cytokinesis needs to be regulated spatially in order to ensure that it occurs between the daughter genomes. In prokaryotes such as Escherichia coli, cytokinesis is initiated by FtsZ, a tubulin-like protein that assembles into a ring structure at the cell centre called the Z ring. A fundamental problem in prokaryotic cell biology is to understand how the midcell division site is identified. Two major negative regulatory systems are known to be involved in preventing Z-ring assembly at all sites except the midcell. One of these systems, called nucleoid occlusion, blocks Z-ring assembly in the area occupied by an unsegregated nucleoid until a critical stage in chromosome replication or segregation is reached. The other system consists of three proteins, MinC, MinD and MinE, which prevent assembly of Z rings in regions of the cell not covered by the nucleoid, such as the cell poles. MinC is an inhibitor of FtsZ polymerisation, resulting in the inhibition of Z ring assembly in the cell; MinD greatly enhances the inhibitory effects of MinC in vivo; and MinE antagonizes the effects of MinC and MinD []. MinE is a small bifunctional protein. The amino terminus of MinE is required to interact with MinD, while the carboxyl terminus is required for `topological specificity' - that is, the ability of MinE to antagonise MinCD inhibition of Z rings at the midcell position but not at the poles.; GO: 0032955 regulation of barrier septum formation, 0051301 cell division; PDB: 2KXO_A 3MCD_B 3KU7_A 3R9J_C 3R9I_E 1EV0_B.
Probab=31.66 E-value=1.1e+02 Score=17.68 Aligned_cols=36 Identities=22% Similarity=0.437 Sum_probs=27.4
Q ss_pred eCCCh--hHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 67 GGLNP--DVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 67 g~~~~--e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
++.++ +.-.++-+.|.+.+++...|.++++-|.+..
T Consensus 18 ~~~~~~~~~l~~lk~eil~viskYv~i~~~~v~v~l~~ 55 (70)
T PF03776_consen 18 GGLSPQPDYLEQLKKEILEVISKYVEIDEEDVEVQLER 55 (70)
T ss_dssp CSC-CTTSSHHHHHHHHHHHHHHHS---CCCEEEEEEE
T ss_pred cCCCCcHHHHHHHHHHHHHHHHhheecCcccEEEEEEE
Confidence 34555 7888899999999999999999999999984
No 206
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=31.64 E-value=2e+02 Score=20.66 Aligned_cols=37 Identities=8% Similarity=0.124 Sum_probs=30.3
Q ss_pred ChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCC
Q 033334 70 NPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAH 106 (121)
Q Consensus 70 ~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~ 106 (121)
.+.+-..++.+-..-+....+|+..++++..+|++-.
T Consensus 98 rp~qymN~SgesV~kva~~y~i~~~~ivvIhDEl~l~ 134 (224)
T KOG2255|consen 98 RPQQYMNFSGESVGKVAALYKIPLRHIVVIHDELELP 134 (224)
T ss_pred CcHhhhccccchhhhhHHhhcchheeEEEEeccccCc
Confidence 4567777777777778888999999999999998654
No 207
>PF08968 DUF1885: Domain of unknown function (DUF1885); InterPro: IPR015062 This family consists of hypothetical proteins produced by bacteria of the Bacillus genus. ; PDB: 1T6A_A.
Probab=31.62 E-value=89 Score=20.52 Aligned_cols=44 Identities=25% Similarity=0.308 Sum_probs=21.2
Q ss_pred CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh----CCCCCeEE
Q 033334 53 GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL----SVPKSRFF 97 (121)
Q Consensus 53 g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l----gi~~~ri~ 97 (121)
|+...-.||+|....+-+-..|- -+.++|++|.+.| .+=..|++
T Consensus 78 g~e~e~~~IQv~LP~~AThGDK~-KANEfckfLAk~l~~EL~LFNGR~m 125 (130)
T PF08968_consen 78 GTENEQSYIQVVLPDGATHGDKG-KANEFCKFLAKKLKGELHLFNGRTM 125 (130)
T ss_dssp EEETTEEEEEEE--TT--HHHHH-HHHHHHHHHHHHH-EEEE-TTS-EE
T ss_pred ccCCcceEEEEECCCCCccCcch-hHHHHHHHHHHHhhheeEEecCeeE
Confidence 44556789999988775533322 2334555555554 44444543
No 208
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=31.47 E-value=1.2e+02 Score=18.11 Aligned_cols=33 Identities=15% Similarity=0.126 Sum_probs=24.7
Q ss_pred CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHH
Q 033334 53 GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKK 88 (121)
Q Consensus 53 g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~ 88 (121)
....|+|+|+=..+.+-++++ +.++|.+.+.+.
T Consensus 43 C~~~pFAlVnG~~V~A~t~ee---L~~kI~~~i~e~ 75 (78)
T PF07293_consen 43 CAKKPFALVNGEIVAAETAEE---LLEKIKEKIEEN 75 (78)
T ss_pred CCCCccEEECCEEEecCCHHH---HHHHHHHHHhcc
Confidence 367999999987777766655 777777777654
No 209
>PTZ00044 ubiquitin; Provisional
Probab=31.40 E-value=60 Score=18.40 Aligned_cols=25 Identities=8% Similarity=0.163 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.+...+++..|+|++...+.|..
T Consensus 23 v~~lK~~i~~~~gi~~~~q~L~~~g 47 (76)
T PTZ00044 23 VQQVKMALQEKEGIDVKQIRLIYSG 47 (76)
T ss_pred HHHHHHHHHHHHCCCHHHeEEEECC
Confidence 4667778888999999988888743
No 210
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=31.36 E-value=87 Score=19.11 Aligned_cols=24 Identities=29% Similarity=0.497 Sum_probs=15.8
Q ss_pred HHHHHHHHHHhCCC-CCeEEEEEEe
Q 033334 79 AAISAILEKKLSVP-KSRFFIKFYD 102 (121)
Q Consensus 79 ~~i~~~l~~~lgi~-~~ri~i~f~~ 102 (121)
+.+.++|.+.|+++ .+.+++.++.
T Consensus 29 ~~vi~fLrk~Lk~~~~~slFlYin~ 53 (87)
T PF04110_consen 29 ATVIAFLRKKLKLKPSDSLFLYINN 53 (87)
T ss_dssp HHHHHHHHHHCT----SS-EEEEEE
T ss_pred HHHHHHHHHHhCCccCCeEEEEEcC
Confidence 45899999999984 5677776655
No 211
>PF10850 DUF2653: Protein of unknown function (DUF2653); InterPro: IPR020516 This entry contains proteins with no known function.
Probab=30.83 E-value=1.3e+02 Score=18.52 Aligned_cols=75 Identities=20% Similarity=0.149 Sum_probs=51.5
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
.+++..++|-.+|+--+.-.+-+.|.+.-+...-|+ .++..-|....---..+..+|-.++.+.+++.|.+-
T Consensus 7 EqeIiNAvCl~~A~~~~i~P~dVeVeL~yDdd~GFs--------AEv~~ngr~q~l~~~nlieAIr~~l~~~~~~~p~~~ 78 (91)
T PF10850_consen 7 EQEIINAVCLHIAERKGIQPEDVEVELMYDDDYGFS--------AEVWVNGRSQYLIEANLIEAIRQYLEEEYNMDPFRA 78 (91)
T ss_pred HHHHHHHHHHHHHHhcCCCcccEEEEEEEecCCCee--------EEEEECCeEEEEchhhHHHHHHHHHHHHhCCCcchh
Confidence 467888999999999887777777766554443333 344444432233335689999999999999998764
Q ss_pred EEE
Q 033334 97 FIK 99 (121)
Q Consensus 97 ~i~ 99 (121)
-|.
T Consensus 79 ~i~ 81 (91)
T PF10850_consen 79 GIE 81 (91)
T ss_pred heE
Confidence 443
No 212
>KOG2772 consensus Transaldolase [Carbohydrate transport and metabolism]
Probab=30.81 E-value=1.1e+02 Score=23.30 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+..|.++ -++.|||++||+|.+-.
T Consensus 124 A~~Likl-y~~~gv~k~rvliKI~s 147 (337)
T KOG2772|consen 124 ARHLIKL-YNEEGVPKERVLIKIAS 147 (337)
T ss_pred HHHHHHH-HHhcCCChheEEEeccc
Confidence 3334443 35669999999999754
No 213
>PF07579 DUF1548: Domain of Unknown Function (DUF1548); InterPro: IPR013044 This domain is found in a small number of Chlamydia proteins of unknown function. It occurs together with IPR011436 from INTERPRO.
Probab=30.73 E-value=74 Score=21.11 Aligned_cols=25 Identities=16% Similarity=0.344 Sum_probs=22.3
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKS 94 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ 94 (121)
-+|+++..+..-+++.+ +.+|+|..
T Consensus 79 sspe~~~~i~~yll~~l-~~l~lPe~ 103 (135)
T PF07579_consen 79 SSPEQKAAIRNYLLDDL-NALNLPET 103 (135)
T ss_pred CCHHHHHHHHHHHHHHH-HHcCCChH
Confidence 57999999999999999 99999964
No 214
>cd00740 MeTr MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=30.67 E-value=1.1e+02 Score=22.31 Aligned_cols=31 Identities=10% Similarity=0.164 Sum_probs=24.6
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+.+.+.++.+++.+.+.+..|++++|+++-
T Consensus 134 ~t~~~~~~~~~~~~~~~~~~~gi~~~~IiiD 164 (252)
T cd00740 134 KTRDKKVEIAERAYEALTEFVGFPPEDIIFD 164 (252)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCHHHEEEe
Confidence 3556677788888888888889999999874
No 215
>COG5488 Integral membrane protein [Function unknown]
Probab=30.66 E-value=78 Score=21.55 Aligned_cols=22 Identities=45% Similarity=0.640 Sum_probs=18.2
Q ss_pred eeC-CChhHHHHHHHHHHHHHHH
Q 033334 66 IGG-LNPDVNKKLSAAISAILEK 87 (121)
Q Consensus 66 ~g~-~~~e~~~~~~~~i~~~l~~ 87 (121)
+|. ++|++++.+++++.+.|..
T Consensus 139 ig~fL~Pd~Re~fa~af~~aLat 161 (164)
T COG5488 139 IGRFLNPDDRESFAAAFSRALAT 161 (164)
T ss_pred hhcccChHHHHHHHHHHHHHHHh
Confidence 344 6899999999999988764
No 216
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=30.54 E-value=90 Score=23.21 Aligned_cols=39 Identities=13% Similarity=0.159 Sum_probs=29.7
Q ss_pred CCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh
Q 033334 45 GSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL 89 (121)
Q Consensus 45 ~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l 89 (121)
|+.++.+=|.+..+-| |.+++++-++++.+++++|.+.-
T Consensus 29 P~e~~iY~~D~a~~PY------G~ks~e~I~~~~~~i~~~l~~~~ 67 (269)
T COG0796 29 PDEDIIYVGDTARFPY------GEKSEEEIRERTLEIVDFLLERG 67 (269)
T ss_pred CCCcEEEEecCCCCCC------CCCCHHHHHHHHHHHHHHHHHcC
Confidence 4555555555555444 77999999999999999998874
No 217
>COG3252 Methenyltetrahydromethanopterin cyclohydrolase [Coenzyme metabolism]
Probab=30.40 E-value=48 Score=24.64 Aligned_cols=39 Identities=18% Similarity=0.150 Sum_probs=27.8
Q ss_pred CeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 57 PAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 57 p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..+.+.+.+-+ ++.| +..+++.+++|+.++++|+.....
T Consensus 132 dvAvL~lEs~~-LP~e-------~vae~vA~ecgV~~EnVyllvapT 170 (314)
T COG3252 132 DVAVLTLESDK-LPDE-------KVAEYVAKECGVEPENVYLLVAPT 170 (314)
T ss_pred ceEEEEEecCC-CCch-------HHHHHHHHHcCCChhheEEEeccc
Confidence 34555555533 5544 367888999999999999987654
No 218
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=30.33 E-value=63 Score=18.37 Aligned_cols=24 Identities=17% Similarity=0.256 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
.+.+.+.+++..|+|+++..+.|.
T Consensus 22 V~~lK~~I~~~~gip~~~q~Li~~ 45 (71)
T cd01796 22 LENFKALCEAESGIPASQQQLIYN 45 (71)
T ss_pred HHHHHHHHHHHhCCCHHHeEEEEC
Confidence 345667788888999998888764
No 219
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=30.29 E-value=1.3e+02 Score=18.09 Aligned_cols=34 Identities=24% Similarity=0.138 Sum_probs=22.4
Q ss_pred eEEEEEeee-CCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 59 AYGELVSIG-GLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 59 ~~v~i~~~g-~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
.-+...+.. .++.++-.++..++.+.|++.+|+.
T Consensus 58 ~rl~~~~~~~TLt~~ev~~~~~~i~~~l~~~~~~~ 92 (94)
T PF03147_consen 58 YRLTYQSPDRTLTDEEVNEIHDKIIKALEKKLGAE 92 (94)
T ss_dssp EEEEE--SSS---HHHHHHHHHHHHHHHHHTCT-B
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHHHHHHHHhCcE
Confidence 344445543 4789999999999999999999874
No 220
>COG5609 Uncharacterized conserved protein [Function unknown]
Probab=30.20 E-value=96 Score=20.23 Aligned_cols=31 Identities=19% Similarity=0.255 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 72 DVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 72 e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
..-++++++++.+-.+.||=.|.+|...|.+
T Consensus 7 ~~e~EiS~~i~~~~ke~lGrgp~sI~t~f~~ 37 (124)
T COG5609 7 QKESEISKAITSLEKEYLGRGPVSIKTDFLD 37 (124)
T ss_pred hHHHHHHHHHHHHHHHHhCCCCceeEeehhh
Confidence 3446899999999999999999999999876
No 221
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=30.03 E-value=63 Score=18.69 Aligned_cols=23 Identities=9% Similarity=-0.036 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
...+.+.+++..|+|++|.-+.+
T Consensus 22 v~~lK~~i~~~tgvp~~~QKLi~ 44 (74)
T cd01813 22 VLDLKQFIKTLTGVLPERQKLLG 44 (74)
T ss_pred HHHHHHHHHHHHCCCHHHEEEEe
Confidence 34577788888999999999997
No 222
>PRK04980 hypothetical protein; Provisional
Probab=29.91 E-value=1.5e+02 Score=18.70 Aligned_cols=54 Identities=11% Similarity=0.236 Sum_probs=31.1
Q ss_pred eCCceeeec--CCCCCeeEEEEEeeeCCC-hhHHHHHH-------HHHHHHHHHHhCCCCCeEEE
Q 033334 44 KGSVPMSFG--GTEDPAAYGELVSIGGLN-PDVNKKLS-------AAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 44 ~~~~~~~~g--g~~~p~~~v~i~~~g~~~-~e~~~~~~-------~~i~~~l~~~lgi~~~ri~i 98 (121)
.+|+....+ +...|.|-++|.++.... .+.+.+++ +.+.+.+.+...- -+.+|+
T Consensus 33 ~~G~~~~V~~~e~g~~~c~ieI~sV~~i~f~eLte~hA~qEg~sL~elk~~i~~iYp~-~~~lyv 96 (102)
T PRK04980 33 KPGDVLRVGTFEDDRYFCTIEVLSVSPVTFDELNEKHAEQENMTLPELKQVIAEIYPN-LDQLYV 96 (102)
T ss_pred CCCCEEEEEECCCCcEEEEEEEEEEEEEehhhCCHHHHHHhCCCHHHHHHHHHHHCCC-CceEEE
Confidence 355566655 567899999998886543 33344443 3455556665443 234443
No 223
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=29.76 E-value=64 Score=18.36 Aligned_cols=25 Identities=16% Similarity=0.381 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.+.+.+.+++..|+|+++..+.|.-
T Consensus 23 V~~lK~~i~~~~gi~~~~q~L~~~G 47 (74)
T cd01807 23 VSTLKKLVSEHLNVPEEQQRLLFKG 47 (74)
T ss_pred HHHHHHHHHHHHCCCHHHeEEEECC
Confidence 4456667777789999988887653
No 224
>TIGR03311 Se_dep_Molyb_1 selenium-dependent molybdenum hydroxylase 1. Members of this protein family show full length homology to the molybdenum-containing aldehyde oxido-reductase of Desulfovibrio gigas. Members, however, are found only within species that have, and near those genes that encode, a set of predicted accessory proteins for selenium-dependent molybdenum hydroxylases. The best known examples of such enzymes are forms of xanthine dehydrogenase and purine hydroxylase; this family appears to be another such enzyme.
Probab=29.56 E-value=51 Score=28.39 Aligned_cols=30 Identities=17% Similarity=0.298 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
+-..-.+.....+.||||+|+|.|..-|-+
T Consensus 617 QG~~T~~aQiaAe~LGip~e~V~v~~~DT~ 646 (848)
T TIGR03311 617 QGLGTVLTQIVCETTGLPPEVIVCELPDTA 646 (848)
T ss_pred cCHHHHHHHHHHHHHCCCHHHEEEEcCCCC
Confidence 345567888899999999999999988753
No 225
>PRK07110 polyketide biosynthesis enoyl-CoA hydratase; Validated
Probab=29.55 E-value=2.1e+02 Score=20.42 Aligned_cols=52 Identities=13% Similarity=0.196 Sum_probs=35.7
Q ss_pred eEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+.. ..-..++..+|.+++.++-+.|+-++.|.--.+..|+-|++
T Consensus 15 v~~i~ln~p~~~Nal~~~~~~~L~~~l~~~~~d~~vr~vvl~g~g~~F~aG~D 67 (249)
T PRK07110 15 IAQVTMQDRVNKNAFSDELCDQLHEAFDTIAQDPRYKVVILTGYPNYFATGGT 67 (249)
T ss_pred EEEEEecCCCccCCCCHHHHHHHHHHHHHHHhCCCceEEEEECCCCCeeCCcC
Confidence 56777886521 22356888999999998887777666665555666777764
No 226
>PF05670 DUF814: Domain of unknown function (DUF814); InterPro: IPR008532 This domain occurs in proteins that have been annotated as Fibronectin/fibrinogen binding protein by similarity. This annotation comes from O34693 from SWISSPROT where the N-terminal region is involved in this activity []. Hence the activity of this C-terminal domain is unknown. This domain contains a conserved motif D/E-X-W/Y-X-H that may be functionally important.
Probab=29.51 E-value=1e+02 Score=18.43 Aligned_cols=36 Identities=17% Similarity=0.175 Sum_probs=22.6
Q ss_pred EEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCC
Q 033334 63 LVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQ 107 (121)
Q Consensus 63 i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~ 107 (121)
...+.|++.++|+.++..+. .++++++...+.+..+
T Consensus 8 ~~i~vGrn~~eNe~L~~k~~---------~~~D~wfH~~~~pg~h 43 (90)
T PF05670_consen 8 FKIIVGRNAKENEMLTKKYA---------RPNDLWFHADDFPGPH 43 (90)
T ss_pred eEEEEeCCHHHHHHHHHHhh---------hhcceeEeccCCCCCE
Confidence 34567799999999966533 2455555555554443
No 227
>PRK13878 conjugal transfer relaxase TraI; Provisional
Probab=29.47 E-value=3.7e+02 Score=23.16 Aligned_cols=86 Identities=10% Similarity=0.132 Sum_probs=49.4
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeee---C-C-ChhHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIG---G-L-NPDVNKK 76 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g---~-~-~~e~~~~ 76 (121)
|...+..+-+..+...++.+.++.+-+++.||..+-..++.++.+ ++-.-+.|-+..+. . + ++.....
T Consensus 67 ~vyH~ilSF~PgE~pt~e~~~~I~~~~~~~LG~~~hQ~Vva~H~D-------Tdh~HiHIviNrV~p~g~Ki~d~~~~yr 139 (746)
T PRK13878 67 KTYHLIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRVSAVHHD-------TDNLHIHIAINKIHPTRHTIHEPYYAYR 139 (746)
T ss_pred eeEEEEECCCCCCCCCHHHHHHHHHHHHHHhCCCCceEEEEEECC-------CCCceeEEEEeeecCCCCeecCchHHHH
Confidence 445555555544432467888998889999998776444445543 12222233333331 1 1 2332223
Q ss_pred HHHHHHHHHHHHhCCCCC
Q 033334 77 LSAAISAILEKKLSVPKS 94 (121)
Q Consensus 77 ~~~~i~~~l~~~lgi~~~ 94 (121)
-...+|+.|+.+.|+...
T Consensus 140 ~L~kicreLE~eyGLsv~ 157 (746)
T PRK13878 140 TLAELCTKLERDYGLERD 157 (746)
T ss_pred HHHHHHHHHHHHhCCEec
Confidence 336889999999998654
No 228
>CHL00124 acpP acyl carrier protein; Validated
Probab=29.20 E-value=47 Score=19.28 Aligned_cols=22 Identities=18% Similarity=0.416 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCCe
Q 033334 74 NKKLSAAISAILEKKLSVPKSR 95 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~r 95 (121)
+.++...+.+++.+.+|++++.
T Consensus 3 ~~~i~~~l~~ii~~~~~~~~~~ 24 (82)
T CHL00124 3 KNDIFEKVQSIVAEQLGIEKSE 24 (82)
T ss_pred HHHHHHHHHHHHHHHHCCCHHH
Confidence 3567788899999999998775
No 229
>PRK03743 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=29.12 E-value=2.7e+02 Score=21.39 Aligned_cols=36 Identities=11% Similarity=0.108 Sum_probs=28.6
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..++.+.-.+..+.+.+.|. .+|++..||-|.=-+.
T Consensus 177 ~~it~e~i~~~i~~~~~~l~-~~gi~~PrIaV~GLNP 212 (332)
T PRK03743 177 DYVTKERVLDYIQRCTKALE-KLGIKNPKIAVAGLNP 212 (332)
T ss_pred HHhCHHHHHHHHHHHHHHHH-HhCCCCCCEEEEeeCC
Confidence 34678888888888888899 8999999987764443
No 230
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=29.06 E-value=1.6e+02 Score=18.82 Aligned_cols=53 Identities=13% Similarity=0.215 Sum_probs=35.5
Q ss_pred ceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 47 VPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 47 ~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
..+.+|-.+.|..+++...... -.+.++-..+.+++++. +.++++.+.|+.++
T Consensus 3 ~~~~~G~~~a~~~v~~f~d~~C---p~C~~~~~~~~~~~~~~--i~~~~v~~~~~~~~ 55 (162)
T PF13462_consen 3 YDPTIGNPDAPITVTEFFDFQC---PHCAKFHEELEKLLKKY--IDPGKVKFVFRPVP 55 (162)
T ss_dssp TSEEES-TTTSEEEEEEE-TTS---HHHHHHHHHHHHHHHHH--TTTTTEEEEEEESS
T ss_pred CCCeecCCCCCeEEEEEECCCC---HhHHHHHHHHhhhhhhc--cCCCceEEEEEEcc
Confidence 3566776667766666665543 45666777777666653 67889999999984
No 231
>PRK00232 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed
Probab=28.77 E-value=2.7e+02 Score=21.36 Aligned_cols=36 Identities=14% Similarity=0.260 Sum_probs=28.4
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..++++.-.+..+.+.+.|.+. |++..||-|.=-+.
T Consensus 177 ~~it~e~i~~~i~~~~~~l~~~-gi~~PrIaV~gLNP 212 (332)
T PRK00232 177 DAITPERLEEVIRILHADLRRK-GIAEPRIAVCGLNP 212 (332)
T ss_pred HHhCHHHHHHHHHHHHHHHHHh-CCCCCcEEEEeeCC
Confidence 3478888888888889999988 99999987654443
No 232
>TIGR00874 talAB transaldolase. This family includes the majority of known and predicted transaldolase sequences, including E. coli TalA and TalB. It excluded two other families. The first includes E. coli transaldolase-like protein TalC. The second family includes the putative transaldolases of Helicobacter pylori and Mycobacterium tuberculosis.
Probab=28.66 E-value=2.2e+02 Score=21.68 Aligned_cols=41 Identities=17% Similarity=0.226 Sum_probs=27.3
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
..+|+...=+.+.+.-.+-+++|.++..+ .||+++|++|.+
T Consensus 91 VS~EVdprls~d~~~~i~~A~~l~~l~~~-~gi~~~~v~IKI 131 (317)
T TIGR00874 91 VSTEVDARLSFDTEATVEKARHLIKLYED-AGVDKKRILIKI 131 (317)
T ss_pred EEEEEecccccCHHHHHHHHHHHHHHhHh-cCCCCCcEEEEe
Confidence 44444332235666666667777666665 799999999975
No 233
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=28.61 E-value=59 Score=28.31 Aligned_cols=25 Identities=8% Similarity=0.109 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEEE
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~i 98 (121)
|++-..---++|.+.||||++||.-
T Consensus 162 K~eaI~~a~e~lt~~lgi~~~~I~~ 186 (900)
T PRK13902 162 KDETVEYCFEFFTKELGIDPEEITF 186 (900)
T ss_pred HHHHHHHHHHHHHhhcCCCHHHeee
Confidence 3556666788899999999999854
No 234
>cd06927 RNAP_L L subunit of Archaeal RNA polymerase. The archaeal L subunit of RNA polymerase (RNAP) is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. A single distinct RNAP complex is found in archaea, which may be responsible for the synthesis of all RNAs. The archaeal RNAP harbors homologues of all eukaryotic RNAP II subunits with two exceptions (RPB8 and RPB9). The 12 archaeal subunits are designated by letters and can be divided into three functional groups that are engaged in: (I) catalysis (A'/A", B'/B" or B); (II) assembly (L, N, D and P); and (III) auxiliary functions (F, E, H and K). The assembly of the two largest archaeal RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of the archaeal D/L heterodimer.
Probab=28.52 E-value=1.3e+02 Score=17.92 Aligned_cols=26 Identities=23% Similarity=0.340 Sum_probs=16.6
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVA 29 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~ 29 (121)
|.++|+|..+.++ .+++.+++.++..
T Consensus 51 ~~lrIqT~~~~~p--~~al~~a~~~l~~ 76 (83)
T cd06927 51 PVLKIKTDGGVDP--LEALKEAAKRLID 76 (83)
T ss_pred cEEEEEeCCCCCH--HHHHHHHHHHHHH
Confidence 6789998876554 3556555555443
No 235
>PRK12346 transaldolase A; Provisional
Probab=28.41 E-value=2e+02 Score=21.85 Aligned_cols=41 Identities=15% Similarity=0.223 Sum_probs=27.6
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
..+++...=+.+.+..-+-+++|.+++++ .||+++|++|.+
T Consensus 92 Vs~EVdp~la~d~e~~i~~A~~l~~l~~~-~gi~~~~i~IKI 132 (316)
T PRK12346 92 VSTEVDARLSFDREKSIEKARHLVDLYQQ-QGIDKSRILIKL 132 (316)
T ss_pred EEEEEccccccCHHHHHHHHHHHHHHhhh-cCCCCCcEEEEe
Confidence 44455432335667766777777776665 499999999975
No 236
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=28.20 E-value=71 Score=18.59 Aligned_cols=23 Identities=9% Similarity=-0.034 Sum_probs=17.6
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 79 AAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+.+.+.+++..|||+++..+ |..
T Consensus 26 ~~lK~kI~~~~gip~~~QrL-~~G 48 (75)
T cd01799 26 AQLKDKVFLDYGFPPAVQRW-VIG 48 (75)
T ss_pred HHHHHHHHHHHCcCHHHEEE-EcC
Confidence 34566778889999998888 654
No 237
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=28.16 E-value=1.1e+02 Score=18.83 Aligned_cols=32 Identities=22% Similarity=0.233 Sum_probs=21.0
Q ss_pred hhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 71 PDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 71 ~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
...+++-+-.+...+.++|+++.+..++. .|+
T Consensus 39 ~k~~K~ai~~Fi~ack~~L~~~~~e~FtI-sdl 70 (89)
T PF06395_consen 39 LKVCKKAIYKFIQACKQELGFPDEELFTI-SDL 70 (89)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCccceeee-ecc
Confidence 34445555556666778999998887654 443
No 238
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=28.11 E-value=91 Score=17.64 Aligned_cols=24 Identities=13% Similarity=0.224 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhCC--CCCeEEEEEE
Q 033334 78 SAAISAILEKKLSV--PKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi--~~~ri~i~f~ 101 (121)
.+.+-+.+++..|+ ++++..+.|.
T Consensus 23 V~~lK~~i~~~~~i~~~~~~q~L~~~ 48 (77)
T cd01805 23 VAELKEKIEEEKGCDYPPEQQKLIYS 48 (77)
T ss_pred HHHHHHHHHHhhCCCCChhHeEEEEC
Confidence 45566777778899 9999988874
No 239
>TIGR03194 4hydrxCoA_A 4-hydroxybenzoyl-CoA reductase, alpha subunit. This model represents the largest chain, alpha, of the enzyme 4-hydroxybenzoyl-CoA reductase. In species capable of degrading various aromatic compounds by way of benzoyl-CoA, this enzyme can convert 4-hydroxybenzoyl-CoA to benzoyl-CoA.
Probab=28.02 E-value=58 Score=27.60 Aligned_cols=30 Identities=23% Similarity=0.130 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEEeCCC
Q 033334 76 KLSAAISAILEKKLSVPKSRFFIKFYDTKA 105 (121)
Q Consensus 76 ~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~ 105 (121)
-....++....+.||+|.|+|.|..-|-+.
T Consensus 469 G~~T~~~qiaAe~LGip~d~V~v~~~DT~~ 498 (746)
T TIGR03194 469 GSSTIASQVAAEVLGVRLSRIRVISADSAL 498 (746)
T ss_pred CHHHHHHHHHHHHhCCCHHhEEEEccCCCC
Confidence 345567888899999999999998877543
No 240
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=28.01 E-value=75 Score=18.25 Aligned_cols=25 Identities=4% Similarity=0.250 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
...+.+.+++..|+|+++..+.|..
T Consensus 20 V~~lK~~i~~~~gip~~~q~L~~~G 44 (76)
T cd01800 20 VSVLKVKIHEETGMPAGKQKLQYEG 44 (76)
T ss_pred HHHHHHHHHHHHCCCHHHEEEEECC
Confidence 3445667777889999999888754
No 241
>cd00585 Peptidase_C1B Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is a cysteine peptidase that detoxifies bleomycin by hydrolysis of an amide group. It acts as a carboxypeptidase on its C-terminus to convert itself into an aminopeptidase and peptide ligase. BH is found in all tissues in mammals as well as in many other eukaryotes. Bleomycin, a glycopeptide derived from the fungus Streptomyces verticullus, is an effective anticancer drug due to its ability to induce DNA strand breaks. Human BH is the major cause of tumor cell resistance to bleomycin chemotherapy, and is also genetically linked to Alzheimer's disease. In addition to its peptidase activity, the yeast BH (Gal6) binds DNA and acts as a repressor in the Gal4 regulatory system. BH forms a hexameric ring barrel structure w
Probab=27.97 E-value=1.9e+02 Score=23.09 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCC
Q 033334 73 VNKKLSAAISAILEKKLSVPKSRFFIKFYDTKA 105 (121)
Q Consensus 73 ~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~ 105 (121)
.+.++-++|...|...||.||..+...|.|-+.
T Consensus 199 ~~~~~~~~iy~il~~~lG~pP~~F~~~y~dkd~ 231 (437)
T cd00585 199 KKEEMLKEVYRILAIALGEPPEKFDWEYRDKDK 231 (437)
T ss_pred HHHHHHHHHHHHHHHHcCCCCceEEEEEEeCCC
Confidence 366777888999999999999999999888653
No 242
>COG5493 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]
Probab=27.66 E-value=2.3e+02 Score=20.26 Aligned_cols=77 Identities=8% Similarity=0.050 Sum_probs=52.3
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeec-CC---------CCCeeEEEEEeeeCCChhHHHHHHHHHHHHHH
Q 033334 17 TSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFG-GT---------EDPAAYGELVSIGGLNPDVNKKLSAAISAILE 86 (121)
Q Consensus 17 ~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~g-g~---------~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~ 86 (121)
.++|-+++.+.+.++.++-++|+.- .... ..+| .| +.....|+|+|-=.++. -...+...++.+
T Consensus 116 EdAFR~gv~eil~e~g~~v~rw~~y--DkeG-~VYg~PS~VE~DvvVKDg~vvlVEItS~ikrgD---l~~i~rk~elYe 189 (231)
T COG5493 116 EDAFRQGVREILREVGYVVERWLYY--DKEG-HVYGHPSDVEYDVVVKDGVVVLVEITSAIKRGD---LPVIRRKKELYE 189 (231)
T ss_pred HHHHHHHHHHHHHHhchheeeEEEE--cCCc-ceecCCcceEEEEEEecCcEEEEEehhhhhccc---hHHHHHHHHHHH
Confidence 4799999999999999887777643 2112 2223 22 34567888876533321 124556788888
Q ss_pred HHhCCCCCeEEEE
Q 033334 87 KKLSVPKSRFFIK 99 (121)
Q Consensus 87 ~~lgi~~~ri~i~ 99 (121)
+.-|+.+++++|.
T Consensus 190 r~~gvki~~vivi 202 (231)
T COG5493 190 RAKGVKINKVIVI 202 (231)
T ss_pred HhcCCccceEEEE
Confidence 9999999999886
No 243
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=27.65 E-value=69 Score=20.41 Aligned_cols=38 Identities=8% Similarity=0.252 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhCCCCCe-EEEEEEeCCCCCceeCCceeeehhc
Q 033334 79 AAISAILEKKLSVPKSR-FFIKFYDTKAHQSREHAQCLHAVHQ 120 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~r-i~i~f~~~~~~~~g~~G~~~~~~~~ 120 (121)
..+..+|.+.|+++++. +|+.+.+. .--.+.++++||+
T Consensus 54 ~~f~~~irk~l~l~~~~slfl~Vn~~----~p~~~~~~~~lY~ 92 (112)
T cd01611 54 GQFVYIIRKRIQLRPEKALFLFVNNS----LPPTSATMSQLYE 92 (112)
T ss_pred HHHHHHHHHHhCCCccceEEEEECCc----cCCchhHHHHHHH
Confidence 34677788899988776 66665542 2224567777775
No 244
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=27.56 E-value=81 Score=17.95 Aligned_cols=25 Identities=8% Similarity=-0.029 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 77 LSAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 77 ~~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
-.+.+.+.+++..|+|+++..+.|.
T Consensus 20 tV~~lK~~i~~~~gip~~~q~Li~~ 44 (74)
T cd01793 20 TVSDIKAHVAGLEGIDVEDQVLLLA 44 (74)
T ss_pred cHHHHHHHHHhhhCCCHHHEEEEEC
Confidence 3445667778888999999988875
No 245
>cd00957 Transaldolase_TalAB Transaldolases including both TalA and TalB. The enzyme catalyses the reversible transfer of a dyhydroxyacetone moiety, derived from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. The catalytic mechanism is similar to other class I aldolases. The enzyme is found in the non-oxidative branch of the pentose phosphate pathway and forms a dimer in solution.
Probab=27.51 E-value=2.3e+02 Score=21.48 Aligned_cols=41 Identities=15% Similarity=0.220 Sum_probs=27.0
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
..+|+...=+.+.+.-.+-+++|.++..+. ||+++|++|.+
T Consensus 91 Vs~EVdp~la~d~~~~i~~A~~l~~~~~~~-gi~~~~i~IKI 131 (313)
T cd00957 91 VSTEVDARLSFDTNATIAKARKLIKLYEEA-GIDKERILIKI 131 (313)
T ss_pred EEEEEecccccCHHHHHHHHHHHHHHhHhc-CCCCCcEEEEe
Confidence 444444322356666666677776666554 99999999975
No 246
>PTZ00411 transaldolase-like protein; Provisional
Probab=27.48 E-value=2.1e+02 Score=21.92 Aligned_cols=41 Identities=17% Similarity=0.212 Sum_probs=27.4
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
..+++...=+.+.+.-.+-+++|.+++.+ .||+++|++|.+
T Consensus 103 VS~EVd~~ls~d~e~~i~~A~~l~~l~~~-~gi~~~rilIKI 143 (333)
T PTZ00411 103 VSTEVDARLSFDKQAMVDKARKIIKMYEE-AGISKDRILIKL 143 (333)
T ss_pred EEEEEccccccCHHHHHHHHHHHHHhhhh-hcCCCCcEEEEe
Confidence 34444332235666666667777776665 699999999985
No 247
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=27.46 E-value=87 Score=15.47 Aligned_cols=24 Identities=25% Similarity=0.306 Sum_probs=15.9
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 79 AAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+.+.+.+.+..|++++++.+.+..
T Consensus 21 ~~l~~~i~~~~~~~~~~~~l~~~~ 44 (69)
T cd00196 21 ADLKEKLAKKLGLPPEQQRLLVNG 44 (69)
T ss_pred HHHHHHHHHHHCcChHHeEEEECC
Confidence 345566666778888877776543
No 248
>PRK01146 DNA-directed RNA polymerase subunit L; Provisional
Probab=27.31 E-value=1.5e+02 Score=17.86 Aligned_cols=26 Identities=23% Similarity=0.362 Sum_probs=16.3
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVA 29 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~ 29 (121)
|.++|+|.-+.++ .+.+.+++.++..
T Consensus 53 ~~lrIqt~~~~~p--~~al~~a~~~L~~ 78 (85)
T PRK01146 53 PVLKIKTDGGIDP--LEALKEAAKRIID 78 (85)
T ss_pred cEEEEEECCCCCH--HHHHHHHHHHHHH
Confidence 6789999865554 3556555555443
No 249
>COG0192 MetK S-adenosylmethionine synthetase [Coenzyme metabolism]
Probab=27.26 E-value=92 Score=24.23 Aligned_cols=50 Identities=12% Similarity=0.116 Sum_probs=35.1
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhC--CCCcEEEEE--EeCCceee
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIG--KPEAYVMIV--LKGSVPMS 50 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~--kp~~~i~v~--v~~~~~~~ 50 (121)
|.--.+.|+.+.+.--|+.++.++++++.+.+= -|..++... +..|.-+.
T Consensus 1 ~~~~~lFTSESVseGHPDKi~DqISDaILD~~L~~Dp~srVAcEt~v~tg~v~i 54 (388)
T COG0192 1 MKKYFLFTSESVSEGHPDKICDQISDAILDAILKQDPNSRVACETLVTTGLVVI 54 (388)
T ss_pred CCccceeeeccccCCCChHHHHHHhHHHHHHHHhcCCCceEEEEEEEecCeEEE
Confidence 555678899998887799999999999998553 455555543 34444333
No 250
>PF01076 Mob_Pre: Plasmid recombination enzyme; InterPro: IPR001668 With some plasmids, recombination can occur in a site specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre. Pre is a plasmid recombination enzyme. This protein is also known as Mob (conjugative mobilisation) [].; GO: 0003677 DNA binding, 0006310 DNA recombination, 0005727 extrachromosomal circular DNA
Probab=27.26 E-value=96 Score=21.51 Aligned_cols=39 Identities=15% Similarity=0.244 Sum_probs=28.8
Q ss_pred CCChhHHHHHHHHHHHHHHHHhC-CCCCeEEEEEEeCCCC
Q 033334 68 GLNPDVNKKLSAAISAILEKKLS-VPKSRFFIKFYDTKAH 106 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lg-i~~~ri~i~f~~~~~~ 106 (121)
..++++.+++.+...++|++.+| ...=..+|..+|..|+
T Consensus 94 ~~~~e~~~~~~~~~~~~~~~r~g~~ni~~a~vH~DE~tPH 133 (196)
T PF01076_consen 94 DLDPEQQKRWFEDSLEWLQERYGNENIVSAVVHLDETTPH 133 (196)
T ss_pred chhhHHHHHHHHHHHHHHHHHCCchhEEEEEEECCCCCcc
Confidence 35788899999999999999988 4444555666665544
No 251
>PF12260 PIP49_C: Protein-kinase domain of FAM69; InterPro: IPR022049 Family with sequence similarity 69 has three members (A, B and C). Proteins in this uncharacterised family are described as transmembrane proteins.
Probab=27.18 E-value=1.6e+02 Score=20.24 Aligned_cols=42 Identities=12% Similarity=0.050 Sum_probs=35.3
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHA 112 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G 112 (121)
.+-+++-+++..+.+++.+--.-+.+. +.+-|++++|+|++.
T Consensus 56 ~~w~~R~~iA~~lL~~l~~l~~~~~~~--~~lcDv~~~nfgv~~ 97 (188)
T PF12260_consen 56 SPWEQRAKIALQLLELLEELDHGPLGF--FYLCDVSPDNFGVND 97 (188)
T ss_pred cCHHHHHHHHHHHHHHHHHHhcCCCCc--EEEeecchHHeEEeC
Confidence 357788899999999998887777777 788899999999875
No 252
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=27.15 E-value=1.5e+02 Score=19.98 Aligned_cols=32 Identities=19% Similarity=0.241 Sum_probs=23.3
Q ss_pred CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHH
Q 033334 53 GTEDPAAYGELVSIGGLNPDVNKKLSAAISAI 84 (121)
Q Consensus 53 g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~ 84 (121)
+..+-.-...+++.|.+++.++..+...|-.+
T Consensus 108 ~~g~~vLifT~Tt~~~ftp~q~~~~~~~I~Sf 139 (147)
T COG5435 108 ERGDTVLIFTLTTPGEFTPSQKKAWEQVIQSF 139 (147)
T ss_pred ccCCeEEEEEecCCCCCCHHHHHHHHHHHHhc
Confidence 34455666677788889999988888776543
No 253
>KOG3109 consensus Haloacid dehalogenase-like hydrolase [General function prediction only]
Probab=27.06 E-value=1.3e+02 Score=22.02 Aligned_cols=41 Identities=10% Similarity=0.177 Sum_probs=29.5
Q ss_pred CCeeEEEEE-eeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 56 DPAAYGELV-SIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 56 ~p~~~v~i~-~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
..|.+..|. ..-..|..-.....+.|.+++.++||++.+.+
T Consensus 15 ~~~l~FDiDdtLYp~St~i~~~~~~nI~~f~~eklgi~~e~a 56 (244)
T KOG3109|consen 15 YKCLFFDIDDTLYPLSTGIQLMMRNNIQEFFVEKLGISEEEA 56 (244)
T ss_pred ceEEEEecccccccCchhHHHHHHHHHHHHHHHHhCCChhhh
Confidence 456666664 22345556667778889999999999998754
No 254
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=27.06 E-value=86 Score=20.57 Aligned_cols=61 Identities=16% Similarity=0.189 Sum_probs=34.2
Q ss_pred HHHHHHhCCCCcEEEEEEeCCceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 26 STVANIIGKPEAYVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 26 ~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
+.+.++|.+-.+-++|. |+ .-..|.|. .|......+-++.++ +-++|||.++|+.......
T Consensus 44 ~fvl~Al~~GaDGV~v~---GC------~~geCHy~----~GN~ka~rR~~~lke----~l~elgie~eRv~~~wiSa 104 (132)
T COG1908 44 EFVLKALRKGADGVLVA---GC------KIGECHYI----SGNYKAKRRMELLKE----LLKELGIEPERVRVLWISA 104 (132)
T ss_pred HHHHHHHHcCCCeEEEe---cc------cccceeee----ccchHHHHHHHHHHH----HHHHhCCCcceEEEEEEeh
Confidence 34556666666655552 11 11225542 244545555444443 4567899999998876554
No 255
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=27.01 E-value=81 Score=17.73 Aligned_cols=24 Identities=13% Similarity=0.267 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
.+.+.+.+++..|+++++..+.|.
T Consensus 22 V~~lK~~I~~~~~i~~~~~~Li~~ 45 (71)
T cd01808 22 VKDFKEAVSKKFKANQEQLVLIFA 45 (71)
T ss_pred HHHHHHHHHHHhCCCHHHEEEEEC
Confidence 445667777778999999998764
No 256
>KOG0747 consensus Putative NAD+-dependent epimerases [Carbohydrate transport and metabolism]
Probab=26.82 E-value=1.5e+02 Score=22.64 Aligned_cols=43 Identities=28% Similarity=0.377 Sum_probs=31.9
Q ss_pred EEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 60 YGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 60 ~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
.=||..||.-.+-.+.++++.|++++.+.++--...=++.+.+
T Consensus 242 ~geIYNIgtd~e~~~~~l~k~i~eli~~~~~~~~~~p~~~~v~ 284 (331)
T KOG0747|consen 242 LGEIYNIGTDDEMRVIDLAKDICELFEKRLPNIDTEPFIFFVE 284 (331)
T ss_pred ccceeeccCcchhhHHHHHHHHHHHHHHhccCCCCCCcceecC
Confidence 4577888877788999999999999999887443344444443
No 257
>PF12249 AftA_C: Arabinofuranosyltransferase A C terminal; InterPro: IPR020959 The arabinofuranosyltransferase enzyme AftA is involved in cell wall arabinan biosynthesis in bacteria []. It catalyses the addition of the first key arabinofuranosyl residue from the sugar donor beta-D-arabinofuranosyl-1-monophosphoryldecaprenol to the galactan domain of the cell wall, thus priming the galactan for further elaboration by the arabinofuranosyltransferases. As this enzyme is important for cell growth and is found in some important pathogens, such as Mycobacterium tuberculosis, it represents a potential target for the devlopment of new antibacterial drugs. This entry represents the C-terminal domain of AftA.; GO: 0016757 transferase activity, transferring glycosyl groups, 0044038 cell wall macromolecule biosynthetic process, 0005886 plasma membrane, 0016021 integral to membrane
Probab=26.72 E-value=82 Score=21.90 Aligned_cols=47 Identities=15% Similarity=0.067 Sum_probs=32.2
Q ss_pred hhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCC----CCCceeCCceeee
Q 033334 71 PDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTK----AHQSREHAQCLHA 117 (121)
Q Consensus 71 ~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~----~~~~g~~G~~~~~ 117 (121)
|..-.+++.+|-+.|.+..|-+++...+.=.|.. -.-|||+|-|-++
T Consensus 28 P~~a~~yY~~id~~I~~~tG~~~~~tVvLT~d~~FlsyyPY~gFQalTsHY 78 (178)
T PF12249_consen 28 PPDAERYYPEIDAAIREQTGRPPDDTVVLTDDYSFLSYYPYWGFQALTSHY 78 (178)
T ss_pred CCchHHhHHHHHHHHHHhcCCCCCCeEEEeccccceEecccccccccchhh
Confidence 5566789999999999999977765544322211 1238998877554
No 258
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=26.63 E-value=81 Score=24.29 Aligned_cols=25 Identities=16% Similarity=0.341 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+..+.+.+.+.+|+|+|...|.|.-
T Consensus 26 I~~lke~Vak~~gvp~D~L~viFaG 50 (446)
T KOG0006|consen 26 IFQLKEVVAKRQGVPADQLRVIFAG 50 (446)
T ss_pred HHHHHHHHHHhhCCChhheEEEEec
Confidence 3457788899999999999999864
No 259
>PRK05477 gatB aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated
Probab=26.54 E-value=2e+02 Score=23.25 Aligned_cols=65 Identities=12% Similarity=0.202 Sum_probs=41.0
Q ss_pred CCeEEEEeCCC-CCCcChHHHHHHHHHHHHHHhCCCC-----c--EEEEEEeCCceeeecCCCCCeeEEEEEeeeCCC
Q 033334 1 MPCLNISTNVK-LDGVDTSSILSEATSTVANIIGKPE-----A--YVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLN 70 (121)
Q Consensus 1 MP~i~i~tn~~-~~~~~~~~~~~~l~~~~~~~~~kp~-----~--~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~ 70 (121)
+|+++|.|--. .++++..+|++.|.+.+ ..+|... . ++-|+| .+...|+..-...+||+.+.++.
T Consensus 148 iPLiEIVTePd~~s~~eA~~~~~~L~~il-r~~g~sd~~me~GslR~DvNV----Sir~~g~~~~G~RvEIKNlnS~~ 220 (474)
T PRK05477 148 VPLIEIVSEPDMRSPEEARAYLKKLRSIL-RYLGISDGNMEEGSLRCDANV----SVRPKGQEEFGTRVEIKNLNSFR 220 (474)
T ss_pred CceEEEeccCCCCCHHHHHHHHHHHHHHH-HHhCCCcCccccCceEEeeeE----EeccCCcccCCceeEEeccccHH
Confidence 69999988777 45565778999986655 4555422 2 222222 12234555556789999988764
No 260
>PRK09800 putative hypoxanthine oxidase; Provisional
Probab=26.41 E-value=88 Score=27.46 Aligned_cols=31 Identities=16% Similarity=0.231 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEeCCC
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIKFYDTKA 105 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~ 105 (121)
+-.-..+.+...+.||+|.|+|.|..-|.+.
T Consensus 688 qG~~T~~~QiaAe~LGip~d~V~v~~~DT~~ 718 (956)
T PRK09800 688 TGLDTVVTKLAAEVLHCPPQDVHVISGDTDH 718 (956)
T ss_pred ccHHHHHHHHHHHHHCCCceeEEEEeCCCCC
Confidence 3445567778888999999999999887643
No 261
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional
Probab=26.40 E-value=3.1e+02 Score=21.27 Aligned_cols=39 Identities=18% Similarity=0.301 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCCC
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTED 56 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~~ 56 (121)
.....++.+.++++++-|...|.|.-.+++.+-|-|+.+
T Consensus 323 ~~~~~~~~~~~~~~l~~~~~~v~~ka~t~e~lg~~g~~~ 361 (378)
T PRK09382 323 GPHKQAMRENLAEILGIPKDRVSVKATTTEKLGFVGRGE 361 (378)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCcCCcCCC
Confidence 457789999999999999999999999999999988754
No 262
>PF15658 Latrotoxin_C: Latrotoxin C-terminal domain
Probab=26.40 E-value=31 Score=22.65 Aligned_cols=37 Identities=16% Similarity=0.292 Sum_probs=29.4
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhC-------CCCCeEEEEEEeC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLS-------VPKSRFFIKFYDT 103 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lg-------i~~~ri~i~f~~~ 103 (121)
..+++.+.+.++-.|++.+++.|+ |+..|..|.|.++
T Consensus 29 ~sis~~eaq~~AL~I~~kFE~VL~q~a~k~Gis~~~lniD~~ev 72 (127)
T PF15658_consen 29 QSISPLEAQAYALNITEKFEEVLNQAALKSGISMHSLNIDFVEV 72 (127)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhccCCHHHH
Confidence 357888999999999999888776 7777777766655
No 263
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.39 E-value=1.1e+02 Score=20.22 Aligned_cols=70 Identities=17% Similarity=0.261 Sum_probs=37.5
Q ss_pred HHHHHHHHHH--HHHhCCCCcEEEEE--EeCCceeeecCCCCCeeEEEEE-------------------eeeCCChhHHH
Q 033334 19 SILSEATSTV--ANIIGKPEAYVMIV--LKGSVPMSFGGTEDPAAYGELV-------------------SIGGLNPDVNK 75 (121)
Q Consensus 19 ~~~~~l~~~~--~~~~~kp~~~i~v~--v~~~~~~~~gg~~~p~~~v~i~-------------------~~g~~~~e~~~ 75 (121)
+|.+.++..- +.++.-|.-...+. ..-..-+.+||.-+|-.|++-. .-..+++++.+
T Consensus 25 el~eafcskcgeati~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwterkiaga~elvea~~~l~pdevq 104 (160)
T COG4306 25 ELMEAFCSKCGEATITQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWTERKIAGAVELVEAGENLNPDEVQ 104 (160)
T ss_pred HHHHHHHhhhchHHHhcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcHHHHHhHHHHHHHccccCCHHHHH
Confidence 4444443322 34566666533332 2223457778877665554421 11136677777
Q ss_pred HHHHHHHHHHHHH
Q 033334 76 KLSAAISAILEKK 88 (121)
Q Consensus 76 ~~~~~i~~~l~~~ 88 (121)
+|...++++..+.
T Consensus 105 qf~tdlt~ltkds 117 (160)
T COG4306 105 QFRTDLTDLTKDS 117 (160)
T ss_pred HHHhhHHHHhhcC
Confidence 7777777776554
No 264
>cd07027 RNAP_RPB11_like RPB11 subunit of RNA polymerase. The eukaryotic RPB11 subunit of RNA polymerase (RNAP), as well as its archaeal (L subunit) and bacterial (alpha subunit) counterparts, is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III, for the synthesis of ribosomal RNA precursor, mRNA precursor, and 5S and tRNA, respectively. A single distinct RNAP complex is found in prokaryotes and archaea, which may be responsible for the synthesis of all RNAs. The assembly of the two largest eukaryotic RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of RPB3/RPB11 heterodimer subunits. This is also true for the archaeal (D/
Probab=26.37 E-value=1.5e+02 Score=17.69 Aligned_cols=26 Identities=8% Similarity=0.072 Sum_probs=16.4
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVA 29 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~ 29 (121)
|.++|+|..+.++ .+++.+++.++..
T Consensus 51 ~~lrI~T~~~~~P--~~al~~a~~~l~~ 76 (83)
T cd07027 51 IQIRIQTKSGIKP--KDALKRAVNKLSK 76 (83)
T ss_pred cEEEEEECCCCCH--HHHHHHHHHHHHH
Confidence 6788998876554 3556665555443
No 265
>cd01336 MDH_cytoplasmic_cytosolic Cytoplasmic and cytosolic Malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are eukaryotic MDHs localized to the cytoplasm and cytosol. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=26.13 E-value=91 Score=23.52 Aligned_cols=19 Identities=26% Similarity=0.300 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHhCCCCCeE
Q 033334 78 SAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri 96 (121)
+.++..++.+.|++++.+|
T Consensus 158 s~R~r~~la~~l~v~~~~v 176 (325)
T cd01336 158 HNRAKSQIALKLGVPVSDV 176 (325)
T ss_pred HHHHHHHHHHHhCcChhhc
Confidence 5678888999999999987
No 266
>PF09623 Cas_NE0113: CRISPR-associated protein NE0113 (Cas_NE0113); InterPro: IPR019092 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a Cas protein family found in both bacteria and arachaea. The function of these proteins is unknown.
Probab=26.11 E-value=1.9e+02 Score=20.81 Aligned_cols=32 Identities=13% Similarity=0.227 Sum_probs=27.5
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
++++.+.++.+.|++.+.+.-.=+..++++.+
T Consensus 88 ~t~~d~~~~~~~I~~~i~~l~~~~~~~lh~sI 119 (224)
T PF09623_consen 88 RTEEDNEAFADFIYRLIRELKQDPGRRLHVSI 119 (224)
T ss_pred CCHHHHHHHHHHHHHHHHHHhhCCCCeEEEEe
Confidence 57999999999999999998777677888775
No 267
>PLN02243 S-adenosylmethionine synthase
Probab=26.06 E-value=3.3e+02 Score=21.45 Aligned_cols=47 Identities=13% Similarity=0.182 Sum_probs=32.5
Q ss_pred EEeCCCCCCcChHHHHHHHHHHHHHHh-C-CCCcEEEEE--EeCCceeeecC
Q 033334 6 ISTNVKLDGVDTSSILSEATSTVANII-G-KPEAYVMIV--LKGSVPMSFGG 53 (121)
Q Consensus 6 i~tn~~~~~~~~~~~~~~l~~~~~~~~-~-kp~~~i~v~--v~~~~~~~~gg 53 (121)
+.|+.+.+.--|+.++.++++++.+.. . -|..++.+. +..+. ...+|
T Consensus 5 lfTSESV~eGHPDKicDqISDaILDa~L~qDp~srVA~Et~v~~~~-V~i~G 55 (386)
T PLN02243 5 LFTSESVNEGHPDKLCDQISDAVLDACLAQDPDSKVACETCTKTNM-VMVFG 55 (386)
T ss_pred EEEecCCCCCCChHHHHHHHHHHHHHHHhhCCCCcEEEEEEEECCE-EEEEE
Confidence 678888887679999999999999843 3 455566654 34444 33344
No 268
>PF08541 ACP_syn_III_C: 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal ; InterPro: IPR013747 This domain is found on 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III 2.3.1.41 from EC, the enzyme responsible for initiating the chain of reactions of the fatty acid synthase in plants and bacteria. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups, 0008610 lipid biosynthetic process; PDB: 3IL3_A 1ZOW_C 3GWE_B 3GWA_B 1UB7_B 3LED_B 2EBD_A 1HNJ_A 2EFT_B 1HN9_B ....
Probab=25.98 E-value=43 Score=19.74 Aligned_cols=24 Identities=25% Similarity=0.415 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 79 AAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
..+.+.+.+.+|+++++++.++.+
T Consensus 21 ~~~~~~~~~~lgi~~~~~~~~~~~ 44 (90)
T PF08541_consen 21 KKILDSIAKRLGIPPERFPDNLAE 44 (90)
T ss_dssp HHHHHHHHHHHTS-GGGBE-THHH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHhc
Confidence 345556778899999998876544
No 269
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=25.95 E-value=1.4e+02 Score=21.90 Aligned_cols=37 Identities=16% Similarity=0.274 Sum_probs=24.2
Q ss_pred EEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeC
Q 033334 4 LNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKG 45 (121)
Q Consensus 4 i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~ 45 (121)
+.|+|-.+.++++.+ .+.+.+.+.+|++- .+.+.+.|
T Consensus 203 a~VtSA~pLs~~q~~----~L~~~L~k~~g~~V-~l~~~VDp 239 (271)
T PRK13430 203 ATVTTAVPLSDEQKQ----RLAAALSRIYGRPV-HLNSEVDP 239 (271)
T ss_pred EEEEecCCCCHHHHH----HHHHHHHHHHCCce-EEEeeECc
Confidence 567888888765544 66777777888743 34444554
No 270
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.92 E-value=78 Score=22.51 Aligned_cols=24 Identities=17% Similarity=0.268 Sum_probs=20.0
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLS 90 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lg 90 (121)
...+|||+++|.+++.++|.+..+
T Consensus 85 k~aspeQ~~~F~~aF~~yl~q~Y~ 108 (202)
T COG2854 85 KTASPEQRQAFFKAFRTYLEQTYG 108 (202)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHH
Confidence 347899999999999999887654
No 271
>PRK05864 enoyl-CoA hydratase; Provisional
Probab=25.91 E-value=2.6e+02 Score=20.29 Aligned_cols=52 Identities=12% Similarity=0.061 Sum_probs=34.8
Q ss_pred eEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+.. ..-..++..+|.+++.++-.-|.-++.|.--.+..|+-|+.
T Consensus 20 v~~itlnrp~~~Nal~~~~~~~L~~~l~~~~~d~~vrvvVl~g~g~~FcaG~D 72 (276)
T PRK05864 20 IALITLNRPERMNSMAFDVMVPLKEALAEVSYDNSVRVVVLTGAGRGFSSGAD 72 (276)
T ss_pred EEEEEecCCccccCCCHHHHHHHHHHHHHHhcCCCceEEEEECCCCCeecCcc
Confidence 56677887621 22356788999999988877676666664444556666654
No 272
>PF14894 Lsm_C: Lsm C-terminal; PDB: 1M5Q_1.
Probab=25.87 E-value=83 Score=18.12 Aligned_cols=20 Identities=15% Similarity=0.222 Sum_probs=13.4
Q ss_pred HHHHHHHHHHhCCCCCeEEE
Q 033334 79 AAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~~ri~i 98 (121)
+++.+++.++|++.|..|-+
T Consensus 2 ~eFa~~~~r~l~l~p~~VK~ 21 (64)
T PF14894_consen 2 REFAEYLERELNLFPGMVKV 21 (64)
T ss_dssp HHHHHHHHH---HSTTTEEE
T ss_pred hHHHHHHHHhcccCccceEE
Confidence 56888999999999886654
No 273
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. 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-inte
Probab=25.69 E-value=1.6e+02 Score=17.58 Aligned_cols=29 Identities=17% Similarity=0.371 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhCCCC-CeEEEEEEeCCCCCc
Q 033334 79 AAISAILEKKLSVPK-SRFFIKFYDTKAHQS 108 (121)
Q Consensus 79 ~~i~~~l~~~lgi~~-~ri~i~f~~~~~~~~ 108 (121)
+.|++.+.+.|++.. ..+.+.|.|=+ ++|
T Consensus 23 ~~L~~~i~~r~~~~~~~~f~LkY~Dde-gd~ 52 (82)
T cd06407 23 TELKQEIAKRFKLDDMSAFDLKYLDDD-EEW 52 (82)
T ss_pred HHHHHHHHHHhCCCCCCeeEEEEECCC-CCe
Confidence 447777788888876 78999998866 444
No 274
>COG0334 GdhA Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]
Probab=25.63 E-value=59 Score=25.68 Aligned_cols=42 Identities=17% Similarity=0.124 Sum_probs=29.7
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeeh
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAV 118 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~ 118 (121)
.|..+.+++++++...+....|-. .|+++.++|.++..+..+
T Consensus 112 ~S~~E~erl~raf~~~i~~~iGp~--------~dIpApDvgt~~~~m~wm 153 (411)
T COG0334 112 LSDGELERLSRAFGRAIYRLIGPD--------TDIPAPDVGTNPQDMAWM 153 (411)
T ss_pred CCHHHHHHHHHHHHHHHHHhcCCC--------cEecccccCCCHHHHHHH
Confidence 567788899999999999998832 235566666666655543
No 275
>PF11144 DUF2920: Protein of unknown function (DUF2920); InterPro: IPR022605 This bacterial family of proteins has no known function.
Probab=25.62 E-value=1.4e+02 Score=23.56 Aligned_cols=43 Identities=21% Similarity=0.339 Sum_probs=34.4
Q ss_pred eeeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 48 PMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 48 ~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
++.+.++.+.-|. |..+||++...+..+.+.+.+.+.+..++-
T Consensus 25 ri~ydd~Ke~kaI--vfiI~GfG~dan~~~~d~~r~~iA~~fnvv 67 (403)
T PF11144_consen 25 RISYDDEKEIKAI--VFIIPGFGADANSNYLDFMREYIAKKFNVV 67 (403)
T ss_pred EeecCCCCCceEE--EEEeCCcCCCcchHHHHHHHHHHHHhCCEE
Confidence 3445556677777 566799999999999999999999998864
No 276
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=25.36 E-value=95 Score=20.13 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
...-++.+.+++.+. |||.++|.+.
T Consensus 52 ~~~ea~~~~~~l~~~-gvp~~~I~~e 76 (155)
T PF02698_consen 52 GRSEAEAMRDYLIEL-GVPEERIILE 76 (155)
T ss_dssp TS-HHHHHHHHHHHT----GGGEEEE
T ss_pred CCCHHHHHHHHHHhc-ccchheeEcc
Confidence 344455556666665 8888877663
No 277
>TIGR02416 CO_dehy_Mo_lg carbon-monoxide dehydrogenase, large subunit. This model represents the large subunits of group of carbon-monoxide dehydrogenases that include molybdenum as part of the enzymatic cofactor. There are various forms of carbon-monoxide dehydrogenase; Salicibacter pomeroyi DSS-3, for example, has two forms. Note that, at least in some species, the active site Cys is modified with a selenium attached to (rather than replacing) the sulfur atom. This is termed selanylcysteine, and created post-translationally, in contrast to selenocysteine incorporation during translation as for many other selenoproteins.
Probab=25.20 E-value=71 Score=27.17 Aligned_cols=38 Identities=13% Similarity=0.181 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEEeCC--CCCceeCCc
Q 033334 76 KLSAAISAILEKKLSVPKSRFFIKFYDTK--AHQSREHAQ 113 (121)
Q Consensus 76 ~~~~~i~~~l~~~lgi~~~ri~i~f~~~~--~~~~g~~G~ 113 (121)
-..-.+.....+.||+|.++|.|..-|-+ |..+|..|+
T Consensus 500 G~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt~~S 539 (770)
T TIGR02416 500 GHETTYAQIIATELGIPAEDIMVEEGDTDTAPYGLGTYGS 539 (770)
T ss_pred CchHHHHHHHHHHHCCCHHHEEEEecCCCCCCCCCCCchh
Confidence 34556788889999999999999988753 344444443
No 278
>TIGR01759 MalateDH-SF1 malate dehydrogenase. This model represents a family of malate dehydrogenases in bacteria and eukaryotes which utilize either NAD or NADP depending on the species and context. MDH interconverts malate and oxaloacetate and is a part of the citric acid cycle as well as the C4 cycle in certain photosynthetic organisms.
Probab=25.20 E-value=90 Score=23.60 Aligned_cols=19 Identities=26% Similarity=0.202 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHhCCCCCeE
Q 033334 78 SAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri 96 (121)
+.++..++.+.||+++.+|
T Consensus 159 s~R~r~~la~~l~v~~~~V 177 (323)
T TIGR01759 159 HNRAKYQLAAKAGVPVSDV 177 (323)
T ss_pred HHHHHHHHHHHhCcChHHe
Confidence 5678888999999999987
No 279
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.15 E-value=1e+02 Score=20.31 Aligned_cols=21 Identities=19% Similarity=0.414 Sum_probs=18.2
Q ss_pred CCChhHHHHHHHHHHHHHHHH
Q 033334 68 GLNPDVNKKLSAAISAILEKK 88 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~ 88 (121)
..++|++.++...|.+++.+.
T Consensus 4 ~~T~eer~eLk~rIvElVRe~ 24 (127)
T PF06163_consen 4 VFTPEEREELKARIVELVREH 24 (127)
T ss_pred cCCHHHHHHHHHHHHHHHHHc
Confidence 368999999999999998764
No 280
>PRK07260 enoyl-CoA hydratase; Provisional
Probab=25.15 E-value=2.6e+02 Score=19.98 Aligned_cols=52 Identities=12% Similarity=0.100 Sum_probs=34.7
Q ss_pred eEEEEeCCCC-CCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKL-DGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~-~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+. ...-..+++.+|.+++.++-..|.-++.|.--.+..|+.|++
T Consensus 12 v~~itlnrp~~~Nal~~~~~~~l~~~l~~~~~d~~v~~vVl~g~g~~F~aG~D 64 (255)
T PRK07260 12 LATLTLNRPEVSNGFNIPMCQEILEALRLAEEDPSVRFLLINANGKVFSVGGD 64 (255)
T ss_pred EEEEEeCCcccccCCCHHHHHHHHHHHHHHhcCCCceEEEEECCCCCcccccC
Confidence 5677888662 122356889999999988777776666664444556666664
No 281
>PF07368 DUF1487: Protein of unknown function (DUF1487); InterPro: IPR009961 This family consists of several uncharacterised proteins from Drosophila melanogaster. The function of this family is unknown.
Probab=25.13 E-value=2.7e+02 Score=20.06 Aligned_cols=58 Identities=16% Similarity=0.299 Sum_probs=40.8
Q ss_pred CCceeeecCCCCCeeEEEEEeeeCCChhHHHH--------------HHHHHHHHHHHHhCCCCCeEEEEEEeCCCC
Q 033334 45 GSVPMSFGGTEDPAAYGELVSIGGLNPDVNKK--------------LSAAISAILEKKLSVPKSRFFIKFYDTKAH 106 (121)
Q Consensus 45 ~~~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~--------------~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~ 106 (121)
+-.+-+||+ .|.+.+.+++.. +..+--+ +.++++...+-...++.+.+||++.+++-.
T Consensus 103 d~~h~~fg~--~PTgViTlhtFR--t~~Ea~~l~~kE~l~f~SVsiW~ekla~~Yel~~~l~~~~f~iNC~~V~L~ 174 (215)
T PF07368_consen 103 DFTHSYFGD--GPTGVITLHTFR--TPKEAIELCAKETLPFDSVSIWNEKLASAYELAARLPCDTFYINCFNVDLS 174 (215)
T ss_pred CCCHHHcCC--CCCeEEEEEccC--CHHHHHHHHhcCCCCcceEEEeCcHHHHHHHHHHhCCCCEEEEEeccCCch
Confidence 334456664 899999998874 3222222 234688888888899999999999988643
No 282
>PF06364 DUF1068: Protein of unknown function (DUF1068); InterPro: IPR010471 This family consists of several hypothetical plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown.
Probab=25.07 E-value=68 Score=22.18 Aligned_cols=26 Identities=19% Similarity=0.512 Sum_probs=22.3
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
|.-+|+.++++-+.+.++|.++|.+.
T Consensus 72 ~k~dPe~~eEmeK~~~~LL~EELkLq 97 (176)
T PF06364_consen 72 GKHDPEVSEEMEKNFVDLLSEELKLQ 97 (176)
T ss_pred ccCChhhhHHHHhhHHHHHHHHHHHH
Confidence 44679999999999999999998754
No 283
>TIGR02965 xanthine_xdhB xanthine dehydrogenase, molybdopterin binding subunit. Members of the protein family are the molybdopterin-containing large subunit (or, in, eukaryotes, the molybdopterin-binding domain) of xanthine dehydrogenase, and enzyme that reduces the purine pool by catabolizing xanthine to urate. This model is based primarily on bacterial sequences; it does not manage to include all eukaryotic xanthine dehydrogenases and thereby discriminate them from the closely related enzyme aldehyde dehydrogenase.
Probab=24.99 E-value=68 Score=27.22 Aligned_cols=48 Identities=17% Similarity=0.299 Sum_probs=31.8
Q ss_pred CeeEEEEEeeeCC-----ChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 57 PAAYGELVSIGGL-----NPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 57 p~~~v~i~~~g~~-----~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
..+.+.|..-|.. ..|.=+-..-.++....++||+++++|.|..-|.+
T Consensus 448 ~~a~v~i~~dG~v~v~~g~~e~GQG~~T~laQIaAe~LGi~~d~V~v~~~DT~ 500 (758)
T TIGR02965 448 AGALVHVYTDGSIHLNHGGTEMGQGLNTKVAQVVAEEFQVDIDRVKITATDTD 500 (758)
T ss_pred cceEEEEeCCCcEEEEECCCCCCCCHHHHHHHHHHHHhCCCHHHEEEEecCcc
Confidence 3456666533321 12322345566788899999999999999987764
No 284
>PF01903 CbiX: CbiX; InterPro: IPR002762 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CbiX protein, which functions as a cobalt-chelatase in the anaerobic biosynthesis of cobalamin. It catalyses the insertion of cobalt into sirohydrochlorin. The structure of CbiX from Archaeoglobus fulgidus consists of a central mixed beta-sheet flanked by four alpha-helices, although it is about half the size of other Class II tetrapyrrole chelatases []. The CbiX proteins found in archaea appear to be shorter than those found in eubacteria [].; GO: 0016829 lyase activity, 0046872 metal ion binding, 0009236 cobalamin biosynthetic process; PDB: 2XWQ_C 2DJ5_A 1TJN_A 2XWS_A 3LYH_B 2JH3_D.
Probab=24.93 E-value=1.6e+02 Score=17.60 Aligned_cols=39 Identities=18% Similarity=0.353 Sum_probs=26.9
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCce
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSR 109 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g 109 (121)
|.++++.+..+ ..+.+.+.+.++ ..+.+.|-+....++.
T Consensus 2 GSr~~~~~~~~-~~la~~l~~~~~---~~v~~~fle~~~P~l~ 40 (105)
T PF01903_consen 2 GSRDPEANAEL-EDLADRLRERLP---VPVEVAFLEFAEPSLE 40 (105)
T ss_dssp STSSCHHHHHH-HHHHHHHHHHTS---SEEEEEESSCCCSCCH
T ss_pred CCCCHHHHHHH-HHHHHHHHhhcC---CeEEEEEEecCCCCHH
Confidence 45667776666 557888888887 6777777765555443
No 285
>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBb is the B subunit of 2-aminophenol 1,6-dioxygenase (CarB), which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. It is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, it has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=24.91 E-value=2.2e+02 Score=20.78 Aligned_cols=41 Identities=15% Similarity=0.216 Sum_probs=26.8
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCC---CCcEEEE
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGK---PEAYVMI 41 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~k---p~~~i~v 41 (121)
.|++.|.+|...++.-+-+-+-++.++++++..+ -.+++.|
T Consensus 132 iPvV~isin~~~~p~~~~~~~~~lG~al~~~i~~~~~~d~rV~i 175 (268)
T cd07367 132 IPVVPLIVNINTDPAPSPRRCWALGKVLAQYVEKRRPAGERVAV 175 (268)
T ss_pred CCEEEEEecccCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEE
Confidence 3889999998865432334455788888888665 3445444
No 286
>COG1410 MetH Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]
Probab=24.83 E-value=1e+02 Score=26.52 Aligned_cols=30 Identities=10% Similarity=0.237 Sum_probs=26.7
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+++.|.++++++. .+.+..|+||++|.+-
T Consensus 162 ~t~eRK~eIakR~y-~l~~~~gfpp~dIIfD 191 (842)
T COG1410 162 RTAERKFEIAKRAY-ILTEEVGFPPEDIIFD 191 (842)
T ss_pred ccHHHHHHHHHHHH-HHHHhcCCCchheeec
Confidence 67999999999999 9999999999987654
No 287
>PF02289 MCH: Cyclohydrolase (MCH); InterPro: IPR003209 Methenyltetrahydromethanopterin cyclohydrolase catalyses the interconversion of methenyltetrahydromethanopterin and N(5)formyltetrahydromethanopterin, and is found in both archaea and bacteria. In methanogenic archaea, such as Methanobacterium thermoautotrophicum (strain Marburg / DSM 2133), this enzyme is involved in the production of methane from carbon dioxide []. In the sulphate-reducer Archaeoglobus fulgidus, this enzyme is involved in the tetrahydromethanopterin-dependent oxidation of lactate []. In Gram-negative methylotrophic bacteria this enzyme is involved in the tetrahydromethanopterin-dependent oxidation of formaldehyde to formate [].; GO: 0018759 methenyltetrahydromethanopterin cyclohydrolase activity, 0006730 one-carbon metabolic process; PDB: 1QLM_A.
Probab=24.82 E-value=1e+02 Score=23.42 Aligned_cols=24 Identities=8% Similarity=0.206 Sum_probs=19.2
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
++.+.+.+.+|++|+++|+.....
T Consensus 146 ~v~~~IA~~cgv~p~~l~llvapT 169 (313)
T PF02289_consen 146 EVAEKIAEACGVDPENLYLLVAPT 169 (313)
T ss_dssp HHHHHHHHHHTS-GGGEEEEEE-S
T ss_pred HHHHHHHHHcCCCHHHEEEEEecC
Confidence 478888899999999999998764
No 288
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=24.65 E-value=1e+02 Score=19.62 Aligned_cols=24 Identities=13% Similarity=0.113 Sum_probs=16.1
Q ss_pred hhHHHHHHHHHHHHHHHHhCCCCC
Q 033334 71 PDVNKKLSAAISAILEKKLSVPKS 94 (121)
Q Consensus 71 ~e~~~~~~~~i~~~l~~~lgi~~~ 94 (121)
...-.+....+.+.+.++||++|+
T Consensus 112 ~~~A~~~Y~~~~~~l~~elg~~Ps 135 (146)
T PF03704_consen 112 RAEALRVYERYRRRLREELGIEPS 135 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHS----
T ss_pred HHHHHHHHHHHHHHHHHHhCcCcC
Confidence 445567778889999999999986
No 289
>COG4099 Predicted peptidase [General function prediction only]
Probab=24.47 E-value=1.1e+02 Score=23.63 Aligned_cols=25 Identities=16% Similarity=0.307 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
....+.|-+.+..+.+|+.+|||+.
T Consensus 250 ~~~idli~~vlas~ynID~sRIYvi 274 (387)
T COG4099 250 IEKIDLILEVLASTYNIDRSRIYVI 274 (387)
T ss_pred HHHHHHHHHHHhhccCcccceEEEE
No 290
>PF14509 GH97_C: Glycosyl-hydrolase 97 C-terminal, oligomerisation; PDB: 3A24_A 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A.
Probab=24.43 E-value=83 Score=19.67 Aligned_cols=32 Identities=28% Similarity=0.356 Sum_probs=22.0
Q ss_pred CCCCcEEEEEEeC--CceeeecC-CCCCeeEEEEE
Q 033334 33 GKPEAYVMIVLKG--SVPMSFGG-TEDPAAYGELV 64 (121)
Q Consensus 33 ~kp~~~i~v~v~~--~~~~~~gg-~~~p~~~v~i~ 64 (121)
|.|.+|+.+.-+. +..++.|| +.+...-++|.
T Consensus 11 g~pGeyvviARr~~~G~~Wyvg~in~~~~r~i~l~ 45 (103)
T PF14509_consen 11 GYPGEYVVIARRKRDGDDWYVGGINGEDARTITLP 45 (103)
T ss_dssp EETTTEEEEEEEETTTTEEEEEEEE-TT-EEEEEE
T ss_pred CcCceEEEEEEEcCCCCCEEEEEeeCCCceEEEEE
Confidence 5688999998887 88999997 33333335554
No 291
>PF01785 Closter_coat: Closterovirus coat protein; InterPro: IPR002679 This family consist of coat proteins from closterovirus, which belong to the Closteroviridae, which have a positive strand ssRNA genome with no DNA stage during replication. The viral coat protein encapsulates and protects the viral genome. Both the large cp1 and smaller cp2 coat protein originate from the same primary transcript []. Members of the Closterovirus include Beet yellows virus (BYV) (Sugar beet yellows virus) and Grapevine leafroll-associated virus 7.; GO: 0044423 virion part
Probab=24.29 E-value=92 Score=21.54 Aligned_cols=32 Identities=31% Similarity=0.380 Sum_probs=26.8
Q ss_pred eeeCCChhHHHHHHHHHHHHHHHHhCCCCCeE
Q 033334 65 SIGGLNPDVNKKLSAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 65 ~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri 96 (121)
....++.++.+++...+.+++.+.++++.+.+
T Consensus 9 ~~~~ls~~~~~~~~~~~~~~~~~~~~~~~k~~ 40 (188)
T PF01785_consen 9 DPDVLSEEDLKKLSEKLKKFLKEKLGVTDKDF 40 (188)
T ss_pred CccccCHHHHHHHHHHHHHHHHhhcCCCHHHH
Confidence 33457899999999999999999998887654
No 292
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=24.27 E-value=2.3e+02 Score=19.04 Aligned_cols=62 Identities=19% Similarity=0.154 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecC-CCCCeeEEEEEeeeCCChhHHHHHHHHH
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGG-TEDPAAYGELVSIGGLNPDVNKKLSAAI 81 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg-~~~p~~~v~i~~~g~~~~e~~~~~~~~i 81 (121)
+++++.+.+.+.--.|....--++++.+- -.+|- ...|++.|+=...+.++++.-.++.+++
T Consensus 92 ~~ll~~l~~~Lgi~~gett~Dg~ftL~~~--~ClG~C~~aP~~~in~~~~~~lt~~~~~~il~~~ 154 (156)
T PRK05988 92 DALAAHAKARLGIDFHQTTADGAVTLEPV--YCLGLCACSPAAMLDGEVHGRLDPQRLDALLAEA 154 (156)
T ss_pred HHHHHHHHHHhCCCCCCcCCCCeEEEEee--eecCccCCCCeEEECCEEeCCCCHHHHHHHHHHh
Confidence 44555544444333332222223334332 24554 4689999999999999998877776654
No 293
>KOG3332 consensus N-acetylglucosaminyl phosphatidylinositol de-N-acetylase [Cell wall/membrane/envelope biogenesis]
Probab=24.12 E-value=2.9e+02 Score=20.19 Aligned_cols=63 Identities=25% Similarity=0.289 Sum_probs=36.1
Q ss_pred CCcEEEEEE--eCCceeeecCC----CCCeeEEEE--Eeee---CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 35 PEAYVMIVL--KGSVPMSFGGT----EDPAAYGEL--VSIG---GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 35 p~~~i~v~v--~~~~~~~~gg~----~~p~~~v~i--~~~g---~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
+++++...+ .+++.|.|+.+ ....+-+.+ -|.| |.+..+++++.++ ...||+|.+++.+.-.+
T Consensus 36 ~~sriLLviAhpdDE~mFFsPtI~~L~~~~~~v~iLClSnGN~dg~G~iR~kEL~ra-----~~~lgi~~s~v~~l~~~ 109 (247)
T KOG3332|consen 36 AESRILLVIAHPDDESMFFSPTILYLTSGACNVHILCLSNGNADGLGKIREKELHRA-----CAVLGIPLSNVVVLDTP 109 (247)
T ss_pred ccceEEEEEeccCccccchhhHHHHHhcCCccEEEEEecCCCccccchHHHHHHHHH-----HHHHCCchhheEEecCC
Confidence 445444433 34677999943 122333333 3444 4567777777765 34578998877765443
No 294
>PRK08252 enoyl-CoA hydratase; Provisional
Probab=23.82 E-value=2.8e+02 Score=19.84 Aligned_cols=53 Identities=13% Similarity=0.122 Sum_probs=34.8
Q ss_pred CeEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 2 PCLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 2 P~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
++..|+.|-+.. ..-..++..++.+++.++-..|.-++.|.--.+..|+-|++
T Consensus 12 ~v~~itlnrp~~~Nal~~~~~~~l~~~l~~~~~d~~vr~vvl~g~g~~F~aG~D 65 (254)
T PRK08252 12 RVLIITINRPEARNAVNAAVAQGLAAALDELDADPDLSVGILTGAGGTFCAGMD 65 (254)
T ss_pred CEEEEEECCCcccCCCCHHHHHHHHHHHHHHhhCCCceEEEEECCCCceEcCcC
Confidence 356788887632 23356888999999988877666565554344556666654
No 295
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=23.75 E-value=2.7e+02 Score=23.48 Aligned_cols=44 Identities=9% Similarity=0.079 Sum_probs=37.1
Q ss_pred CCeeEEEEEeee-CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 56 DPAAYGELVSIG-GLNPDVNKKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 56 ~p~~~v~i~~~g-~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
.+.+.|++.+.| ..+++.-++.-..|.+.|.+.++++++.||..
T Consensus 436 ~~~~vvq~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~i~~k 480 (702)
T PRK11783 436 GDWVVVQEYAAPKTIDEEKARQRLFDALAATPEVLGIPPNKVVLK 480 (702)
T ss_pred CCEEEEEECCCccccCHHHHHHHHHHHHHHHHHHhCCCCCEEEEE
Confidence 678888888877 36677777888889999999999999999987
No 296
>PRK05442 malate dehydrogenase; Provisional
Probab=23.75 E-value=96 Score=23.49 Aligned_cols=20 Identities=20% Similarity=0.152 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHhCCCCCeEE
Q 033334 78 SAAISAILEKKLSVPKSRFF 97 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~ 97 (121)
+.++..++.+.|++++.+|.
T Consensus 160 s~R~r~~la~~l~v~~~~V~ 179 (326)
T PRK05442 160 HNRALSQLAAKAGVPVADIK 179 (326)
T ss_pred HHHHHHHHHHHhCcChHHeE
Confidence 56688889999999999874
No 297
>PRK07509 enoyl-CoA hydratase; Provisional
Probab=23.71 E-value=2.8e+02 Score=19.84 Aligned_cols=52 Identities=10% Similarity=0.015 Sum_probs=34.8
Q ss_pred eEEEEeCCCC-CCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKL-DGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~-~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+. ...-..++.++|.+++.++-..|.-++.|.--.+..|+-|+.
T Consensus 13 v~~itlnrp~~~Nal~~~~~~~l~~al~~~~~d~~vr~vvl~g~g~~F~aG~D 65 (262)
T PRK07509 13 IADVRLNRPDKMNALDFAMFEELIATIKRLKKDRGIRAVILSGEGGAFCAGLD 65 (262)
T ss_pred EEEEEecCcccccCCCHHHHHHHHHHHHHHhhCCCCeEEEEECCCCCcCCCcC
Confidence 5667777762 122356888999999988887776666665445566666654
No 298
>TIGR03196 pucD xanthine dehydrogenase D subunit. This gene has been characterized in B. subtilis as the molybdopterin binding-subunit of xanthine dehydrogenase (pucD), acting in conjunction with pucC, the FAD-binding subunit and pucE, the FeS-binding subunit. The more common XDH complex (GenProp0640) includes the xdhB gene which is related to pucD. It appears that most of the relatives of pucD outside of this narrow clade are involved in other processes as they are found in unrelated genomic contexts, contain the more common XDH complex and/or do not appear to process purines to allantoin.
Probab=23.57 E-value=73 Score=27.12 Aligned_cols=46 Identities=24% Similarity=0.221 Sum_probs=32.2
Q ss_pred eeEEEEEeeeC--C-----ChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 58 AAYGELVSIGG--L-----NPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 58 ~~~v~i~~~g~--~-----~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
.+.|.|..-|. . ..+.=+-....+.....+.||||.++|.|..-|.
T Consensus 467 ~a~v~l~~dGsv~v~v~~g~~d~GQG~~T~~aQiaAe~LGip~e~V~v~~~DT 519 (768)
T TIGR03196 467 GARLELAEDGTVKIRAHFACAECGQGFLAAAEQIAMEELGCAAEDISIAIADT 519 (768)
T ss_pred cEEEEEeCCCCeEEEEEECCCCcCCCHHHHHHHHHHHHhCCCHHHEEEecCCC
Confidence 46676664442 1 1233345566788889999999999999998775
No 299
>PRK05269 transaldolase B; Provisional
Probab=23.56 E-value=3e+02 Score=20.88 Aligned_cols=41 Identities=17% Similarity=0.251 Sum_probs=27.0
Q ss_pred eEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 59 AYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 59 ~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
..+|+...=+.+.+.-.+-+..|.+++.+ .||+++|++|.+
T Consensus 93 Vs~EVdp~l~~d~~~~i~~A~~l~~~~~~-~gi~~~~v~IKI 133 (318)
T PRK05269 93 VSTEVDARLSFDTEATIAKARKLIALYEE-AGISKDRILIKI 133 (318)
T ss_pred EEEEEecccccCHHHHHHHHHHHHHHhhh-cCCCCCcEEEEe
Confidence 44444332235666666667777766666 699999999974
No 300
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=23.45 E-value=1.1e+02 Score=19.61 Aligned_cols=19 Identities=16% Similarity=0.291 Sum_probs=14.7
Q ss_pred HHHHhCCCCCeEEEEEEeC
Q 033334 85 LEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 85 l~~~lgi~~~ri~i~f~~~ 103 (121)
+-+++|++|+|+.+.....
T Consensus 85 ~L~~~Gi~~eRv~~~~~~~ 103 (124)
T PF02662_consen 85 LLEELGIEPERVRLYWISA 103 (124)
T ss_pred HHHHcCCChhHeEEEEeCc
Confidence 4566799999998876554
No 301
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=23.26 E-value=2.1e+02 Score=21.44 Aligned_cols=32 Identities=25% Similarity=0.231 Sum_probs=26.6
Q ss_pred EEEEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 61 GELVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 61 v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
+.+-.+..-+++......+-|.+.|+++||++
T Consensus 37 l~~gi~p~e~~~~~~~~~~pl~~~L~~~lG~~ 68 (299)
T COG3221 37 LRVGIVPTENPTNLIPAWAPLADYLEKELGIP 68 (299)
T ss_pred eEEEEcCCCChHHHHHHHHHHHHHHHHHhCCc
Confidence 44555566678888999999999999999999
No 302
>PF11010 DUF2848: Protein of unknown function (DUF2848); InterPro: IPR021269 This bacterial family of proteins has no known function.
Probab=23.26 E-value=1.3e+02 Score=21.35 Aligned_cols=38 Identities=16% Similarity=0.207 Sum_probs=28.6
Q ss_pred eCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCce
Q 033334 67 GGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSR 109 (121)
Q Consensus 67 g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g 109 (121)
.|++++..+.++++|. +||||+..-.-.|..+.+....
T Consensus 4 tGRd~~av~~HI~EL~-----~lGVp~Ps~vP~~Y~v~~~llt 41 (194)
T PF11010_consen 4 TGRDQEAVEHHIEELA-----ALGVPPPSSVPLFYRVAPYLLT 41 (194)
T ss_pred ccCCHHHHHHHHHHHH-----HhCCCCCCCCCEEEEechhhCc
Confidence 4688888888887764 4899988888888887765543
No 303
>TIGR01756 LDH_protist lactate dehydrogenase. This model represents a family of protist lactate dehydrogenases which have aparrently evolved from a recent protist malate dehydrogenase ancestor. Lactate dehydrogenase converts the hydroxyl at C-2 of lactate to a carbonyl in the product, pyruvate. The preference of this enzyme for NAD or NADP has not been determined. A critical residue in malate dehydrogenase, arginine-91 (T. vaginalis numbering) has been mutated to a leucine, eliminating the positive charge which complemeted the carboxylate in malate which is absent in lactate. Several other more subtle changes are proposed to make the active site smaller to accomadate the less bulky lactate molecule.
Probab=23.22 E-value=1.2e+02 Score=22.92 Aligned_cols=19 Identities=21% Similarity=0.307 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHhCCCCCeE
Q 033334 78 SAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri 96 (121)
+.++..++.++|++++++|
T Consensus 140 saR~r~~la~~l~v~~~~V 158 (313)
T TIGR01756 140 HNRAVSRIASKLKVPVDHI 158 (313)
T ss_pred HHHHHHHHHHHhCcChhhe
Confidence 4557788999999999988
No 304
>cd00175 SNc Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds.
Probab=22.94 E-value=2e+02 Score=17.89 Aligned_cols=39 Identities=13% Similarity=0.152 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCceeeehh
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCLHAVH 119 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~~~~~ 119 (121)
...+..+-.+++.+.+.- .+|.+.+...+ ..|..+.++|
T Consensus 41 ~~~~g~~A~~~l~~~l~~--~~V~i~~~~~d-----~~gr~la~v~ 79 (129)
T cd00175 41 DEPFGEEAKEFLKKLLLG--KKVQVEVDSKD-----RYGRTLGTVY 79 (129)
T ss_pred CCchHHHHHHHHHHHhCC--CEEEEEEccCC-----CCCCEEEEEE
Confidence 456888889999887742 67888776642 2346665554
No 305
>PF00061 Lipocalin: Lipocalin / cytosolic fatty-acid binding protein family fatty acid-binding protein signature lipocalin signature; InterPro: IPR000566 Proteins which transport small hydrophobic molecules such as steroids, bilins, retinoids, and lipids share limited regions of sequence homology and a common tertiary structure architecture [, , , , ]. This is an eight stranded antiparallel beta-barrel with a repeated + 1 topology enclosing a internal ligand binding site [, ]. The name 'lipocalin' has been proposed [] for this protein family, but cytosolic fatty-acid binding proteins are also included. The sequences of most members of the family, the core or kernal lipocalins, are characterised by three short conserved stretches of residues, while others, the outlier lipocalin group, share only one or two of these [, ]. Proteins known to belong to this family include alpha-1-microglobulin (protein HC); alpha-1-acid glycoprotein (orosomucoid) []; aphrodisin; apolipoprotein D; beta-lactoglobulin; complement component C8 gamma chain []; crustacyanin []; epididymal-retinoic acid binding protein (E-RABP) []; insectacyanin; odorant-binding protein (OBP); human pregnancy-associated endometrial alpha-2 globulin; probasin (PB), a rat prostatic protein; prostaglandin D synthase (5.3.99.2 from EC) []; purpurin; Von Ebner's gland protein (VEGP) []; and lizard epididymal secretory protein IV (LESP IV) [].; GO: 0005488 binding; PDB: 1I05_A 1MUP_A 2LB6_A 1I04_A 1I06_A 1DC9_A 1URE_A 1AEL_A 1T8V_A 1ICM_A ....
Probab=22.84 E-value=1.9e+02 Score=17.94 Aligned_cols=32 Identities=9% Similarity=0.237 Sum_probs=22.1
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
++++.....-+++.+++.+ +|++.+++....+
T Consensus 111 R~~~l~~~~~~~f~~~~~~-~gi~~~~i~~~~~ 142 (144)
T PF00061_consen 111 RTPELSPEALEKFKKFAKS-LGIDEENIVRTFQ 142 (144)
T ss_dssp SSSEEEHHHHHHHHHHHHH-TTETGGCEEEEEE
T ss_pred CCCcCCHHHHHHHHHHHHh-CCCCHHeEEECCC
Confidence 5666666666665555554 4999999987764
No 306
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=22.83 E-value=2.9e+02 Score=19.73 Aligned_cols=49 Identities=10% Similarity=0.075 Sum_probs=34.3
Q ss_pred CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHh-CCCCCeEEEEEEeC
Q 033334 53 GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKL-SVPKSRFFIKFYDT 103 (121)
Q Consensus 53 g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~l-gi~~~ri~i~f~~~ 103 (121)
|...-.+.+++..-+..+.++-.+..+++.+.+++++ ++. ++.|.+.+.
T Consensus 232 g~~~~~v~i~v~v~~~~~v~~~~~i~~~i~~~l~~~~~~i~--~v~I~~~p~ 281 (284)
T PF01545_consen 232 GRNKYVVEIHVQVDPDMSVEEAHEIRERIEKRLREKFPGIY--DVTIHIEPD 281 (284)
T ss_dssp TT-EEEEEEEEEETTTSBHHHHHHHHHHHHHHHHHHSTTCE--EEEEEEEEC
T ss_pred cCCcEEEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCCcE--EEEEEEEec
Confidence 3344555666665566788888899999999999997 443 477777664
No 307
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=22.75 E-value=1.1e+02 Score=17.30 Aligned_cols=24 Identities=17% Similarity=0.398 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
.+.+.+.+++..|+|+++..+.|.
T Consensus 21 V~~lK~~I~~~~gi~~~~q~L~~~ 44 (74)
T cd01810 21 VATLKQQVSQRERVQADQFWLSFE 44 (74)
T ss_pred HHHHHHHHHHHhCCCHHHeEEEEC
Confidence 556777788888999999988864
No 308
>PF03460 NIR_SIR_ferr: Nitrite/Sulfite reductase ferredoxin-like half domain; InterPro: IPR005117 Sulphite reductases (SiRs) and related nitrite reductases (NiRs) catalyse the six-electron reduction reactions of sulphite to sulphide, and nitrite to ammonia, respectively. The Escherichia coli SiR enzyme is a complex composed of two proteins, a flavoprotein alpha-component (SiR-FP) and a hemoprotein beta-component (SiR-HP), and has an alpha(8)beta(4) quaternary structure []. SiR-FP contains both FAD and FMN, while SiR-HP contains a Fe(4)S(4) cluster coupled to a sirohaem through a cysteine bridge. Electrons are transferred from NADPH to FAD, and on to FMN in SiR-FP, from which they are transferred to the metal centre of SiR-HP, where they reduce the siroheme-bound sulphite. SiR-HP has a two-fold symmetry, which generates a distinctive three-domain alpha/beta fold that controls assembly and reactivity []. This entry describes the ferrodoxin-like (alpha/beta sandwich) domain, which consists of a duplication containing two subdomains of this fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3B0H_A 4GEP_A 2GEP_A 2AOP_A 5AOP_A 6GEP_A 4AOP_A 1AOP_A 3AOP_A 8GEP_A ....
Probab=22.62 E-value=30 Score=19.43 Aligned_cols=24 Identities=13% Similarity=0.176 Sum_probs=16.0
Q ss_pred eEEEEEeeeC-CChhHHHHHHHHHH
Q 033334 59 AYGELVSIGG-LNPDVNKKLSAAIS 82 (121)
Q Consensus 59 ~~v~i~~~g~-~~~e~~~~~~~~i~ 82 (121)
.++.+...+| +++++-+.+++..-
T Consensus 10 ~~v~~~~~~G~i~~~~l~~la~ia~ 34 (69)
T PF03460_consen 10 YMVRIRIPGGRISAEQLRALAEIAE 34 (69)
T ss_dssp EEEEEB-GGGEEEHHHHHHHHHHHH
T ss_pred EEEEEeCCCEEECHHHHHHHHHHHH
Confidence 5777887766 78888777666443
No 309
>PRK02264 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional
Probab=22.60 E-value=1.2e+02 Score=23.05 Aligned_cols=39 Identities=18% Similarity=0.141 Sum_probs=27.7
Q ss_pred CeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 57 PAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 57 p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..+.+.+.+- .+.++. +.+.+.+.+|++|+++|+.....
T Consensus 132 ~~avl~lE~~-~lP~~~-------v~e~vA~~cgv~p~~v~~lvapT 170 (317)
T PRK02264 132 DFAVLVLESD-KLPPEE-------VAEKVAEECGVDPENVYLLVAPT 170 (317)
T ss_pred CeEEEEEecC-CCCCHH-------HHHHHHHHcCCCHHHEEEEEecC
Confidence 4455545442 355544 67888899999999999998765
No 310
>TIGR01758 MDH_euk_cyt malate dehydrogenase, NAD-dependent. This model represents the NAD-dependent cytosolic malate dehydrogenase from eukaryotes. The enzyme from pig has been studied by X-ray crystallography
Probab=22.58 E-value=1e+02 Score=23.24 Aligned_cols=19 Identities=21% Similarity=0.225 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHhCCCCCeE
Q 033334 78 SAAISAILEKKLSVPKSRF 96 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri 96 (121)
+.++..++.+.||+++.+|
T Consensus 155 s~R~r~~la~~l~v~~~~V 173 (324)
T TIGR01758 155 HNRALAQVAERAGVPVSDV 173 (324)
T ss_pred HHHHHHHHHHHhCCChhhc
Confidence 4567888999999999988
No 311
>cd00545 MCH Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N(10)-methenyltetrahydromethanopterin (methenyl-H4MPT+) from N(5)-formyltetrahydromethanopterin (formyl- H4MPT), in the third step of the reaction to reduce CO2 to CH4. The protein functions as a homodimer or homotrimer, depending on the organism.
Probab=22.58 E-value=1.3e+02 Score=22.93 Aligned_cols=24 Identities=8% Similarity=0.065 Sum_probs=20.8
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
++.+.+.+.+|++|+++++.....
T Consensus 146 ~v~~~vA~~cgv~p~~l~~lvapT 169 (312)
T cd00545 146 EVAEKVAAECGVDPENVTLIVAPT 169 (312)
T ss_pred HHHHHHHHHcCCCHHHEEEEEecC
Confidence 378888999999999999998765
No 312
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=22.57 E-value=2.2e+02 Score=18.19 Aligned_cols=88 Identities=22% Similarity=0.280 Sum_probs=43.3
Q ss_pred EEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEE-EEeCC--ceeeecCCCCCeeEEEEEeeeCCChhHHHHHHHH
Q 033334 4 LNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMI-VLKGS--VPMSFGGTEDPAAYGELVSIGGLNPDVNKKLSAA 80 (121)
Q Consensus 4 i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v-~v~~~--~~~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~ 80 (121)
+-|+|+-+.+++.-..|+.++...+... +.+ +.| ..... ....+....+...-++++.-||.+-. .
T Consensus 3 vaiDtSGSis~~~l~~fl~ev~~i~~~~---~~~-v~vi~~D~~v~~~~~~~~~~~~~~~~~~~GgGGTdf~-------p 71 (126)
T PF09967_consen 3 VAIDTSGSISDEELRRFLSEVAGILRRF---PAE-VHVIQFDAEVQDVQVFRSLEDELRDIKLKGGGGTDFR-------P 71 (126)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHHHhC---CCC-EEEEEECCEeeeeeEEecccccccccccCCCCCCcch-------H
Confidence 5678888887765666666666544433 333 333 22211 01111111122233444444444322 2
Q ss_pred HHHHHHHHhCCCCCeEEEEEEeCC
Q 033334 81 ISAILEKKLSVPKSRFFIKFYDTK 104 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~~~ 104 (121)
.++++.+. -+...+.|.|.|..
T Consensus 72 vf~~~~~~--~~~~~~vi~fTDg~ 93 (126)
T PF09967_consen 72 VFEYLEEN--RPRPSVVIYFTDGE 93 (126)
T ss_pred HHHHHHhc--CCCCCEEEEEeCCC
Confidence 44455543 25678888999853
No 313
>PRK03580 carnitinyl-CoA dehydratase; Provisional
Probab=22.53 E-value=3e+02 Score=19.76 Aligned_cols=52 Identities=17% Similarity=0.086 Sum_probs=34.0
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCC-ceeeecCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGS-VPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~-~~~~~gg~ 54 (121)
+..|+.|-+....-..++.+++.+++.++-.-|.-++.|.--.+ ..|+-|++
T Consensus 13 v~~itlnrp~~Nal~~~~~~~l~~~l~~~~~d~~vr~vvl~g~g~~~F~aG~D 65 (261)
T PRK03580 13 ILEITLDRPKANAIDAKTSFAMGEVFLNFRDDPELRVAIITGAGEKFFSAGWD 65 (261)
T ss_pred EEEEEECCccccCCCHHHHHHHHHHHHHHHhCCCcEEEEEEeCCCCceecccC
Confidence 56788888732333568889999999888766665555433334 45776654
No 314
>TIGR03120 one_C_mch methenyltetrahydromethanopterin cyclohydrolase. Members of this protein family are the enzyme methenyltetrahydromethanopterin cyclohydrolase, a key enzyme for tetrahydromethanopterin (H4MPT)-linked C1 transfer metabolism.
Probab=22.43 E-value=1.3e+02 Score=22.91 Aligned_cols=39 Identities=15% Similarity=0.059 Sum_probs=27.7
Q ss_pred CeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 57 PAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 57 p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
..+.+.|.+- .+.++. +.+.+.+.+|++|+++++.....
T Consensus 131 ~~avl~lE~~-~lP~~~-------v~~~vA~~cgv~p~~l~~lvapT 169 (312)
T TIGR03120 131 DVAVIVLESD-KLPDEE-------VAEYIADECGVDPENLTLLVAPT 169 (312)
T ss_pred ceEEEEEecC-CCCCHH-------HHHHHHHHcCCCHHHEEEEEecC
Confidence 4455555542 244443 77888899999999999998765
No 315
>PF02934 GatB_N: GatB/GatE catalytic domain; InterPro: IPR006075 Glutamyl-tRNA(Gln) amidotransferase subunit B (6.3.5 from EC) [] is a microbial enzyme that furnishes a means for formation of correctly charged Gln-tRNA(Gln) through the transamidation of misacylated Glu-tRNA(Gln) in organisms which lack glutaminyl-tRNA synthetase. The reaction takes place in the presence of glutamine and ATP through an activated gamma-phospho-Glu-tRNA(Gln). The enzyme is composed of three subunits: A (an amidase), B and C. It also exists in eukaryotes as a protein targeted to the mitochondria. ; GO: 0016874 ligase activity; PDB: 3H0M_H 3H0R_K 3H0L_K 3AL0_B 3IP4_B 2DF4_B 2G5I_B 2F2A_B 2G5H_B 2DQN_B ....
Probab=22.36 E-value=3.5e+02 Score=20.40 Aligned_cols=65 Identities=12% Similarity=0.213 Sum_probs=37.7
Q ss_pred CCeEEEEeCCC-CCCcChHHHHHHHHHHHHHHhCCCCc-------EEEEEEeCCceeeecCCCCCeeEEEEEeeeCCC
Q 033334 1 MPCLNISTNVK-LDGVDTSSILSEATSTVANIIGKPEA-------YVMIVLKGSVPMSFGGTEDPAAYGELVSIGGLN 70 (121)
Q Consensus 1 MP~i~i~tn~~-~~~~~~~~~~~~l~~~~~~~~~kp~~-------~i~v~v~~~~~~~~gg~~~p~~~v~i~~~g~~~ 70 (121)
+|+++|.|--. .+.++..+|+++|.+.+-- +|.... ++-|+| .+.--|+......+||+.+.++.
T Consensus 147 ~PLiEIVTePd~~s~~EA~~~~~~L~~il~~-lgvs~~~me~GslR~DvNV----Sv~~~g~~~~g~rvEIKNlnS~~ 219 (289)
T PF02934_consen 147 VPLIEIVTEPDIRSPEEAAAFLKKLRRILRY-LGVSDGNMEEGSLRCDVNV----SVRPKGEEKFGTRVEIKNLNSFR 219 (289)
T ss_dssp -EEEEEEE-TTB-SHHHHHHHHHHHHHHHHH-HTSB--SGGGTSEEEEEEE----EECETTSSSTS-EEEEEEE-SHH
T ss_pred ccceEEeeCCCCCCHHHHHHHHHHHHHHHHh-cCcccCccccCcEEeecee----eecCCCCCCCcceEEEecccCHH
Confidence 69999988877 4445567888888776654 443322 222222 22224566788999999998753
No 316
>TIGR03683 A-tRNA_syn_arch alanyl-tRNA synthetase. This family of alanyl-tRNA synthetases is limited to the archaea, and is a subset of those sequences identified by the model pfam07973 covering the second additional domain (SAD) of alanyl and threonyl tRNA synthetases.
Probab=22.22 E-value=1e+02 Score=26.96 Aligned_cols=24 Identities=8% Similarity=0.091 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHhCCCCCeEEE
Q 033334 74 NKKLSAAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lgi~~~ri~i 98 (121)
|++-+.---++| +.||+|++||.-
T Consensus 159 K~EaI~~a~e~l-~~lgi~~~~i~~ 182 (902)
T TIGR03683 159 KDETVEYCFEFL-EELGIDPEEITY 182 (902)
T ss_pred HHHHHHHHHHHH-HHcCCCHHHeee
Confidence 345555567888 889999999854
No 317
>PRK14683 hypothetical protein; Provisional
Probab=22.21 E-value=2.3e+02 Score=18.32 Aligned_cols=49 Identities=6% Similarity=0.037 Sum_probs=33.4
Q ss_pred CCCeeEEEEEee--e---CCChhHHHHHHHHHHHHHHHHhCCCCCeEEEEEEeC
Q 033334 55 EDPAAYGELVSI--G---GLNPDVNKKLSAAISAILEKKLSVPKSRFFIKFYDT 103 (121)
Q Consensus 55 ~~p~~~v~i~~~--g---~~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~ 103 (121)
.+-.+||||+.. | .+++.+.+++.++...+|.+.-..+...+.+-...+
T Consensus 53 ~~~lVFVEVKtR~~g~~eaVt~~K~~ri~~aA~~yL~~~~~~~~~~~RFDvv~I 106 (122)
T PRK14683 53 NKQLVFIEVKTSLFNKNIPITYKQQKSILKSAKYFIAFHRKFANYSIRFDLYFF 106 (122)
T ss_pred CCEEEEEEEeecCCCcccCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEE
Confidence 356889999853 2 367888888999888888766544444455554444
No 318
>PF15518 L_protein_N: L protein N-terminus; PDB: 2XI5_D 2XI7_D.
Probab=22.08 E-value=2.8e+02 Score=19.30 Aligned_cols=77 Identities=10% Similarity=0.069 Sum_probs=37.8
Q ss_pred EEEEEEeCCceeeecCCCCCeeEEEEE-eeeCCChh-HHHHHHHHHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCcee
Q 033334 38 YVMIVLKGSVPMSFGGTEDPAAYGELV-SIGGLNPD-VNKKLSAAISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQCL 115 (121)
Q Consensus 38 ~i~v~v~~~~~~~~gg~~~p~~~v~i~-~~g~~~~e-~~~~~~~~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~~ 115 (121)
+-.=++.|+--+..||. ...+.-+ |++..|.+ ..++|. .++.-+.+.+||+-+=+.|.+.++. ...-..|..|
T Consensus 71 ~~ipn~TPDNYi~~~~~---L~IiDyKVSV~~eSs~iT~eKY~-~~~~~i~~~lgi~~EivIIR~nPv~-~~l~i~s~~F 145 (183)
T PF15518_consen 71 YNIPNITPDNYIIDNGK---LYIIDYKVSVDNESSEITYEKYN-EIFGDIFSQLGIDYEIVIIRANPVS-NQLHISSENF 145 (183)
T ss_dssp --------SEEEEETTE---EEEEEEEE-SSSHHHHHHHHHHH-HHHHHHHHHHT--EEEEEEEE-TTT---EEE--HHH
T ss_pred eecCCcCCCcEEEECCE---EEEEEEEEeccCcccHHHHHHHH-HHHHHHHhhcCCCeEEEEEEecCcc-ceEEEchHHH
Confidence 33335566666666654 4444555 44444433 444444 4666777888999999998888875 4566666655
Q ss_pred eehh
Q 033334 116 HAVH 119 (121)
Q Consensus 116 ~~~~ 119 (121)
..+|
T Consensus 146 ~~~~ 149 (183)
T PF15518_consen 146 KQLF 149 (183)
T ss_dssp HHHS
T ss_pred HHHC
Confidence 5443
No 319
>PLN02994 1-aminocyclopropane-1-carboxylate synthase
Probab=21.93 E-value=1.2e+02 Score=20.32 Aligned_cols=26 Identities=8% Similarity=0.138 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHhC----CCCCeEEEE
Q 033334 74 NKKLSAAISAILEKKLS----VPKSRFFIK 99 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~lg----i~~~ri~i~ 99 (121)
..++-+++++++.+..| +.+++|.+.
T Consensus 94 ~~~lR~AiA~~l~~~~g~~v~~~pd~Ivvt 123 (153)
T PLN02994 94 LANFRKAIANFMAEARGGRVKFDADMIVLS 123 (153)
T ss_pred cHHHHHHHHHHHHHHhCCCCccchhheEEc
Confidence 34566777788888766 567877664
No 320
>cd07029 RNAP_I_III_AC19 AC19 subunit of Eukaryotic RNA polymerase (RNAP) I and RNAP III. The eukaryotic AC19 subunit of RNA polymerase (RNAP) I and RNAP III is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP I is responsible for the synthesis of ribosomal RNA precursor, while RNAP III functions in the synthesis of 5S and tRNA. The AC19 subunit is the equivalent of the RPB11 subunit of RNAP II. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association. The homology of AC19 to RPB11 suggests a similar function. The AC19 subunit is likely to ass
Probab=21.93 E-value=1.9e+02 Score=17.32 Aligned_cols=26 Identities=12% Similarity=-0.057 Sum_probs=16.2
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVA 29 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~ 29 (121)
|.++|+|+.+.++ .+++.+++.++..
T Consensus 51 ~~lriqT~~~~~p--~~al~~a~~~l~~ 76 (85)
T cd07029 51 INLRIQTKGGEPA--VDVLKKGLEDLEQ 76 (85)
T ss_pred cEEEEEeCCCCCH--HHHHHHHHHHHHH
Confidence 5788999876554 3555555554443
No 321
>cd05290 LDH_3 A subgroup of L-lactate dehydrogenases. L-lactate dehydrogenases (LDH) are tetrameric enzymes catalyzing the last step of glycolysis in which pyruvate is converted to L-lactate. This subgroup is composed of some bacterial LDHs from firmicutes, gammaproteobacteria, and actinobacteria. Vertebrate LDHs are non-allosteric, but some bacterial LDHs are activated by an allosteric effector such as fructose-1,6-bisphosphate. LDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenase, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=21.91 E-value=1.4e+02 Score=22.43 Aligned_cols=22 Identities=18% Similarity=0.138 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHhCCCCCeEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
+.++..++.+.||+++++|.-.
T Consensus 149 s~R~~~~la~~l~v~~~~V~~~ 170 (307)
T cd05290 149 TARLRRIVADKYGVDPKNVTGY 170 (307)
T ss_pred HHHHHHHHHHHhCCCcccEEEE
Confidence 4567888999999999977654
No 322
>PRK13689 hypothetical protein; Provisional
Probab=21.90 E-value=1.8e+02 Score=17.26 Aligned_cols=25 Identities=8% Similarity=0.268 Sum_probs=20.6
Q ss_pred CCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 68 GLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 68 ~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
...++|++.+++.+.+.|...+.-+
T Consensus 48 ~V~~~qR~~iAe~Fa~AL~~Sv~~~ 72 (75)
T PRK13689 48 SVAPAQRQAIAESFARALQSSVKED 72 (75)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhhcc
Confidence 3678999999999999998876543
No 323
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=21.86 E-value=1.7e+02 Score=18.41 Aligned_cols=31 Identities=10% Similarity=0.099 Sum_probs=25.3
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
+..-|+.+.+.++.++|.+. ||+...+.+.=
T Consensus 16 f~~~qC~~cA~Al~~~L~~~-gI~Gk~i~l~T 46 (100)
T PF15643_consen 16 FKIFQCVECASALKQFLKQA-GIPGKIIRLYT 46 (100)
T ss_pred cCceehHHHHHHHHHHHHHC-CCCceEEEEEe
Confidence 45668899999999999876 99998777653
No 324
>PLN02267 enoyl-CoA hydratase/isomerase family protein
Probab=21.83 E-value=3e+02 Score=19.55 Aligned_cols=52 Identities=10% Similarity=0.053 Sum_probs=32.6
Q ss_pred eEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCc-EEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLDGVDTSSILSEATSTVANIIGKPEA-YVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~-~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+....-..++..++.+++.++-.-|.- .+.|.--.+..|+-|++
T Consensus 10 v~~i~Lnrp~~Nal~~~~~~eL~~al~~~~~d~~~~~vVV~~g~g~~FsaG~D 62 (239)
T PLN02267 10 LFILTLTGDGEHRLNPTLIDSIRSALRQVKSQATPGSVLITTAEGKFFSNGFD 62 (239)
T ss_pred EEEEEeCCCCcCcCCHHHHHHHHHHHHHHHhCCCCceEEEEcCCCCceeCCcC
Confidence 45677777622333568889999999888766653 34443334456666654
No 325
>TIGR00568 alkb DNA alkylation damage repair protein AlkB. Proteins in this family have an as of yet undetermined function in the repair of alkylation damage to DNA. Alignment and family designation based on phylogenomic analysis of Jonathan A. Eisen (PhD Thesis, Stanford University, 1999).
Probab=21.80 E-value=2.5e+02 Score=19.15 Aligned_cols=35 Identities=6% Similarity=0.045 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHhCC---CCCeEEEEEEeCCCCCceeC
Q 033334 76 KLSAAISAILEKKLSV---PKSRFFIKFYDTKAHQSREH 111 (121)
Q Consensus 76 ~~~~~i~~~l~~~lgi---~~~ri~i~f~~~~~~~~g~~ 111 (121)
.....|.+.+++.+|. +++.+.|+++... +-.|+.
T Consensus 74 ~~L~~L~~~v~~~~g~~~~~~n~~LvN~Y~~G-d~mg~H 111 (169)
T TIGR00568 74 QDLGDLCERVATAAGFPDFQPDACLVNRYAPG-ATLSLH 111 (169)
T ss_pred HHHHHHHHHHHHHhCCCCCCCCEEEEEeecCC-Cccccc
Confidence 3445566677777887 8999999999865 555553
No 326
>cd08677 C2A_Synaptotagmin-13 C2 domain. Synaptotagmin is a membrane-trafficking protein characterized by a N-terminal transmembrane region, a linker, and 2 C-terminal C2 domains. Synaptotagmin 13, a member of class 6 synaptotagmins, is located in the brain. It functions are unknown. It, like synaptotagmins 8 and 12, does not have any consensus Ca2+ binding sites. Previously all synaptotagmins were thought to be calcium sensors in the regulation of neurotransmitter release and hormone secretion, but it has been shown that not all of them bind calcium. Of the 17 identified synaptotagmins only 8 bind calcium (1-3, 5-7, 9, 10). The function of the two C2 domains that bind calcium are: regulating the fusion step of synaptic vesicle exocytosis (C2A) and binding to phosphatidyl-inositol-3,4,5-triphosphate (PIP3) in the absence of calcium ions and to phosphatidylinositol bisphosphate (PIP2) in their presence (C2B). C2B also regulates also the recycling step of synaptic vesicles. C2 domain
Probab=21.60 E-value=1.3e+02 Score=19.25 Aligned_cols=29 Identities=10% Similarity=0.013 Sum_probs=20.0
Q ss_pred CcEEEEEEeCCceeeecCCCCCeeEEEEE
Q 033334 36 EAYVMIVLKGSVPMSFGGTEDPAAYGELV 64 (121)
Q Consensus 36 ~~~i~v~v~~~~~~~~gg~~~p~~~v~i~ 64 (121)
.....|.+..+..+...|.+||++-+.+.
T Consensus 13 ~~~L~V~vikA~~L~~~g~sDPYVKv~L~ 41 (118)
T cd08677 13 KAELHVNILEAENISVDAGCECYISGCVS 41 (118)
T ss_pred CCEEEEEEEEecCCCCCCCCCeEEEEEEc
Confidence 34667777666666566778998877763
No 327
>COG5460 Uncharacterized conserved protein [Function unknown]
Probab=21.52 E-value=1.1e+02 Score=18.42 Aligned_cols=23 Identities=13% Similarity=0.202 Sum_probs=19.2
Q ss_pred CChhHHHHHHHHHHHHHHHHhCC
Q 033334 69 LNPDVNKKLSAAISAILEKKLSV 91 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi 91 (121)
++.+++.++.-.|.++|.+++.+
T Consensus 6 f~k~~~a~lv~~i~dYL~~E~~~ 28 (82)
T COG5460 6 FEKQEKAALVTRIRDYLTRETET 28 (82)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999999999999888754
No 328
>PRK07117 acyl carrier protein; Validated
Probab=21.38 E-value=80 Score=18.65 Aligned_cols=23 Identities=9% Similarity=0.306 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHh-CCCCCeE
Q 033334 74 NKKLSAAISAILEKKL-SVPKSRF 96 (121)
Q Consensus 74 ~~~~~~~i~~~l~~~l-gi~~~ri 96 (121)
+.+....+.+.+.+.+ +++++++
T Consensus 3 ~~ei~~~v~~ii~e~~p~i~~~~I 26 (79)
T PRK07117 3 KQRIFDILVRHIREVLPDLDQHQF 26 (79)
T ss_pred HHHHHHHHHHHHHHHcCCCCHHHC
Confidence 4567788889999999 6887765
No 329
>PF05773 RWD: RWD domain; InterPro: IPR006575 The RWD eukaryotic domain is found in RING finger (IPR001841 from INTERPRO) and WD repeat (IPR001680 from INTERPRO) containing proteins and DEXDc-like helicase (IPR001410 from INTERPRO) subfamily related to the ubiquitin-conjugating enzymes domain (IPR000608 from INTERPRO). ; GO: 0005515 protein binding; PDB: 2EBM_A 2EBK_A 2DAX_A 2DAW_A 2DAY_A 2DMF_A 1UKX_A 2YZ0_A.
Probab=21.34 E-value=1.1e+02 Score=18.43 Aligned_cols=35 Identities=11% Similarity=0.178 Sum_probs=24.2
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHh-CCC
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANII-GKP 35 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~-~kp 35 (121)
.|.+.+..+......+.+.+.+.+.+.+.+.. |-+
T Consensus 65 ~P~i~l~~~~~~~~~~~~~l~~~l~~~~~~~~~G~~ 100 (113)
T PF05773_consen 65 PPKISLESPKNSRNEQIEKLNKELEQIAEENRQGEP 100 (113)
T ss_dssp --EEEEEEESSSHCHHHHHHHHHHHHHHHHSTTTS-
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHHHHhCCCcC
Confidence 37888888888664557788888888887776 543
No 330
>TIGR00251 conserved hypothetical protein TIGR00251.
Probab=21.25 E-value=2.1e+02 Score=17.39 Aligned_cols=49 Identities=8% Similarity=0.088 Sum_probs=27.6
Q ss_pred EEEEEEeCCc-eeeecCCCC--CeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCC
Q 033334 38 YVMIVLKGSV-PMSFGGTED--PAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSV 91 (121)
Q Consensus 38 ~i~v~v~~~~-~~~~gg~~~--p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi 91 (121)
.+.|.+.|+. .-...|-.+ ...-+.+++.. .+-.. .++++++|.+.|++
T Consensus 9 ~l~v~V~P~A~~~~i~g~~~~~~~Lki~v~ApP-~~GkA----N~ali~~La~~l~v 60 (87)
T TIGR00251 9 LIRIYVQPKASKDSIVGYNEWRKRVEVKIKAPP-VEGKA----NRELIKFFGEIFGV 60 (87)
T ss_pred EEEEEEeeCCCcceeccccCCCCeEEEEEecCC-CCChH----HHHHHHHHHHHhCc
Confidence 5566677753 333444444 45555555543 33333 45667777888887
No 331
>PRK11789 N-acetyl-anhydromuranmyl-L-alanine amidase; Provisional
Probab=21.19 E-value=1.4e+02 Score=20.85 Aligned_cols=31 Identities=13% Similarity=0.123 Sum_probs=23.2
Q ss_pred CChhHHHHHHHHHHHHHHHHhCCCCCeEEEEE
Q 033334 69 LNPDVNKKLSAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
.+++|.+++. .|+..|.+..++++++|.=.-
T Consensus 127 ~t~aQ~~aL~-~L~~~L~~~y~i~~~~IvGH~ 157 (185)
T PRK11789 127 FTDAQYQALA-ALTRALRAAYPIIAERITGHS 157 (185)
T ss_pred ccHHHHHHHH-HHHHHHHHHcCCCHHhEEehh
Confidence 5677877776 567778888999877776653
No 332
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=21.18 E-value=3.5e+02 Score=20.03 Aligned_cols=57 Identities=11% Similarity=0.156 Sum_probs=32.0
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCC-C-CcEEEEEEeCCceeeecCCCCCeeE
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVANIIGK-P-EAYVMIVLKGSVPMSFGGTEDPAAY 60 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~k-p-~~~i~v~v~~~~~~~~gg~~~p~~~ 60 (121)
|++.|.+|....+.-.-+-+-++.+++.+.... | .+++.+--. ..+++--...|..|
T Consensus 143 pvVpv~ln~~~~p~~~~~r~~~lG~al~~~i~~~~~d~rV~iIaS--G~LSH~l~~~p~G~ 201 (278)
T PRK13364 143 KVVPVCINTVQHPLPSARRCYKLGQAIGRAIASWPSDERVVVIGT--GGLSHQLDGERAGF 201 (278)
T ss_pred CEEEEEeeccCCCCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEe--CccccCCCCCCccc
Confidence 689999988753322234455788888887654 2 234444222 23343333566666
No 333
>PRK02858 germination protease; Provisional
Probab=21.17 E-value=4e+02 Score=20.83 Aligned_cols=50 Identities=14% Similarity=0.125 Sum_probs=34.5
Q ss_pred CeeEEEEEeeeCC--ChhHHHHHHHHHHHHHHHHh---CCCCCeEEEEEEeCCCCCce
Q 033334 57 PAAYGELVSIGGL--NPDVNKKLSAAISAILEKKL---SVPKSRFFIKFYDTKAHQSR 109 (121)
Q Consensus 57 p~~~v~i~~~g~~--~~e~~~~~~~~i~~~l~~~l---gi~~~ri~i~f~~~~~~~~g 109 (121)
...|+.|.+.+-+ +.+..+++++.+.+.|.+-+ +++++ --+.+.-+ .||-
T Consensus 68 ~G~YiTiEap~l~~~D~~~~~~v~~~la~~l~~ll~~~~~~~~-~~vLVVGL--GN~~ 122 (369)
T PRK02858 68 PGRYLTLEVQGIRKQDTELQEKVERVFAKEFSAFLEELGITKE-ASCLIVGL--GNWN 122 (369)
T ss_pred CccEEEEecCCccccCHHHHHHHHHHHHHHHHHHHHhcCCCCC-CcEEEEeC--CCcC
Confidence 4679999887743 47777888888888888777 77755 33444454 5664
No 334
>PF13656 RNA_pol_L_2: RNA polymerase Rpb3/Rpb11 dimerisation domain; PDB: 2Y0S_L 1I3Q_K 4A3D_K 2JA8_K 3GTP_K 1R9T_K 3PO2_K 4A3J_K 3HOX_K 2JA7_K ....
Probab=21.16 E-value=1.8e+02 Score=16.99 Aligned_cols=25 Identities=12% Similarity=0.092 Sum_probs=14.4
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHH
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTV 28 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (121)
|.++|+|+...++ .+.|.+.+.++.
T Consensus 43 i~l~Iqt~~~~~p--~~~l~~a~~~l~ 67 (77)
T PF13656_consen 43 INLRIQTKGGITP--IEALKKALEDLI 67 (77)
T ss_dssp EEEEEEESTTS-H--HHHHHHHHHHHH
T ss_pred eEEEEEECCCCCH--HHHHHHHHHHHH
Confidence 5688888866544 345555554443
No 335
>PF02866 Ldh_1_C: lactate/malate dehydrogenase, alpha/beta C-terminal domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR022383 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the C-terminal, and is thought to be an is an unusual alpha+beta fold.; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 4MDH_B 5MDH_A 1GV0_A 1GUZ_D 2EWD_B 2FRM_D 2FNZ_B 2FN7_B 2FM3_A 1LTH_T ....
Probab=21.13 E-value=1.2e+02 Score=20.42 Aligned_cols=23 Identities=30% Similarity=0.212 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKF 100 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f 100 (121)
+.++..++.+.||+.|..+...+
T Consensus 5 s~R~~~~la~~l~v~~~~v~~~V 27 (174)
T PF02866_consen 5 SARFRYFLAEKLGVNPSSVNAYV 27 (174)
T ss_dssp HHHHHHHHHHHHTSGGGGEEEEE
T ss_pred HHHHHHHHHHHHCcCccceEEEE
Confidence 35677889999999999886553
No 336
>PF08502 LeuA_dimer: LeuA allosteric (dimerisation) domain; InterPro: IPR013709 This is the C-terminal regulatory (R) domain of alpha-isopropylmalate synthase, which catalyses the first committed step in the leucine biosynthetic pathway []. This domain, is an internally duplicated structure with a novel fold []. It comprises two similar units that are arranged such that the two -helices pack together in the centre, crossing at an angle of 34 degrees, sandwiched between the two three-stranded, antiparallel beta-sheets. The overall domain is thus constructed as a beta-alpha-beta three-layer sandwich []. ; GO: 0003852 2-isopropylmalate synthase activity, 0009098 leucine biosynthetic process; PDB: 3HQ1_A 3HPZ_B 1SR9_A 3FIG_B 3HPS_A 3F6G_A 3F6H_A.
Probab=21.01 E-value=2.4e+02 Score=18.06 Aligned_cols=68 Identities=13% Similarity=0.165 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCCC-CCeeEEEEEeeeC-------CChhHHHHHHHHHHHHHHHHh
Q 033334 18 SSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGTE-DPAAYGELVSIGG-------LNPDVNKKLSAAISAILEKKL 89 (121)
Q Consensus 18 ~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~~-~p~~~v~i~~~g~-------~~~e~~~~~~~~i~~~l~~~l 89 (121)
+.-++.+.+++.+.+|.+-+..--++ +-.-+|++ ...+||++...++ ++.+-..+-.+++...+.+.|
T Consensus 58 nGpv~A~~~Al~~~~g~~i~l~dy~~----~al~~gsda~a~a~V~i~~~~g~~~~G~g~~~Di~~As~~A~~~AiNr~l 133 (133)
T PF08502_consen 58 NGPVDAFFNALNKALGIDIELIDYSE----HALGSGSDAQAEAYVEIEDEDGRTVWGVGIDTDIVEASLKAYLSAINRLL 133 (133)
T ss_dssp SSHHHHHHHHHHCHCCCEEEEEEEEE----EESTTSTT-EEEEEEEEEE-GGGEEEEEEEESSHHHHHHHHHHHHHHHHS
T ss_pred CChHHHHHHHHHHHcCCceEEEEEEE----EeccCCCCcEEEEEEEEEECCCcEEEEEEECCCHHHHHHHHHHHHHHhhC
Confidence 34567888899999988543333222 22234543 6788999984432 356666777777777666543
No 337
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=20.98 E-value=77 Score=17.53 Aligned_cols=28 Identities=14% Similarity=0.242 Sum_probs=18.3
Q ss_pred HHHHHHHHhCCCCCeEEEEEEe--CCCCCce
Q 033334 81 ISAILEKKLSVPKSRFFIKFYD--TKAHQSR 109 (121)
Q Consensus 81 i~~~l~~~lgi~~~ri~i~f~~--~~~~~~g 109 (121)
+.++| +.|+++++++-+.+.. ++...|.
T Consensus 18 l~~lL-~~l~~~~~~vav~vNg~iv~r~~~~ 47 (66)
T PRK05659 18 VAALL-AREGLAGRRVAVEVNGEIVPRSQHA 47 (66)
T ss_pred HHHHH-HhcCCCCCeEEEEECCeEeCHHHcC
Confidence 34444 4589999999888665 4555553
No 338
>PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional
Probab=20.92 E-value=84 Score=23.94 Aligned_cols=24 Identities=25% Similarity=0.571 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEE
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIK 99 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~ 99 (121)
-..++.|...+. ++|+|++++++-
T Consensus 186 ln~ak~L~~~l~-~~Gi~~edIviD 209 (319)
T PRK04452 186 INLAKQLNILLT-ELGVPRERIVMD 209 (319)
T ss_pred HHHHHHHHHHHH-HcCCCHHHEEEe
Confidence 447777888787 779999999875
No 339
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=20.81 E-value=3.2e+02 Score=19.39 Aligned_cols=78 Identities=18% Similarity=0.230 Sum_probs=52.4
Q ss_pred CeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeec---------CC-CCCeeEEEEEeeeCCC-
Q 033334 2 PCLNISTNVKLDGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFG---------GT-EDPAAYGELVSIGGLN- 70 (121)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~g---------g~-~~p~~~v~i~~~g~~~- 70 (121)
|-+-+..+-+-... +. ++.++|.++-+.|.-|..|.+-.+. || |+ -+.+.|+.+..+..++
T Consensus 105 P~~VlFiTDG~~~~-~~----~~~~~i~~as~~pifwqFVgiG~~~---f~fL~kLD~l~gR~vDNa~Ff~~~d~~~lsD 176 (200)
T PF10138_consen 105 PALVLFITDGGPDD-RR----AIEKLIREASDEPIFWQFVGIGDSN---FGFLEKLDDLAGRVVDNAGFFAIDDIDELSD 176 (200)
T ss_pred CeEEEEEecCCccc-hH----HHHHHHHhccCCCeeEEEEEecCCc---chHHHHhhccCCcccCCcCeEecCCcccCCH
Confidence 55566666554433 33 6777788888889999999885433 33 43 4899999998887776
Q ss_pred hhHHHHHHHHHHHHHHH
Q 033334 71 PDVNKKLSAAISAILEK 87 (121)
Q Consensus 71 ~e~~~~~~~~i~~~l~~ 87 (121)
.+....+-.++.+.|.+
T Consensus 177 ~eLy~~LL~Efp~Wl~~ 193 (200)
T PF10138_consen 177 EELYDRLLAEFPDWLKA 193 (200)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55556666666665553
No 340
>COG1109 {ManB} Phosphomannomutase [Carbohydrate transport and metabolism]
Probab=20.80 E-value=4.3e+02 Score=20.91 Aligned_cols=50 Identities=12% Similarity=0.169 Sum_probs=37.1
Q ss_pred EEEEEEeCCce-eeecCCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhC
Q 033334 38 YVMIVLKGSVP-MSFGGTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLS 90 (121)
Q Consensus 38 ~i~v~v~~~~~-~~~gg~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lg 90 (121)
-+.+...++.+ +.+.-.++|..-|-+.+. +.++-+++.+.+.+.+.+.++
T Consensus 412 gv~~~~~~g~~~lvRpSGTEP~lrvy~Ea~---~~~~~~~~~~~~~~~v~~~~~ 462 (464)
T COG1109 412 GVKVELEDGGRVLVRPSGTEPLIRVYVEAK---DEELAEELAEEIAELVREALG 462 (464)
T ss_pred eEEEEeCCCcEEEEEeCCCceEEEEEEEEC---CHHHHHHHHHHHHHHHHhhhc
Confidence 45566677776 666666899887776654 788888888888888887664
No 341
>KOG3276 consensus Uncharacterized conserved protein, contains YggU domain [Function unknown]
Probab=20.78 E-value=1e+02 Score=19.98 Aligned_cols=22 Identities=27% Similarity=0.288 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhCCCCCeEEE
Q 033334 77 LSAAISAILEKKLSVPKSRFFI 98 (121)
Q Consensus 77 ~~~~i~~~l~~~lgi~~~ri~i 98 (121)
-.++|+++|.+.||+..+++.+
T Consensus 71 ANaeLl~ylskvLgLRksdv~l 92 (125)
T KOG3276|consen 71 ANAELLEYLSKVLGLRKSDVTL 92 (125)
T ss_pred hhHHHHHHHHHHhhhhhhheee
Confidence 3456788889999998887654
No 342
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=20.74 E-value=3e+02 Score=20.39 Aligned_cols=69 Identities=10% Similarity=0.021 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeec--CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCC
Q 033334 19 SILSEATSTVANIIGKPEAYVMIVLKGSVPMSFG--GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVP 92 (121)
Q Consensus 19 ~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~g--g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~ 92 (121)
+++..+...+++....| +.+|++.+..+-.- .-..-+..|++..- ..+.++|.+.++++.++..+. |++
T Consensus 60 ~~~~~~~~~~a~~~~vp---v~lHlDH~~~~e~i~~Al~~G~tsVm~d~s-~~~~~eni~~t~~v~~~a~~~-gv~ 130 (281)
T PRK06806 60 HLIGPLMVAAAKQAKVP---VAVHFDHGMTFEKIKEALEIGFTSVMFDGS-HLPLEENIQKTKEIVELAKQY-GAT 130 (281)
T ss_pred HHHHHHHHHHHHHCCCC---EEEECCCCCCHHHHHHHHHcCCCEEEEcCC-CCCHHHHHHHHHHHHHHHHHc-CCe
Confidence 44555556677766666 78888776432211 00112344555432 278999999999999988765 666
No 343
>PRK09674 enoyl-CoA hydratase-isomerase; Provisional
Probab=20.63 E-value=3.3e+02 Score=19.48 Aligned_cols=52 Identities=10% Similarity=0.098 Sum_probs=34.3
Q ss_pred eEEEEeCCCCC-CcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKLD-GVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~~-~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+.. ..-..++.++|.+++.++-..|.-++.|.--.+..|+-|++
T Consensus 12 v~~itlnrp~~~Nal~~~~~~~L~~~~~~~~~d~~vr~vVltg~g~~F~aG~D 64 (255)
T PRK09674 12 VLLLTLNRPEARNALNNALLTQLVNELEAAATDTSIGVCVITGNARFFAAGAD 64 (255)
T ss_pred EEEEEEcCCCccCCCCHHHHHHHHHHHHHHhhCCCcEEEEEECCCCceecccC
Confidence 55677777631 22256888999999988876666565554444566777764
No 344
>PRK08345 cytochrome-c3 hydrogenase subunit gamma; Provisional
Probab=20.60 E-value=99 Score=22.67 Aligned_cols=27 Identities=7% Similarity=0.059 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEEe
Q 033334 75 KKLSAAISAILEKKLSVPKSRFFIKFYD 102 (121)
Q Consensus 75 ~~~~~~i~~~l~~~lgi~~~ri~i~f~~ 102 (121)
..+.+++.+.| .++|+++++|+..+..
T Consensus 221 ~~m~~~v~~~L-~~~Gv~~~~i~~~l~~ 247 (289)
T PRK08345 221 PVMYKFVFKEL-INRGYRPERIYVTLER 247 (289)
T ss_pred HHHHHHHHHHH-HHcCCCHHHEEEEehh
Confidence 34677777777 5689999999999854
No 345
>PF10939 DUF2631: Protein of unknown function (DUF2631) ; InterPro: IPR024341 This entry represents a bacterial protein of unknown function.
Probab=20.55 E-value=46 Score=19.24 Aligned_cols=18 Identities=11% Similarity=-0.093 Sum_probs=13.6
Q ss_pred EEEeCCCCCceeCCceee
Q 033334 99 KFYDTKAHQSREHAQCLH 116 (121)
Q Consensus 99 ~f~~~~~~~~g~~G~~~~ 116 (121)
.-.|.|...|||.|..-+
T Consensus 13 d~~d~PSa~WGWhg~~~r 30 (65)
T PF10939_consen 13 DPADVPSAAWGWHGENPR 30 (65)
T ss_pred CcccCCCccccccCCCCc
Confidence 346788899999997544
No 346
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=20.55 E-value=96 Score=18.38 Aligned_cols=27 Identities=15% Similarity=0.318 Sum_probs=18.0
Q ss_pred CChhHHHHHHHHHHHH------HHHHhCCCCCe
Q 033334 69 LNPDVNKKLSAAISAI------LEKKLSVPKSR 95 (121)
Q Consensus 69 ~~~e~~~~~~~~i~~~------l~~~lgi~~~r 95 (121)
+|.++..++...+++- .-..||||+|.
T Consensus 13 vsd~qi~elFq~lT~NPl~AMa~i~qLGip~eK 45 (82)
T PF11212_consen 13 VSDEQINELFQALTQNPLAAMATIQQLGIPQEK 45 (82)
T ss_pred CCHHHHHHHHHHHhhCHHHHHHHHHHcCCCHHH
Confidence 5666766776666653 45678888764
No 347
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=20.53 E-value=1.4e+02 Score=17.76 Aligned_cols=34 Identities=12% Similarity=0.251 Sum_probs=20.7
Q ss_pred CCeEEEEeCCCCCCcChHHHHHHHHHHHHHHhCC
Q 033334 1 MPCLNISTNVKLDGVDTSSILSEATSTVANIIGK 34 (121)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~~~~~~k 34 (121)
.|-+.+......+..+...+.+.+.+.+.+..|.
T Consensus 57 ~P~i~~~~~~~l~~~~~~~l~~~l~~~~~e~~g~ 90 (107)
T smart00591 57 APPISLLNSEGLSDEQLAELLKKLEEIAEENLGE 90 (107)
T ss_pred CCCeEEECCCCCCHHHHHHHHHHHHHHHHHhCCC
Confidence 3666666555555555566777777666665543
No 348
>COG4631 XdhB Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]
Probab=20.44 E-value=1.8e+02 Score=24.25 Aligned_cols=32 Identities=9% Similarity=0.142 Sum_probs=25.7
Q ss_pred HHHHHHHHHhCCCCCeEEEEEEeCCCCCceeCCce
Q 033334 80 AISAILEKKLSVPKSRFFIKFYDTKAHQSREHAQC 114 (121)
Q Consensus 80 ~i~~~l~~~lgi~~~ri~i~f~~~~~~~~g~~G~~ 114 (121)
++..++...||+|.+.|.|.+..+- =||+|+-
T Consensus 217 E~Q~~vahvLGvpsn~VtV~~rRMG---GGFGGKE 248 (781)
T COG4631 217 EVQHLVAHVLGVPSNAVTVEVRRMG---GGFGGKE 248 (781)
T ss_pred HHHHHHHHHhCCCcceEEEEEEeec---CCcCccc
Confidence 3566777899999999999999984 4777753
No 349
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=20.39 E-value=1.2e+02 Score=17.20 Aligned_cols=24 Identities=13% Similarity=-0.045 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHhCCCCCeEEEEEE
Q 033334 78 SAAISAILEKKLSVPKSRFFIKFY 101 (121)
Q Consensus 78 ~~~i~~~l~~~lgi~~~ri~i~f~ 101 (121)
.+.+.+.+++..|+|+++..+.|.
T Consensus 21 V~~lK~~I~~~~gi~~~~q~Li~~ 44 (70)
T cd01794 21 VGQLKKQLQAAEGVDPCCQRWFFS 44 (70)
T ss_pred HHHHHHHHHHHhCCCHHHeEEEEC
Confidence 345666777788999998888764
No 350
>PRK06023 enoyl-CoA hydratase; Provisional
Probab=20.35 E-value=3.3e+02 Score=19.41 Aligned_cols=51 Identities=12% Similarity=0.066 Sum_probs=34.6
Q ss_pred eEEEEeCCCC--CCcChHHHHHHHHHHHHHHhCCCCcEEEEEEeCCceeeecCC
Q 033334 3 CLNISTNVKL--DGVDTSSILSEATSTVANIIGKPEAYVMIVLKGSVPMSFGGT 54 (121)
Q Consensus 3 ~i~i~tn~~~--~~~~~~~~~~~l~~~~~~~~~kp~~~i~v~v~~~~~~~~gg~ 54 (121)
+..|+.|-+. ... ..++.++|.+++.++-.-|.-++.|.--.+..|+-|++
T Consensus 16 v~~itlnrp~~~Nal-~~~~~~~L~~~l~~~~~d~~vr~vVl~g~g~~FcaG~D 68 (251)
T PRK06023 16 VQVIRFNRPEKKNAI-TRAMYATMAKALKAADADDAIRAHVFLGTEGCFSAGND 68 (251)
T ss_pred EEEEEecCcccccCC-CHHHHHHHHHHHHHHhcCCCceEEEEECCCCCeecCcC
Confidence 6678888762 333 46888999999988777666666664444556666654
No 351
>KOG1030 consensus Predicted Ca2+-dependent phospholipid-binding protein [General function prediction only]
Probab=20.33 E-value=2.2e+02 Score=19.70 Aligned_cols=11 Identities=45% Similarity=0.625 Sum_probs=6.0
Q ss_pred CCCCCeeEEEE
Q 033334 53 GTEDPAAYGEL 63 (121)
Q Consensus 53 g~~~p~~~v~i 63 (121)
|++||++.+++
T Consensus 25 ~sSDPyVVl~l 35 (168)
T KOG1030|consen 25 GSSDPYVVLEL 35 (168)
T ss_pred cCCCCeEEEEE
Confidence 45555555554
No 352
>TIGR01441 GPR GPR endopeptidase. This model describes a tetrameric protease that makes the rate-limiting first cut in the small, acid-soluble spore proteins (SASP) of Bacillus subtilis and related species. The enzyme lacks clear homology to other known proteases. It processes its own amino end before becoming active to cleave SASPs.
Probab=20.33 E-value=4.2e+02 Score=20.63 Aligned_cols=50 Identities=14% Similarity=0.133 Sum_probs=33.9
Q ss_pred CeeEEEEEeeeCC--ChhHHHHHHHHHHHHHHHHh---CCCCCeEEEEEEeCCCCCce
Q 033334 57 PAAYGELVSIGGL--NPDVNKKLSAAISAILEKKL---SVPKSRFFIKFYDTKAHQSR 109 (121)
Q Consensus 57 p~~~v~i~~~g~~--~~e~~~~~~~~i~~~l~~~l---gi~~~ri~i~f~~~~~~~~g 109 (121)
...|+.|.+.+-+ +.+..+++++.+.+.|.+-+ +++++ --+.+.-+ .||-
T Consensus 58 ~G~YiTiEap~l~~~d~~~~~~v~~~la~~l~~ll~~~~~~~~-~~iLVVGL--GN~~ 112 (358)
T TIGR01441 58 KGRYLTLEIQGIRLYDSEIQEKISKVFADEFSKFISKLKIDKD-MTCLVVGL--GNWN 112 (358)
T ss_pred CccEEEEecCCcccccHHHHHHHHHHHHHHHHHHHhhccCCCC-CcEEEEeC--CCcC
Confidence 4569999887743 46777888888888887777 67655 33444444 5564
No 353
>PLN02833 glycerol acyltransferase family protein
Probab=20.32 E-value=2.2e+02 Score=22.10 Aligned_cols=47 Identities=11% Similarity=0.200 Sum_probs=33.0
Q ss_pred CeeEEEEEeeeCCC---hhHHHHHHHHHHHHHHHHhCCCC--CeEEEEEEeC
Q 033334 57 PAAYGELVSIGGLN---PDVNKKLSAAISAILEKKLSVPK--SRFFIKFYDT 103 (121)
Q Consensus 57 p~~~v~i~~~g~~~---~e~~~~~~~~i~~~l~~~lgi~~--~ri~i~f~~~ 103 (121)
|...++|......+ .+.++++++.+.+.+.+.+|++. =+-|+.+..+
T Consensus 302 ~~~~v~V~~LpPi~~~~~e~~~efA~rv~~~Ia~~lgi~~~~wdg~lk~~~~ 353 (376)
T PLN02833 302 WAVVCDVWYLEPQTLRPGETPIEFAERVRDMIAKRAGLKKVPWDGYLKYYRP 353 (376)
T ss_pred CceEEEEEECCCcCCCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCceeecCC
Confidence 44567777655543 35689999999999999999884 3555555444
No 354
>PF14516 AAA_35: AAA-like domain
Probab=20.21 E-value=1.7e+02 Score=22.06 Aligned_cols=69 Identities=12% Similarity=0.091 Sum_probs=40.9
Q ss_pred HHHHHHHhCCCCcEEEEEEeC--Cceeee------c-CCCCCeeEEEEEeeeCCChhHHHHHHHHHHHHHHHHhCCCC
Q 033334 25 TSTVANIIGKPEAYVMIVLKG--SVPMSF------G-GTEDPAAYGELVSIGGLNPDVNKKLSAAISAILEKKLSVPK 93 (121)
Q Consensus 25 ~~~~~~~~~kp~~~i~v~v~~--~~~~~~------g-g~~~p~~~v~i~~~g~~~~e~~~~~~~~i~~~l~~~lgi~~ 93 (121)
-+.+-+.+.+|.+++.|.-.. |..-.. . ...-.++++++...+.-....-.++.+.+|..+.+.|+++.
T Consensus 20 e~~~~~~i~~~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~ 97 (331)
T PF14516_consen 20 EQECYQEIVQPGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDE 97 (331)
T ss_pred HHHHHHHHhcCCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCCh
Confidence 344455567778887774321 110000 0 11357888888887764334445577888888888888764
Done!