Query 033597
Match_columns 115
No_of_seqs 116 out of 697
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 04:06:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033597.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033597hhsearch_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 1E-44 2.2E-49 226.9 13.0 112 1-115 1-113 (113)
2 PF01187 MIF: Macrophage migra 100.0 1E-44 2.2E-49 228.1 12.1 113 2-115 1-113 (114)
3 PTZ00397 macrophage migration 100.0 2.6E-43 5.6E-48 222.4 14.4 115 1-115 1-115 (116)
4 KOG1759 Macrophage migration i 100.0 6.1E-42 1.3E-46 210.4 12.1 114 1-115 1-114 (115)
5 PF14552 Tautomerase_2: Tautom 99.5 6.2E-14 1.3E-18 83.1 7.7 74 38-111 3-82 (82)
6 cd00491 4Oxalocrotonate_Tautom 99.5 4.9E-14 1.1E-18 78.2 6.8 56 60-115 2-57 (58)
7 PRK01964 4-oxalocrotonate taut 99.5 3.1E-14 6.7E-19 80.7 5.7 57 59-115 2-58 (64)
8 PRK02220 4-oxalocrotonate taut 99.5 4.5E-14 9.7E-19 79.2 6.0 57 59-115 2-58 (61)
9 PF01361 Tautomerase: Tautomer 99.5 6.7E-14 1.5E-18 78.3 6.7 56 60-115 2-57 (60)
10 TIGR00013 taut 4-oxalocrotonat 99.5 6.3E-14 1.4E-18 79.1 6.1 56 60-115 2-58 (63)
11 PRK00745 4-oxalocrotonate taut 99.5 1.1E-13 2.5E-18 77.8 6.0 57 59-115 2-58 (62)
12 COG1942 Uncharacterized protei 99.3 8.4E-12 1.8E-16 71.5 6.6 56 59-114 2-58 (69)
13 PRK02289 4-oxalocrotonate taut 99.3 7.8E-12 1.7E-16 70.0 6.3 55 60-114 3-57 (60)
14 cd00580 CHMI 5-carboxymethyl-2 99.3 4.1E-10 8.9E-15 70.6 12.8 105 2-106 1-112 (113)
15 PF08921 DUF1904: Domain of un 99.2 3.3E-10 7.2E-15 70.3 9.9 107 1-113 1-107 (108)
16 PF14832 Tautomerase_3: Putati 99.1 2.5E-09 5.4E-14 69.0 10.2 112 1-113 1-118 (136)
17 PRK01271 4-oxalocrotonate taut 99.1 5E-10 1.1E-14 65.4 5.5 50 60-109 3-53 (76)
18 PRK01964 4-oxalocrotonate taut 99.0 1.3E-09 2.8E-14 61.6 5.5 55 1-55 1-57 (64)
19 PRK02289 4-oxalocrotonate taut 99.0 2.8E-09 6.2E-14 59.5 6.2 54 1-54 1-56 (60)
20 PRK00745 4-oxalocrotonate taut 99.0 1.9E-09 4.2E-14 60.4 5.3 55 1-55 1-57 (62)
21 PRK02220 4-oxalocrotonate taut 99.0 2.9E-09 6.3E-14 59.5 5.8 55 1-55 1-57 (61)
22 COG1942 Uncharacterized protei 98.9 9.9E-09 2.2E-13 58.8 6.1 55 1-55 1-58 (69)
23 PRK15031 5-carboxymethyl-2-hyd 98.8 4.2E-07 9.1E-12 57.9 12.9 111 1-111 1-119 (126)
24 PRK01271 4-oxalocrotonate taut 98.7 5E-08 1.1E-12 57.0 5.8 45 1-45 1-46 (76)
25 PF01361 Tautomerase: Tautomer 98.7 7E-08 1.5E-12 53.7 6.0 54 2-55 1-56 (60)
26 cd00491 4Oxalocrotonate_Tautom 98.6 1.4E-07 3E-12 52.0 6.0 53 2-54 1-55 (58)
27 TIGR00013 taut 4-oxalocrotonat 98.6 1.4E-07 3.1E-12 52.8 5.8 54 2-55 1-57 (63)
28 PF02962 CHMI: 5-carboxymethyl 98.3 2.5E-05 5.5E-10 49.7 10.3 104 2-106 1-112 (124)
29 PTZ00397 macrophage migration 97.8 7.5E-05 1.6E-09 46.8 6.0 53 3-55 60-114 (116)
30 COG3232 HpaF 5-carboxymethyl-2 97.8 0.00022 4.7E-09 44.9 6.9 89 1-90 1-93 (127)
31 PF14552 Tautomerase_2: Tautom 97.5 0.00033 7.2E-09 41.4 5.5 50 3-52 31-82 (82)
32 PF14832 Tautomerase_3: Putati 97.2 0.00093 2E-08 43.2 4.9 47 66-113 10-56 (136)
33 PTZ00450 macrophage migration 96.5 0.0085 1.8E-07 37.5 4.9 52 3-54 60-111 (113)
34 PF01187 MIF: Macrophage migra 96.2 0.021 4.6E-07 35.6 5.5 52 3-54 58-111 (114)
35 cd00580 CHMI 5-carboxymethyl-2 94.2 0.16 3.6E-06 31.5 5.0 43 3-45 62-108 (113)
36 TIGR02544 III_secr_YscJ type I 93.5 1.5 3.2E-05 30.0 9.0 83 19-105 107-190 (193)
37 TIGR02830 spore_III_AG stage I 92.1 2.7 5.8E-05 28.7 8.7 84 16-99 58-183 (186)
38 KOG1759 Macrophage migration i 91.8 0.76 1.6E-05 28.8 5.2 50 3-52 59-108 (115)
39 PF09581 Spore_III_AF: Stage I 88.6 5.5 0.00012 26.6 8.4 83 17-99 85-187 (188)
40 cd00673 AlaRS_core Alanyl-tRNA 88.1 0.94 2E-05 31.9 3.9 30 74-103 96-125 (232)
41 PF02594 DUF167: Uncharacteris 87.3 0.75 1.6E-05 26.7 2.7 56 39-99 6-63 (77)
42 PF08921 DUF1904: Domain of un 87.1 1.3 2.9E-05 27.5 3.8 38 66-103 6-43 (108)
43 PF11090 DUF2833: Protein of u 86.3 4 8.8E-05 24.3 5.4 52 40-91 3-55 (86)
44 PRK05090 hypothetical protein; 84.3 1.7 3.6E-05 26.4 3.2 58 38-100 12-70 (95)
45 PRK15348 type III secretion sy 84.2 11 0.00025 26.8 7.8 77 22-103 110-187 (249)
46 COG3887 Predicted signaling pr 83.4 14 0.00029 29.9 8.5 80 9-101 266-345 (655)
47 PRK00647 hypothetical protein; 82.4 8.8 0.00019 23.3 6.3 58 39-101 8-66 (96)
48 PRK01310 hypothetical protein; 82.1 2.4 5.1E-05 26.2 3.3 60 38-100 13-76 (104)
49 PRK01530 hypothetical protein; 81.1 2.1 4.6E-05 26.5 2.8 26 75-100 52-77 (105)
50 COG0245 IspF 2C-methyl-D-eryth 80.9 3.7 7.9E-05 27.3 4.0 89 17-112 37-141 (159)
51 PF13222 DUF4030: Protein of u 79.4 3.9 8.5E-05 26.4 3.7 37 1-37 85-122 (142)
52 cd06406 PB1_P67 A PB1 domain i 78.8 4.7 0.0001 23.7 3.6 31 78-108 23-53 (80)
53 TIGR00151 ispF 2C-methyl-D-ery 75.4 7.7 0.00017 25.7 4.3 90 17-112 36-140 (155)
54 PF01514 YscJ_FliF: Secretory 75.1 12 0.00025 25.8 5.4 82 17-103 109-196 (206)
55 KOG0188 Alanyl-tRNA synthetase 74.7 5.3 0.00011 32.9 4.0 35 69-103 97-131 (895)
56 TIGR00344 alaS alanine--tRNA l 74.5 2.6 5.7E-05 35.1 2.4 31 73-103 93-123 (851)
57 PHA00432 internal virion prote 74.5 16 0.00034 23.7 5.5 60 32-91 31-92 (137)
58 PF14535 AMP-binding_C_2: AMP- 74.4 6.2 0.00013 23.5 3.5 23 71-93 50-72 (96)
59 PRK00084 ispF 2-C-methyl-D-ery 74.4 8 0.00017 25.7 4.2 90 17-112 39-143 (159)
60 cd00554 MECDP_synthase MECDP_s 73.7 9.1 0.0002 25.3 4.3 90 17-112 36-140 (153)
61 PRK00084 ispF 2-C-methyl-D-ery 73.0 25 0.00053 23.4 7.0 47 18-64 108-155 (159)
62 TIGR00151 ispF 2C-methyl-D-ery 71.8 26 0.00057 23.2 6.9 47 17-63 104-151 (155)
63 PF10023 DUF2265: Predicted am 71.8 4.6 0.0001 30.1 2.9 43 69-111 44-88 (337)
64 TIGR00206 fliF flagellar basal 71.7 38 0.00082 27.0 8.1 77 18-99 134-213 (555)
65 PF01411 tRNA-synt_2c: tRNA sy 71.5 4.6 0.0001 32.0 3.1 33 73-105 98-130 (552)
66 PLN02900 alanyl-tRNA synthetas 71.3 4.8 0.0001 34.0 3.2 28 74-101 117-144 (936)
67 PRK15324 type III secretion sy 71.3 35 0.00075 24.4 8.9 84 20-106 109-193 (252)
68 cd06411 PB1_p51 The PB1 domain 71.3 8.1 0.00017 22.6 3.3 33 78-110 19-52 (78)
69 COG1766 fliF Flagellar basal b 71.2 45 0.00097 26.7 8.3 80 17-99 133-213 (545)
70 PF02542 YgbB: YgbB family; I 71.0 4.5 9.7E-05 26.9 2.4 90 17-112 37-141 (157)
71 TIGR03795 chp_BMA0021 conserve 70.5 15 0.00033 23.1 4.6 39 68-106 25-64 (114)
72 PF10850 DUF2653: Protein of u 70.0 21 0.00046 21.5 7.5 76 17-100 7-82 (91)
73 PRK00252 alaS alanyl-tRNA synt 69.8 4.9 0.00011 33.6 3.0 30 74-103 99-128 (865)
74 PRK06007 fliF flagellar MS-rin 69.0 53 0.0011 26.1 8.4 79 18-99 134-213 (542)
75 TIGR03196 pucD xanthine dehydr 68.3 7.4 0.00016 32.1 3.7 76 17-96 490-567 (768)
76 COG3509 LpqC Poly(3-hydroxybut 68.1 7 0.00015 28.7 3.1 24 76-99 126-149 (312)
77 COG3643 Glutamate formiminotra 66.9 11 0.00023 27.1 3.7 50 39-92 73-122 (302)
78 PF10503 Esterase_phd: Esteras 66.6 6.8 0.00015 27.3 2.8 25 75-99 78-102 (220)
79 PF04787 Pox_H7: Late protein 66.2 29 0.00062 22.8 5.4 64 23-87 21-87 (147)
80 PF02738 Ald_Xan_dh_C2: Molybd 65.3 7.2 0.00016 30.7 3.0 57 57-113 320-383 (547)
81 PF10057 DUF2294: Uncharacteri 64.8 17 0.00036 22.7 4.1 31 72-102 7-37 (118)
82 PF01520 Amidase_3: N-acetylmu 63.4 23 0.0005 23.0 4.8 67 17-86 101-174 (175)
83 PF10057 DUF2294: Uncharacteri 63.2 34 0.00073 21.3 5.5 81 17-97 9-96 (118)
84 PRK14538 putative bifunctional 62.9 94 0.002 26.3 9.9 81 10-103 297-377 (838)
85 TIGR02883 spore_cwlD N-acetylm 62.9 43 0.00094 22.4 9.4 67 17-86 114-187 (189)
86 PRK07193 fliF flagellar MS-rin 62.5 80 0.0017 25.3 8.5 77 19-99 138-217 (552)
87 PRK09800 putative hypoxanthine 61.5 14 0.0003 31.5 4.1 78 17-98 687-766 (956)
88 TIGR01547 phage_term_2 phage t 61.2 44 0.00095 25.0 6.4 93 17-109 46-147 (396)
89 COG1995 PdxA Pyridoxal phospha 61.2 62 0.0013 24.2 6.9 54 48-101 151-209 (332)
90 cd00554 MECDP_synthase MECDP_s 60.0 48 0.001 21.9 6.4 46 17-62 104-150 (153)
91 PF09581 Spore_III_AF: Stage I 59.9 17 0.00038 24.2 3.8 29 15-43 160-188 (188)
92 PRK01584 alanyl-tRNA synthetas 59.6 8.5 0.00018 30.9 2.5 29 74-102 97-127 (594)
93 PF02542 YgbB: YgbB family; I 59.6 29 0.00064 23.0 4.6 46 17-62 105-151 (157)
94 PLN02862 2-C-methyl-D-erythrit 59.4 23 0.0005 24.7 4.3 90 17-112 96-200 (216)
95 smart00213 UBQ Ubiquitin homol 59.1 14 0.00031 19.4 2.8 25 78-102 22-46 (64)
96 COG1872 Uncharacterized conser 58.6 16 0.00034 22.5 3.0 60 38-100 14-74 (102)
97 TIGR02965 xanthine_xdhB xanthi 58.4 8.3 0.00018 31.7 2.3 80 17-98 470-549 (758)
98 COG0013 AlaS Alanyl-tRNA synth 58.3 9.7 0.00021 32.0 2.6 33 74-106 103-135 (879)
99 PF14804 Jag_N: Jag N-terminus 58.2 23 0.00049 18.9 3.3 28 86-113 15-43 (52)
100 TIGR03194 4hydrxCoA_A 4-hydrox 57.1 7.6 0.00016 31.9 1.9 78 17-98 467-546 (746)
101 PF00240 ubiquitin: Ubiquitin 56.7 20 0.00043 19.5 3.1 24 78-101 18-41 (69)
102 PF11694 DUF3290: Protein of u 56.7 21 0.00046 23.4 3.6 29 76-104 79-107 (149)
103 PF04414 tRNA_deacylase: D-ami 55.8 67 0.0015 22.4 7.2 68 18-91 56-127 (213)
104 TIGR02416 CO_dehy_Mo_lg carbon 55.8 9.5 0.00021 31.5 2.2 78 17-98 498-577 (770)
105 COG4631 XdhB Xanthine dehydrog 54.9 1.1E+02 0.0023 25.0 7.5 85 6-98 477-566 (781)
106 COG1529 CoxL Aerobic-type carb 54.6 15 0.00033 30.2 3.2 41 74-114 466-508 (731)
107 PF14581 SseB_C: SseB protein 54.5 24 0.00053 21.3 3.5 76 14-104 14-89 (108)
108 TIGR03313 Se_sel_red_Mo probab 54.5 13 0.00028 31.5 2.9 78 17-98 683-762 (951)
109 cd02413 40S_S3_KH K homology R 54.1 38 0.00083 19.7 4.1 30 75-104 49-78 (81)
110 PF02738 Ald_Xan_dh_C2: Molybd 54.1 7 0.00015 30.7 1.2 77 17-97 342-420 (547)
111 TIGR02024 FtcD glutamate formi 53.1 24 0.00052 25.9 3.7 34 56-92 89-122 (298)
112 PF04954 SIP: Siderophore-inte 52.7 20 0.00044 22.2 2.9 25 75-99 89-113 (119)
113 PRK09970 xanthine dehydrogenas 52.5 19 0.00041 29.7 3.5 78 17-98 483-563 (759)
114 PF11165 DUF2949: Protein of u 52.1 6.7 0.00014 21.6 0.6 20 78-97 2-21 (58)
115 PF00809 Pterin_bind: Pterin b 51.5 15 0.00032 25.2 2.4 42 57-98 116-168 (210)
116 PRK09382 ispDF bifunctional 2- 51.5 32 0.00069 26.0 4.3 91 17-113 254-359 (378)
117 KOG4493 Uncharacterized conser 51.3 81 0.0018 22.0 6.6 66 48-113 44-116 (219)
118 PF08968 DUF1885: Domain of un 51.2 47 0.001 21.2 4.3 48 49-96 73-124 (130)
119 COG3579 PepC Aminopeptidase C 50.9 28 0.00062 26.3 3.8 36 71-106 200-235 (444)
120 PRK12800 fliF flagellar MS-rin 50.5 1.3E+02 0.0029 24.2 8.5 76 19-99 144-222 (574)
121 TIGR00557 pdxA 4-hydroxythreon 50.2 72 0.0016 23.7 5.9 65 25-99 132-201 (320)
122 PRK09490 metH B12-dependent me 50.1 25 0.00053 30.9 3.8 31 69-99 495-525 (1229)
123 PF02733 Dak1: Dak1 domain; I 49.8 52 0.0011 24.5 5.1 47 55-101 243-289 (325)
124 COG0245 IspF 2C-methyl-D-eryth 49.6 76 0.0016 21.1 5.9 48 18-65 106-154 (159)
125 PF09932 DUF2164: Uncharacteri 49.4 28 0.00061 20.1 3.0 24 69-92 3-26 (76)
126 PF14560 Ubiquitin_2: Ubiquiti 48.9 52 0.0011 19.0 4.3 25 78-102 26-50 (87)
127 PF07837 FTCD_N: Formiminotran 48.8 48 0.001 22.5 4.4 27 66-92 94-120 (178)
128 PRK01909 pdxA 4-hydroxythreoni 48.2 43 0.00093 25.0 4.4 33 67-99 172-204 (329)
129 cd01769 UBL Ubiquitin-like dom 47.5 31 0.00067 18.3 2.9 24 78-101 20-43 (69)
130 PF04466 Terminase_3: Phage te 46.9 6.4 0.00014 29.6 0.0 73 34-109 67-144 (387)
131 PRK05883 acyl carrier protein; 46.7 27 0.00058 20.7 2.7 28 70-97 8-35 (91)
132 PF10015 DUF2258: Uncharacteri 46.7 37 0.00081 19.6 3.1 22 75-96 38-59 (75)
133 PF14813 NADH_B2: NADH dehydro 46.5 9.9 0.00022 21.8 0.7 10 86-95 60-69 (71)
134 PRK05934 type III secretion sy 46.4 1.2E+02 0.0027 22.6 8.6 75 17-99 69-146 (341)
135 PF14468 DUF4427: Protein of u 45.8 74 0.0016 20.4 4.6 82 17-98 6-107 (132)
136 cd01812 BAG1_N Ubiquitin-like 45.6 28 0.00061 18.9 2.6 25 78-102 22-46 (71)
137 PRK05312 pdxA 4-hydroxythreoni 45.3 82 0.0018 23.6 5.5 33 67-99 181-213 (336)
138 PF01282 Ribosomal_S24e: Ribos 44.8 43 0.00093 19.6 3.3 25 79-103 16-40 (84)
139 cd01804 midnolin_N Ubiquitin-l 44.7 34 0.00074 19.5 2.9 25 77-101 23-47 (78)
140 cd01304 FMDH_A Formylmethanofu 44.6 1.2E+02 0.0026 24.4 6.5 87 10-100 200-306 (541)
141 cd01806 Nedd8 Nebb8-like ubiq 44.3 36 0.00078 18.7 2.9 24 78-101 23-46 (76)
142 cd01809 Scythe_N Ubiquitin-lik 44.2 33 0.00071 18.6 2.7 24 78-101 23-46 (72)
143 PTZ00484 GTP cyclohydrolase I; 43.3 1.2E+02 0.0027 21.8 6.7 63 17-81 191-257 (259)
144 PF07208 DUF1414: Protein of u 43.3 44 0.00095 17.3 2.8 21 68-88 23-43 (44)
145 PRK05350 acyl carrier protein; 42.2 23 0.00049 20.3 1.9 24 74-97 4-27 (82)
146 TIGR02416 CO_dehy_Mo_lg carbon 41.6 25 0.00055 29.1 2.6 36 78-113 502-539 (770)
147 PF08652 RAI1: RAI1 like PD-(D 41.2 66 0.0014 18.1 5.8 50 55-104 13-63 (69)
148 PRK13878 conjugal transfer rel 40.9 2.2E+02 0.0047 23.9 11.1 86 2-94 67-157 (746)
149 PF07387 Seadorna_VP7: Seadorn 40.8 83 0.0018 22.8 4.7 35 70-104 207-246 (308)
150 PRK01146 DNA-directed RNA poly 40.4 77 0.0017 18.6 4.1 25 2-28 53-77 (85)
151 cd06927 RNAP_L L subunit of Ar 40.4 76 0.0017 18.5 4.1 25 2-28 51-75 (83)
152 COG5499 Predicted transcriptio 40.4 26 0.00056 21.9 1.9 24 72-95 94-117 (120)
153 cd01791 Ubl5 UBL5 ubiquitin-li 40.1 45 0.00098 18.8 2.9 25 77-101 23-47 (73)
154 cd01803 Ubiquitin Ubiquitin. U 40.0 38 0.00082 18.6 2.6 24 78-101 23-46 (76)
155 PF13439 Glyco_transf_4: Glyco 39.7 30 0.00065 21.5 2.4 30 78-108 147-176 (177)
156 PF04166 PdxA: Pyridoxal phosp 39.6 1.2E+02 0.0025 22.3 5.5 70 24-99 112-182 (298)
157 PLN02862 2-C-methyl-D-erythrit 39.5 1.3E+02 0.0029 21.1 7.1 47 17-63 164-211 (216)
158 TIGR03196 pucD xanthine dehydr 39.3 27 0.00058 29.0 2.4 37 76-112 492-530 (768)
159 TIGR02082 metH 5-methyltetrahy 39.2 46 0.001 29.2 3.8 30 69-98 479-508 (1178)
160 COG4631 XdhB Xanthine dehydrog 39.2 51 0.0011 26.7 3.8 34 77-113 214-247 (781)
161 PRK02746 pdxA 4-hydroxythreoni 38.8 1.2E+02 0.0026 22.8 5.5 33 67-99 179-211 (345)
162 TIGR02911 sulfite_red_B sulfit 38.7 46 0.001 23.4 3.3 37 75-112 199-235 (261)
163 PF12260 PIP49_C: Protein-kina 38.6 69 0.0015 21.5 4.0 42 69-112 56-97 (188)
164 PF02290 SRP14: Signal recogni 38.0 56 0.0012 19.5 3.1 72 17-89 3-90 (93)
165 PF10939 DUF2631: Protein of u 37.5 17 0.00036 20.5 0.7 17 98-114 12-28 (65)
166 PRK05863 sulfur carrier protei 37.5 36 0.00078 18.7 2.1 28 81-109 18-47 (65)
167 PF14894 Lsm_C: Lsm C-terminal 37.2 39 0.00084 19.0 2.1 20 79-98 2-21 (64)
168 cd01813 UBP_N UBP ubiquitin pr 37.1 44 0.00095 18.9 2.5 24 77-100 21-44 (74)
169 PF03776 MinE: Septum formatio 36.9 80 0.0017 17.8 4.2 34 69-102 20-55 (70)
170 PF12685 SpoIIIAH: SpoIIIAH-li 36.8 52 0.0011 22.3 3.2 25 75-99 172-196 (196)
171 cd01789 Alp11_N Ubiquitin-like 36.7 87 0.0019 18.1 4.2 27 78-104 25-51 (84)
172 TIGR02830 spore_III_AG stage I 36.4 73 0.0016 21.8 3.8 25 18-42 159-183 (186)
173 COG4099 Predicted peptidase [G 36.3 47 0.001 24.9 3.0 26 75-100 250-275 (387)
174 TIGR01215 minE cell division t 36.2 91 0.002 18.2 4.1 35 69-103 33-67 (81)
175 cd01798 parkin_N amino-termina 36.0 49 0.0011 18.1 2.6 25 77-101 20-44 (70)
176 TIGR03311 Se_dep_Molyb_1 selen 35.9 35 0.00076 28.6 2.6 29 76-104 618-646 (848)
177 PF08002 DUF1697: Protein of u 35.9 86 0.0019 20.0 4.0 58 15-73 51-115 (137)
178 COG2136 IMP4 Predicted exosome 35.8 50 0.0011 22.6 3.0 27 1-28 1-27 (191)
179 PRK09970 xanthine dehydrogenas 35.6 33 0.00071 28.4 2.4 36 77-112 486-524 (759)
180 PF09967 DUF2201: VWA-like dom 35.5 1.1E+02 0.0025 19.1 4.6 91 3-105 2-94 (126)
181 PF08496 Peptidase_S49_N: Pept 35.4 1.2E+02 0.0026 20.0 4.7 34 17-52 114-147 (155)
182 PRK08345 cytochrome-c3 hydroge 35.3 39 0.00084 24.2 2.5 28 75-103 221-248 (289)
183 PF11976 Rad60-SLD: Ubiquitin- 35.1 80 0.0017 17.2 3.5 22 81-102 26-48 (72)
184 COG3252 Methenyltetrahydrometh 35.1 45 0.00097 24.2 2.7 24 80-103 147-170 (314)
185 PRK03743 pdxA 4-hydroxythreoni 34.8 1.5E+02 0.0033 22.2 5.5 32 67-99 177-208 (332)
186 PF12170 DNA_pol3_tau_5: DNA p 34.8 1.3E+02 0.0028 19.5 4.8 21 17-37 67-87 (142)
187 PRK13902 alaS alanyl-tRNA synt 34.7 41 0.00088 28.6 2.8 34 74-112 162-195 (900)
188 PF13656 RNA_pol_L_2: RNA poly 34.5 93 0.002 17.8 3.8 25 2-28 43-67 (77)
189 PF02698 DUF218: DUF218 domain 34.5 61 0.0013 20.5 3.2 24 74-98 52-75 (155)
190 cd01800 SF3a120_C Ubiquitin-li 34.3 54 0.0012 18.4 2.6 25 78-102 20-44 (76)
191 cd01763 Sumo Small ubiquitin-r 33.9 72 0.0016 18.5 3.1 24 79-102 35-58 (87)
192 cd03485 MutL_Trans_hPMS_1_like 33.7 1.2E+02 0.0027 18.9 7.4 46 65-110 54-102 (132)
193 COG5488 Integral membrane prot 33.6 61 0.0013 21.5 2.9 22 66-87 139-161 (164)
194 smart00591 RWD domain in RING 33.5 79 0.0017 18.4 3.4 35 1-35 57-91 (107)
195 KOG0006 E3 ubiquitin-protein l 33.3 56 0.0012 24.5 3.0 25 77-101 25-49 (446)
196 PF02289 MCH: Cyclohydrolase ( 33.2 56 0.0012 24.2 3.0 25 79-103 145-169 (313)
197 cd07027 RNAP_RPB11_like RPB11 33.2 1E+02 0.0023 18.0 4.1 26 2-29 51-76 (83)
198 PRK12449 acyl carrier protein; 33.2 59 0.0013 18.3 2.7 23 74-96 3-25 (80)
199 TIGR01565 homeo_ZF_HD homeobox 33.1 49 0.0011 18.1 2.2 23 81-103 34-56 (58)
200 PF08774 VRR_NUC: VRR-NUC doma 33.1 1.1E+02 0.0023 18.0 3.9 21 57-77 62-83 (100)
201 TIGR03194 4hydrxCoA_A 4-hydrox 33.0 43 0.00092 27.7 2.7 29 77-105 470-498 (746)
202 PTZ00044 ubiquitin; Provisiona 33.0 58 0.0013 18.0 2.6 25 77-101 22-46 (76)
203 PF13092 CENP-L: Kinetochore c 32.9 1.1E+02 0.0025 20.1 4.3 35 69-103 109-143 (162)
204 PF03780 Asp23: Asp23 family; 32.9 1.1E+02 0.0024 18.1 7.3 46 58-103 59-107 (108)
205 PF08541 ACP_syn_III_C: 3-Oxoa 32.8 30 0.00065 19.9 1.4 23 79-101 21-43 (90)
206 PF05121 GvpK: Gas vesicle pro 32.6 54 0.0012 19.6 2.4 37 67-103 40-82 (88)
207 cd01805 RAD23_N Ubiquitin-like 32.5 74 0.0016 17.6 3.0 24 78-101 23-48 (77)
208 cd07029 RNAP_I_III_AC19 AC19 s 32.3 1.1E+02 0.0024 17.9 4.1 25 2-28 51-75 (85)
209 KOG0747 Putative NAD+-dependen 32.2 2.1E+02 0.0046 21.3 5.8 32 59-90 241-272 (331)
210 KOG2426 Dihydroxyacetone kinas 32.2 2.7E+02 0.0057 22.3 7.2 70 24-103 239-308 (582)
211 COG5435 Uncharacterized conser 31.9 1.1E+02 0.0023 20.2 3.9 36 49-84 104-139 (147)
212 PF02662 FlpD: Methyl-viologen 31.7 69 0.0015 20.1 3.0 25 78-103 79-103 (124)
213 cd01808 hPLIC_N Ubiquitin-like 31.6 64 0.0014 17.7 2.6 24 78-101 22-45 (71)
214 TIGR03189 dienoyl_CoA_hyt cycl 31.4 1.9E+02 0.004 20.3 6.7 52 3-54 11-62 (251)
215 PRK07535 methyltetrahydrofolat 31.2 1E+02 0.0022 22.0 4.1 28 70-98 132-159 (261)
216 COG1908 FrhD Coenzyme F420-red 31.0 67 0.0014 20.5 2.7 32 69-104 74-105 (132)
217 COG2845 Uncharacterized protei 31.0 2.3E+02 0.0051 21.4 7.2 51 44-94 274-326 (354)
218 cd01807 GDX_N ubiquitin-like d 31.0 63 0.0014 17.9 2.5 25 77-101 22-46 (74)
219 PRK11783 rlmL 23S rRNA m(2)G24 31.0 1.5E+02 0.0033 24.3 5.4 44 56-99 436-480 (702)
220 PF01545 Cation_efflux: Cation 30.9 1.5E+02 0.0033 20.7 5.0 55 48-104 227-282 (284)
221 PF01227 GTP_cyclohydroI: GTP 30.9 1.2E+02 0.0025 20.6 4.1 61 17-79 112-176 (179)
222 PRK09800 putative hypoxanthine 30.9 64 0.0014 27.6 3.4 29 77-105 690-718 (956)
223 cd00196 UBQ Ubiquitin-like pro 30.8 73 0.0016 15.4 2.7 25 78-102 20-44 (69)
224 cd07991 LPLAT_LPCAT1-like Lyso 30.7 1.3E+02 0.0027 20.4 4.4 37 58-94 163-203 (211)
225 cd00740 MeTr MeTr subgroup of 30.7 99 0.0021 22.0 3.9 31 69-99 134-164 (252)
226 PF10003 DUF2244: Integral mem 30.7 1.4E+02 0.0031 19.0 4.4 27 58-84 106-139 (140)
227 PRK00232 pdxA 4-hydroxythreoni 30.6 2.3E+02 0.005 21.2 6.6 65 24-99 139-208 (332)
228 PF00691 OmpA: OmpA family; I 30.3 1.1E+02 0.0025 17.5 6.3 28 71-99 45-76 (97)
229 PF14516 AAA_35: AAA-like doma 30.3 97 0.0021 22.8 4.0 39 55-93 59-97 (331)
230 PRK13689 hypothetical protein; 30.1 92 0.002 18.0 3.0 24 69-92 49-72 (75)
231 cd06926 RNAP_II_RPB11 RPB11 su 29.9 1.3E+02 0.0028 18.0 4.0 26 2-29 59-84 (93)
232 TIGR02965 xanthine_xdhB xanthi 29.8 51 0.0011 27.3 2.6 36 77-112 473-510 (758)
233 PLN02833 glycerol acyltransfer 29.8 1.2E+02 0.0027 22.9 4.5 48 57-104 302-354 (376)
234 CHL00124 acpP acyl carrier pro 29.6 48 0.001 18.8 1.9 22 74-95 3-24 (82)
235 COG5609 Uncharacterized conser 29.6 1.3E+02 0.0027 19.2 3.8 56 10-66 3-59 (124)
236 cd01799 Hoil1_N Ubiquitin-like 29.5 71 0.0015 18.1 2.5 24 78-102 25-48 (75)
237 PRK02264 N(5),N(10)-methenylte 29.5 62 0.0014 24.0 2.7 24 80-103 147-170 (317)
238 cd01796 DDI1_N DNA damage indu 29.4 71 0.0015 17.7 2.5 24 78-101 22-45 (71)
239 PRK03371 pdxA 4-hydroxythreoni 29.2 2.3E+02 0.0051 21.1 5.7 32 67-99 176-207 (326)
240 PF05773 RWD: RWD domain; Int 29.2 71 0.0015 18.8 2.7 35 1-35 65-100 (113)
241 PRK04452 acetyl-CoA decarbonyl 28.9 50 0.0011 24.5 2.2 24 75-99 186-209 (319)
242 PRK07938 enoyl-CoA hydratase; 28.8 2.1E+02 0.0045 20.0 6.4 52 3-54 12-63 (249)
243 cd01793 Fubi Fubi ubiquitin-li 28.5 82 0.0018 17.5 2.7 25 77-101 20-44 (74)
244 PRK06495 enoyl-CoA hydratase; 28.2 2.1E+02 0.0046 20.0 6.1 52 3-54 14-65 (257)
245 KOG3226 DNA repair protein [Re 28.2 1.6E+02 0.0034 22.8 4.7 98 1-98 1-108 (508)
246 PRK09382 ispDF bifunctional 2- 28.1 2.7E+02 0.0058 21.1 7.1 47 18-64 323-370 (378)
247 PF05889 SLA_LP_auto_ag: Solub 27.7 2.9E+02 0.0062 21.3 7.6 65 22-86 325-389 (389)
248 COG2004 RPS24A Ribosomal prote 27.6 98 0.0021 19.2 3.0 39 60-103 21-59 (107)
249 cd00585 Peptidase_C1B Peptidas 27.4 1.9E+02 0.004 22.5 5.1 36 17-52 200-236 (437)
250 PF15603 Imm45: Immunity prote 27.1 1.4E+02 0.003 17.5 4.8 51 37-87 8-74 (82)
251 cd00545 MCH Methenyltetrahydro 27.1 73 0.0016 23.6 2.8 24 80-103 146-169 (312)
252 PRK00341 hypothetical protein; 26.9 1.2E+02 0.0026 18.0 3.3 36 57-96 14-49 (91)
253 PF08869 XisI: XisI protein; 26.9 21 0.00045 22.3 -0.0 22 81-103 79-100 (111)
254 COG2854 Ttg2D ABC-type transpo 26.7 64 0.0014 22.4 2.3 23 67-89 85-107 (202)
255 COG1550 Uncharacterized protei 26.6 1.6E+02 0.0034 17.9 4.1 36 59-94 6-41 (95)
256 COG3221 PhnD ABC-type phosphat 26.5 2.4E+02 0.0051 20.7 5.4 32 61-92 37-68 (299)
257 TIGR03120 one_C_mch methenylte 26.4 77 0.0017 23.5 2.8 24 80-103 146-169 (312)
258 PRK04980 hypothetical protein; 26.1 1.3E+02 0.0027 18.5 3.3 35 44-78 33-70 (102)
259 PRK04217 hypothetical protein; 26.0 1.6E+02 0.0036 18.2 3.9 62 33-97 10-76 (110)
260 PRK03557 zinc transporter ZitB 25.6 2.5E+02 0.0053 20.5 5.3 28 17-46 265-292 (312)
261 KOG2255 Peptidyl-tRNA hydrolas 25.3 1.9E+02 0.0042 20.2 4.3 37 70-106 98-134 (224)
262 PF06395 CDC24: CDC24 Calponin 25.2 1.1E+02 0.0023 18.4 2.8 33 70-103 38-70 (89)
263 PF12436 USP7_ICP0_bdg: ICP0-b 25.2 82 0.0018 22.3 2.7 25 76-100 200-224 (249)
264 COG4324 Predicted aminopeptida 25.1 1.5E+02 0.0032 21.9 4.0 34 78-111 87-120 (376)
265 PF02410 Oligomerisation: Olig 25.1 1.6E+02 0.0035 17.6 4.3 25 69-93 38-62 (100)
266 KOG2112 Lysophospholipase [Lip 25.0 1.5E+02 0.0033 20.6 3.9 65 34-99 29-98 (206)
267 PRK13430 F0F1 ATP synthase sub 25.0 2.7E+02 0.0058 20.0 5.4 38 3-45 202-239 (271)
268 KOG4326 Mitochondrial F1F0-ATP 25.0 1.2E+02 0.0026 17.5 2.8 24 71-94 57-80 (81)
269 KOG3332 N-acetylglucosaminyl p 24.9 2.6E+02 0.0057 19.9 6.3 63 35-102 36-109 (247)
270 TIGR03683 A-tRNA_syn_arch alan 24.8 84 0.0018 26.8 3.0 33 74-112 159-191 (902)
271 PF03147 FDX-ACB: Ferredoxin-f 24.7 1.6E+02 0.0034 17.3 3.8 35 58-92 57-92 (94)
272 PRK13669 hypothetical protein; 24.5 1.6E+02 0.0034 17.2 5.5 42 43-87 32-74 (78)
273 PLN02994 1-aminocyclopropane-1 24.5 1E+02 0.0022 20.1 2.9 27 73-99 93-123 (153)
274 cd01810 ISG15_repeat2 ISG15 ub 24.5 1.1E+02 0.0024 16.9 2.7 25 77-101 20-44 (74)
275 PRK13987 cell division topolog 24.5 1.7E+02 0.0036 17.6 4.4 36 69-104 32-67 (91)
276 PRK08474 F0F1 ATP synthase sub 24.5 2.1E+02 0.0046 18.9 4.5 28 4-35 106-133 (176)
277 TIGR03244 arg_catab_AstA argin 24.4 2.5E+02 0.0055 21.1 5.2 63 8-73 25-99 (336)
278 KOG1321 Protoheme ferro-lyase 24.4 1.3E+02 0.0029 22.6 3.7 32 73-104 201-236 (395)
279 PRK08221 anaerobic sulfite red 24.4 1E+02 0.0022 21.7 3.1 34 75-109 201-234 (263)
280 PRK13988 cell division topolog 24.3 1.8E+02 0.0038 17.7 4.5 36 68-103 35-70 (97)
281 cd00585 Peptidase_C1B Peptidas 24.3 1.7E+02 0.0038 22.7 4.5 31 74-104 200-230 (437)
282 cd06193 siderophore_interactin 24.2 92 0.002 21.4 2.8 25 75-99 207-231 (235)
283 PRK00296 minE cell division to 24.2 1.6E+02 0.0035 17.3 3.9 32 71-102 36-67 (86)
284 COG1907 Predicted archaeal sug 23.9 3.1E+02 0.0067 20.4 6.6 35 79-114 56-90 (312)
285 PF03190 Thioredox_DsbH: Prote 23.9 2.3E+02 0.005 18.9 5.0 51 3-57 73-123 (163)
286 TIGR03245 arg_AOST_alph argini 23.9 2.8E+02 0.0062 20.8 5.4 63 8-73 25-100 (336)
287 TIGR03313 Se_sel_red_Mo probab 23.9 80 0.0017 27.0 2.8 29 77-105 686-714 (951)
288 PF07579 DUF1548: Domain of Un 23.6 1E+02 0.0023 19.9 2.7 25 69-94 79-103 (135)
289 cd02696 MurNAc-LAA N-acetylmur 23.6 2.1E+02 0.0046 18.4 7.9 65 17-85 100-171 (172)
290 PF04456 DUF503: Protein of un 23.5 1.7E+02 0.0037 17.3 4.3 34 59-92 5-38 (90)
291 PF03460 NIR_SIR_ferr: Nitrite 23.5 31 0.00067 18.9 0.3 35 58-92 9-44 (69)
292 cd06183 cyt_b5_reduct_like Cyt 23.4 74 0.0016 21.5 2.2 23 75-98 210-233 (234)
293 COG0381 WecB UDP-N-acetylgluco 23.3 3.5E+02 0.0076 20.8 7.1 44 56-99 117-173 (383)
294 PF07985 SRR1: SRR1; InterPro 23.3 1.3E+02 0.0029 16.0 5.1 35 65-99 6-40 (56)
295 COG0851 MinE Septum formation 23.2 1.8E+02 0.0039 17.4 4.0 36 68-103 33-68 (88)
296 cd03081 TRX_Fd_NuoE_FDH_gamma 23.2 1.6E+02 0.0034 16.7 4.7 60 18-79 18-78 (80)
297 COG5603 TRS20 Subunit of TRAPP 22.9 1.6E+02 0.0036 18.7 3.4 33 1-35 79-111 (136)
298 TIGR00133 gatB glutamyl-tRNA(G 22.9 3.6E+02 0.0079 21.3 6.0 69 1-70 151-223 (478)
299 COG5328 Uncharacterized protei 22.9 1.5E+02 0.0032 19.1 3.2 39 65-103 19-63 (160)
300 PF07494 Reg_prop: Two compone 22.7 85 0.0018 13.5 1.9 19 90-108 1-19 (24)
301 PRK10456 arginine succinyltran 22.6 2.7E+02 0.0059 21.0 5.1 63 8-73 27-101 (344)
302 cd05016 SIS_PGI_2 Phosphogluco 22.6 2.4E+02 0.0052 18.7 7.0 21 17-37 12-32 (164)
303 PF07788 DUF1626: Protein of u 22.6 1.6E+02 0.0035 16.7 4.4 35 3-40 16-50 (70)
304 PF15643 Tox-PL-2: Papain fold 22.3 1.7E+02 0.0038 17.9 3.3 31 69-100 16-46 (100)
305 cd06407 PB1_NLP A PB1 domain i 21.9 1.8E+02 0.0039 16.9 3.9 27 78-104 22-49 (82)
306 PF13541 ChlI: Subunit ChlI of 21.7 1.6E+02 0.0035 18.4 3.3 30 71-103 23-52 (121)
307 PRK13989 cell division topolog 21.7 1.9E+02 0.004 17.0 4.3 35 69-103 35-69 (84)
308 PF09695 YtfJ_HI0045: Bacteria 21.6 2.6E+02 0.0056 18.7 4.6 47 61-112 40-89 (160)
309 cd00419 Ferrochelatase_C Ferro 21.5 2.3E+02 0.0049 18.0 5.5 29 75-103 40-68 (135)
310 cd01792 ISG15_repeat1 ISG15 ub 21.5 1.3E+02 0.0028 16.9 2.7 24 77-100 24-47 (80)
311 PRK12737 gatY tagatose-bisphos 21.4 2.1E+02 0.0046 20.8 4.3 70 18-91 59-129 (284)
312 PF12249 AftA_C: Arabinofurano 21.3 2.8E+02 0.006 18.9 4.6 45 70-114 27-75 (178)
313 PRK08172 putative acyl carrier 21.2 71 0.0015 18.5 1.5 22 76-97 4-25 (82)
314 cd01794 DC_UbP_C dendritic cel 21.2 1.2E+02 0.0027 16.8 2.5 25 77-101 20-44 (70)
315 TIGR02610 PHA_gran_rgn putativ 21.2 2E+02 0.0043 17.1 8.2 48 1-54 1-48 (91)
316 cd03482 MutL_Trans_MutL MutL_T 21.1 2.2E+02 0.0047 17.6 5.6 45 66-111 50-94 (123)
317 PRK06806 fructose-bisphosphate 20.9 2.5E+02 0.0054 20.3 4.6 70 18-92 59-130 (281)
318 PF02873 MurB_C: UDP-N-acetyle 20.9 1.9E+02 0.0042 17.6 3.5 28 66-93 70-97 (105)
319 PF13462 Thioredoxin_4: Thiore 20.9 2.2E+02 0.0049 17.7 7.8 54 47-105 3-56 (162)
320 PF10820 DUF2543: Protein of u 20.9 76 0.0016 18.2 1.5 24 73-96 45-68 (81)
321 PTZ00411 transaldolase-like pr 20.9 3.1E+02 0.0068 20.5 5.1 41 59-100 103-143 (333)
322 PF03704 BTAD: Bacterial trans 20.9 99 0.0021 19.2 2.3 24 71-94 112-135 (146)
323 PRK10431 N-acetylmuramoyl-l-al 20.7 4.2E+02 0.0091 20.7 7.3 44 47-90 367-417 (445)
324 COG0722 AroG 3-deoxy-D-arabino 20.7 3.2E+02 0.0068 20.6 5.0 43 70-113 65-107 (351)
325 KOG2772 Transaldolase [Carbohy 20.6 71 0.0015 23.7 1.6 22 79-101 125-146 (337)
326 KOG0005 Ubiquitin-like protein 20.6 61 0.0013 18.0 1.0 24 78-101 23-46 (70)
327 PF09623 Cas_NE0113: CRISPR-as 20.5 2.5E+02 0.0053 19.8 4.3 32 69-100 88-119 (224)
328 PLN03002 oxidoreductase, 2OG-F 20.5 90 0.0019 23.0 2.2 22 74-95 149-170 (332)
329 PF06324 Pigment_DH: Pigment-d 20.3 80 0.0017 13.0 1.1 12 83-94 3-14 (18)
330 PF06364 DUF1068: Protein of u 20.3 90 0.002 21.0 2.0 25 68-92 73-97 (176)
331 cd02552 PseudoU_synth_TruD_lik 20.2 3.2E+02 0.0069 19.2 5.2 56 33-96 5-62 (232)
332 COG3097 Uncharacterized protei 20.2 2.2E+02 0.0048 17.3 3.6 37 43-79 33-72 (106)
333 PLN02664 enoyl-CoA hydratase/d 20.1 3.3E+02 0.0071 19.3 6.7 51 3-54 18-70 (275)
334 COG4306 Uncharacterized protei 20.1 2.1E+02 0.0045 18.5 3.5 72 17-88 23-117 (160)
335 COG0296 GlgB 1,4-alpha-glucan 20.0 2.5E+02 0.0053 23.1 4.7 60 49-114 136-202 (628)
336 TIGR00874 talAB transaldolase. 20.0 3.7E+02 0.0081 20.0 5.3 41 59-100 91-131 (317)
No 1
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=100.00 E-value=1e-44 Score=226.91 Aligned_cols=112 Identities=29% Similarity=0.509 Sum_probs=104.4
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHH-HHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHH
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATK-AVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSS 79 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~-~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~ 79 (115)
||+++|+||++.++++ ++++++.++ ++++++||||+|+||++++++.|+|||+++||||++|+++|++++++|+++++
T Consensus 1 MP~~~i~tNv~~~~~~-~~~l~~~~~~~~a~~lgKPe~yvmV~~~~~~~m~fgGs~~P~A~~~l~siG~~~~~~n~~~s~ 79 (113)
T PTZ00450 1 MPFLQTIVSVSLDDQK-RANLSQAYRMICREELGKPEDFVMTAFSDSTPMSFQGSTAPAAYVRVEAWGEYAPSKPKMMTP 79 (113)
T ss_pred CCEEEEEecCCCcccC-HHHHHHHHHHHHHHhhCCCHHHEEEEEeCCceEEEcCCCCCEEEEEEEEecCcCHHHHHHHHH
Confidence 9999999999988874 566666655 66699999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 80 TIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 80 ~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
+|+++++++||||++||||.|+|. ++|||||+||
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 7899999998
No 2
>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=1e-44 Score=228.12 Aligned_cols=113 Identities=42% Similarity=0.717 Sum_probs=104.7
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i 81 (115)
|+++|+||++.++. +++|++++++++|+++|||++++||+++++++|+|||+++||+|++|+++|.+++++|++++++|
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 99999999997765 78999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
+++++++||||++|+||.|+|+++++|||||+||
T Consensus 80 ~~~l~~~LgIp~~Riyi~f~d~~~~~~g~nG~tf 113 (114)
T PF01187_consen 80 TEFLEEELGIPPDRIYINFHDLPAWNVGWNGTTF 113 (114)
T ss_dssp HHHHHHHHT--GGGEEEEEEEETGGGEEETTEES
T ss_pred HHHHHHHhCCCcCceEEEEEECCHHHeeeCcEEc
Confidence 9999999999999999999999999999999998
No 3
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=100.00 E-value=2.6e-43 Score=222.35 Aligned_cols=115 Identities=33% Similarity=0.505 Sum_probs=113.4
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHH
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSST 80 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~ 80 (115)
||+++|+||++.+++++++|++++++++++++|||++|+||+++++.+|.|||+++|++|++|+++|++++++|++++++
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 99999999999988889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
|+++++++||||++|+||.|++++++||||||+||
T Consensus 81 i~~~l~~~lgi~~~rv~I~f~~~~~~~w~~~G~~f 115 (116)
T PTZ00397 81 ITKILASHLKVKSERVYIEFKDCSAQNWAFNGSTF 115 (116)
T ss_pred HHHHHHHHhCcCcccEEEEEEECChhheeEcceeC
Confidence 99999999999999999999999999999999998
No 4
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=100.00 E-value=6.1e-42 Score=210.35 Aligned_cols=114 Identities=52% Similarity=0.876 Sum_probs=111.9
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHH
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSST 80 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~ 80 (115)
||+++|.||++.+++ ++.|.+++++.+|+++|||+++|||++..+++|.|||+++||||++++|+|++++++|++++++
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 999999999999888 6779999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
++++|+++|+++++|+||.|+|+++..+||||+||
T Consensus 80 l~~il~~~L~l~~~rv~I~f~dl~~~~ig~nG~t~ 114 (115)
T KOG1759|consen 80 LTEILEKELSLDPDRVYIKFYDLNAAFIGFNGSTL 114 (115)
T ss_pred HHHHHHHHhCCCCCeEEEEEecCChhHccccCeec
Confidence 99999999999999999999999999999999997
No 5
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=99.53 E-value=6.2e-14 Score=83.12 Aligned_cols=74 Identities=18% Similarity=0.149 Sum_probs=55.8
Q ss_pred eeEEEEeCCceEEec------cCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceec
Q 033597 38 YVMILINGGVPIAFA------GTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFN 111 (115)
Q Consensus 38 ~i~v~~~~~~~~~~g------g~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~ 111 (115)
+..++-.+...|.+. ++++...+++|.+..+++.++|+++.++|++.|++.+||+|++++|.+.+.+.+||||+
T Consensus 3 fqi~~~~~~~~~~~~~~ylg~~Rs~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~~~gi~p~Dv~I~l~e~~~edWSFg 82 (82)
T PF14552_consen 3 FQIIHEHEPDEFIYDPTYLGIDRSDDFVIIQITSGAGRSTEQKKALYRALAERLAEKLGIRPEDVMIVLVENPREDWSFG 82 (82)
T ss_dssp EEEEEEE-GGGEEE-TTTS--TS-TT-EEEEEEECS---HHHHHHHHHHHHHHHHHHH---GGGEEEEEEEE-GGGEEEC
T ss_pred eEEEEEeCcccEEECCccCCCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHcCCCHHHEEEEEEECCcccCCCC
Confidence 455555565666666 47789999999999899999999999999999999999999999999999999999986
No 6
>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=99.53 E-value=4.9e-14 Score=78.24 Aligned_cols=56 Identities=9% Similarity=0.191 Sum_probs=52.4
Q ss_pred EEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 60 YGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 60 ~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
+++++...+++++++++++++|++.+.+.+|+|+++++|.|+++++++||++|.++
T Consensus 2 ~i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg~~~ 57 (58)
T cd00491 2 FVQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKENWGIGGESA 57 (58)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCchhceECCEEC
Confidence 57777777789999999999999999999999999999999999999999999874
No 7
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=99.52 E-value=3.1e-14 Score=80.74 Aligned_cols=57 Identities=14% Similarity=0.174 Sum_probs=52.8
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
-++++....+++++++++++++|++.+.+.||+|+++++|.+.++++++||++|.++
T Consensus 2 P~v~i~l~~grt~eqk~~l~~~it~~l~~~lg~p~~~v~V~i~e~~~~~w~~gg~~~ 58 (64)
T PRK01964 2 PIVQIQLLEGRPEEKIKNLIREVTEAISATLDVPKERVRVIVNEVPSSHWGVAGVPK 58 (64)
T ss_pred CEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEcChHHeeECCEEH
Confidence 367777777799999999999999999999999999999999999999999999863
No 8
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=99.52 E-value=4.5e-14 Score=79.25 Aligned_cols=57 Identities=7% Similarity=0.149 Sum_probs=53.0
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
-++++....+++++++++++++|++.+.+.+|+|+++++|.|.++++++||++|.++
T Consensus 2 P~i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG~~~ 58 (61)
T PRK02220 2 PYVHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGGKRL 58 (61)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECCEEC
Confidence 367777777899999999999999999999999999999999999999999999864
No 9
>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=99.52 E-value=6.7e-14 Score=78.33 Aligned_cols=56 Identities=14% Similarity=0.219 Sum_probs=50.1
Q ss_pred EEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 60 YGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 60 ~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
+++++...+.+.++++++++++++.+.+.||.|+++++|.|++++++|||.+|..+
T Consensus 2 ~I~i~~~~g~~~e~K~~l~~~it~~~~~~lg~~~~~i~V~i~E~~~~~w~~gG~~~ 57 (60)
T PF01361_consen 2 FITIKIPEGRTAEQKRELAEAITDAVVEVLGIPPERISVVIEEVPPENWGIGGKSL 57 (60)
T ss_dssp EEEEEEESTS-HHHHHHHHHHHHHHHHHHHTS-GGGEEEEEEEE-CCCEEETTEET
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCCCeEEEEEEEEChhheEECCEEc
Confidence 68888888889999999999999999999999999999999999999999999864
No 10
>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=99.51 E-value=6.3e-14 Score=79.10 Aligned_cols=56 Identities=9% Similarity=0.208 Sum_probs=52.2
Q ss_pred EEEEEee-cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 60 YGELISI-GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 60 ~v~i~~~-~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
+++++.. .+++++++++++++|++.+.+.||+|+++++|.+.++++++||++|.++
T Consensus 2 ~i~i~i~~~grt~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG~~~ 58 (63)
T TIGR00013 2 FVNIYILKEGRTDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMPKNNYGIGGELV 58 (63)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcCHHHeeECCEEh
Confidence 5777777 6799999999999999999999999999999999999999999999874
No 11
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=99.48 E-value=1.1e-13 Score=77.83 Aligned_cols=57 Identities=16% Similarity=0.107 Sum_probs=53.2
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCccC
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGSTF 115 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t~ 115 (115)
-+++|....+++++++++++++|++.+.+.||+|+++++|.|.++++++||++|.+.
T Consensus 2 P~i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~w~~gG~~~ 58 (62)
T PRK00745 2 PTFHIELFEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRENWATGGKLW 58 (62)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChHHeeECCEEc
Confidence 367888777899999999999999999999999999999999999999999999863
No 12
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=99.32 E-value=8.4e-12 Score=71.48 Aligned_cols=56 Identities=16% Similarity=0.270 Sum_probs=51.5
Q ss_pred eEEEEEeec-CCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCcc
Q 033597 59 AYGELISIG-SLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGST 114 (115)
Q Consensus 59 ~~v~i~~~~-~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t 114 (115)
-|++|+... ..+.++++++++.+++.+.+.||-+++.++|.|.+++++|||.+|..
T Consensus 2 P~v~Ik~~~g~~~~~~K~~la~~vT~~~~~~lg~~~~~i~Viieev~~~~w~~gG~~ 58 (69)
T COG1942 2 PFVNIKLFEGRLDEEQKAELAAEVTEVTVETLGKDPSAIHVIIEEVPPENWGVGGES 58 (69)
T ss_pred CEEEEEecCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEecChhheeEccEE
Confidence 478888884 47788899999999999999999999999999999999999999975
No 13
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=99.32 E-value=7.8e-12 Score=69.99 Aligned_cols=55 Identities=7% Similarity=0.097 Sum_probs=51.6
Q ss_pred EEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCcc
Q 033597 60 YGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGST 114 (115)
Q Consensus 60 ~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t 114 (115)
++++....++++|+++++++++++.+.+.+|+|++.+.|.|.|+++++|+.+|..
T Consensus 3 ~i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~~~~~~~~g~~ 57 (60)
T PRK02289 3 FVRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMPEGTYYPQGEM 57 (60)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeChhheEECCEE
Confidence 5677777789999999999999999999999999999999999999999999975
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=99.27 E-value=4.1e-10 Score=70.55 Aligned_cols=105 Identities=10% Similarity=0.038 Sum_probs=90.3
Q ss_pred CeEEEEeCCCC-CccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC--CCceeEEEEEeecCCChhhhHHHH
Q 033597 2 PTLNLYTNVPV-DAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT--EAPAAYGELISIGSLGPSVNGKLS 78 (115)
Q Consensus 2 P~i~i~tn~~~-~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~--~~p~~~v~i~~~~~~~~~~~~~~~ 78 (115)
|++.|.-.... ++.+.+++++.+.+++.+...-|+.-+-+..........|.. ++...+++++...|++.++|++++
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 88888887776 556789999999999999999999988877776666666655 578889999988899999999999
Q ss_pred HHHHHHHHhHhCCCCC----ceEEEEEecCCC
Q 033597 79 STIAEILQTKLLIDSS----RFYIKLYDVERS 106 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~----ri~i~f~~~~~~ 106 (115)
+++++.|++.++-+++ .+.|.+.|++++
T Consensus 81 ~~i~~~l~~~~~~~~~~~~~~~svei~e~~~~ 112 (113)
T cd00580 81 EALLAALRAHLAPVFAKRYLSLSVEIRELDPA 112 (113)
T ss_pred HHHHHHHHHhhhhhhhccceEEEEEEEecCCC
Confidence 9999999999998877 888899998764
No 15
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=99.21 E-value=3.3e-10 Score=70.33 Aligned_cols=107 Identities=16% Similarity=0.159 Sum_probs=69.3
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHH
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSST 80 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~ 80 (115)
||+|+++--. .++-..+.+.|.+-+|++++-|.+++++.+.+...+.-|+..++..||+|..+. ++++...+.++.
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 MPHLRFRGIE---EEQVQELSKELIDELAEICGCPRENFTLEWINSTFIFDGEISEGYPFVEVLWFD-RGQEVQDKVAQA 76 (108)
T ss_dssp --EEEEESS----HHHHHHHHHHHHHHHHHHHT--GGG-EEEE-------TT-B-----EEEEEES----HHHHHHHHHH
T ss_pred CCeEEEecCC---HHHHHHHhHHHHHHHHHHHCCCcceEEEEEeceEEEEcCcccccceeEEEEEec-CCHHHHHHHHHH
Confidence 9999997533 334689999999999999999999999999987666666666788899999997 899999999999
Q ss_pred HHHHHHhHhCCCCCceEEEEEecCCCCceecCc
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDVERSFFGFNGS 113 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~ 113 (115)
|++.+.+. ..-.++-|.|.++++.++=-||.
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 99999987 67788999999999999988884
No 16
>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=99.09 E-value=2.5e-09 Score=69.00 Aligned_cols=112 Identities=15% Similarity=0.155 Sum_probs=90.6
Q ss_pred CCeEEEEeCC-CCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeC--CceEEeccCCCc-eeEEEEEeecC--CChhhh
Q 033597 1 MPTLNLYTNV-PVDAVIASDILRDATKAVAKILGKSESYVMILING--GVPIAFAGTEAP-AAYGELISIGS--LGPSVN 74 (115)
Q Consensus 1 MP~i~i~tn~-~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~--~~~~~~gg~~~p-~~~v~i~~~~~--~~~~~~ 74 (115)
||+-+|+... ..+++++++|.+++++.-+.. |-|.=||.|.+.+ ...++.||...+ ...+.+..++. .+.+.+
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 9999999887 678888999999999999999 9999999999964 678999998854 33455554443 467889
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCc
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGS 113 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~ 113 (115)
+++.+.+.+.|...++-+..+..+.+.+.+...|=.||-
T Consensus 80 ~~~~~~i~~~l~p~~~~~g~~~e~~i~etp~~lw~~~G~ 118 (136)
T PF14832_consen 80 RRLLDRIDEVLKPHTADKGYDWEFHIDETPRDLWKENGL 118 (136)
T ss_dssp HHHHHHHHHHHHHHHCCGGGEEEEEEEEE-GGGEEETTE
T ss_pred HHHHHHHHHHhcccccCCCceEEEEEecCCHHHHHHCCc
Confidence 999999999999999999999999999999999999985
No 17
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=99.06 E-value=5e-10 Score=65.38 Aligned_cols=50 Identities=14% Similarity=0.196 Sum_probs=47.2
Q ss_pred EEEEEeecC-CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCce
Q 033597 60 YGELISIGS-LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFG 109 (115)
Q Consensus 60 ~v~i~~~~~-~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g 109 (115)
+++|+...+ ++.||++++++++++.+.+.||.+++.+.|.|.++++++|+
T Consensus 3 ~I~I~~~~g~~s~EqK~~La~~iT~a~~~~lg~~~e~v~V~I~ev~~~~W~ 53 (76)
T PRK01271 3 HIDIKCFPRELDEEQKAALAADITDVIIRHLNSKDSSISIALQQIQPESWQ 53 (76)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEcCHHHhh
Confidence 677887775 89999999999999999999999999999999999999997
No 18
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=99.00 E-value=1.3e-09 Score=61.64 Aligned_cols=55 Identities=18% Similarity=0.276 Sum_probs=49.2
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEe--CCceEEeccCC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILIN--GGVPIAFAGTE 55 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~--~~~~~~~gg~~ 55 (115)
||+++|+.....+.+++++|.+.+++++++.+|+|++.+.|.+. +...+.+||..
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 99999999888899999999999999999999999998887775 46788888854
No 19
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=98.98 E-value=2.8e-09 Score=59.53 Aligned_cols=54 Identities=17% Similarity=0.187 Sum_probs=48.4
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeC--CceEEeccC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILING--GVPIAFAGT 54 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~--~~~~~~gg~ 54 (115)
||+++|+.....++++++++.+.+++++++.+|.|++.+.|.+.+ ...+..||.
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 999999999999999999999999999999999999999998864 556666663
No 20
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=98.96 E-value=1.9e-09 Score=60.41 Aligned_cols=55 Identities=20% Similarity=0.199 Sum_probs=49.4
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEe--CCceEEeccCC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILIN--GGVPIAFAGTE 55 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~--~~~~~~~gg~~ 55 (115)
||+++|+.-...+.+++++|.+.+++++++.+|+|.+.+.|.+. +...+.+||..
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 99999999888899999999999999999999999998887775 46788888865
No 21
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=98.95 E-value=2.9e-09 Score=59.49 Aligned_cols=55 Identities=22% Similarity=0.272 Sum_probs=49.1
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEe--CCceEEeccCC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILIN--GGVPIAFAGTE 55 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~--~~~~~~~gg~~ 55 (115)
||+++|+.....+.+++++|.+.+++++++.+|.|.+.+.|.+. +...+.+||..
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 99999999888899999999999999999999999998887775 56788888853
No 22
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=98.87 E-value=9.9e-09 Score=58.79 Aligned_cols=55 Identities=18% Similarity=0.225 Sum_probs=46.4
Q ss_pred CCeEEEEeCCCCCc-cCHHHHHHHHHHHHHHHhCCCcceeEEEEeC--CceEEeccCC
Q 033597 1 MPTLNLYTNVPVDA-VIASDILRDATKAVAKILGKSESYVMILING--GVPIAFAGTE 55 (115)
Q Consensus 1 MP~i~i~tn~~~~~-~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~--~~~~~~gg~~ 55 (115)
||+++|+.....++ +++++|.+++++++++.+|+|.+.+.|.+++ ...+..||..
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 99999999976444 4499999999999999999999999998874 5567777654
No 23
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=98.82 E-value=4.2e-07 Score=57.92 Aligned_cols=111 Identities=7% Similarity=-0.041 Sum_probs=85.3
Q ss_pred CCeEEEEeCCCCC-ccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC--ceeEEEEEeecCCChhhhHHH
Q 033597 1 MPTLNLYTNVPVD-AVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA--PAAYGELISIGSLGPSVNGKL 77 (115)
Q Consensus 1 MP~i~i~tn~~~~-~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~--p~~~v~i~~~~~~~~~~~~~~ 77 (115)
||++.|.=+.... ..+..++++.+.+.+.+.=--|+.-|-+...+-.....|...+ ...+++++...|++.++++++
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 9999997655543 4568899999999888833357777888887777777775444 566666666788999999999
Q ss_pred HHHHHHHHHhHhC----CCCCceEEEEEecCCC-Cceec
Q 033597 78 SSTIAEILQTKLL----IDSSRFYIKLYDVERS-FFGFN 111 (115)
Q Consensus 78 ~~~i~~~l~~~Lg----v~~~ri~i~f~~~~~~-~~g~~ 111 (115)
++++.+.+++.+. -+.-.+-+.+.|++++ +|-.|
T Consensus 81 ~~~l~~~l~~~~~~~~~~~~~~LS~Ei~d~d~~~s~k~~ 119 (126)
T PRK15031 81 GEMLFALIKAHFAALMESRYLALSFEIEELHPTLNFKQN 119 (126)
T ss_pred HHHHHHHHHHHhhhhhcccceEEEEEEEEcCCccChhhh
Confidence 9999999888774 3456788899999888 77654
No 24
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=98.72 E-value=5e-08 Score=56.96 Aligned_cols=45 Identities=18% Similarity=0.294 Sum_probs=42.4
Q ss_pred CCeEEEEeCCC-CCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeC
Q 033597 1 MPTLNLYTNVP-VDAVIASDILRDATKAVAKILGKSESYVMILING 45 (115)
Q Consensus 1 MP~i~i~tn~~-~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~ 45 (115)
||+++|+.-.. .+.+|++++.+++++++++++|+|++.+.|.+++
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 99999999885 7999999999999999999999999999999875
No 25
>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=98.71 E-value=7e-08 Score=53.69 Aligned_cols=54 Identities=17% Similarity=0.228 Sum_probs=44.9
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEe--CCceEEeccCC
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILIN--GGVPIAFAGTE 55 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~--~~~~~~~gg~~ 55 (115)
|+|+|+.....+++++++|.+++++++++.+|+|.+.+.|.++ +...+..||..
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 8999999999999999999999999999999999998887775 57788888753
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=1.4e-07 Score=51.98 Aligned_cols=53 Identities=21% Similarity=0.381 Sum_probs=47.3
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEe--CCceEEeccC
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILIN--GGVPIAFAGT 54 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~--~~~~~~~gg~ 54 (115)
|+++|+.....+.+++++|.+.+++++++.+|+|.+.+.|.++ +...+.+||.
T Consensus 1 P~i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~~~~gg~ 55 (58)
T cd00491 1 PFVQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKENWGIGGE 55 (58)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCchhceECCE
Confidence 8999999988889999999999999999999999998887775 4677888875
No 27
>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=98.63 E-value=1.4e-07 Score=52.85 Aligned_cols=54 Identities=19% Similarity=0.299 Sum_probs=47.7
Q ss_pred CeEEEEeC-CCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEe--CCceEEeccCC
Q 033597 2 PTLNLYTN-VPVDAVIASDILRDATKAVAKILGKSESYVMILIN--GGVPIAFAGTE 55 (115)
Q Consensus 2 P~i~i~tn-~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~--~~~~~~~gg~~ 55 (115)
|+++|+.. ...+.+++++|.+.+++++++.+|+|++.+.|.+. +...+.+||..
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 67889999999999999999999999998887775 46688888864
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=98.29 E-value=2.5e-05 Score=49.67 Aligned_cols=104 Identities=13% Similarity=0.075 Sum_probs=73.0
Q ss_pred CeEEEEe--CCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC--CceeEEEEEeecCCChhhhHHH
Q 033597 2 PTLNLYT--NVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE--APAAYGELISIGSLGPSVNGKL 77 (115)
Q Consensus 2 P~i~i~t--n~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~--~p~~~v~i~~~~~~~~~~~~~~ 77 (115)
|++.|.= |+... .+..++++.+.+.+.+.=--|+.-|.+...+-.....|... +..+++++....|++.++++++
T Consensus 1 PH~viEYS~nL~~~-~d~~~ll~~l~~~~~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~FvHv~l~il~GRs~e~k~~l 79 (124)
T PF02962_consen 1 PHLVIEYSANLEDD-VDIPALLRALHDALLASGLFPEGGIKVRAIRCDHYRVGDGQPDDAFVHVTLRILAGRSEEQKKAL 79 (124)
T ss_dssp -EEEEEEECCGCCT-TTHHHHHHHHHHHHHCTTSS-GGG-EEEEEEESSEEETTSSS-EEEEEEEEEEETT--HHHHHHH
T ss_pred CeEEEEeCCCcccc-CCHHHHHHHHHHHHHHcCCcChhceeeeeEecccEEEccCCCCCcEEEEEeeecCCCCHHHHHHH
Confidence 6777744 44433 24789999999999988336778888888877777777443 4566666667788999999999
Q ss_pred HHHHHHHHHhHhCCCCC----ceEEEEEecCCC
Q 033597 78 SSTIAEILQTKLLIDSS----RFYIKLYDVERS 106 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~----ri~i~f~~~~~~ 106 (115)
++++.+.+.+++.-..+ .+-+.+.|+++.
T Consensus 80 ~~~l~~~l~~~~~~~~~~~~~~LsvEi~E~~~~ 112 (124)
T PF02962_consen 80 SEALLAVLKAHLAPLFAQRYLQLSVEIREMDPA 112 (124)
T ss_dssp HHHHHHHHHHHCCCHCCHSEEEEEEEEEEE-CC
T ss_pred HHHHHHHHHHHhhHhhcCCeeEEEEEEEEcCcc
Confidence 99999999999874433 456677788764
No 29
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=97.83 E-value=7.5e-05 Score=46.78 Aligned_cols=53 Identities=21% Similarity=0.134 Sum_probs=44.2
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCc--eEEeccCC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGV--PIAFAGTE 55 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~--~~~~gg~~ 55 (115)
+++|+.-...+.+++++|.++|++.+++.+|.|.++|.|.+.+.. .+.+||+.
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 456666666777889999999999999999999999999998744 48888863
No 30
>COG3232 HpaF 5-carboxymethyl-2-hydroxymuconate isomerase [Amino acid transport and metabolism]
Probab=97.75 E-value=0.00022 Score=44.85 Aligned_cols=89 Identities=10% Similarity=0.011 Sum_probs=63.1
Q ss_pred CCeEEEE--eCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEE--eecCCChhhhHH
Q 033597 1 MPTLNLY--TNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGK 76 (115)
Q Consensus 1 MP~i~i~--tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~ 76 (115)
||++.+. -|+... .+...+++.+.+++...---|...|......-..+..|...++.+||+++ ...|++++++++
T Consensus 1 MPHli~EyT~Nl~~~-~~~~~L~~~vn~~l~asG~FplggIRsRa~rld~y~maD~~~~~aFvH~tl~IgaGRs~e~rq~ 79 (127)
T COG3232 1 MPHLIMEYTDNLREE-ADLPGLLEKVNAALIASGLFPLGGIRSRALRLDAYRMADGAEDDAFVHMTLKIGAGRSEEQRQE 79 (127)
T ss_pred CCceehhhhcCcccc-CCcHHHHHHHHHHHHhcCCCcccceeehhhhhhHHHhcccCCCcceEEEEEEecCCCCHHHHHH
Confidence 8988883 366533 34789999999998887667777666554433333344233335565555 456799999999
Q ss_pred HHHHHHHHHHhHhC
Q 033597 77 LSSTIAEILQTKLL 90 (115)
Q Consensus 77 ~~~~i~~~l~~~Lg 90 (115)
..+++++.|..++.
T Consensus 80 vge~Lf~~l~~~~A 93 (127)
T COG3232 80 VGEALFAVLTAHFA 93 (127)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999999985
No 31
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=97.55 E-value=0.00033 Score=41.42 Aligned_cols=50 Identities=16% Similarity=0.209 Sum_probs=37.9
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeC--CceEEec
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILING--GVPIAFA 52 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~--~~~~~~g 52 (115)
+|+|......+.++|++|-+.|.+.+++.+|.+++.|+|.+.+ ...+.||
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 6889999999999999999999999999999999988888754 4566665
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=97.21 E-value=0.00093 Score=43.19 Aligned_cols=47 Identities=19% Similarity=0.287 Sum_probs=40.6
Q ss_pred ecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCc
Q 033597 66 IGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGS 113 (115)
Q Consensus 66 ~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~ 113 (115)
.|.+++++|++++++|+++-... |+|.=-+.|.|+++++.++=.||.
T Consensus 10 ~~~lt~~~K~~LA~~IT~~y~~~-glP~FyV~V~F~~~~~~~~fvGG~ 56 (136)
T PF14832_consen 10 PGTLTPEQKQALAEAITDIYTSI-GLPAFYVNVRFIEVPPGDFFVGGK 56 (136)
T ss_dssp TTSS-HHHHHHHHHHHHHHHHHT-TTTGGG-EEEEEEE-TTSEEETTE
T ss_pred CCCCCHHHHHHHHHHHHHHHhCC-CCCCEEEEEEEEEcCCCCeEECCc
Confidence 45689999999999999999887 999999999999999999988885
No 33
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=96.48 E-value=0.0085 Score=37.51 Aligned_cols=52 Identities=12% Similarity=0.064 Sum_probs=40.8
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT 54 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~ 54 (115)
+++|+.=-..+.++.+++.+.|++++.+.+|.|.++|.|.+.+...+-+.|+
T Consensus 60 ~~~l~siG~~~~~~n~~~s~~i~~~l~~~LgIp~dRiYI~f~d~~~~G~nG~ 111 (113)
T PTZ00450 60 YVRVEAWGEYAPSKPKMMTPRITAAITKECGIPAERIYVFYYSTKHCGWNGT 111 (113)
T ss_pred EEEEEEecCcCHHHHHHHHHHHHHHHHHHcCCCcccEEEEEEcHHHcccCcE
Confidence 3455554445555678999999999999999999999999998666666664
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=96.17 E-value=0.021 Score=35.57 Aligned_cols=52 Identities=15% Similarity=0.149 Sum_probs=38.4
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeC--CceEEeccC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILING--GVPIAFAGT 54 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~--~~~~~~gg~ 54 (115)
+++|+.-...+.++.+++.+.|++.+.+.+|.|.+++.|.+.+ ...+-+.|+
T Consensus 58 ~v~l~sig~~~~~~n~~~s~~i~~~l~~~LgIp~~Riyi~f~d~~~~~~g~nG~ 111 (114)
T PF01187_consen 58 FVELKSIGGLDPEQNKKYSAAITEFLEEELGIPPDRIYINFHDLPAWNVGWNGT 111 (114)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHHHHHHHHT--GGGEEEEEEEETGGGEEETTE
T ss_pred EEEEEEccCCCHHHHHHHHHHHHHHHHHHhCCCcCceEEEEEECCHHHeeeCcE
Confidence 4555554445666678999999999999999999999999974 555666665
No 35
>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=94.18 E-value=0.16 Score=31.46 Aligned_cols=43 Identities=9% Similarity=-0.016 Sum_probs=35.4
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcc----eeEEEEeC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSES----YVMILING 45 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~----~i~v~~~~ 45 (115)
+++|+.....+.+++++|.+.+.+.+++.++.+.+ .+.|.+.+
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 46778788899999999999999999999997755 56666554
No 36
>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=93.49 E-value=1.5 Score=29.97 Aligned_cols=83 Identities=13% Similarity=0.091 Sum_probs=56.2
Q ss_pred HHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-CCCCCceE
Q 033597 19 DILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-LIDSSRFY 97 (115)
Q Consensus 19 ~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-gv~~~ri~ 97 (115)
++..+|++.+..+-|.-..+|.+.+.... ........|.|=|-++.-++.+.. . ...+|..++.... |+++++|.
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-NNGRPKKPSSASVFIKYRPGLNLD--A-LIPKIKRLVANSIPGLDYDNVS 182 (193)
T ss_pred HHHHHHHHHHHhcCCeeeeEEEEECCCCC-cccccCCCCcEEEEEEeCCCCCcH--H-HHHHHHHHHHHhcCCCCccceE
Confidence 34455555565566666667777665544 333334467777777766665433 2 6788889988887 69999999
Q ss_pred EEEEecCC
Q 033597 98 IKLYDVER 105 (115)
Q Consensus 98 i~f~~~~~ 105 (115)
|...+.++
T Consensus 183 Vv~~~~~~ 190 (193)
T TIGR02544 183 VVLVPAEE 190 (193)
T ss_pred EEEecccc
Confidence 99988865
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=92.09 E-value=2.7 Score=28.66 Aligned_cols=84 Identities=18% Similarity=0.234 Sum_probs=57.3
Q ss_pred CHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEec------------------------------------c-CCCce
Q 033597 16 IASDILRDATKAVAKILGKSESYVMILINGGVPIAFA------------------------------------G-TEAPA 58 (115)
Q Consensus 16 ~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g------------------------------------g-~~~p~ 58 (115)
+.+.+.++|.+.+..+-|...-.+||++..+...... | ...|.
T Consensus 58 Ye~~lE~~L~~iL~~I~GvG~V~VmItl~s~~e~v~a~n~~~~~~~t~E~D~~Gg~R~~~~~~~~~~~V~~~~g~~~~P~ 137 (186)
T TIGR02830 58 YEKQYENELKEILEKIEGVGDVTVMVNLDSSEEKVYAKNTSKGQQTTEETDKEGGKRSVEDESDGEEVVIIRNGDQETPV 137 (186)
T ss_pred HHHHHHHHHHHHHHhccCcceeEEEEEECCCceEEEEecccccceeeeeccCCCCceeccccccCceEEEECCCCCccce
Confidence 3566888899999999999999999999876554441 1 22354
Q ss_pred eEEEEE--eecCC---ChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 59 AYGELI--SIGSL---GPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 59 ~~v~i~--~~~~~---~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..=++. ..|.+ .-..+...-..|++.++.-|+||++||.|.
T Consensus 138 v~ke~~P~I~GVlVVAeGa~~~~Vk~~I~~AV~~ll~v~~hkI~V~ 183 (186)
T TIGR02830 138 VLKTEKPEIRGVLVVAEGAENPQIKYRIVEAVSRVLDVPAHKVSVL 183 (186)
T ss_pred EEEEecCCceEEEEEeeCCCCHHHHHHHHHHHHHHhCCCcceEEEE
Confidence 433322 01111 123466677788888999999999999874
No 38
>KOG1759 consensus Macrophage migration inhibitory factor [Defense mechanisms]
Probab=91.77 E-value=0.76 Score=28.81 Aligned_cols=50 Identities=16% Similarity=0.028 Sum_probs=41.0
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEec
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFA 52 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g 52 (115)
++.+++-...+.++.++..+.+++.+.+.++-|.+++.+.+.+=....+|
T Consensus 59 ~~~l~Sig~v~~~~N~~~sa~l~~il~~~L~l~~~rv~I~f~dl~~~~ig 108 (115)
T KOG1759|consen 59 YASLKSIGGVGAIVNRSYSAALTEILEKELSLDPDRVYIKFYDLNAAFIG 108 (115)
T ss_pred EEEEEeccccChhHhHHHHHHHHHHHHHHhCCCCCeEEEEEecCChhHcc
Confidence 56777777777777899999999999999999999999999874444444
No 39
>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=88.63 E-value=5.5 Score=26.64 Aligned_cols=83 Identities=12% Similarity=0.097 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCc----------eEEeccCC-------CceeEEEEEe---ecCCChhhhHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGV----------PIAFAGTE-------APAAYGELIS---IGSLGPSVNGK 76 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~----------~~~~gg~~-------~p~~~v~i~~---~~~~~~~~~~~ 76 (115)
.+++.+.+.+.+....|.+...+.|.+..+. .+...... .|.-=+.+.. ...-......+
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 4566667777777788888888888887642 22222211 1222233333 11133556778
Q ss_pred HHHHHHHHHHhHhCCCCCceEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..+.|.+.|++.+||++++|-|.
T Consensus 165 ~~~~i~~~la~~~~i~~~~I~V~ 187 (188)
T PF09581_consen 165 EEEEIKQYLADFYGISPEQIKVY 187 (188)
T ss_pred HHHHHHHHHHHHhCCCHHHeEEe
Confidence 88999999999999999999875
No 40
>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=88.05 E-value=0.94 Score=31.88 Aligned_cols=30 Identities=17% Similarity=0.308 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
|++-++-.-++|.+.||++++|+|+++..-
T Consensus 96 K~eaI~~awe~LT~~l~l~~~rl~vTv~~~ 125 (232)
T cd00673 96 KEEAIAFAWELLTEVLGLPKDRLYVSVFEG 125 (232)
T ss_pred HHHHHHHHHHHHHhhcCCCccceEEEEeCC
Confidence 566677778889999999999999999853
No 41
>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=87.32 E-value=0.75 Score=26.75 Aligned_cols=56 Identities=16% Similarity=0.128 Sum_probs=29.2
Q ss_pred eEEEEeCCc-eEEe-ccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 39 VMILINGGV-PIAF-AGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 39 i~v~~~~~~-~~~~-gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
+.|.+.|+. .-.+ |...++...+.+++.. .+ -+-.+++.++|.+.||||+.+|.|.
T Consensus 6 l~v~V~P~ak~~~i~~~~~~~~l~i~v~app-~~----GkAN~ali~~La~~l~v~ks~i~i~ 63 (77)
T PF02594_consen 6 LSVRVKPGAKRNAIVGVEGDGALKIRVTAPP-VD----GKANKALIRFLAKALGVPKSDIEIV 63 (77)
T ss_dssp EEEECEBSSSS-EEEEE-TTT-EEEEBSTTC-CC----CCHHHHHHHHHHHHCT--TTCEEEC
T ss_pred EEEEEEeCCCccccccccCceEEEEEEecCC-Cc----ChhHHHHHHHHHHHhCCCcccEEEE
Confidence 455555533 1222 2233344444444322 22 2344667889999999999999875
No 42
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=87.10 E-value=1.3 Score=27.46 Aligned_cols=38 Identities=11% Similarity=0.089 Sum_probs=28.5
Q ss_pred ecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 66 IGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 66 ~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+.|++.++-+++|+.|.+.|++..+.|++++.+.+.+.
T Consensus 6 ~rGi~~e~v~~~S~~LideLa~i~~~p~e~ftlE~i~s 43 (108)
T PF08921_consen 6 FRGIEEEQVQELSKELIDELAEICGCPRENFTLEWINS 43 (108)
T ss_dssp EESS-HHHHHHHHHHHHHHHHHHHT--GGG-EEEE---
T ss_pred EecCCHHHHHHHhHHHHHHHHHHHCCCcceEEEEEece
Confidence 34689999999999999999999999999999988765
No 43
>PF11090 DUF2833: Protein of unknown function (DUF2833); InterPro: IPR020335 This entry contains proteins with no known function.
Probab=86.27 E-value=4 Score=24.29 Aligned_cols=52 Identities=19% Similarity=0.222 Sum_probs=39.1
Q ss_pred EEEEeCCceEEeccCC-CceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCC
Q 033597 40 MILINGGVPIAFAGTE-APAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLI 91 (115)
Q Consensus 40 ~v~~~~~~~~~~gg~~-~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv 91 (115)
++.-..+..+-.||+. +-+=|+.-.-+..+++.++.+|.+.+.+.+.+.|..
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 3334568889999999 555555555566688999999999999888877765
No 44
>PRK05090 hypothetical protein; Validated
Probab=84.26 E-value=1.7 Score=26.39 Aligned_cols=58 Identities=12% Similarity=0.186 Sum_probs=34.3
Q ss_pred eeEEEEeCCc-eEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 38 YVMILINGGV-PIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 38 ~i~v~~~~~~-~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
.+.|.+.|+. .-.+.|-.+...-+.+++. -..-+-.+++.++|.+.||+++.+|.|.-
T Consensus 12 ~l~i~V~P~A~~~~i~~~~~~~lkv~v~Ap-----PveGkAN~ali~~LAk~l~v~ks~I~i~~ 70 (95)
T PRK05090 12 VLRLYIQPKASRDQIVGLHGDELKVAITAP-----PVDGQANAHLLKFLAKQFRVAKSQVVIEK 70 (95)
T ss_pred EEEEEEeeCCCcceeccccCCEEEEEEecC-----CCCChHHHHHHHHHHHHhCCChhhEEEEe
Confidence 4556666653 2333444444333333322 22234456778899999999999998854
No 45
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=84.23 E-value=11 Score=26.81 Aligned_cols=77 Identities=8% Similarity=0.022 Sum_probs=51.0
Q ss_pred HHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-CCCCCceEEEE
Q 033597 22 RDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-LIDSSRFYIKL 100 (115)
Q Consensus 22 ~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-gv~~~ri~i~f 100 (115)
.+|++.+...-|.-..+|.+.+..... +....+|.|-|-++.-++.+.++.+ . +|..++.... |+++++|-|..
T Consensus 110 gELarTI~~idgV~~ArVhL~lP~~~~--~~~~~~asASV~I~~~~~~~~~~~~--v-~I~~LVA~SV~gL~~enVTVvd 184 (249)
T PRK15348 110 QRIEGMLSQMEGVINAKVTIALPTYDE--GSNASPSSVAVFIKYSPQVNMEAFR--V-KIKDLIEMSIPGLQYSKISILM 184 (249)
T ss_pred HHHHHHHHhCCCeeEeEEEEECCCCCc--ccCCCCccEEEEEEeCCCCChHHHH--H-HHHHHHHHhcCCCCccceEEEe
Confidence 446666666667666677776654433 3434466777777766656555432 2 5888888777 69999999988
Q ss_pred Eec
Q 033597 101 YDV 103 (115)
Q Consensus 101 ~~~ 103 (115)
.+.
T Consensus 185 ~~~ 187 (249)
T PRK15348 185 QPA 187 (249)
T ss_pred cCC
Confidence 765
No 46
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=83.37 E-value=14 Score=29.86 Aligned_cols=80 Identities=18% Similarity=0.191 Sum_probs=58.6
Q ss_pred CCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhH
Q 033597 9 NVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTK 88 (115)
Q Consensus 9 n~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~ 88 (115)
-++....+..++-+-....+--++|+..+.|.|--..++..+|||.++|+ -.++.-.-+.++.+|.+.+.+
T Consensus 266 Gvg~g~~~~~elg~vA~~~L~lAlgRGGDQVvIke~~~k~~fyGG~s~~~--------ekrTRvRaRvis~al~d~i~e- 336 (655)
T COG3887 266 GVGYGENNLIELGEVAQSNLDLALGRGGDQVVIKENNGKVRFYGGKSNPM--------EKRTRVRARVISTALSDIIKE- 336 (655)
T ss_pred EeccCcccHHHHHHHHHHhHHHHhccCCceEEEEcCCCceeeeCCCcchh--------HHhHHHHHHHHHHHHHHHHhh-
Confidence 34444445566666667777778999999999988888888999999883 236666667777777777776
Q ss_pred hCCCCCceEEEEE
Q 033597 89 LLIDSSRFYIKLY 101 (115)
Q Consensus 89 Lgv~~~ri~i~f~ 101 (115)
.++++|.=|
T Consensus 337 ----~d~VfImGH 345 (655)
T COG3887 337 ----SDNVFIMGH 345 (655)
T ss_pred ----cCcEEEEcc
Confidence 677777533
No 47
>PRK00647 hypothetical protein; Validated
Probab=82.36 E-value=8.8 Score=23.33 Aligned_cols=58 Identities=10% Similarity=0.097 Sum_probs=34.6
Q ss_pred eEEEEeCCc-eEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 39 VMILINGGV-PIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 39 i~v~~~~~~-~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
+.|.+.|+. .=.+.|-.+...-+.+++. -.+-+-.+++.++|.+.||||+.+|-|.-=
T Consensus 8 l~V~V~P~Ak~~~I~g~~~~~Lkvrv~Ap-----PvdGKAN~ali~~LAk~l~vpks~I~Iv~G 66 (96)
T PRK00647 8 LEVKVTPKARENKIVGFEGGILKVRVTEV-----PEKGKANDAVIALLAKFLSLPKRDVTLIAG 66 (96)
T ss_pred EEEEEeeCCCcceeccccCCEEEEEEecC-----CCCChHHHHHHHHHHHHhCCChhhEEEEec
Confidence 456666643 2223444444444444322 223345567888999999999999988643
No 48
>PRK01310 hypothetical protein; Validated
Probab=82.07 E-value=2.4 Score=26.18 Aligned_cols=60 Identities=15% Similarity=0.103 Sum_probs=34.9
Q ss_pred eeEEEEeCCceE-EeccCC-Cc--eeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 38 YVMILINGGVPI-AFAGTE-AP--AAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 38 ~i~v~~~~~~~~-~~gg~~-~p--~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
.+.|.+.|+..- .+.|-. ++ -..+.++.... -..-+-.+++.++|.+.||||+.+|-|.-
T Consensus 13 ~i~v~V~P~A~~~~i~g~~~~~~g~~~lkv~v~ap---Pv~GkAN~ali~~LA~~l~v~ks~I~iv~ 76 (104)
T PRK01310 13 RLAVRLTPRGGRDAIDGIETLADGRAVLKVRVRAV---PEGGEANRALIELLAKALGVPKSSVRLLS 76 (104)
T ss_pred EEEEEEeeCCCcceeccccccCCCccEEEEEEecC---CCCChHHHHHHHHHHHHhCCChhhEEEEe
Confidence 566777774322 234432 11 12444443322 22234456778889999999999998853
No 49
>PRK01530 hypothetical protein; Reviewed
Probab=81.12 E-value=2.1 Score=26.45 Aligned_cols=26 Identities=23% Similarity=0.245 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
-+-.+++.++|.+.||||+.+|-|.-
T Consensus 52 GkAN~ali~~LAk~l~v~ks~I~Ivs 77 (105)
T PRK01530 52 GKANEEIINYLAKEWKLSRSNIEIIK 77 (105)
T ss_pred ChHHHHHHHHHHHHhCCChhhEEEEe
Confidence 44556788899999999999998854
No 50
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=80.89 E-value=3.7 Score=27.26 Aligned_cols=89 Identities=17% Similarity=0.205 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC--------------CceeEE--EEEeecCCChhhhHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE--------------APAAYG--ELISIGSLGPSVNGKLSST 80 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~--------------~p~~~v--~i~~~~~~~~~~~~~~~~~ 80 (115)
-+-++..+++++-.+.+... +=-.+.+.. ..+.|.+ .-.... .++.++.. -.-.-+-.+
T Consensus 37 gDVllHAi~DAllgA~glGD--IG~~Fp~~d-~~~kgadS~~lL~~~~~~v~~~g~~i~Nvd~tii~~~--PK~~P~~~a 111 (159)
T COG0245 37 GDVLLHALTDALLGAAGLGD--IGKHFPDTD-PRWKGADSRILLKEAVELVREKGYRIGNVDITIIAQR--PKLGPYREA 111 (159)
T ss_pred HHHHHHHHHHHHHHhhccCc--chhcCCCCC-cccCCCchHHHHHHHHHHHHHhCcEEEeEEEEEEEec--CcccchHHH
Confidence 46788888888888777542 222233333 3333222 112233 33334422 122336678
Q ss_pred HHHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
|.+.|.+.|++++++|.|..+.. +..|+=|
T Consensus 112 mr~~ia~~L~i~~~~invKatT~--E~LGf~G 141 (159)
T COG0245 112 MRANIAELLGIPVDRINVKATTT--EKLGFTG 141 (159)
T ss_pred HHHHHHHHhCCCchheEEEEecc--Ccccccc
Confidence 99999999999999999998877 5666654
No 51
>PF13222 DUF4030: Protein of unknown function (DUF4030)
Probab=79.39 E-value=3.9 Score=26.41 Aligned_cols=37 Identities=19% Similarity=0.278 Sum_probs=31.4
Q ss_pred CC-eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcc
Q 033597 1 MP-TLNLYTNVPVDAVIASDILRDATKAVAKILGKSES 37 (115)
Q Consensus 1 MP-~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~ 37 (115)
|| ++-|+|-.+.++...++|-+.+.+.+-+++..++-
T Consensus 85 qp~~v~I~t~in~~d~~AKE~g~kiEkei~~~lkt~ev 122 (142)
T PF13222_consen 85 QPVTVTIKTKINSSDPGAKEFGKKIEKEINEVLKTEEV 122 (142)
T ss_pred CcEEEEEeccccccccchHHHHHHHHHHHHHHHccHHH
Confidence 68 78899977777777789999999999999988763
No 52
>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=78.79 E-value=4.7 Score=23.69 Aligned_cols=31 Identities=10% Similarity=0.068 Sum_probs=25.1
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEecCCCCc
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDVERSFF 108 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~ 108 (115)
...+.+.+.+.|++|++++.+.|.+-+....
T Consensus 23 y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~ 53 (80)
T cd06406 23 YATLLQKISSKLELPAEHITLSYKSEASGED 53 (80)
T ss_pred HHHHHHHHHHHhCCCchhcEEEeccCCCCCc
Confidence 3457788889999999999999998865443
No 53
>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=75.36 E-value=7.7 Score=25.70 Aligned_cols=90 Identities=17% Similarity=0.090 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC-------------CceeE--EEEEeecCCChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE-------------APAAY--GELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~-------------~p~~~--v~i~~~~~~~~~~~~~~~~~i 81 (115)
-+-++..+++++..+.+.+.= =..+.+...-+-|-++ .-... +.++.+... | .-..+..+|
T Consensus 36 gDVl~HAi~DAlLGA~glgDI--G~~Fpdtd~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~-P-Ki~p~~~~m 111 (155)
T TIGR00151 36 GDVLLHALTDALLGALGLGDI--GKHFPDTDPRWKGADSRVLLRHAVALIKEKGYRIGNVDITIIAQR-P-KLLPHIPAM 111 (155)
T ss_pred HHHHHHHHHHHHHHHccCCcC--cccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCC-C-cchHHHHHH
Confidence 467888888988888886632 2223333333333111 12223 333444322 2 234478889
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
.+.|.+.|++++++|.|..+.. +..|+-|
T Consensus 112 ~~~la~~L~~~~~~V~iKatT~--E~lg~~G 140 (155)
T TIGR00151 112 RENIAELLGIPLDSVNVKATTT--EKLGFTG 140 (155)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCCCc
Confidence 9999999999999999998876 4555544
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=75.14 E-value=12 Score=25.80 Aligned_cols=82 Identities=10% Similarity=0.077 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHhC----CCcceeEEEEeCCceEEecc-CCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-C
Q 033597 17 ASDILRDATKAVAKILG----KSESYVMILINGGVPIAFAG-TEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-L 90 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~----kp~~~i~v~~~~~~~~~~gg-~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-g 90 (115)
+......+...++..+. .-..+|.+.+.+. -.|+. ...|-|-|-|+.-.+.+.. +-.+.|..++...- |
T Consensus 109 ~~~~~~ale~eL~~tI~~i~gV~~A~V~l~~Pe~--~~f~~~~~~~sASV~l~~~~g~~l~---~qv~~I~~LVa~sV~g 183 (206)
T PF01514_consen 109 KVNYQRALEGELERTIESIDGVESARVHLVLPER--SVFGENQQPPSASVVLKLKPGSELS---EQVQGIQNLVASSVPG 183 (206)
T ss_dssp HHHHHHHHHHHHHHHHTTSTTEEEEEEEEEE------BTTB----EEEEEEEEE-TTS--G---GGHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHHHHHHHcCCCeeEEEEEEecCCc--cccccCCCCCeEEEEEEECCCCChH---HHHHHHHHHHHHhcCC
Confidence 34445555555555544 3333444444433 44443 3367888888877665444 45666777776665 6
Q ss_pred CCCCceEEEEEec
Q 033597 91 IDSSRFYIKLYDV 103 (115)
Q Consensus 91 v~~~ri~i~f~~~ 103 (115)
+++++|-|.-.+-
T Consensus 184 L~~enVtVvD~~G 196 (206)
T PF01514_consen 184 LKPENVTVVDQNG 196 (206)
T ss_dssp --GGGEEEEEEET
T ss_pred CCcccEEEEeCCC
Confidence 9999999876653
No 55
>KOG0188 consensus Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=74.74 E-value=5.3 Score=32.89 Aligned_cols=35 Identities=17% Similarity=0.253 Sum_probs=28.5
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
++.=-|++.+.---++|.+.+|||++|.||+|..=
T Consensus 97 FGdYfK~Eac~~AwelLt~vygi~~dRLYVtYF~G 131 (895)
T KOG0188|consen 97 FGDYFKEEACAWAWELLTFVYGIPTDRLYVTYFGG 131 (895)
T ss_pred cchHHHHHHHHHHHHHHHHhhcCCCceEEEEEecC
Confidence 34344666777778999999999999999999874
No 56
>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=74.45 E-value=2.6 Score=35.11 Aligned_cols=31 Identities=23% Similarity=0.404 Sum_probs=25.9
Q ss_pred hhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 73 VNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 73 ~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
-|++-+.---++|.+.||+|++|+|++++.-
T Consensus 93 fK~eai~~awe~lT~~~~i~~~rl~vTv~~~ 123 (851)
T TIGR00344 93 FKEEAIAFAWELLTSVLGLDKERLYVTVYED 123 (851)
T ss_pred hHHHHHHHHHHHHhhhcCCChHHEEEEEcCC
Confidence 3566777778899999999999999988754
No 57
>PHA00432 internal virion protein A
Probab=74.45 E-value=16 Score=23.74 Aligned_cols=60 Identities=13% Similarity=0.042 Sum_probs=44.5
Q ss_pred hCCCcc-eeEEEEeCCceEEeccCC-CceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCC
Q 033597 32 LGKSES-YVMILINGGVPIAFAGTE-APAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLI 91 (115)
Q Consensus 32 ~~kp~~-~i~v~~~~~~~~~~gg~~-~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv 91 (115)
++-|.+ .++..+..+.....||+. +|+=+|.-..+...+...+++|.+.+.+.+.+-|..
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 555556667767666655 887888777788889999999999999988776654
No 58
>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=74.38 E-value=6.2 Score=23.50 Aligned_cols=23 Identities=26% Similarity=0.248 Sum_probs=20.0
Q ss_pred hhhhHHHHHHHHHHHHhHhCCCC
Q 033597 71 PSVNGKLSSTIAEILQTKLLIDS 93 (115)
Q Consensus 71 ~~~~~~~~~~i~~~l~~~Lgv~~ 93 (115)
.+...++.++|.+.|.+.||+.+
T Consensus 50 ~~~~~~l~~~i~~~lk~~lgv~~ 72 (96)
T PF14535_consen 50 AEDLEALAERIAERLKERLGVRP 72 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHSS-E
T ss_pred hHHHHHHHHHHHHHHHhhcCceE
Confidence 46789999999999999999986
No 59
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=74.36 E-value=8 Score=25.71 Aligned_cols=90 Identities=11% Similarity=0.056 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC-------------Cce--eEEEEEeecCCChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE-------------APA--AYGELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~-------------~p~--~~v~i~~~~~~~~~~~~~~~~~i 81 (115)
-+-++..+++++..+.|.+. |=-.+.+...-+-|-++ .-. .-+.++.+...+ . -..+..+|
T Consensus 39 gDVl~HAi~DAlLGA~glgD--IG~~Fp~td~~~kg~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P-K-i~p~~~~m 114 (159)
T PRK00084 39 GDVLLHAICDALLGAAALGD--IGKHFPDTDPAFKGADSRVLLREVARLLRAKGYRIGNVDITIIAQRP-K-MAPHIEEM 114 (159)
T ss_pred HHHHHHHHHHHHHHHccCCc--hhhhCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC-c-chHHHHHH
Confidence 47788888999888888542 22223332222333111 112 334444444322 2 23477889
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
.+.|++.|+++++||.|..+.- +..|+-|
T Consensus 115 ~~~la~~L~i~~~~V~iKatT~--E~lg~~G 143 (159)
T PRK00084 115 RANIAEDLGIPLDDVNVKATTT--EKLGFTG 143 (159)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCCCc
Confidence 9999999999999999998876 4555544
No 60
>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=73.68 E-value=9.1 Score=25.30 Aligned_cols=90 Identities=19% Similarity=0.142 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC-------------Ccee--EEEEEeecCCChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE-------------APAA--YGELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~-------------~p~~--~v~i~~~~~~~~~~~~~~~~~i 81 (115)
-+-++..+++++-.+.+.+. +=..+.+...-+-|-++ .-.. -+.++.+... |. -..+..+|
T Consensus 36 gDVl~HAl~DAlLGA~glgD--IG~~Fp~~d~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~-PK-i~p~~~~m 111 (153)
T cd00554 36 GDVLLHALTDALLGAAGLGD--IGEHFPDTDPKWKGADSRILLEEALKLIREKGYEIVNIDITIIAER-PK-ISPYREAM 111 (153)
T ss_pred HHHHHHHHHHHHHHHccCCc--ccccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEecC-Cc-chHHHHHH
Confidence 47788889999988888653 22223332222222111 1122 3344444433 22 24478899
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
.+.|++.|+++.++|.|..... +..|+-|
T Consensus 112 ~~~ls~~L~~~~~~V~iKatT~--E~lg~~G 140 (153)
T cd00554 112 RANLAELLGIPPSRVNIKATTT--EGLGFTG 140 (153)
T ss_pred HHHHHHHhCCCCceEEEEEecC--CCCCCCc
Confidence 9999999999999999998877 4555544
No 61
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=73.02 E-value=25 Score=23.42 Aligned_cols=47 Identities=17% Similarity=0.191 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC-ceeEEEEE
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA-PAAYGELI 64 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~-p~~~v~i~ 64 (115)
.....++.+.++++++-|++.|.|....+..+-|-|+.+ -++++.+.
T Consensus 108 ~p~~~~m~~~la~~L~i~~~~V~iKatT~E~lg~~Gr~egi~~~avv~ 155 (159)
T PRK00084 108 APHIEEMRANIAEDLGIPLDDVNVKATTTEKLGFTGRGEGIAAQAVVL 155 (159)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCcCCCceEEEEEEE
Confidence 568889999999999999999999999988888877764 55555554
No 62
>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=71.85 E-value=26 Score=23.21 Aligned_cols=47 Identities=15% Similarity=0.160 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC-ceeEEEE
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA-PAAYGEL 63 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~-p~~~v~i 63 (115)
-.....++.+.++++++-|+..|.|....+..|-|-|+.+ -++++.+
T Consensus 104 i~p~~~~m~~~la~~L~~~~~~V~iKatT~E~lg~~Gr~egia~~av~ 151 (155)
T TIGR00151 104 LLPHIPAMRENIAELLGIPLDSVNVKATTTEKLGFTGRGEGIACQAVV 151 (155)
T ss_pred chHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCcCCCceEEEEEE
Confidence 3568889999999999999999999999988888877764 4555444
No 63
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=71.75 E-value=4.6 Score=30.07 Aligned_cols=43 Identities=19% Similarity=0.369 Sum_probs=36.4
Q ss_pred CChhhhH--HHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceec
Q 033597 69 LGPSVNG--KLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFN 111 (115)
Q Consensus 69 ~~~~~~~--~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~ 111 (115)
.++..+. +++..|-++-.++||+|.++.|-.|.++......||
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 4445444 488999999999999999999999999998888776
No 64
>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=71.73 E-value=38 Score=27.04 Aligned_cols=77 Identities=12% Similarity=0.125 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC--CChhhhHHHHHHHHHHHHhHh-CCCCC
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS--LGPSVNGKLSSTIAEILQTKL-LIDSS 94 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~--~~~~~~~~~~~~i~~~l~~~L-gv~~~ 94 (115)
.++-.+|++.+..+-+....+|++.+.....+ ......|.|-|-|+.-.+ +++++ .++|..++...- |++++
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 RAIEGELSRTIEALDPVKAASVHLAMPKDALF-VEEQEPPSASVRLTLRPGSDLDTNQ----IEGLVHLISYAVPGLESD 208 (555)
T ss_pred HHHHHHHHHHHHhcCCeeeEEEEEECCCCCcc-ccCCCCCCEEEEEecCCCCCCCHHH----HHHHHHHHHhhcCCCCcc
Confidence 45566677777777677666777766554434 444567888888887654 55555 777777777664 79999
Q ss_pred ceEEE
Q 033597 95 RFYIK 99 (115)
Q Consensus 95 ri~i~ 99 (115)
+|.|.
T Consensus 209 nVtVv 213 (555)
T TIGR00206 209 NIAIV 213 (555)
T ss_pred ceEEE
Confidence 99875
No 65
>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=71.46 E-value=4.6 Score=31.99 Aligned_cols=33 Identities=18% Similarity=0.297 Sum_probs=24.3
Q ss_pred hhHHHHHHHHHHHHhHhCCCCCceEEEEEecCC
Q 033597 73 VNGKLSSTIAEILQTKLLIDSSRFYIKLYDVER 105 (115)
Q Consensus 73 ~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~ 105 (115)
-+++-+.-.-++|.+.||+|++|+|+++..=+.
T Consensus 98 fK~eai~~awe~lt~~l~i~~~~l~vt~~~~d~ 130 (552)
T PF01411_consen 98 FKEEAIEYAWEFLTEVLGIPPDRLYVTVFEWDG 130 (552)
T ss_dssp -HHHHHHHHHHHHHCTTT--GGGEEEEEECCEC
T ss_pred cHHHHHHHHHHHHHhhcCCChHhEEEEEeCCch
Confidence 355666667789999999999999999986543
No 66
>PLN02900 alanyl-tRNA synthetase
Probab=71.32 E-value=4.8 Score=33.97 Aligned_cols=28 Identities=14% Similarity=0.209 Sum_probs=23.9
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
|++-+.---++|.+.||+|++|+||++.
T Consensus 117 K~eaI~~awe~lT~~l~i~~~~l~vTv~ 144 (936)
T PLN02900 117 KKEAIGWAWELLTKVYGLPADRLYATYF 144 (936)
T ss_pred HHHHHHHHHHHHHHhcCCCHHHEEEEEe
Confidence 5566667788999999999999999966
No 67
>PRK15324 type III secretion system lipoprotein PrgK; Provisional
Probab=71.31 E-value=35 Score=24.42 Aligned_cols=84 Identities=14% Similarity=0.095 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-CCCCCceEE
Q 033597 20 ILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-LIDSSRFYI 98 (115)
Q Consensus 20 ~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-gv~~~ri~i 98 (115)
+..+|++.+..+-|.-..+|.+.+..... ..+....|..---+... .+....+....+|..++.... |+++++|-|
T Consensus 109 Le~ELarTI~~IdgV~~ARVHl~lP~~s~-~~~~~~~~~~aSv~~~~--~~~~~~~~qv~~I~~LVA~SV~gL~~enVtV 185 (252)
T PRK15324 109 IEQRLEQSLQTMEGVLSARVHISYDIDAG-ENGRPPKPVHLSALAVY--ERGSPLAHQISDIKRFLKNSFADVDYDNISV 185 (252)
T ss_pred HHHHHHHHHHhcCCcceEEEEEECCCCcc-ccccccCCcceeEEEec--CCCCCCHHHHHHHHHHHHhcCCCCCcccEEE
Confidence 33444455555556555566665543322 22221223211111111 122334778888999988887 699999999
Q ss_pred EEEecCCC
Q 033597 99 KLYDVERS 106 (115)
Q Consensus 99 ~f~~~~~~ 106 (115)
.+.+.++.
T Consensus 186 V~~~~~~~ 193 (252)
T PRK15324 186 VLSERSDA 193 (252)
T ss_pred EEEEcccc
Confidence 99986644
No 68
>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=71.28 E-value=8.1 Score=22.59 Aligned_cols=33 Identities=12% Similarity=0.071 Sum_probs=27.8
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEecCCC-Ccee
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDVERS-FFGF 110 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~-~~g~ 110 (115)
...+.+.|.++|.++++++-+.|.+...+ .|..
T Consensus 19 y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~ 52 (78)
T cd06411 19 VSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVP 52 (78)
T ss_pred HHHHHHHHHHHhcCChhhcEEEecCCCCCccEee
Confidence 35678889999999999999999998877 6743
No 69
>COG1766 fliF Flagellar basal body M-ring protein [Cell motility and secretion]
Probab=71.15 E-value=45 Score=26.66 Aligned_cols=80 Identities=9% Similarity=0.111 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-CCCCCc
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-LIDSSR 95 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-gv~~~r 95 (115)
..++-.+|++.+..+=+....+|++.+.+...+... ...|.|-|.|+.-.+. ...++=+.+|..++...- |+++++
T Consensus 133 ~RAlegELartI~~l~~V~~ArVhl~lPk~s~Fv~~-q~~psASV~l~l~pG~--~l~~~qV~aI~~LVs~aVpgL~~en 209 (545)
T COG1766 133 QRALEGELARTIVAIDGVKAARVHLVLPKDSLFVRD-QQPPSASVVLKLKPGR--NLSREQVRAIVHLVSSAVPGLKPEN 209 (545)
T ss_pred HHHHHHHHHHHHHHhhchhheeEEEecCCcchhhcc-cCCCceEEEEEccCCC--CCCHHHHHHHHHHHHhhcCCCCccc
Confidence 456777888888888887777888877766555555 7789999999876663 233344566666666544 799999
Q ss_pred eEEE
Q 033597 96 FYIK 99 (115)
Q Consensus 96 i~i~ 99 (115)
|.|.
T Consensus 210 VtVv 213 (545)
T COG1766 210 VTVV 213 (545)
T ss_pred eEEe
Confidence 9875
No 70
>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=71.00 E-value=4.5 Score=26.86 Aligned_cols=90 Identities=18% Similarity=0.095 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC-------------CCce--eEEEEEeecCCChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT-------------EAPA--AYGELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~-------------~~p~--~~v~i~~~~~~~~~~~~~~~~~i 81 (115)
-+-++..+++++..+.+.+.= =..+.+...-+-|-+ ..-. .-+.++.++..+ .-..+..+|
T Consensus 37 gDVl~HAi~DAlLGA~glgDI--G~~Fpd~d~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P--Ki~p~~~~m 112 (157)
T PF02542_consen 37 GDVLLHAIIDALLGAAGLGDI--GTHFPDTDPKYKGADSRILLKEVVELLREKGYRIVNIDITIIAERP--KISPYRPAM 112 (157)
T ss_dssp --HHHHHHHHHHHHHTTS-TH--HHHSTTTSGGGTTCSHHHHHHHHHHHHHHTTEEEEEEEEEEESSSS--TTGGGHHHH
T ss_pred HHHHHHHHHHHHHHhccCCcc--cccCCCCChhhCCCCHHHHHHHHHHHHHHcCcEEEEEEEEEEcCCC--ccHHHHHHH
Confidence 366777788888877776521 111222222222211 0112 334444444332 223467889
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
.+.|++.|++++++|.|..+.. +..|+-|
T Consensus 113 ~~~la~~L~~~~~~V~iKatT~--E~lg~~G 141 (157)
T PF02542_consen 113 RENLAKLLGIPPDRVNIKATTT--EGLGFIG 141 (157)
T ss_dssp HHHHHHHHTS-GGGEEEEEE-T--TTSHHHH
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCccc
Confidence 9999999999999999988876 4455433
No 71
>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=70.52 E-value=15 Score=23.06 Aligned_cols=39 Identities=10% Similarity=0.080 Sum_probs=34.4
Q ss_pred CCChhhhHHHHHHHHHHHHhHhCCC-CCceEEEEEecCCC
Q 033597 68 SLGPSVNGKLSSTIAEILQTKLLID-SSRFYIKLYDVERS 106 (115)
Q Consensus 68 ~~~~~~~~~~~~~i~~~l~~~Lgv~-~~ri~i~f~~~~~~ 106 (115)
--+++.+.++-+.-...|++.+|.. |..+-|.+++-+++
T Consensus 25 W~DpaFr~eLl~DPk~~L~e~Fgy~~P~~v~l~v~E~~~d 64 (114)
T TIGR03795 25 WHSPEFKDELLADPVDALEKYFDYRCPWILDLKVTENSSD 64 (114)
T ss_pred hCCHHHHHHHHHCHHHHHHHHhCCCCCCceEEEEEecCCC
Confidence 3578999999999999999999975 88899999998866
No 72
>PF10850 DUF2653: Protein of unknown function (DUF2653); InterPro: IPR020516 This entry contains proteins with no known function.
Probab=70.04 E-value=21 Score=21.45 Aligned_cols=76 Identities=18% Similarity=0.178 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCce
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
.+++...+|-.+|+--+.-++-|.|.+..+....|+ .++..-|..-.---..+..+|-.++.+.++++|.+-
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 368888999999999997777777777665444444 344433433233346699999999999999998774
Q ss_pred EEEE
Q 033597 97 YIKL 100 (115)
Q Consensus 97 ~i~f 100 (115)
-|.+
T Consensus 79 ~i~L 82 (91)
T PF10850_consen 79 GIEL 82 (91)
T ss_pred heEE
Confidence 4443
No 73
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=69.85 E-value=4.9 Score=33.62 Aligned_cols=30 Identities=17% Similarity=0.310 Sum_probs=24.9
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+++-+.---++|.+.||+|++|+||++..-
T Consensus 99 K~eai~~awe~lt~~~~i~~~~l~vt~~~~ 128 (865)
T PRK00252 99 KEEAIEWAWELLTSVLGLPKEKLYVTVYED 128 (865)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHEEEEEcCC
Confidence 556666778889999999999999988753
No 74
>PRK06007 fliF flagellar MS-ring protein; Reviewed
Probab=69.00 E-value=53 Score=26.13 Aligned_cols=79 Identities=9% Similarity=0.116 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-CCCCCce
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-LIDSSRF 96 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-gv~~~ri 96 (115)
.++-.+|++.+..+-+.-..+|.+.+.....+ ......|.|-|-|+...+.. ..++-.++|..++...- |+++++|
T Consensus 134 rAlegELartI~~i~~V~~ArVhl~lP~~s~F-~~~~~~~tASV~l~l~~g~~--L~~~qV~aI~~LVA~sVpgL~~enV 210 (542)
T PRK06007 134 RALEGELARTIESLDGVKAARVHLALPKESVF-VREQQPPSASVVLTLKPGRA--LDPEQVKAIVHLVASAVPGLKPENV 210 (542)
T ss_pred HHHHHHHHHHHHhcCCcceeEEEEECCCCccc-cccCCCCcEEEEEeccCCCC--CCHHHHHHHHHHHHhccCCCCccce
Confidence 34566667777777676666777766554433 34455788888888665422 23344667777777665 7999999
Q ss_pred EEE
Q 033597 97 YIK 99 (115)
Q Consensus 97 ~i~ 99 (115)
.|.
T Consensus 211 tVv 213 (542)
T PRK06007 211 TIV 213 (542)
T ss_pred EEE
Confidence 876
No 75
>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=68.32 E-value=7.4 Score=32.10 Aligned_cols=76 Identities=12% Similarity=0.044 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEE--eecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+...+.+++..|+.||.|.+.|.|..-+....-+++.+ +-.-. ..|.--....+++-++|.+...+.|+++++
T Consensus 490 GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt----~~Sr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~~~ 565 (768)
T TIGR03196 490 GQGFLAAAEQIAMEELGCAAEDISIAIADTAKGPKAGSS----SASRGTSMSGGAIQGACAAFAAQLKARAAETAGLPAE 565 (768)
T ss_pred CCCHHHHHHHHHHHHhCCCHHHEEEecCCCCCCCCCCCC----chhhhhHhHHHHHHHHHHHHHHHHHHHHHHHhCCChh
Confidence 467889999999999999999999987654443333211 11111 122223455667777777776777887655
Q ss_pred ce
Q 033597 95 RF 96 (115)
Q Consensus 95 ri 96 (115)
.+
T Consensus 566 ~~ 567 (768)
T TIGR03196 566 VV 567 (768)
T ss_pred hE
Confidence 43
No 76
>COG3509 LpqC Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=68.10 E-value=7 Score=28.75 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhHhCCCCCceEEE
Q 033597 76 KLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 76 ~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
-+..++.+-|..+.+|+++||||.
T Consensus 126 gflr~lva~l~~~~gidp~RVyvt 149 (312)
T COG3509 126 GFLRALVAKLVNEYGIDPARVYVT 149 (312)
T ss_pred HHHHHHHHHHHHhcCcCcceEEEE
Confidence 467777888888999999999996
No 77
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=66.90 E-value=11 Score=27.10 Aligned_cols=50 Identities=10% Similarity=0.041 Sum_probs=35.5
Q ss_pred eEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 39 VMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 39 i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
|-...+.|.+=.+|. .|=+.|+-+. ..+-+++-++++.+-+.+-++||||
T Consensus 73 IDM~~H~GeHpRmGA-~DViPfvPl~---d~tteecveiske~gkrvgeelgiP 122 (302)
T COG3643 73 IDMRNHKGEHPRMGA-ADVIPFVPLK---DTTTEECVEISKELGKRVGEELGIP 122 (302)
T ss_pred hchhccCCCCCCCCc-cceeceeecc---cccHHHHHHHHHHHHHHhhHhhCCc
Confidence 333445555555564 3444455544 5677999999999999999999998
No 78
>PF10503 Esterase_phd: Esterase PHB depolymerase
Probab=66.58 E-value=6.8 Score=27.29 Aligned_cols=25 Identities=20% Similarity=0.429 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..+.++|.+.+.++.+|+++|||+.
T Consensus 78 ~~~i~~lv~~v~~~~~iD~~RVyv~ 102 (220)
T PF10503_consen 78 VAFIAALVDYVAARYNIDPSRVYVT 102 (220)
T ss_pred hhhHHHHHHhHhhhcccCCCceeeE
Confidence 4577888888899999999999985
No 79
>PF04787 Pox_H7: Late protein H7; InterPro: IPR006872 This is a family of poxvirus late H7 proteins.
Probab=66.21 E-value=29 Score=22.78 Aligned_cols=64 Identities=19% Similarity=0.172 Sum_probs=43.0
Q ss_pred HHHHHHHHHhCCCcceeEEEEeCCceEEec---cCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHh
Q 033597 23 DATKAVAKILGKSESYVMILINGGVPIAFA---GTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQT 87 (115)
Q Consensus 23 ~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g---g~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~ 87 (115)
++..+...++|+-+.....++..+..+.+. ++.-..-|+... +..++|++..+++..|++.|..
T Consensus 21 DI~~l~~~L~~~~P~~tifsid~~g~f~iDF~Yd~~~AS~YL~~~-~~~i~pde~~~~~~~IA~eLT~ 87 (147)
T PF04787_consen 21 DIMVLKRHLLNKHPNDTIFSIDEDGKFFIDFEYDDCLASDYLNMK-TRPITPDEYKKYSSAIAKELTN 87 (147)
T ss_pred HHHHHHHHHhcCCCcceeeeEcCCCCEEEEeeeCCchHhhhhcCC-CccCCHHHHHHHHHHHHHHHHH
Confidence 566778889997666666666655544444 334344455544 3348899999999999988764
No 80
>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=65.28 E-value=7.2 Score=30.65 Aligned_cols=57 Identities=21% Similarity=0.106 Sum_probs=31.2
Q ss_pred ceeEEEEEeecCCC-----hhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec--CCCCceecCc
Q 033597 57 PAAYGELISIGSLG-----PSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV--ERSFFGFNGS 113 (115)
Q Consensus 57 p~~~v~i~~~~~~~-----~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~--~~~~~g~~G~ 113 (115)
..+.++|..-|.+. .+.=+-....+...+.++||||+++|.|..-|- .+..+|.+|+
T Consensus 320 ~~a~v~l~~DG~v~v~~~~~e~GqG~~T~~~qiaAe~Lgi~~~~V~v~~~dT~~~p~~~~t~gS 383 (547)
T PF02738_consen 320 SSARVRLNPDGSVTVYTGGVEMGQGSRTALAQIAAEELGIPPEDVRVVSGDTDTTPYDGGTGGS 383 (547)
T ss_dssp EEEEEEE-TTS-EEEEES--BSSSSHHHHHHHHHHHHHTS-GGGEEEEECBTTTS-SB--S-TT
T ss_pred CcEEEEEEeCCCEEEEEecccCCcchhhhHHHHHHHHhCCChhhEEEEeCCCcCCCCCCCCccc
Confidence 35666665433211 222223455677888899999999999998873 3444444443
No 81
>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=64.83 E-value=17 Score=22.69 Aligned_cols=31 Identities=10% Similarity=0.196 Sum_probs=27.1
Q ss_pred hhhHHHHHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 72 SVNGKLSSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 72 ~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
+.-++++..+..+..+.+|-.|+.+.+.|.+
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 3457899999999999999999999998865
No 82
>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=63.40 E-value=23 Score=23.03 Aligned_cols=67 Identities=21% Similarity=0.221 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC-------CChhhhHHHHHHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS-------LGPSVNGKLSSTIAEILQ 86 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~-------~~~~~~~~~~~~i~~~l~ 86 (115)
.+.|.+.+...+.+.++.+...+. ..++ ....-.+..|++++|+-.+.. .++..+++++++|.+-|.
T Consensus 101 s~~lA~~i~~~l~~~~~~~~rgv~--~~~~-~~~l~~~~~pavliE~gfi~n~~D~~~l~~~~~~~~~A~ai~~gI~ 174 (175)
T PF01520_consen 101 SKKLAKSIQKELSKRTGLPNRGVK--ERNN-LYVLRNTNMPAVLIELGFIDNPEDAKKLNDPKFQQKIAEAIAKGIA 174 (175)
T ss_dssp HHHHHHHHHHHHHHCHTTEEEEEE--EECT--HHHHCCSSCEEEEEEEETTSHHHHHHHTHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHhhhhccccCCcc--cchH-HHHHhcCCCCEEEEEeccCCCHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence 578888888888888887633322 2221 122224668999999998754 234455667888777664
No 83
>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=63.25 E-value=34 Score=21.28 Aligned_cols=81 Identities=16% Similarity=0.165 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEec-cCCCceeEEEEEeecCCC--hhhh----HHHHHHHHHHHHhHh
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFA-GTEAPAAYGELISIGSLG--PSVN----GKLSSTIAEILQTKL 89 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g-g~~~p~~~v~i~~~~~~~--~~~~----~~~~~~i~~~l~~~L 89 (115)
..+|...+++...+.+||.+..+.+.+.++--...- |.-.|+=..=+..-++.. ...+ +.+...+.+.+++.+
T Consensus 9 E~~is~~i~k~~ke~~GkGP~~i~~~i~~~~iiv~l~g~LTp~Ek~L~~~~~g~~lv~~~R~~l~~~~~~~l~~~ie~i~ 88 (118)
T PF10057_consen 9 EQEISNAIRKFYKEYFGKGPKSIKVTISDDMIIVRLEGFLTPAEKFLAETEEGRELVKQVRTSLIESLKPELKEMIEEIL 88 (118)
T ss_pred HHHHHHHHHHHHHHHhCCCCcEEEEEEECCEEEEEEECCCCHHHHHHHhCcchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467888888888999999999999998765432222 333442222222212211 1222 233444555677777
Q ss_pred CCCCCceE
Q 033597 90 LIDSSRFY 97 (115)
Q Consensus 90 gv~~~ri~ 97 (115)
|++-...|
T Consensus 89 g~~V~~l~ 96 (118)
T PF10057_consen 89 GVKVISLF 96 (118)
T ss_pred CCeeEEEE
Confidence 76654433
No 84
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=62.94 E-value=94 Score=26.29 Aligned_cols=81 Identities=9% Similarity=0.069 Sum_probs=55.0
Q ss_pred CCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh
Q 033597 10 VPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL 89 (115)
Q Consensus 10 ~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L 89 (115)
+........++.+-...++--++|+.-+.+.|--..+..-+|||.+.+ ...+|.-.-+..+.++.+.+.
T Consensus 297 ig~g~~~~~e~~~~A~~aldlAlgRGGDQvvvk~~~~~~~fyGGks~~--------~eKrtrVraRvia~~L~elI~--- 365 (838)
T PRK14538 297 IACWNLSYDKLATYSQNAIELAQKRGGDQAVVNIENEKIKYFGAKIAS--------LSKQSKVNARVNAQNLVDILK--- 365 (838)
T ss_pred EeCCCCCHHHHHHHHHHHHHHHhccCCCEEEEEcCCCCceEeCCCCCc--------ccchhhHHHHHHHHHHHHHHh---
Confidence 333444467888888899999999998888775543567799999877 233555555566666666664
Q ss_pred CCCCCceEEEEEec
Q 033597 90 LIDSSRFYIKLYDV 103 (115)
Q Consensus 90 gv~~~ri~i~f~~~ 103 (115)
..+++.|.=|..
T Consensus 366 --~~d~ViI~gH~n 377 (838)
T PRK14538 366 --KNPHCFIMGHNH 377 (838)
T ss_pred --cCCeEEEEecCC
Confidence 345666655544
No 85
>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=62.93 E-value=43 Score=22.42 Aligned_cols=67 Identities=9% Similarity=0.027 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC-------CChhhhHHHHHHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS-------LGPSVNGKLSSTIAEILQ 86 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~-------~~~~~~~~~~~~i~~~l~ 86 (115)
..+|.+.+...+.+.++.+....-- . ........+.-|+.++|+-.+.. .+++..++++++|.+-|.
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 4678888888888877654433211 1 33445556679999999986643 135556778888877664
No 86
>PRK07193 fliF flagellar MS-ring protein; Reviewed
Probab=62.46 E-value=80 Score=25.30 Aligned_cols=77 Identities=12% Similarity=0.134 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC--CChhhhHHHHHHHHHHHHhHh-CCCCCc
Q 033597 19 DILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS--LGPSVNGKLSSTIAEILQTKL-LIDSSR 95 (115)
Q Consensus 19 ~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~--~~~~~~~~~~~~i~~~l~~~L-gv~~~r 95 (115)
++-.+|++.+..+-+.-..+|.+.+.....+.......|.|-|-|+.-.+ +++++ .++|..++...- |+++++
T Consensus 138 ALEgELaRTI~~l~~V~~ARVhLalPe~s~F~~~~~~~~sASV~l~l~~g~~Ls~~Q----V~aI~~LVA~SVpgL~pen 213 (552)
T PRK07193 138 SLEGELAQSIMALDAVESARVHLAIPKSSSFVRQDPELPSASVVLRLKPGQKLSPEQ----VEAIVNLVAGSVPGLKPAN 213 (552)
T ss_pred HHHHHHHHHHHhcCCceeEEEEEEcCCCCcccccCCCCCCeEEEEecCCCCCCCHHH----HHHHHHHHHHhcCCCCccc
Confidence 34445555555555655556666555544443443467888888876544 55555 455666666555 799999
Q ss_pred eEEE
Q 033597 96 FYIK 99 (115)
Q Consensus 96 i~i~ 99 (115)
|.|.
T Consensus 214 VtVv 217 (552)
T PRK07193 214 VSVV 217 (552)
T ss_pred eEEE
Confidence 9875
No 87
>PRK09800 putative hypoxanthine oxidase; Provisional
Probab=61.46 E-value=14 Score=31.46 Aligned_cols=78 Identities=14% Similarity=0.017 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEE--eecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+...+.+.+..|+.||.|.+.|.|...+....-+++.+ +-.-. ..|.--....+++-++|.+...+.|+++++
T Consensus 687 GqG~~T~~~QiaAe~LGip~d~V~v~~~DT~~~p~~~gt----~aSr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~~~ 762 (956)
T PRK09800 687 GTGLDTVVTKLAAEVLHCPPQDVHVISGDTDHALFDKGA----YASSGTCFSGNAARLAAENLREKILFHGAQMLGEPVA 762 (956)
T ss_pred CccHHHHHHHHHHHHHCCCceeEEEEeCCCCCCCCCCCc----chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHH
Confidence 467889999999999999999999987664433333211 11111 122223556677777777777888998887
Q ss_pred ceEE
Q 033597 95 RFYI 98 (115)
Q Consensus 95 ri~i 98 (115)
.+.+
T Consensus 763 ~~~~ 766 (956)
T PRK09800 763 DVQL 766 (956)
T ss_pred HEEE
Confidence 5444
No 88
>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=61.24 E-value=44 Score=24.98 Aligned_cols=93 Identities=15% Similarity=0.105 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHH-----HhCCCcceeEEEEeC-CceEEeccC-CCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh
Q 033597 17 ASDILRDATKAVAK-----ILGKSESYVMILING-GVPIAFAGT-EAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL 89 (115)
Q Consensus 17 ~~~~~~~l~~~~a~-----~~~kp~~~i~v~~~~-~~~~~~gg~-~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L 89 (115)
++.+...+..++.. .+...+.-+.+.+.. +..+.|+|. ++|.-.-....++.+=-++-..+.....+.+...|
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 34555555555543 223333333455544 788999887 66754444333222112222222333333333334
Q ss_pred CCCCC--ceEEEEEecCCCCce
Q 033597 90 LIDSS--RFYIKLYDVERSFFG 109 (115)
Q Consensus 90 gv~~~--ri~i~f~~~~~~~~g 109 (115)
--+.. ++++.+.+-.+.+|=
T Consensus 126 r~~~~~~~i~~t~NP~~~~~w~ 147 (396)
T TIGR01547 126 RETGGKKFIIFSSNPESPLHWV 147 (396)
T ss_pred hccCCccEEEEEcCcCCCccHH
Confidence 33333 488888887777773
No 89
>COG1995 PdxA Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]
Probab=61.21 E-value=62 Score=24.19 Aligned_cols=54 Identities=15% Similarity=0.073 Sum_probs=37.8
Q ss_pred eEEeccCCCceeEEEEEe-----ecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 48 PIAFAGTEAPAAYGELIS-----IGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 48 ~~~~gg~~~p~~~v~i~~-----~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-|++++.+--.++++.+. .+.++.+.-.+..+.+.+.|.+.+|+..-||.|.=-
T Consensus 151 vMmla~~~Lrv~lvTtHipL~~V~~~iT~e~l~~~~~i~~~~L~~~fGi~~PriaVaGL 209 (332)
T COG1995 151 VMMLAVPELRVALVTTHIPLKDVPDAITPELLLEVLRILDKDLRKKFGIAEPRIAVAGL 209 (332)
T ss_pred EEEeeccccEEEEEeecccHHHHHhhhCHHHHHHHHHHHHHHHHHhhCCCCcceEEecc
Confidence 344444444444444443 244788888889999999998999999999988633
No 90
>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=60.01 E-value=48 Score=21.93 Aligned_cols=46 Identities=24% Similarity=0.190 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC-ceeEEE
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA-PAAYGE 62 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~-p~~~v~ 62 (115)
-..+..++.+.++++++-+.+.|.|....+..+-+-|+.+ -+++..
T Consensus 104 i~p~~~~m~~~ls~~L~~~~~~V~iKatT~E~lg~~Gr~egia~~av 150 (153)
T cd00554 104 ISPYREAMRANLAELLGIPPSRVNIKATTTEGLGFTGRGEGIAAQAV 150 (153)
T ss_pred chHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCCcCCCceEEEEE
Confidence 3568889999999999999999999999988888877764 444443
No 91
>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=59.87 E-value=17 Score=24.18 Aligned_cols=29 Identities=14% Similarity=0.170 Sum_probs=25.1
Q ss_pred cCHHHHHHHHHHHHHHHhCCCcceeEEEE
Q 033597 15 VIASDILRDATKAVAKILGKSESYVMILI 43 (115)
Q Consensus 15 ~~~~~~~~~l~~~~a~~~~kp~~~i~v~~ 43 (115)
....+...++.+.+|+.+|.|++.|.|.|
T Consensus 160 ~~~~~~~~~i~~~la~~~~i~~~~I~V~~ 188 (188)
T PF09581_consen 160 PEDSEEEEEIKQYLADFYGISPEQIKVYV 188 (188)
T ss_pred ccchHHHHHHHHHHHHHhCCCHHHeEEeC
Confidence 34578899999999999999999998864
No 92
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=59.59 E-value=8.5 Score=30.90 Aligned_cols=29 Identities=17% Similarity=0.359 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHhH--hCCCCCceEEEEEe
Q 033597 74 NGKLSSTIAEILQTK--LLIDSSRFYIKLYD 102 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~--Lgv~~~ri~i~f~~ 102 (115)
+++-+.---++|.+. ||+|++|+||++..
T Consensus 97 K~eai~~awe~lt~~~~l~l~~~rl~vTv~~ 127 (594)
T PRK01584 97 KEESIKYSFEFLTSPDYLNIPKDKLYVTVFE 127 (594)
T ss_pred HHHHHHHHHHHhccchhcCCCHHHeEEEEeC
Confidence 566666778889887 99999999999984
No 93
>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=59.58 E-value=29 Score=23.02 Aligned_cols=46 Identities=24% Similarity=0.188 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCc-eeEEE
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAP-AAYGE 62 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p-~~~v~ 62 (115)
-.....++.+.+|++++-|.+.|.|....+..+-+-|+.+- +|+..
T Consensus 105 i~p~~~~m~~~la~~L~~~~~~V~iKatT~E~lg~~Gr~egi~a~av 151 (157)
T PF02542_consen 105 ISPYRPAMRENLAKLLGIPPDRVNIKATTTEGLGFIGRGEGIAAHAV 151 (157)
T ss_dssp TGGGHHHHHHHHHHHHTS-GGGEEEEEE-TTTSHHHHTTSEEEEEEE
T ss_pred cHHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCcccCCCcEEEEEE
Confidence 35678899999999999999999999998888877777653 34433
No 94
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=59.35 E-value=23 Score=24.74 Aligned_cols=90 Identities=18% Similarity=0.056 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC-------------CCceeE--EEEEeecCCChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT-------------EAPAAY--GELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~-------------~~p~~~--v~i~~~~~~~~~~~~~~~~~i 81 (115)
-+-++..+++++-...|.+. |=-.+.+...-+-|-+ ..-+.. +.++.+... |. -..+..+|
T Consensus 96 gDVllHAi~DALLGA~glGD--IG~~FPdtd~~~Kg~~S~~lL~~a~~ll~~~G~~I~NvD~tII~q~-PK-i~p~~~~m 171 (216)
T PLN02862 96 GDVLLHCVVDAILGALGLPD--IGQIFPDTDPKWKGADSSVFIKEAVRLMHEAGYEIGNLDATLILQR-PK-LSPHKEAI 171 (216)
T ss_pred HHHHHHHHHHHHHHHccCCc--ccccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCC-Cc-chHHHHHH
Confidence 46788888888888888653 2222333333333311 112333 334444432 22 23477889
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
.+.|.+.|++++++|.|..... +-.|+=|
T Consensus 172 ~~~La~lL~i~~~~VnIKAtT~--E~LG~~G 200 (216)
T PLN02862 172 RSNLSKLLGADPSVVNLKAKTH--EKVDSLG 200 (216)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCCCc
Confidence 9999999999999999998876 4555533
No 95
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=59.11 E-value=14 Score=19.41 Aligned_cols=25 Identities=12% Similarity=-0.024 Sum_probs=20.2
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
.+.+.+.+++.+|+|+++..+.|..
T Consensus 22 v~~lk~~i~~~~~~~~~~~~L~~~g 46 (64)
T smart00213 22 VSELKEKIAELTGIPVEQQRLIYKG 46 (64)
T ss_pred HHHHHHHHHHHHCCCHHHEEEEECC
Confidence 5677777888999999998887653
No 96
>COG1872 Uncharacterized conserved protein [Function unknown]
Probab=58.62 E-value=16 Score=22.51 Aligned_cols=60 Identities=12% Similarity=0.103 Sum_probs=33.8
Q ss_pred eeEEEEeCCc-eEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 38 YVMILINGGV-PIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 38 ~i~v~~~~~~-~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
.+.|.+.|+. .-.+.|-++-.-++.+..... -..-+-.++|..+|.+.|++|..+|.|.=
T Consensus 14 ~l~V~V~P~a~~~~i~g~~~~~~~Lkv~i~ap---P~~GKAN~~li~~Lak~~~v~kS~V~ivs 74 (102)
T COG1872 14 LLRVRVKPKAKRDSIVGLDEWRKRLKVRITAP---PVDGKANEELIKFLAKTFGVPKSSVEIVS 74 (102)
T ss_pred EEEEEECCCCccCcccceecCcceEEEEEecC---CCCcchhHHHHHHHHHHhCCCcccEEEEe
Confidence 3556666532 222222222222566654432 23334456677889999999999998753
No 97
>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=58.44 E-value=8.3 Score=31.74 Aligned_cols=80 Identities=9% Similarity=0.038 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCce
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
-+...+.+++.+|+.||.|.+.|.|..-+....-.++.+-- --.....|.--....+++-+.|.+...+.|+++++.+
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 36788999999999999999999998765443333321100 0001111222244556666666666688889888765
Q ss_pred EE
Q 033597 97 YI 98 (115)
Q Consensus 97 ~i 98 (115)
.+
T Consensus 548 ~~ 549 (758)
T TIGR02965 548 RF 549 (758)
T ss_pred EE
Confidence 54
No 98
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=58.34 E-value=9.7 Score=31.97 Aligned_cols=33 Identities=15% Similarity=0.289 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEEecCCC
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLYDVERS 106 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~ 106 (115)
|++-+.---++|.+.||+|++++|+++++-+.+
T Consensus 103 KeeAI~~AwEflT~~lgl~~ekL~vtvy~~Dde 135 (879)
T COG0013 103 KEEAIEFAWEFLTKVLGLPKEKLYVTVYEDDDE 135 (879)
T ss_pred HHHHHHHHHHHHHhhcCCCHHHEEEEEecCchH
Confidence 455555667888899999999999998876543
No 99
>PF14804 Jag_N: Jag N-terminus; PDB: 3GKU_B.
Probab=58.15 E-value=23 Score=18.88 Aligned_cols=28 Identities=18% Similarity=0.419 Sum_probs=13.7
Q ss_pred HhHhCCCCCceEEEEEec-CCCCceecCc
Q 033597 86 QTKLLIDSSRFYIKLYDV-ERSFFGFNGS 113 (115)
Q Consensus 86 ~~~Lgv~~~ri~i~f~~~-~~~~~g~~G~ 113 (115)
.+.||++++++-+.+.+- ...-||++.+
T Consensus 15 ~~~l~~~~~~~~~eVi~~g~kGf~G~g~k 43 (52)
T PF14804_consen 15 LKELGVPREELEYEVIEEGKKGFFGFGKK 43 (52)
T ss_dssp HHHTT--GGGEEEEEEE--B--------B
T ss_pred HHHhCCChHHEEEEEEEcCCCcEEeecce
Confidence 347999999999998888 4556776654
No 100
>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=57.12 E-value=7.6 Score=31.92 Aligned_cols=78 Identities=13% Similarity=0.139 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEE--eecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+...+.+++.+|+.||.|.+.|.|...+....-.++. .+-.-. ..|.--....+++-++|.+...+.|+++++
T Consensus 467 GqG~~T~~~qiaAe~LGip~d~V~v~~~DT~~~p~~~g----t~~Sr~t~~~G~Av~~Aa~~l~~~l~~~aa~~l~~~~~ 542 (746)
T TIGR03194 467 GQGSSTIASQVAAEVLGVRLSRIRVISADSALTPKDNG----SYSSRVTFMVGNAAIDAAEELKGVLVAAAAKKLDAREE 542 (746)
T ss_pred CCCHHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCC----ChhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHH
Confidence 46788999999999999999999997765432222211 111111 112222455677777777777888888876
Q ss_pred ceEE
Q 033597 95 RFYI 98 (115)
Q Consensus 95 ri~i 98 (115)
.+.+
T Consensus 543 ~l~~ 546 (746)
T TIGR03194 543 DIEC 546 (746)
T ss_pred HEEE
Confidence 5433
No 101
>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=56.67 E-value=20 Score=19.50 Aligned_cols=24 Identities=4% Similarity=0.008 Sum_probs=20.4
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
...|-+.+++..|+|++++.+.|.
T Consensus 18 V~~lK~~i~~~~~~~~~~~~L~~~ 41 (69)
T PF00240_consen 18 VADLKQKIAEETGIPPEQQRLIYN 41 (69)
T ss_dssp HHHHHHHHHHHHTSTGGGEEEEET
T ss_pred HHHhhhhcccccccccccceeeee
Confidence 466778889999999999999874
No 102
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=56.65 E-value=21 Score=23.39 Aligned_cols=29 Identities=10% Similarity=0.153 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 76 KLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 76 ~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
.-+..+.+.+++.++|+++++||+=..+.
T Consensus 79 ~~~~~fi~~vA~~~~V~~~~v~VNst~l~ 107 (149)
T PF11694_consen 79 SQMVHFIESVAKDLGVSKEEVYVNSTALT 107 (149)
T ss_pred HHHHHHHHHHHHHhCCChheEEEeccccc
Confidence 33445567789999999999999876654
No 103
>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=55.85 E-value=67 Score=22.38 Aligned_cols=68 Identities=13% Similarity=0.190 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC--CceeEEEEEeecC--CChhhhHHHHHHHHHHHHhHhCC
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE--APAAYGELISIGS--LGPSVNGKLSSTIAEILQTKLLI 91 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~--~p~~~v~i~~~~~--~~~~~~~~~~~~i~~~l~~~Lgv 91 (115)
-.+++.+=+.+.+.-.. -.-|+++.-+ .|.++ .|..|+||=|... .+++.-+.+++++.+.+....+.
T Consensus 56 P~~~~~~l~~l~~~~~e---~y~v~~EaTH---HGPt~~~~Ps~FvEIGSte~eW~d~~a~~~vA~avl~~~~~~~~~ 127 (213)
T PF04414_consen 56 PRLMKALLRALKKHAPE---GYEVSYEATH---HGPTDLSVPSVFVEIGSTEEEWNDPDAAEAVARAVLEVLESDEKA 127 (213)
T ss_dssp HHHHHHHHHHHHHHGGC---T-EEEE--S----SS-----SBEEEEEEEESHHHHT-HHHHHHHHHHHHHHHHHTTCS
T ss_pred HHHHHHHHHHHHHhccC---CCEEEEEeec---cCCCCCCCCcEEEEeCCCHHHhCChHHHHHHHHHHHHHhcccccc
Confidence 35666666666665553 2555565432 36553 8999999988754 66777777777777777765543
No 104
>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=55.78 E-value=9.5 Score=31.47 Aligned_cols=78 Identities=13% Similarity=0.107 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEE--eecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+...+.+++.+|+.||.|.+.|.|...+....-.++. .+-.-. ..|.--....+++-++|.+...+.|+++++
T Consensus 498 GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~g----t~~Sr~t~~~G~Av~~Aa~~l~~~l~~~aa~~l~~~~~ 573 (770)
T TIGR02416 498 GQGHETTYAQIIATELGIPAEDIMVEEGDTDTAPYGLG----TYGSRSTPVAGAATALAARKIKAKAQMIAAHMLEVHEG 573 (770)
T ss_pred CCCchHHHHHHHHHHHCCCHHHEEEEecCCCCCCCCCC----CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHH
Confidence 45778899999999999999999998765433222211 111111 122223556677777777777788888887
Q ss_pred ceEE
Q 033597 95 RFYI 98 (115)
Q Consensus 95 ri~i 98 (115)
.+.+
T Consensus 574 ~l~~ 577 (770)
T TIGR02416 574 DLEW 577 (770)
T ss_pred HEEE
Confidence 6543
No 105
>COG4631 XdhB Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]
Probab=54.87 E-value=1.1e+02 Score=24.98 Aligned_cols=85 Identities=12% Similarity=0.103 Sum_probs=57.5
Q ss_pred EEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC-C----ChhhhHHHHHH
Q 033597 6 LYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS-L----GPSVNGKLSST 80 (115)
Q Consensus 6 i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~-~----~~~~~~~~~~~ 80 (115)
|..|-.-+.- -+.+-.++.+.+|+.++.+.++|-|+-..-. .-|-.-.+--|.|. + -....+++-+.
T Consensus 477 i~lNHGGTEM-GQGL~tKvaQVvA~~fqvd~~rVkitaT~T~-------KVpNTSaTAASSGsDLNGmAa~dAa~qIk~R 548 (781)
T COG4631 477 IHLNHGGTEM-GQGLYTKVAQVVAEEFQVDIDRVKITATTTD-------KVPNTSATAASSGSDLNGMAAQDAARQIKER 548 (781)
T ss_pred EEEcCCCccc-ccchhHHHHHHHHHHhCcccceEEEeccccC-------CCCCCccccccccCCcccHHHHHHHHHHHHH
Confidence 4556665654 5789999999999999999999888754311 11222222223322 2 24556778888
Q ss_pred HHHHHHhHhCCCCCceEE
Q 033597 81 IAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i 98 (115)
|.++-.++++|+++.|..
T Consensus 549 Lv~fAA~~~~V~~~~v~F 566 (781)
T COG4631 549 LVAFAAEHWGVPEEDVAF 566 (781)
T ss_pred HHHHHHHhcCCCHHHeEe
Confidence 899999999999877643
No 106
>COG1529 CoxL Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]
Probab=54.56 E-value=15 Score=30.17 Aligned_cols=41 Identities=22% Similarity=0.187 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEE--EecCCCCceecCcc
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKL--YDVERSFFGFNGST 114 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f--~~~~~~~~g~~G~t 114 (115)
-.-....+.+.+.+.||||.++|.+.. .+.++..||..|++
T Consensus 466 G~G~~t~~~q~~ae~lgip~~~V~v~~gDt~~~~~~~~s~GS~ 508 (731)
T COG1529 466 GQGTDTVLAQIAAEELGIPPDDVEVVHGDTDVPVGGWGSVGSR 508 (731)
T ss_pred CCcHHHHHHHHHHHHhCCCHHHEEEEecCCCCCCCCCCCcCcc
Confidence 335667778888999999999999999 55677778887765
No 107
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=54.46 E-value=24 Score=21.28 Aligned_cols=76 Identities=11% Similarity=0.125 Sum_probs=48.0
Q ss_pred ccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCC
Q 033597 14 AVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDS 93 (115)
Q Consensus 14 ~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~ 93 (115)
..++.+|...|++.+++....-..|+.-... ...+|..++-+...+ +...++.++|.......+ +
T Consensus 14 ~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~--------~~~~~~~li~vd~~~----~~~~~~~~~i~~~~~~~~---~ 78 (108)
T PF14581_consen 14 EEEPTDLLAALSEYFKQHKNVRAAYLALMQD--------EDEQPSLLIGVDFDG----EDIEEIFQEIGRAARPYL---P 78 (108)
T ss_pred ccCHHHHHHHHHHHHhhCccHHHhHHHHhhc--------cCCCceEEEEEeccC----hhHHHHHHHHHHHhhhcC---C
Confidence 4458899999999888776655555443222 346777777777555 566667777777655544 3
Q ss_pred CceEEEEEecC
Q 033597 94 SRFYIKLYDVE 104 (115)
Q Consensus 94 ~ri~i~f~~~~ 104 (115)
+..+|.|..++
T Consensus 79 ~~~~vd~~~~~ 89 (108)
T PF14581_consen 79 DGWPVDFVLLD 89 (108)
T ss_pred CCceEEEEEcc
Confidence 44455555544
No 108
>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=54.45 E-value=13 Score=31.53 Aligned_cols=78 Identities=13% Similarity=0.011 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEE--eecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+...+.+.+.+|+.||.|.+.|.|...+....-+++.+ +-.-. ..|.--....+++-++|.+...+.|+++++
T Consensus 683 GqG~~T~~~QiaAe~LGvp~d~V~v~~~DT~~~p~~~gt----~aSr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~~~ 758 (951)
T TIGR03313 683 GTGLDTVVSKLTAEVLHCPMDDVHVISGDTDHALFDKGA----YASSGTCFSGNAAKRAAENLREKILFHGAEMLGEPVA 758 (951)
T ss_pred CccHHHHHHHHHHHHHCCCHHhEEEEeCCCCCCCCCCCC----cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHH
Confidence 467889999999999999999999988664433333211 11111 012223455667777777777888898887
Q ss_pred ceEE
Q 033597 95 RFYI 98 (115)
Q Consensus 95 ri~i 98 (115)
.+.+
T Consensus 759 ~~~~ 762 (951)
T TIGR03313 759 DVDL 762 (951)
T ss_pred HEEE
Confidence 6544
No 109
>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=54.10 E-value=38 Score=19.67 Aligned_cols=30 Identities=10% Similarity=0.185 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
-+-.+.|.+.|++.++++..++-|.+.+++
T Consensus 49 G~~i~~L~~~L~k~~~~~~~~i~v~~~~v~ 78 (81)
T cd02413 49 GRRIRELTSLVQKRFNFPEGSVELYAEKVA 78 (81)
T ss_pred chhHHHHHHHHHHHhCCCCCeEEEEEEEcc
Confidence 334588888899999999999999888875
No 110
>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=54.09 E-value=7 Score=30.70 Aligned_cols=77 Identities=16% Similarity=0.170 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC--ceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA--PAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~--p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+...+.+++.+|+.||.|.+.|.|...+....-.++.+- -.++ ..+..-....+++-+.|.+.-.+.|+++++
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 3578889999999999999999998776533333332110 0000 011122455667777777778888999887
Q ss_pred ceE
Q 033597 95 RFY 97 (115)
Q Consensus 95 ri~ 97 (115)
.+-
T Consensus 418 ~l~ 420 (547)
T PF02738_consen 418 DLE 420 (547)
T ss_dssp GEE
T ss_pred hhh
Confidence 764
No 111
>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=53.14 E-value=24 Score=25.90 Aligned_cols=34 Identities=9% Similarity=0.036 Sum_probs=27.6
Q ss_pred CceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 56 APAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 56 ~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
|-+.|+=| ++.+.+++-++++.+.+.+.++|+||
T Consensus 89 Dvipf~Pl---~~~t~eec~~lA~~vg~~i~~~l~VP 122 (298)
T TIGR02024 89 DVIPFIPV---RNVTMEECVELAKEFGKRLGEELGVP 122 (298)
T ss_pred ceeeeeeC---CCCCHHHHHHHHHHHHHHHHHhhCCC
Confidence 44444444 56889999999999999999999987
No 112
>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=52.66 E-value=20 Score=22.15 Aligned_cols=25 Identities=12% Similarity=0.194 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
...+++|-+.+.+++|++++++++.
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 5678899999999999999999875
No 113
>PRK09970 xanthine dehydrogenase subunit XdhA; Provisional
Probab=52.45 E-value=19 Score=29.70 Aligned_cols=78 Identities=17% Similarity=0.073 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEe-CCceEEeccCCCceeEEEEE--eecCCChhhhHHHHHHHHHHHHhHhCCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILIN-GGVPIAFAGTEAPAAYGELI--SIGSLGPSVNGKLSSTIAEILQTKLLIDS 93 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~-~~~~~~~gg~~~p~~~v~i~--~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~ 93 (115)
-+...+.+++.+|+.||.|.+.|.|... +....-.++ ..+-.-. ..|.--....+++-+++.+...+.|++++
T Consensus 483 GQG~~T~~aQiaAe~LGi~~~~V~v~~~~dT~~~p~~~----gt~aSr~t~~~g~Av~~Aa~~lr~~l~~~aa~~l~~~~ 558 (759)
T PRK09970 483 GQGSDTVFSQMVAETVGIPVSDVRVISTQDTDVTPFDP----GAYASRQSYVAGPAIRKAALELKEKILAHAAVMLHQSA 558 (759)
T ss_pred CCCHHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCC----CCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCh
Confidence 4678899999999999999999999654 322111110 0111111 11111234456666667777788888888
Q ss_pred CceEE
Q 033597 94 SRFYI 98 (115)
Q Consensus 94 ~ri~i 98 (115)
+.+-+
T Consensus 559 ~~l~~ 563 (759)
T PRK09970 559 MNLDI 563 (759)
T ss_pred HHEEE
Confidence 75443
No 114
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=52.09 E-value=6.7 Score=21.59 Aligned_cols=20 Identities=20% Similarity=0.297 Sum_probs=16.2
Q ss_pred HHHHHHHHHhHhCCCCCceE
Q 033597 78 SSTIAEILQTKLLIDSSRFY 97 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~ 97 (115)
+.++..+++++|+++++.+-
T Consensus 2 ~~~l~~fL~~el~ls~~~i~ 21 (58)
T PF11165_consen 2 STQLIRFLQEELGLSEASIA 21 (58)
T ss_pred cHHHHHHHHHHcCCCHHHHH
Confidence 35788999999999987653
No 115
>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=51.53 E-value=15 Score=25.22 Aligned_cols=42 Identities=19% Similarity=0.143 Sum_probs=29.1
Q ss_pred ceeEEEEEeec---C--CChhhhHHHHHHHHHHHHhH------hCCCCCceEE
Q 033597 57 PAAYGELISIG---S--LGPSVNGKLSSTIAEILQTK------LLIDSSRFYI 98 (115)
Q Consensus 57 p~~~v~i~~~~---~--~~~~~~~~~~~~i~~~l~~~------Lgv~~~ri~i 98 (115)
.+.+|-+.+-+ + .+++.+...+..+.+++.++ .||+++||++
T Consensus 116 ~~~vV~m~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~i~~l~~~Gi~~~~Ii~ 168 (210)
T PF00809_consen 116 GAPVVLMHSDGNPKGMPETADYRLDIAEEIIEFLEERIEALEKAGIPRERIIL 168 (210)
T ss_dssp TSEEEEESESSETTTTTSSHHHSHSHHHHHHHHHHHHHHHHHHTT--GGGEEE
T ss_pred CCEEEEEecccccccccccchhhhhHHHHHHHHHHHHHHHHHHcCCCHHHEee
Confidence 35666666552 2 24566668899999999887 8999999986
No 116
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional
Probab=51.50 E-value=32 Score=26.01 Aligned_cols=91 Identities=20% Similarity=0.172 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCC-------------Cce--eEEEEEeecCCChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTE-------------APA--AYGELISIGSLGPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~-------------~p~--~~v~i~~~~~~~~~~~~~~~~~i 81 (115)
-+-++..+++++-...|.+. |=-++.+...-+-|-++ .-. .-+.++.+.... .-..+..+|
T Consensus 254 ~dv~~ha~~da~lga~~~gd--ig~~fp~~d~~~k~~~s~~~l~~~~~~~~~~~~~~~n~d~~i~~~~p--k~~~~~~~~ 329 (378)
T PRK09382 254 ADVALHALTDALLGAIGAGD--IGEHFPDSDPQWKGAASKILLEHAADFVREAGGEIINADVTIIAEAP--KIGPHKQAM 329 (378)
T ss_pred HHHHHHHHHHHHHHHccCCc--CcccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEecCC--cchHHHHHH
Confidence 36778888888888777653 22223333333334111 112 233344444322 223477889
Q ss_pred HHHHHhHhCCCCCceEEEEEecCCCCceecCc
Q 033597 82 AEILQTKLLIDSSRFYIKLYDVERSFFGFNGS 113 (115)
Q Consensus 82 ~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~ 113 (115)
.+.|++.|+++.++|.|..+.. +..|+-|+
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 9999999999999999988876 56666553
No 117
>KOG4493 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.31 E-value=81 Score=21.97 Aligned_cols=66 Identities=12% Similarity=0.304 Sum_probs=47.7
Q ss_pred eEEec---cCCCceeEEEEEeecCCChhhhHHHHHHHHHHHH---hHhCCCCCceEEEEEec-CCCCceecCc
Q 033597 48 PIAFA---GTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQ---TKLLIDSSRFYIKLYDV-ERSFFGFNGS 113 (115)
Q Consensus 48 ~~~~g---g~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~---~~Lgv~~~ri~i~f~~~-~~~~~g~~G~ 113 (115)
+..+| -++-.|=+++++...-.+.|.++++.++|.+++. ++-|-....|-+.|.+. +...|-+.+-
T Consensus 44 ~~s~GtVg~kdvdce~iDiTYV~~~s~EL~~kl~~~i~qF~~~ir~~~~~g~gQi~L~FYekskK~~Wf~~~e 116 (219)
T KOG4493|consen 44 HRSFGTVGAKDVDCEFIDITYVRCVSAELNEKLDEKIAQFIDTIRNEAGAGVGQISLEFYEKSKKKRWFFKDE 116 (219)
T ss_pred EEEeccccccccceeEEEEEEEEechHHHHHHHHHHHHHHHHHHHhCCCCCcceEeeeeeecccCCCCCcCCC
Confidence 45555 3445899999998877788888888888777754 44444446899999998 6677876543
No 118
>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=51.18 E-value=47 Score=21.20 Aligned_cols=48 Identities=21% Similarity=0.286 Sum_probs=22.5
Q ss_pred EEec-cCCCceeEEEEEeecCCChhhhH---HHHHHHHHHHHhHhCCCCCce
Q 033597 49 IAFA-GTEAPAAYGELISIGSLGPSVNG---KLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 49 ~~~g-g~~~p~~~v~i~~~~~~~~~~~~---~~~~~i~~~l~~~Lgv~~~ri 96 (115)
+.+| |++..-.||+|....+-+...+. +|++-|++.++.+|.+=--|+
T Consensus 73 I~iGVg~e~e~~~IQv~LP~~AThGDK~KANEfckfLAk~l~~EL~LFNGR~ 124 (130)
T PF08968_consen 73 IVIGVGTENEQSYIQVVLPDGATHGDKGKANEFCKFLAKKLKGELHLFNGRT 124 (130)
T ss_dssp EEEEEEEETTEEEEEEE--TT--HHHHHHHHHHHHHHHHHH-EEEE-TTS-E
T ss_pred EEEeeccCCcceEEEEECCCCCccCcchhHHHHHHHHHHHhhheeEEecCee
Confidence 3344 55566789999988777655543 344444444444444433343
No 119
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=50.93 E-value=28 Score=26.30 Aligned_cols=36 Identities=17% Similarity=0.248 Sum_probs=30.4
Q ss_pred hhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCC
Q 033597 71 PSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERS 106 (115)
Q Consensus 71 ~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~ 106 (115)
.+.++++-+.|..+|...||+||+..-..|.+-+.+
T Consensus 200 ~~~kEe~l~eif~~l~~~lg~PP~~Fdf~YrdKd~~ 235 (444)
T COG3579 200 EALKEELLQEIFNFLAMTLGLPPEKFDFAYRDKDNK 235 (444)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCchhcceEEeccccc
Confidence 466888899999999999999999988888876543
No 120
>PRK12800 fliF flagellar MS-ring protein; Reviewed
Probab=50.47 E-value=1.3e+02 Score=24.21 Aligned_cols=76 Identities=12% Similarity=0.143 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC--CChhhhHHHHHHHHHHHHhHh-CCCCCc
Q 033597 19 DILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS--LGPSVNGKLSSTIAEILQTKL-LIDSSR 95 (115)
Q Consensus 19 ~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~--~~~~~~~~~~~~i~~~l~~~L-gv~~~r 95 (115)
++-.+|++.+..+-+.-..+|.+.+.....+ ......|.|-|-|+.-.+ +++++ +++|..++...- |+++++
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 4555566666666666666666666554433 344557888888876554 45444 566677766654 799999
Q ss_pred eEEE
Q 033597 96 FYIK 99 (115)
Q Consensus 96 i~i~ 99 (115)
|.|.
T Consensus 219 VtVv 222 (574)
T PRK12800 219 VTVV 222 (574)
T ss_pred eEEE
Confidence 8874
No 121
>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=50.19 E-value=72 Score=23.68 Aligned_cols=65 Identities=20% Similarity=0.227 Sum_probs=42.0
Q ss_pred HHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEe-----ecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 25 TKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELIS-----IGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 25 ~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~-----~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
++.+++.+|... ++|. +.+..-..++++.+. ...++.+.-.+....+.+.+.+.+|++.-||-|.
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 667777777432 2232 222223334444443 2347888888889999999999999999888554
No 122
>PRK09490 metH B12-dependent methionine synthase; Provisional
Probab=50.11 E-value=25 Score=30.88 Aligned_cols=31 Identities=6% Similarity=0.014 Sum_probs=28.2
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
.+.+.+-+.++.+.+.+.++.|+++++|++-
T Consensus 495 ~t~e~r~~ia~r~~~~~~~~~Gi~~~dIi~D 525 (1229)
T PRK09490 495 DTRERKIEICKRAYDILTEEVGFPPEDIIFD 525 (1229)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCHHHEEEc
Confidence 5799999999999999998899999999873
No 123
>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=49.84 E-value=52 Score=24.50 Aligned_cols=47 Identities=15% Similarity=0.118 Sum_probs=35.7
Q ss_pred CCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 55 EAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 55 ~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
...-..+-|..+|+.+.-+-..++..+.+.|++..||.+.|+|+--.
T Consensus 243 ~gd~v~llVNnLG~ts~lEl~ii~~~v~~~L~~~~gi~v~r~~vG~~ 289 (325)
T PF02733_consen 243 EGDEVALLVNNLGGTSQLELYIIAREVLEQLEEEKGIKVVRVYVGNF 289 (325)
T ss_dssp TT-EEEEEEEE-BSS-HHHHHHHHHHHHHHH-HHTTEEEEEEEEE-S
T ss_pred CCCeEEEEecCCCCCcHHHHHHHHHHHHHHHHHhcCceEEEeEEEcc
Confidence 33446667778999999999999999999998899999999998643
No 124
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=49.59 E-value=76 Score=21.14 Aligned_cols=48 Identities=13% Similarity=0.166 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC-ceeEEEEEe
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA-PAAYGELIS 65 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~-p~~~v~i~~ 65 (115)
.-....+.+.+|+.++-|.+.|.|....+..+-|=|+.+ -+++..+..
T Consensus 106 ~P~~~amr~~ia~~L~i~~~~invKatT~E~LGf~Gr~eGia~~avvlv 154 (159)
T COG0245 106 GPYREAMRANIAELLGIPVDRINVKATTTEKLGFTGRGEGIACQAVVLL 154 (159)
T ss_pred cchHHHHHHHHHHHhCCCchheEEEEeccCccccccccCceEEEEEEEE
Confidence 346778899999999999999999999988888877764 455555443
No 125
>PF09932 DUF2164: Uncharacterized conserved protein (DUF2164); InterPro: IPR018680 This family of various hypothetical prokaryotic proteins has no known function.
Probab=49.40 E-value=28 Score=20.13 Aligned_cols=24 Identities=17% Similarity=0.194 Sum_probs=21.5
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
++++++..++..|..++.++++.+
T Consensus 3 l~ke~k~~li~~iq~yf~~E~d~e 26 (76)
T PF09932_consen 3 LSKEEKAELIDKIQRYFAEELDEE 26 (76)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCc
Confidence 678999999999999999998765
No 126
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=48.92 E-value=52 Score=19.00 Aligned_cols=25 Identities=20% Similarity=0.178 Sum_probs=19.9
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
...|...|+...|+|+++..+.+.+
T Consensus 26 v~eLK~kl~~~~Gi~~~~m~L~l~~ 50 (87)
T PF14560_consen 26 VSELKQKLEKLTGIPPSDMRLQLKS 50 (87)
T ss_dssp HHHHHHHHHHHHTS-TTTEEEEEE-
T ss_pred HHHHHHHHHHHhCCCcccEEEEEEe
Confidence 4557788899999999999999983
No 127
>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=48.79 E-value=48 Score=22.51 Aligned_cols=27 Identities=11% Similarity=0.179 Sum_probs=21.0
Q ss_pred ecCCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 66 IGSLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 66 ~~~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
+++.+.+++-++++.+.+.+.++|+||
T Consensus 94 l~~~t~eec~~~A~~~g~~i~~~l~vP 120 (178)
T PF07837_consen 94 LSGVTMEECAELARELGERIGEELGVP 120 (178)
T ss_dssp EES--HHHHHHHHHHHHHHHHHHHT--
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhhCCC
Confidence 346889999999999999999999987
No 128
>PRK01909 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=48.15 E-value=43 Score=24.97 Aligned_cols=33 Identities=12% Similarity=0.080 Sum_probs=27.8
Q ss_pred cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 67 GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..++.+.-.+....+.+.|.+.+|++.-||-|.
T Consensus 172 ~~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~ 204 (329)
T PRK01909 172 AALTIDGLVETLAIIDRDLRRDFGLAAPRILVT 204 (329)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHhCCCCCCEEEE
Confidence 347888888889999999999999998887664
No 129
>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=47.50 E-value=31 Score=18.32 Aligned_cols=24 Identities=4% Similarity=-0.024 Sum_probs=19.5
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
.+.+.+.+++..|+|++++.+.|.
T Consensus 20 i~~lK~~i~~~~~~~~~~~~l~~~ 43 (69)
T cd01769 20 VAELKAKIAAKEGVPPEQQRLIYA 43 (69)
T ss_pred HHHHHHHHHHHHCcChHHEEEEEC
Confidence 667778888889999999888664
No 130
>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=46.94 E-value=6.4 Score=29.64 Aligned_cols=73 Identities=18% Similarity=0.219 Sum_probs=0.0
Q ss_pred CCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCC---hhhhHHHHHHHHHHHHhHhC--CCCCceEEEEEecCCCCc
Q 033597 34 KSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLG---PSVNGKLSSTIAEILQTKLL--IDSSRFYIKLYDVERSFF 108 (115)
Q Consensus 34 kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~---~~~~~~~~~~i~~~l~~~Lg--v~~~ri~i~f~~~~~~~~ 108 (115)
...+.+.+....|+.+.|-|-++| -.|+|+.+++ -|+-.+++..-.+.|...+- -+...+++.|.+..+.+|
T Consensus 67 ~~~s~~~i~~~~Gs~i~F~Gld~~---~kiKS~~~~~~~w~EEa~e~~~~~~~~l~~tir~~~~~~~i~~s~NP~~~~~w 143 (387)
T PF04466_consen 67 INKSPIEIYKPNGSKIIFRGLDDP---EKIKSIKGIDIIWVEEAEEFSEEDFDQLIPTIRPKGPGSQIWLSFNPKSESHW 143 (387)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EcCCCceEEccCCCEEEEeCCCCh---hhcCCcccccEEEEechhhccHHHHHHHHHHhccCCCcEEEEEEECcCCCCcc
Confidence 333445455566788888888888 4777776544 55656666666666766665 677889999998887787
Q ss_pred e
Q 033597 109 G 109 (115)
Q Consensus 109 g 109 (115)
=
T Consensus 144 v 144 (387)
T PF04466_consen 144 V 144 (387)
T ss_dssp -
T ss_pred h
Confidence 4
No 131
>PRK05883 acyl carrier protein; Validated
Probab=46.74 E-value=27 Score=20.71 Aligned_cols=28 Identities=29% Similarity=0.334 Sum_probs=22.5
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceE
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFY 97 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~ 97 (115)
.+.........+.+.+.+.|+++++++-
T Consensus 8 ~~~~~~~I~~~l~~iia~~l~v~~~~I~ 35 (91)
T PRK05883 8 MTSSPSTVSATLLSILRDDLNVDLTRVT 35 (91)
T ss_pred CCCCHHHHHHHHHHHHHHHhCCChhhCC
Confidence 3455667889999999999999988754
No 132
>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=46.70 E-value=37 Score=19.65 Aligned_cols=22 Identities=27% Similarity=0.339 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhHhCCCCCce
Q 033597 75 GKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
.++.+.|.+.|.+++||++.++
T Consensus 38 aeLNk~ly~~lv~~~~i~K~DV 59 (75)
T PF10015_consen 38 AELNKKLYEKLVNKMKIDKLDV 59 (75)
T ss_pred HHHHHHHHHHHHHHhCCCcccE
Confidence 4566778888999999987643
No 133
>PF14813 NADH_B2: NADH dehydrogenase 1 beta subcomplex subunit 2
Probab=46.47 E-value=9.9 Score=21.80 Aligned_cols=10 Identities=20% Similarity=0.185 Sum_probs=6.7
Q ss_pred HhHhCCCCCc
Q 033597 86 QTKLLIDSSR 95 (115)
Q Consensus 86 ~~~Lgv~~~r 95 (115)
-++|||||+.
T Consensus 60 DeELGIppdd 69 (71)
T PF14813_consen 60 DEELGIPPDD 69 (71)
T ss_pred hhhcCCCCCC
Confidence 3577777764
No 134
>PRK05934 type III secretion system protein; Validated
Probab=46.42 E-value=1.2e+02 Score=22.64 Aligned_cols=75 Identities=11% Similarity=0.074 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC--CChhhhHHHHHHHHHHHHhHh-CCCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS--LGPSVNGKLSSTIAEILQTKL-LIDS 93 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~--~~~~~~~~~~~~i~~~l~~~L-gv~~ 93 (115)
..++..+|++.+...-+....+|.+.+.+.. ....+|.|-|-++..++ ++++| +++|..++.... |+++
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 4577788888888888877777777776543 23346777777776654 45444 667777777666 6999
Q ss_pred CceEEE
Q 033597 94 SRFYIK 99 (115)
Q Consensus 94 ~ri~i~ 99 (115)
++|.|.
T Consensus 141 EnVTVV 146 (341)
T PRK05934 141 EHITLS 146 (341)
T ss_pred cCeEEE
Confidence 998764
No 135
>PF14468 DUF4427: Protein of unknown function (DUF4427)
Probab=45.77 E-value=74 Score=20.35 Aligned_cols=82 Identities=11% Similarity=0.180 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHhCCCc----------ceeEEEEeCCce-EEec----c----CCCceeEEEEEeecC-CChhhhHH
Q 033597 17 ASDILRDATKAVAKILGKSE----------SYVMILINGGVP-IAFA----G----TEAPAAYGELISIGS-LGPSVNGK 76 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~----------~~i~v~~~~~~~-~~~g----g----~~~p~~~v~i~~~~~-~~~~~~~~ 76 (115)
.++...++...+.++..+-. ....|=+.+++. ..+. | +.+--.+..|-..+. .+-.++++
T Consensus 6 v~~~~~~i~~~i~~l~S~~d~~~~~~~~e~G~~wvWi~DN~~~~vRALl~~grV~v~~eGRYLl~l~~~~s~~plr~kE~ 85 (132)
T PF14468_consen 6 VKEYADRINEYISELYSKKDFLNDDYDREFGNAWVWIHDNQSEVVRALLQAGRVKVNKEGRYLLDLDLFDSDWPLRKKEA 85 (132)
T ss_pred HHHHHHHHHHHHHHHhccchhhcccchhhcCceEEEEecCcCHHHHHHHHcCceeeccCceeeeecccccCCCchHHHHH
Confidence 35666677777777665322 123344444432 1111 2 224446666766666 67788999
Q ss_pred HHHHHHHHHHhHhCCCCCceEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i 98 (115)
+++++++.|...+||..-+.-|
T Consensus 86 ~ak~vA~~L~~rF~vea~yfSV 107 (132)
T PF14468_consen 86 MAKHVAGWLRHRFGVEAGYFSV 107 (132)
T ss_pred HHHHHHHHHHHHhCcceeEEEe
Confidence 9999999999999997655443
No 136
>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=45.59 E-value=28 Score=18.93 Aligned_cols=25 Identities=4% Similarity=0.028 Sum_probs=20.4
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
.+.+.+.+++..|+|+++..+.|..
T Consensus 22 v~~lK~~i~~~~gi~~~~q~L~~~g 46 (71)
T cd01812 22 FGDLKKMLAPVTGVEPRDQKLIFKG 46 (71)
T ss_pred HHHHHHHHHHhhCCChHHeEEeeCC
Confidence 5567778888899999999888764
No 137
>PRK05312 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=45.25 E-value=82 Score=23.58 Aligned_cols=33 Identities=21% Similarity=0.241 Sum_probs=27.8
Q ss_pred cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 67 GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..++.+.-.+....+.+.+.+.+|+..-||-|.
T Consensus 181 ~~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~ 213 (336)
T PRK05312 181 AALTPELIVATARITAADLRRRFGIASPRLAVA 213 (336)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEE
Confidence 347888888899999999999999998887654
No 138
>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=44.84 E-value=43 Score=19.64 Aligned_cols=25 Identities=20% Similarity=0.142 Sum_probs=19.5
Q ss_pred HHHHHHHHhHhCCCCCceEEEEEec
Q 033597 79 STIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+.|.+-|.+.|+++++.|+|.=...
T Consensus 16 ~ei~~klA~~~~~~~~~ivv~~~~t 40 (84)
T PF01282_consen 16 KEIREKLAAMLNVDPDLIVVFGIKT 40 (84)
T ss_dssp HHHHHHHHHHHTSTGCCEEEEEEEE
T ss_pred HHHHHHHHHHhCCCCCeEEEeccEe
Confidence 3567778888999999999876554
No 139
>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=44.72 E-value=34 Score=19.45 Aligned_cols=25 Identities=8% Similarity=0.133 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+-+.+++..|++++|..+.|.
T Consensus 23 TV~~LK~~I~~~~~~~~~~qrL~~~ 47 (78)
T cd01804 23 TVEGLKKRISQRLKVPKERLALLHR 47 (78)
T ss_pred HHHHHHHHHHHHhCCChHHEEEEEC
Confidence 4667778888888999999999876
No 140
>cd01304 FMDH_A Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in methanogenesis, the formyl-methanofuran synthesis. In this step, CO2 is bound to methanofuran and subsequently reduced to the formyl state with electrons derived from hydrogen.
Probab=44.56 E-value=1.2e+02 Score=24.35 Aligned_cols=87 Identities=13% Similarity=0.038 Sum_probs=58.0
Q ss_pred CCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEec-----------cCCCc---------eeEEEEEeecCC
Q 033597 10 VPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFA-----------GTEAP---------AAYGELISIGSL 69 (115)
Q Consensus 10 ~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g-----------g~~~p---------~~~v~i~~~~~~ 69 (115)
+..-++.+.++++.|+++..++ |+| .-|+++.+..=.=| .+.-| .++++..+.|+-
T Consensus 200 ~~~~~vtp~~ii~~l~~~~~~l-g~p---h~iH~h~nnlg~pgn~~~t~~t~~~~~~~~~~~~~~~~h~tH~qfhsyg~~ 275 (541)
T cd01304 200 VPYFDITPREILKGLAEANEEL-GLP---HSIHVHCNNLGVPGNYETTLETMKAAEGVKPDPRRQVLHLTHVQFHSYGGT 275 (541)
T ss_pred CCCCCCCHHHHHHHHHHHHHhc-CCc---eEEEEccccCCCCCcHHHHHHHHHHhhcCCCccccceeEeeeeeEEeeccC
Confidence 3333455889999999987665 888 66777643221111 01112 567777798887
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
+-..-+.-++.|.+.+.++..|.-|-.-|.|
T Consensus 276 ~~~~~~s~a~~i~~~~n~~~~it~D~G~v~f 306 (541)
T cd01304 276 SWRDFESGAERIADYVNANDHVTIDVGQVIF 306 (541)
T ss_pred CcccHhHHHHHHHHHHHcCCCEEEEeCceec
Confidence 7667777888999999999887666555544
No 141
>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=44.29 E-value=36 Score=18.70 Aligned_cols=24 Identities=17% Similarity=0.044 Sum_probs=19.5
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
.+.+.+.+++..|+|+++..+.|.
T Consensus 23 v~~lK~~i~~~~g~~~~~qrL~~~ 46 (76)
T cd01806 23 VERIKERVEEKEGIPPQQQRLIYS 46 (76)
T ss_pred HHHHHHHHhHhhCCChhhEEEEEC
Confidence 566777788889999999888764
No 142
>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=44.24 E-value=33 Score=18.64 Aligned_cols=24 Identities=8% Similarity=0.007 Sum_probs=19.6
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
.+.+-+.+++..|+|+++..+.|.
T Consensus 23 v~~lK~~i~~~~gi~~~~q~L~~~ 46 (72)
T cd01809 23 VLDLKEKIAEEVGIPVEQQRLIYS 46 (72)
T ss_pred HHHHHHHHHHHHCcCHHHeEEEEC
Confidence 666777788889999999988874
No 143
>PTZ00484 GTP cyclohydrolase I; Provisional
Probab=43.33 E-value=1.2e+02 Score=21.81 Aligned_cols=63 Identities=17% Similarity=0.236 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeC-CceEEeccCCCceeEEEEEee-cCC--ChhhhHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILING-GVPIAFAGTEAPAAYGELISI-GSL--GPSVNGKLSSTI 81 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~-~~~~~~gg~~~p~~~v~i~~~-~~~--~~~~~~~~~~~i 81 (115)
.+++..+|++++.+.++ ...+.|.++. ..+|..-|..++.+...-.+. |.+ ++..+.+|.+.+
T Consensus 191 QERLT~qIAdaL~~~L~--p~GVaV~ieA~H~Cm~mRGv~~~~s~t~Tsa~~G~F~~d~~~r~Ef~~li 257 (259)
T PTZ00484 191 QERLTQQIANALQKYLK--PMGVAVVIVASHMCMNMRGVQKHDASTTTSAYLGVFRSDPKLRAEFFSLI 257 (259)
T ss_pred HHHHHHHHHHHHHHhhC--CCceEEEEEEEEeeEhhcCeecCCCeEEEEEeEeEeCCCHHHHHHHHHHh
Confidence 46788888888888887 3356665653 345666676666555554444 434 355555555443
No 144
>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=43.26 E-value=44 Score=17.30 Aligned_cols=21 Identities=19% Similarity=0.384 Sum_probs=16.6
Q ss_pred CCChhhhHHHHHHHHHHHHhH
Q 033597 68 SLGPSVNGKLSSTIAEILQTK 88 (115)
Q Consensus 68 ~~~~~~~~~~~~~i~~~l~~~ 88 (115)
..++++++.+++.+++.|.+.
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 367899999999999988754
No 145
>PRK05350 acyl carrier protein; Provisional
Probab=42.23 E-value=23 Score=20.33 Aligned_cols=24 Identities=17% Similarity=0.213 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceE
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFY 97 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~ 97 (115)
+.+..+.+.+.+.+.++++++++-
T Consensus 4 ~~~i~~~v~~ii~~~~~~~~~~i~ 27 (82)
T PRK05350 4 REEILERLRAILVELFEIDPEDIT 27 (82)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHCC
Confidence 456777888899999999887654
No 146
>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=41.60 E-value=25 Score=29.06 Aligned_cols=36 Identities=28% Similarity=0.285 Sum_probs=26.0
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEec--CCCCceecCc
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDV--ERSFFGFNGS 113 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~--~~~~~g~~G~ 113 (115)
.-.++....+.||+|.++|.|..-|- .+..+|..|+
T Consensus 502 ~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt~~S 539 (770)
T TIGR02416 502 ETTYAQIIATELGIPAEDIMVEEGDTDTAPYGLGTYGS 539 (770)
T ss_pred hHHHHHHHHHHHCCCHHHEEEEecCCCCCCCCCCCchh
Confidence 44556777889999999999998876 3445554443
No 147
>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=41.25 E-value=66 Score=18.05 Aligned_cols=50 Identities=16% Similarity=0.320 Sum_probs=35.6
Q ss_pred CCceeEEEEEeecC-CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 55 EAPAAYGELISIGS-LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 55 ~~p~~~v~i~~~~~-~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
..|.-|+|+++... .++.+...|-+++.+.-.+..=+.-++|++-|.|-+
T Consensus 13 ~~~~~yvELKT~~~~~~~~~~~~f~rKllkwW~QsfL~Gi~~IvvG~Rd~~ 63 (69)
T PF08652_consen 13 DSPGNYVELKTSKDIMSPKQWSNFERKLLKWWLQSFLVGIPRIVVGFRDDD 63 (69)
T ss_dssp STTCCEEEEEEEE---SHCCCHHHHHHHHHHHHHHHCTT--EEEEEEE-TT
T ss_pred CCCCcEEEEeeeccccCchHHHHHhHHHHHHHHHHhccCCCEEEEEEeCCC
Confidence 45789999998875 456777777777777777777778889999988764
No 148
>PRK13878 conjugal transfer relaxase TraI; Provisional
Probab=40.90 E-value=2.2e+02 Score=23.92 Aligned_cols=86 Identities=14% Similarity=0.135 Sum_probs=49.4
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC----C-ChhhhHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS----L-GPSVNGK 76 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~----~-~~~~~~~ 76 (115)
|...+..+....+....+.+.++...+++.||..+.-..+.++.+ ++..-.+|-+..+.. + ++....+
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 445555666655543477888999999999998776444334332 111112222222211 1 2333333
Q ss_pred HHHHHHHHHHhHhCCCCC
Q 033597 77 LSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ 94 (115)
-...+|+.|+.+.|+...
T Consensus 140 ~L~kicreLE~eyGLsv~ 157 (746)
T PRK13878 140 TLAELCTKLERDYGLERD 157 (746)
T ss_pred HHHHHHHHHHHHhCCEec
Confidence 447889999999998543
No 149
>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=40.76 E-value=83 Score=22.84 Aligned_cols=35 Identities=9% Similarity=0.222 Sum_probs=30.1
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCce-----EEEEEecC
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRF-----YIKLYDVE 104 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri-----~i~f~~~~ 104 (115)
...+++.|...+.+..++.+.++.+.+ |+.+.+..
T Consensus 207 ~~aE~~~fv~s~l~~v~~~~~~~~~eifi~~~Yl~L~e~~ 246 (308)
T PF07387_consen 207 QEAEVKVFVKSCLKLVEKQRSAETEEIFIKDGYLNLKEVN 246 (308)
T ss_pred hHHHHHHHHHHHHHHHHHHhcCcHhhhcccccEEEccccC
Confidence 366789999999999999999999999 77776664
No 150
>PRK01146 DNA-directed RNA polymerase subunit L; Provisional
Probab=40.43 E-value=77 Score=18.60 Aligned_cols=25 Identities=20% Similarity=0.375 Sum_probs=15.2
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAV 28 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (115)
|.++|+|+-+.++ .+.+.+.+.++.
T Consensus 53 ~~lrIqt~~~~~p--~~al~~a~~~L~ 77 (85)
T PRK01146 53 PVLKIKTDGGIDP--LEALKEAAKRII 77 (85)
T ss_pred cEEEEEECCCCCH--HHHHHHHHHHHH
Confidence 7899999865443 245555544443
No 151
>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=40.41 E-value=76 Score=18.53 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=15.4
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAV 28 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (115)
|.++|+|..+.++. +.+.+.+.++.
T Consensus 51 ~~lrIqT~~~~~p~--~al~~a~~~l~ 75 (83)
T cd06927 51 PVLKIKTDGGVDPL--EALKEAAKRLI 75 (83)
T ss_pred cEEEEEeCCCCCHH--HHHHHHHHHHH
Confidence 78999998765432 44555544443
No 152
>COG5499 Predicted transcription regulator containing HTH domain [Transcription]
Probab=40.37 E-value=26 Score=21.93 Aligned_cols=24 Identities=17% Similarity=0.080 Sum_probs=20.6
Q ss_pred hhhHHHHHHHHHHHHhHhCCCCCc
Q 033597 72 SVNGKLSSTIAEILQTKLLIDSSR 95 (115)
Q Consensus 72 ~~~~~~~~~i~~~l~~~Lgv~~~r 95 (115)
..+++++-.+...|++.+|||++-
T Consensus 94 ~~rraLTle~ikkL~q~~gIpa~~ 117 (120)
T COG5499 94 SGRRALTLEHIKKLHQRFGIPADV 117 (120)
T ss_pred hhhhHhhHHHHHHHHHHhCcCHHH
Confidence 457889999999999999999863
No 153
>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=40.15 E-value=45 Score=18.83 Aligned_cols=25 Identities=4% Similarity=0.175 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+-+.+++..|+|++|..+.|.
T Consensus 23 TV~~LK~~I~~~~~~~~~~qrLi~~ 47 (73)
T cd01791 23 TIGDLKKLIAAQTGTRPEKIVLKKW 47 (73)
T ss_pred cHHHHHHHHHHHhCCChHHEEEEeC
Confidence 4566667777778999999999875
No 154
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=40.03 E-value=38 Score=18.61 Aligned_cols=24 Identities=13% Similarity=0.041 Sum_probs=20.1
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
.+.|.+.+++..|+|+++..+.|.
T Consensus 23 V~~lK~~i~~~~g~~~~~q~L~~~ 46 (76)
T cd01803 23 IENVKAKIQDKEGIPPDQQRLIFA 46 (76)
T ss_pred HHHHHHHHHHHhCCCHHHeEEEEC
Confidence 677788888889999999888864
No 155
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=39.73 E-value=30 Score=21.55 Aligned_cols=30 Identities=13% Similarity=0.198 Sum_probs=17.3
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEecCCCCc
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDVERSFF 108 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~ 108 (115)
|....+.+.+ +|++++++.+.+.-++.+.|
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 5667788888 99999999999988876543
No 156
>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=39.63 E-value=1.2e+02 Score=22.34 Aligned_cols=70 Identities=19% Similarity=0.298 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEee-cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 24 ATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISI-GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 24 l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~-~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
-++.+++.+|.. +++|..+.++-+..+-.+.-| ++.. ..++.+.-.+....+.+.|.+.+|++.-||=|.
T Consensus 112 hTe~la~~~g~~-~~~mml~~~~lrv~~vT~Hip-----L~~V~~~it~~~i~~~i~~~~~~l~~~~gi~~PrIaV~ 182 (298)
T PF04166_consen 112 HTEYLAELTGTK-DVLMMLVSGKLRVALVTTHIP-----LKDVPKLITKERILEKIRLLHKSLKRDFGIENPRIAVA 182 (298)
T ss_dssp HHHHHHHHTT-S---EEEEEETTEEEEESS-SS------GGGHHHH--HHHHHHHHHHHHHHHHHTTT-SS-EEEEE
T ss_pred hHHHHHHHhCCC-CeEEEEEcCCcEEEEeccCcc-----HHHHHHhcCHHHHHHHHHHHHHHHHHhcCCCCCcEEEE
Confidence 578888888853 455555665554444433333 2222 337888888888888899999999988886553
No 157
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=39.47 E-value=1.3e+02 Score=21.06 Aligned_cols=47 Identities=19% Similarity=0.118 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC-ceeEEEE
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA-PAAYGEL 63 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~-p~~~v~i 63 (115)
-.....++.+.++++++-|...|.|.-..+..+-+-|+.+ -+++..+
T Consensus 164 i~p~~~~m~~~La~lL~i~~~~VnIKAtT~E~LG~~Gr~egIaa~Avv 211 (216)
T PLN02862 164 LSPHKEAIRSNLSKLLGADPSVVNLKAKTHEKVDSLGENRSIAAHTVV 211 (216)
T ss_pred chHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCccCCcEEEEEEE
Confidence 3568889999999999999999999999888888877764 4444443
No 158
>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=39.31 E-value=27 Score=28.96 Aligned_cols=37 Identities=11% Similarity=0.015 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHhHhCCCCCceEEEEEec--CCCCceecC
Q 033597 76 KLSSTIAEILQTKLLIDSSRFYIKLYDV--ERSFFGFNG 112 (115)
Q Consensus 76 ~~~~~i~~~l~~~Lgv~~~ri~i~f~~~--~~~~~g~~G 112 (115)
-.--.++....+.||||.++|.|..-|- .+..+|..|
T Consensus 492 G~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt~~ 530 (768)
T TIGR03196 492 GFLAAAEQIAMEELGCAAEDISIAIADTAKGPKAGSSSA 530 (768)
T ss_pred CHHHHHHHHHHHHhCCCHHHEEEecCCCCCCCCCCCCch
Confidence 3455667778889999999999998775 334444444
No 159
>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase. S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase.
Probab=39.19 E-value=46 Score=29.16 Aligned_cols=30 Identities=10% Similarity=0.048 Sum_probs=27.2
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEE
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i 98 (115)
.+.+.+.++++.+.+.+.++.||++++|++
T Consensus 479 ~t~e~r~~i~~~~~~~~~~~~Gi~~edIi~ 508 (1178)
T TIGR02082 479 RTADRKIEICKRAYNILTEKVGFPPEDIIF 508 (1178)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCHHHEEE
Confidence 578889999999999999889999999986
No 160
>COG4631 XdhB Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]
Probab=39.18 E-value=51 Score=26.67 Aligned_cols=34 Identities=15% Similarity=0.239 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCc
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGS 113 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~ 113 (115)
.-.+.+..+...||+|.+.+.|....+ -=||+|+
T Consensus 214 hPtE~Q~~vahvLGvpsn~VtV~~rRM---GGGFGGK 247 (781)
T COG4631 214 HPTEVQHLVAHVLGVPSNAVTVEVRRM---GGGFGGK 247 (781)
T ss_pred CcHHHHHHHHHHhCCCcceEEEEEEee---cCCcCcc
Confidence 445677888899999999999999998 5577775
No 161
>PRK02746 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=38.83 E-value=1.2e+02 Score=22.85 Aligned_cols=33 Identities=21% Similarity=0.291 Sum_probs=26.8
Q ss_pred cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 67 GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..++.+.-.+....+.+.+.+.+|++.-||-|.
T Consensus 179 ~~it~~~I~~~i~~~~~~l~~~~gi~~PrIaV~ 211 (345)
T PRK02746 179 KTLTPELITSKLDLLIDFLQRDFGIEKPRIAIA 211 (345)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHcCCCCCcEEEE
Confidence 346788888888888999999999998887654
No 162
>TIGR02911 sulfite_red_B sulfite reductase, subunit B. Members of this protein family include the B subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum.
Probab=38.72 E-value=46 Score=23.44 Aligned_cols=37 Identities=11% Similarity=-0.017 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
..+.+++.+.|.+ +|++++||++.+...=.--+|.-|
T Consensus 199 ~~mv~~~~~~L~~-~Gv~~~~i~~~~~~~m~cg~g~c~ 235 (261)
T TIGR02911 199 PIMMKFTVQELLK-KGIKEENIWVSYERKMCCGVGKCG 235 (261)
T ss_pred HHHHHHHHHHHHH-cCCCHHHEEEEeccceeccCcCCC
Confidence 5578888888865 799999999999887555555443
No 163
>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=38.61 E-value=69 Score=21.50 Aligned_cols=42 Identities=21% Similarity=0.130 Sum_probs=34.2
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
.+-+.+.+++-.+.+++++--.-+.+. +.+.|+.++|+|++.
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 457788899999999998755556666 888999999999874
No 164
>PF02290 SRP14: Signal recognition particle 14kD protein; InterPro: IPR003210 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the 14 kDa SRP14 component. Both SRP9 and SRP14 have the same (beta)-alpha-beta(3)-alpha fold. The heterodimer has pseudo two-fold symmetry and is saddle-like, consisting of a curved six-stranded beta-sheet that has four helices packed on the convex side and an exposed concave surface lined with positively charged residues. The SRP9/SRP14 heterodimer is essential for SRP RNA binding, mediating the pausing of synthesis of ribosome associated nascent polypeptides that have been engaged by the targeting domain of SRP [].; GO: 0008312 7S RNA binding, 0030942 endoplasmic reticulum signal peptide binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0005786 signal recognition particle, endoplasmic reticulum targeting; PDB: 1914_A 1RY1_D 1E8O_B 2W9J_B.
Probab=38.01 E-value=56 Score=19.54 Aligned_cols=72 Identities=15% Similarity=0.110 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCC--c--eEEe----c--cCCCceeEEEEEeecC------CChhhhHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGG--V--PIAF----A--GTEAPAAYGELISIGS------LGPSVNGKLSST 80 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~--~--~~~~----g--g~~~p~~~v~i~~~~~------~~~~~~~~~~~~ 80 (115)
.++|+.+|++++...-++. ..|.++...- . .-.. . ...++.++|..+.-.. +.+++-.+|.++
T Consensus 3 ndeFL~~L~~lf~~~~~k~-gSV~lT~KR~~~~~k~~~~~~~~~~~~~~~~~~LiRAt~Gkk~KiSTvV~~~~l~~F~~~ 81 (93)
T PF02290_consen 3 NDEFLSELTKLFEKSKEKG-GSVYLTQKRLDGKTKPKPKKQKPSSSEDKEYPCLIRATNGKKIKISTVVDPDDLDKFWQS 81 (93)
T ss_dssp HHHHHHHHHHHHHHCSSSS-S-EEEEEEEEEE-------------------EEEEEEESSSS-EEEEEEETTCHHHHHHH
T ss_pred HHHHHHHHHHHHHHcccCC-ceEEEEEeecCCCCCCCCccccCCCCCCCCceEEEEEecCCCCeEEEEECHHHHHHHHHH
Confidence 5799999999999988887 6676665321 0 0000 1 1123345554442211 236777888888
Q ss_pred HHHHHHhHh
Q 033597 81 IAEILQTKL 89 (115)
Q Consensus 81 i~~~l~~~L 89 (115)
.++.+...+
T Consensus 82 Y~~v~K~~M 90 (93)
T PF02290_consen 82 YANVLKAGM 90 (93)
T ss_dssp HHHHHHHHC
T ss_pred HHHHHHhhC
Confidence 888776543
No 165
>PF10939 DUF2631: Protein of unknown function (DUF2631) ; InterPro: IPR024341 This entry represents a bacterial protein of unknown function.
Probab=37.52 E-value=17 Score=20.48 Aligned_cols=17 Identities=24% Similarity=0.542 Sum_probs=12.8
Q ss_pred EEEEecCCCCceecCcc
Q 033597 98 IKLYDVERSFFGFNGST 114 (115)
Q Consensus 98 i~f~~~~~~~~g~~G~t 114 (115)
+.-.|.|...|||.|..
T Consensus 12 Vd~~d~PSa~WGWhg~~ 28 (65)
T PF10939_consen 12 VDPADVPSAAWGWHGEN 28 (65)
T ss_pred CCcccCCCccccccCCC
Confidence 33467889999998853
No 166
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=37.51 E-value=36 Score=18.68 Aligned_cols=28 Identities=18% Similarity=0.154 Sum_probs=22.0
Q ss_pred HHHHHHhHhCCCCCceEEEEEec--CCCCce
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDV--ERSFFG 109 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~--~~~~~g 109 (115)
+.++|. .|+++++.+-+.+..- +.++|.
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 555665 4899999999988877 777776
No 167
>PF14894 Lsm_C: Lsm C-terminal; PDB: 1M5Q_1.
Probab=37.20 E-value=39 Score=18.97 Aligned_cols=20 Identities=20% Similarity=0.205 Sum_probs=13.2
Q ss_pred HHHHHHHHhHhCCCCCceEE
Q 033597 79 STIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i 98 (115)
+++.+++.++|++.|..+-+
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 57889999999998876643
No 168
>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=37.09 E-value=44 Score=18.88 Aligned_cols=24 Identities=8% Similarity=-0.057 Sum_probs=20.1
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
-.+.+-+.|++..|||++|.-+.+
T Consensus 21 Tv~~lK~~i~~~tgvp~~~QKLi~ 44 (74)
T cd01813 21 TVLDLKQFIKTLTGVLPERQKLLG 44 (74)
T ss_pred CHHHHHHHHHHHHCCCHHHEEEEe
Confidence 345677888888999999999987
No 169
>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=36.89 E-value=80 Score=17.76 Aligned_cols=34 Identities=24% Similarity=0.340 Sum_probs=26.6
Q ss_pred CCh--hhhHHHHHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 69 LGP--SVNGKLSSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 69 ~~~--~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
.++ +.-.++-+.|.+.+++...|.++++-|.+..
T Consensus 20 ~~~~~~~l~~lk~eil~viskYv~i~~~~v~v~l~~ 55 (70)
T PF03776_consen 20 LSPQPDYLEQLKKEILEVISKYVEIDEEDVEVQLER 55 (70)
T ss_dssp C-CTTSSHHHHHHHHHHHHHHHS---CCCEEEEEEE
T ss_pred CCCcHHHHHHHHHHHHHHHHhheecCcccEEEEEEE
Confidence 455 7888999999999999999999999999984
No 170
>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=36.81 E-value=52 Score=22.33 Aligned_cols=25 Identities=8% Similarity=0.154 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
.+=+..|.+.+.+++|++.++|.|.
T Consensus 172 ~~~~~~I~diV~~~~~v~~~~I~V~ 196 (196)
T PF12685_consen 172 DAEAAQIIDIVMRETGVPAENISVT 196 (196)
T ss_dssp HHHHHHHHHHHHHHHC-STSEEEEE
T ss_pred HHHHHHHHHHHHHHhCCCcCeEEeC
Confidence 3447788999999999999999874
No 171
>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=36.70 E-value=87 Score=18.08 Aligned_cols=27 Identities=15% Similarity=0.247 Sum_probs=20.8
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
..++.+.|+...|+++++..+.+.+-.
T Consensus 25 v~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 25 IAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred HHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 445666777788999999999876654
No 172
>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=36.40 E-value=73 Score=21.77 Aligned_cols=25 Identities=24% Similarity=0.319 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEE
Q 033597 18 SDILRDATKAVAKILGKSESYVMIL 42 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~ 42 (115)
......|++++..+|+.|..+|.|.
T Consensus 159 ~~Vk~~I~~AV~~ll~v~~hkI~V~ 183 (186)
T TIGR02830 159 PQIKYRIVEAVSRVLDVPAHKVSVL 183 (186)
T ss_pred HHHHHHHHHHHHHHhCCCcceEEEE
Confidence 4788899999999999999999884
No 173
>COG4099 Predicted peptidase [General function prediction only]
Probab=36.32 E-value=47 Score=24.89 Aligned_cols=26 Identities=31% Similarity=0.318 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
....+.|-+.|.++..|+.+|||+.=
T Consensus 250 ~~~idli~~vlas~ynID~sRIYviG 275 (387)
T COG4099 250 IEKIDLILEVLASTYNIDRSRIYVIG 275 (387)
T ss_pred HHHHHHHHHHHhhccCcccceEEEEe
Confidence 45667777788889999999999863
No 174
>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=36.25 E-value=91 Score=18.18 Aligned_cols=35 Identities=23% Similarity=0.291 Sum_probs=30.7
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.+++.-.++-+.|.+.+++...|+++.+-|.+..-
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 56777788899999999999999999999999864
No 175
>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=35.95 E-value=49 Score=18.12 Aligned_cols=25 Identities=4% Similarity=0.103 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+-+.+++..|+|+++..+.|.
T Consensus 20 tV~~lK~~i~~~~gi~~~~q~Li~~ 44 (70)
T cd01798 20 DIKQLKEVVAKRQGVPPDQLRVIFA 44 (70)
T ss_pred hHHHHHHHHHHHHCCCHHHeEEEEC
Confidence 5667788888999999999888764
No 176
>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=35.90 E-value=35 Score=28.65 Aligned_cols=29 Identities=14% Similarity=0.162 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 76 KLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 76 ~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
-..-.+.....+.||||+|+|.|..-|-+
T Consensus 618 G~~T~~aQiaAe~LGip~e~V~v~~~DT~ 646 (848)
T TIGR03311 618 GLGTVLTQIVCETTGLPPEVIVCELPDTA 646 (848)
T ss_pred CHHHHHHHHHHHHHCCCHHHEEEEcCCCC
Confidence 34566777888899999999999998764
No 177
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=35.88 E-value=86 Score=20.03 Aligned_cols=58 Identities=10% Similarity=0.138 Sum_probs=27.9
Q ss_pred cCHHHHHHHHHHHHHHHhCCCcceeEEEEeC------CceEEeccCCCceeEEEEEee-cCCChhh
Q 033597 15 VIASDILRDATKAVAKILGKSESYVMILING------GVPIAFAGTEAPAAYGELISI-GSLGPSV 73 (115)
Q Consensus 15 ~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~------~~~~~~gg~~~p~~~v~i~~~-~~~~~~~ 73 (115)
..++++...+.+.+.+.+|.+..-+..+... +.++..+...+| .++.+... +..+++.
T Consensus 51 ~~~~~l~~~ie~~l~~~fG~~v~v~vrs~~el~~i~~~nPf~~~~~~~~-~~~~v~fl~~~~~~~~ 115 (137)
T PF08002_consen 51 RDPAELAAKIEKALEERFGFDVPVIVRSAEELRAIIAANPFPWEAEADP-KRLYVTFLSGPPDAEA 115 (137)
T ss_dssp S-HHHHHHHHHHHHHHH-TT---EEEEEHHHHHHHHTT--GGGGS-----SEEEEEEE-TT--HHH
T ss_pred CChHHHHHHHHHHHHHhcCCCeEEEEeeHHHHHHHHHHCCCcccccCCc-ceEEEEEeCCCCCHHH
Confidence 3478999999999999999985555444332 334444433455 34444433 3344443
No 178
>COG2136 IMP4 Predicted exosome subunit/U3 small nucleolar ribonucleoprotein (snoRNP) component, contains IMP4 domain [Translation, ribosomal structure and biogenesis / RNA processing and modification]
Probab=35.77 E-value=50 Score=22.61 Aligned_cols=27 Identities=19% Similarity=0.295 Sum_probs=22.9
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHH
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAV 28 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (115)
||-+-|+|+...+.- ...|+++|+..+
T Consensus 1 ~~~~liTTSRkPS~R-tr~Fak~L~~~l 27 (191)
T COG2136 1 MPKMLLTTSRKPSRR-TRSFAKDLSRVL 27 (191)
T ss_pred CCcEEEEecCCccHH-HHHHHHHHHHhC
Confidence 788999999998876 788999988654
No 179
>PRK09970 xanthine dehydrogenase subunit XdhA; Provisional
Probab=35.60 E-value=33 Score=28.35 Aligned_cols=36 Identities=11% Similarity=0.009 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE-ec--CCCCceecC
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY-DV--ERSFFGFNG 112 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~-~~--~~~~~g~~G 112 (115)
..-.++....+.||+|.++|.+... |- .+..+|..|
T Consensus 486 ~~T~~aQiaAe~LGi~~~~V~v~~~~dT~~~p~~~gt~a 524 (759)
T PRK09970 486 SDTVFSQMVAETVGIPVSDVRVISTQDTDVTPFDPGAYA 524 (759)
T ss_pred HHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCCCCch
Confidence 3455677788899999999999865 43 344444433
No 180
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=35.48 E-value=1.1e+02 Score=19.07 Aligned_cols=91 Identities=14% Similarity=0.099 Sum_probs=46.0
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCc--eEEeccCCCceeEEEEEeecCCChhhhHHHHHH
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGV--PIAFAGTEAPAAYGELISIGSLGPSVNGKLSST 80 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~--~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~ 80 (115)
.+-|+|+-+.++++-.+|+.++...+... +.+-..+.++... ...+....+...-++++.-||.+-. .
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~---~~~v~vi~~D~~v~~~~~~~~~~~~~~~~~~~GgGGTdf~-------p 71 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF---PAEVHVIQFDAEVQDVQVFRSLEDELRDIKLKGGGGTDFR-------P 71 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC---CCCEEEEEECCEeeeeeEEecccccccccccCCCCCCcch-------H
Confidence 36789999998876778888777655544 3332223333211 1111111122223344434443321 2
Q ss_pred HHHHHHhHhCCCCCceEEEEEecCC
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDVER 105 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~~~ 105 (115)
..+.+.++ -+...+.|.|+|...
T Consensus 72 vf~~~~~~--~~~~~~vi~fTDg~~ 94 (126)
T PF09967_consen 72 VFEYLEEN--RPRPSVVIYFTDGEG 94 (126)
T ss_pred HHHHHHhc--CCCCCEEEEEeCCCC
Confidence 23334433 256778888888643
No 181
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=35.41 E-value=1.2e+02 Score=19.98 Aligned_cols=34 Identities=6% Similarity=0.152 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEec
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFA 52 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g 52 (115)
.+.|.++++..++- .+|++-|.|.++.+.-|..|
T Consensus 114 v~~LReeisail~~--a~~~DeV~~rLES~GG~Vh~ 147 (155)
T PF08496_consen 114 VESLREEISAILSV--ATPEDEVLVRLESPGGMVHG 147 (155)
T ss_pred HHHHHHHHHHHHHh--CCCCCeEEEEEecCCceeec
Confidence 36777777776654 47779999999987777766
No 182
>PRK08345 cytochrome-c3 hydrogenase subunit gamma; Provisional
Probab=35.26 E-value=39 Score=24.23 Aligned_cols=28 Identities=14% Similarity=0.094 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
..+.+++.+.+ .++|+++++|+..++..
T Consensus 221 ~~m~~~v~~~L-~~~Gv~~~~i~~~l~~~ 248 (289)
T PRK08345 221 PVMYKFVFKEL-INRGYRPERIYVTLERR 248 (289)
T ss_pred HHHHHHHHHHH-HHcCCCHHHEEEEehhc
Confidence 45778888888 46999999999999654
No 183
>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=35.13 E-value=80 Score=17.20 Aligned_cols=22 Identities=14% Similarity=0.012 Sum_probs=17.3
Q ss_pred HHHHHHhHhCCCC-CceEEEEEe
Q 033597 81 IAEILQTKLLIDS-SRFYIKLYD 102 (115)
Q Consensus 81 i~~~l~~~Lgv~~-~ri~i~f~~ 102 (115)
|.+.+.+..|+++ +.+.+.|..
T Consensus 26 l~~~~~~~~~i~~~~~~~l~fdG 48 (72)
T PF11976_consen 26 LIEKYCEKKGIPPEESIRLIFDG 48 (72)
T ss_dssp HHHHHHHHHTTTT-TTEEEEETT
T ss_pred HHHHHHHhhCCCccceEEEEECC
Confidence 3466777899999 999888853
No 184
>COG3252 Methenyltetrahydromethanopterin cyclohydrolase [Coenzyme metabolism]
Probab=35.10 E-value=45 Score=24.16 Aligned_cols=24 Identities=13% Similarity=0.275 Sum_probs=20.2
Q ss_pred HHHHHHHhHhCCCCCceEEEEEec
Q 033597 80 TIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 80 ~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+.++.+.++.||.++++|+..-+.
T Consensus 147 ~vae~vA~ecgV~~EnVyllvapT 170 (314)
T COG3252 147 KVAEYVAKECGVEPENVYLLVAPT 170 (314)
T ss_pred HHHHHHHHHcCCChhheEEEeccc
Confidence 467888899999999999987654
No 185
>PRK03743 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=34.82 E-value=1.5e+02 Score=22.16 Aligned_cols=32 Identities=13% Similarity=0.075 Sum_probs=26.3
Q ss_pred cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 67 GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..++.+.-.+....+.+.+. .+|++.-||-|.
T Consensus 177 ~~it~e~i~~~i~~~~~~l~-~~gi~~PrIaV~ 208 (332)
T PRK03743 177 DYVTKERVLDYIQRCTKALE-KLGIKNPKIAVA 208 (332)
T ss_pred HHhCHHHHHHHHHHHHHHHH-HhCCCCCCEEEE
Confidence 34788888888888899999 899998887654
No 186
>PF12170 DNA_pol3_tau_5: DNA polymerase III tau subunit V interacting with alpha; InterPro: IPR021029 This domain family is found in bacteria, and is approximately 140 amino acids in length. The family is found in association with PF00004 from PFAM. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. The extreme C-terminal region of this domain 5 is the part which interacts with the alpha subunit of the DNA polymerase III holoenzyme [, ]. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 2AYA_A.
Probab=34.76 E-value=1.3e+02 Score=19.49 Aligned_cols=21 Identities=14% Similarity=0.245 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcc
Q 033597 17 ASDILRDATKAVAKILGKSES 37 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~ 37 (115)
.+...+.|.+++++.+|+|.+
T Consensus 67 ~~~a~~~L~~ALs~~~g~~i~ 87 (142)
T PF12170_consen 67 NDSAQEQLQQALSEYLGEPIK 87 (142)
T ss_dssp -HHHHHHHHHHHHHHHSS--E
T ss_pred CHHHHHHHHHHHHHHhCCCEE
Confidence 467889999999999999943
No 187
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=34.66 E-value=41 Score=28.55 Aligned_cols=34 Identities=18% Similarity=0.237 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
+++-+.---++|.+.||+|++||.- ...-|..||
T Consensus 162 K~eaI~~a~e~lt~~lgi~~~~I~~-----~enfW~~GG 195 (900)
T PRK13902 162 KDETVEYCFEFFTKELGIDPEEITF-----KESWWEGGG 195 (900)
T ss_pred HHHHHHHHHHHHHhhcCCCHHHeee-----cccccCCCC
Confidence 4666777788999999999999854 234565444
No 188
>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=34.50 E-value=93 Score=17.81 Aligned_cols=25 Identities=8% Similarity=0.166 Sum_probs=14.3
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAV 28 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (115)
|.++|+|+...+.. +.|.+.+..+.
T Consensus 43 i~l~Iqt~~~~~p~--~~l~~a~~~l~ 67 (77)
T PF13656_consen 43 INLRIQTKGGITPI--EALKKALEDLI 67 (77)
T ss_dssp EEEEEEESTTS-HH--HHHHHHHHHHH
T ss_pred eEEEEEECCCCCHH--HHHHHHHHHHH
Confidence 57899999664432 44555444443
No 189
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=34.47 E-value=61 Score=20.54 Aligned_cols=24 Identities=8% Similarity=0.122 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEE
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i 98 (115)
...-++.+.+.+.+. |||.++|.+
T Consensus 52 ~~~ea~~~~~~l~~~-gvp~~~I~~ 75 (155)
T PF02698_consen 52 GRSEAEAMRDYLIEL-GVPEERIIL 75 (155)
T ss_dssp TS-HHHHHHHHHHHT----GGGEEE
T ss_pred CCCHHHHHHHHHHhc-ccchheeEc
Confidence 455566777777776 999998876
No 190
>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=34.34 E-value=54 Score=18.39 Aligned_cols=25 Identities=4% Similarity=0.029 Sum_probs=19.5
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
.+.+-+.|++..|+|+++..+.|..
T Consensus 20 V~~lK~~i~~~~gip~~~q~L~~~G 44 (76)
T cd01800 20 VSVLKVKIHEETGMPAGKQKLQYEG 44 (76)
T ss_pred HHHHHHHHHHHHCCCHHHEEEEECC
Confidence 4556677778899999999888754
No 191
>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=33.91 E-value=72 Score=18.49 Aligned_cols=24 Identities=4% Similarity=-0.018 Sum_probs=18.0
Q ss_pred HHHHHHHHhHhCCCCCceEEEEEe
Q 033597 79 STIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
+.+.+.+++.-|++++++.+.|.-
T Consensus 35 ~~l~~~y~~~~gi~~~~~rf~f~G 58 (87)
T cd01763 35 KKLMEAYCQRQGLSMNSVRFLFDG 58 (87)
T ss_pred HHHHHHHHHHhCCCccceEEEECC
Confidence 344566667789999999998853
No 192
>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=33.71 E-value=1.2e+02 Score=18.95 Aligned_cols=46 Identities=7% Similarity=0.058 Sum_probs=31.8
Q ss_pred eecCCChhhhHHHHHHHHHHHHhHh---CCCCCceEEEEEecCCCCcee
Q 033597 65 SIGSLGPSVNGKLSSTIAEILQTKL---LIDSSRFYIKLYDVERSFFGF 110 (115)
Q Consensus 65 ~~~~~~~~~~~~~~~~i~~~l~~~L---gv~~~ri~i~f~~~~~~~~g~ 110 (115)
.++++.-+..+.+.++|.+.....+ .....=+++.+.+++++.+=+
T Consensus 54 fVN~R~v~~~~~l~k~i~~~y~~~~~~~~~~~~P~~~L~i~~~~~~vDV 102 (132)
T cd03485 54 SVNSRPVSLGKDIGKLLRQYYSSAYRKSSLRRYPVFFLNILCPPGLVDV 102 (132)
T ss_pred EECCeecccchHHHHHHHHHHHHHhccccccCCCEEEEEEEcCCCceee
Confidence 4555554433788888888888877 566666788888887766544
No 193
>COG5488 Integral membrane protein [Function unknown]
Probab=33.63 E-value=61 Score=21.49 Aligned_cols=22 Identities=27% Similarity=0.492 Sum_probs=18.5
Q ss_pred ecC-CChhhhHHHHHHHHHHHHh
Q 033597 66 IGS-LGPSVNGKLSSTIAEILQT 87 (115)
Q Consensus 66 ~~~-~~~~~~~~~~~~i~~~l~~ 87 (115)
+|. ++|++++.|++++.+.|..
T Consensus 139 ig~fL~Pd~Re~fa~af~~aLat 161 (164)
T COG5488 139 IGRFLNPDDRESFAAAFSRALAT 161 (164)
T ss_pred hhcccChHHHHHHHHHHHHHHHh
Confidence 455 7899999999999998764
No 194
>smart00591 RWD domain in RING finger and WD repeat containing proteins and DEXDc-like helicases subfamily related to the UBCc domain.
Probab=33.48 E-value=79 Score=18.45 Aligned_cols=35 Identities=14% Similarity=0.304 Sum_probs=24.0
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKS 35 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp 35 (115)
.|.+.+......+..+...+.+.+.+...+..|.+
T Consensus 57 ~P~i~~~~~~~l~~~~~~~l~~~l~~~~~e~~g~~ 91 (107)
T smart00591 57 APPISLLNSEGLSDEQLAELLKKLEEIAEENLGEV 91 (107)
T ss_pred CCCeEEECCCCCCHHHHHHHHHHHHHHHHHhCCCE
Confidence 36777766555666656778888888877766554
No 195
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=33.28 E-value=56 Score=24.49 Aligned_cols=25 Identities=4% Similarity=0.099 Sum_probs=21.5
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-+..+.+.+++.+|||+|...|.|-
T Consensus 25 ~I~~lke~Vak~~gvp~D~L~viFa 49 (446)
T KOG0006|consen 25 SIFQLKEVVAKRQGVPADQLRVIFA 49 (446)
T ss_pred CHHHHHHHHHHhhCCChhheEEEEe
Confidence 3567788999999999999999985
No 196
>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=33.21 E-value=56 Score=24.22 Aligned_cols=25 Identities=16% Similarity=0.287 Sum_probs=19.6
Q ss_pred HHHHHHHHhHhCCCCCceEEEEEec
Q 033597 79 STIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.+..+.+.+.+||+|+++|+.+.+.
T Consensus 145 ~~v~~~IA~~cgv~p~~l~llvapT 169 (313)
T PF02289_consen 145 EEVAEKIAEACGVDPENLYLLVAPT 169 (313)
T ss_dssp HHHHHHHHHHHTS-GGGEEEEEE-S
T ss_pred HHHHHHHHHHcCCCHHHEEEEEecC
Confidence 4567888899999999999998765
No 197
>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=33.19 E-value=1e+02 Score=17.95 Aligned_cols=26 Identities=12% Similarity=0.160 Sum_probs=15.5
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAVA 29 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~a 29 (115)
|.++|+|..+.++ .+.+.+.+.++..
T Consensus 51 ~~lrI~T~~~~~P--~~al~~a~~~l~~ 76 (83)
T cd07027 51 IQIRIQTKSGIKP--KDALKRAVNKLSK 76 (83)
T ss_pred cEEEEEECCCCCH--HHHHHHHHHHHHH
Confidence 6789999865443 2455555544443
No 198
>PRK12449 acyl carrier protein; Provisional
Probab=33.18 E-value=59 Score=18.27 Aligned_cols=23 Identities=9% Similarity=0.075 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHhHhCCCCCce
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
+.+..+.+.+.+.+.++++++++
T Consensus 3 ~~~i~~~l~~il~~~~~~~~~~i 25 (80)
T PRK12449 3 REEIFERLINLIQKQRSYLSLAI 25 (80)
T ss_pred HHHHHHHHHHHHHHHhCCCcccc
Confidence 45677889999999999887764
No 199
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=33.12 E-value=49 Score=18.05 Aligned_cols=23 Identities=4% Similarity=0.007 Sum_probs=18.8
Q ss_pred HHHHHHhHhCCCCCceEEEEEec
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.-+.|...|||+..++-|.|+..
T Consensus 34 ~r~~la~~lgl~~~vvKVWfqN~ 56 (58)
T TIGR01565 34 EVREFCEEIGVTRKVFKVWMHNN 56 (58)
T ss_pred HHHHHHHHhCCCHHHeeeecccC
Confidence 45567788999999999998864
No 200
>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=33.05 E-value=1.1e+02 Score=18.04 Aligned_cols=21 Identities=19% Similarity=0.215 Sum_probs=16.6
Q ss_pred ceeEEEEEeecC-CChhhhHHH
Q 033597 57 PAAYGELISIGS-LGPSVNGKL 77 (115)
Q Consensus 57 p~~~v~i~~~~~-~~~~~~~~~ 77 (115)
.+.++|++..++ ++++|+.-+
T Consensus 62 ~~~~iEvK~p~~~ls~~Q~~~~ 83 (100)
T PF08774_consen 62 IFLFIEVKGPGDRLSPNQKEWI 83 (100)
T ss_pred EEEEEEEcCCCCCcCHHHHHHH
Confidence 589999999877 677776555
No 201
>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=32.98 E-value=43 Score=27.69 Aligned_cols=29 Identities=17% Similarity=0.088 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEEecCC
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLYDVER 105 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~ 105 (115)
+--.++....+.||+|+|+|.|..-|-+.
T Consensus 470 ~~T~~~qiaAe~LGip~d~V~v~~~DT~~ 498 (746)
T TIGR03194 470 SSTIASQVAAEVLGVRLSRIRVISADSAL 498 (746)
T ss_pred HHHHHHHHHHHHhCCCHHhEEEEccCCCC
Confidence 34556777888999999999998877643
No 202
>PTZ00044 ubiquitin; Provisional
Probab=32.98 E-value=58 Score=17.99 Aligned_cols=25 Identities=20% Similarity=0.105 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+...+++..|+|++...+.|.
T Consensus 22 tv~~lK~~i~~~~gi~~~~q~L~~~ 46 (76)
T PTZ00044 22 TVQQVKMALQEKEGIDVKQIRLIYS 46 (76)
T ss_pred cHHHHHHHHHHHHCCCHHHeEEEEC
Confidence 3677788888899999998888874
No 203
>PF13092 CENP-L: Kinetochore complex Sim4 subunit Fta1
Probab=32.95 E-value=1.1e+02 Score=20.13 Aligned_cols=35 Identities=9% Similarity=0.117 Sum_probs=26.6
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.+.++..-|.+++.+.+.++++++-++=.+.+..+
T Consensus 109 ~~~~~~~~F~~aL~~y~~~hl~l~L~~~~~~L~kI 143 (162)
T PF13092_consen 109 ETQEEVSPFMEALSSYFYRHLALDLDHPAVRLSKI 143 (162)
T ss_pred cccccccHHHHHHHHHHHHHhCCCcccceeEEEEE
Confidence 34677788999999999999999998444444444
No 204
>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=32.87 E-value=1.1e+02 Score=18.13 Aligned_cols=46 Identities=17% Similarity=0.206 Sum_probs=34.8
Q ss_pred eeEEEEEe--ecCCC-hhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 58 AAYGELIS--IGSLG-PSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 58 ~~~v~i~~--~~~~~-~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
...+++.. ..+.+ ++..+++-+++.+.+++.+|++..++-|.+.++
T Consensus 59 ~i~v~l~v~v~~g~~i~~v~~~iq~~V~~~v~~~tg~~v~~V~V~V~~v 107 (108)
T PF03780_consen 59 GITVDLHVVVEYGVNIPEVAEEIQEKVKEAVEEMTGIEVSEVNVHVEDV 107 (108)
T ss_pred ceEEEEEEEEECCccHHHHHHHHHHHHHHHHHHHHCCeeEEEEEEEEec
Confidence 34444443 33444 777888888889999999999999999999876
No 205
>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=32.82 E-value=30 Score=19.90 Aligned_cols=23 Identities=26% Similarity=0.294 Sum_probs=15.0
Q ss_pred HHHHHHHHhHhCCCCCceEEEEE
Q 033597 79 STIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
..+.+.+.+.||+|+++++.++.
T Consensus 21 ~~~~~~~~~~lgi~~~~~~~~~~ 43 (90)
T PF08541_consen 21 KKILDSIAKRLGIPPERFPDNLA 43 (90)
T ss_dssp HHHHHHHHHHHTS-GGGBE-THH
T ss_pred HHHHHHHHHHcCCcHHHHHHHHh
Confidence 34555567789999999886553
No 206
>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=32.65 E-value=54 Score=19.61 Aligned_cols=37 Identities=19% Similarity=0.304 Sum_probs=28.4
Q ss_pred cCCChhhhHHHHHHHHHH------HHhHhCCCCCceEEEEEec
Q 033597 67 GSLGPSVNGKLSSTIAEI------LQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~------l~~~Lgv~~~ri~i~f~~~ 103 (115)
|.++.++-.++..+++.+ +.+.+|+.++...+.+-++
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 458888888888887765 7778899998877665544
No 207
>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=32.51 E-value=74 Score=17.57 Aligned_cols=24 Identities=4% Similarity=-0.033 Sum_probs=19.2
Q ss_pred HHHHHHHHHhHhCC--CCCceEEEEE
Q 033597 78 SSTIAEILQTKLLI--DSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv--~~~ri~i~f~ 101 (115)
.+.+-+.+++..|+ ++++..+.|.
T Consensus 23 V~~lK~~i~~~~~i~~~~~~q~L~~~ 48 (77)
T cd01805 23 VAELKEKIEEEKGCDYPPEQQKLIYS 48 (77)
T ss_pred HHHHHHHHHHhhCCCCChhHeEEEEC
Confidence 56667778888899 9999988874
No 208
>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=32.28 E-value=1.1e+02 Score=17.94 Aligned_cols=25 Identities=16% Similarity=0.030 Sum_probs=14.9
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAV 28 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~ 28 (115)
|.++|+|+-+.+.. +.+.+.+..+.
T Consensus 51 ~~lriqT~~~~~p~--~al~~a~~~l~ 75 (85)
T cd07029 51 INLRIQTKGGEPAV--DVLKKGLEDLE 75 (85)
T ss_pred cEEEEEeCCCCCHH--HHHHHHHHHHH
Confidence 67899999755442 44444444433
No 209
>KOG0747 consensus Putative NAD+-dependent epimerases [Carbohydrate transport and metabolism]
Probab=32.25 E-value=2.1e+02 Score=21.31 Aligned_cols=32 Identities=25% Similarity=0.372 Sum_probs=27.6
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhC
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLL 90 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lg 90 (115)
-.-+|..||.-.+-.+.++++.|++++.+.++
T Consensus 241 ~~geIYNIgtd~e~~~~~l~k~i~eli~~~~~ 272 (331)
T KOG0747|consen 241 ELGEIYNIGTDDEMRVIDLAKDICELFEKRLP 272 (331)
T ss_pred CccceeeccCcchhhHHHHHHHHHHHHHHhcc
Confidence 35678888877788899999999999999887
No 210
>KOG2426 consensus Dihydroxyacetone kinase/glycerone kinase [Carbohydrate transport and metabolism]
Probab=32.18 E-value=2.7e+02 Score=22.34 Aligned_cols=70 Identities=11% Similarity=0.192 Sum_probs=47.7
Q ss_pred HHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 24 ATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 24 l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+++.+..+++-.+++-.|.++++.. ..+-+...|+++--+---.+.+..+.|+++.||.+.|+|.-+.-.
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 VSQMLPQLLDPTKDRSYVKFEEGDE----------VVLLVNNLGGVSNLELGIIAGKVVEQLEDEYGIGPVRTFAGTFMT 308 (582)
T ss_pred HHHHHHHhcCCccccccccccCCCe----------EEEEEcCCCCcchhhhHHHHHHHHHHHHhhcCccceEEEeeeeee
Confidence 3455555665434444454554332 344556678888777778889999999999999999998765433
No 211
>COG5435 Uncharacterized conserved protein [Function unknown]
Probab=31.93 E-value=1.1e+02 Score=20.17 Aligned_cols=36 Identities=17% Similarity=0.165 Sum_probs=26.6
Q ss_pred EEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHH
Q 033597 49 IAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEI 84 (115)
Q Consensus 49 ~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~ 84 (115)
+.+-+..+....+.+++.+.+++.+++.+...|..+
T Consensus 104 ~~~i~~g~~vLifT~Tt~~~ftp~q~~~~~~~I~Sf 139 (147)
T COG5435 104 QVFIERGDTVLIFTLTTPGEFTPSQKKAWEQVIQSF 139 (147)
T ss_pred EeecccCCeEEEEEecCCCCCCHHHHHHHHHHHHhc
Confidence 344455566777778888889999999888877654
No 212
>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=31.74 E-value=69 Score=20.11 Aligned_cols=25 Identities=16% Similarity=0.272 Sum_probs=17.2
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.+.+.+.| +++|++|+|+.+.....
T Consensus 79 v~~~k~~L-~~~Gi~~eRv~~~~~~~ 103 (124)
T PF02662_consen 79 VERLKKLL-EELGIEPERVRLYWISA 103 (124)
T ss_pred HHHHHHHH-HHcCCChhHeEEEEeCc
Confidence 33434444 46999999998877655
No 213
>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=31.62 E-value=64 Score=17.70 Aligned_cols=24 Identities=8% Similarity=0.174 Sum_probs=19.2
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
.+.+-+.+++..|+++++..+.|.
T Consensus 22 V~~lK~~I~~~~~i~~~~~~Li~~ 45 (71)
T cd01808 22 VKDFKEAVSKKFKANQEQLVLIFA 45 (71)
T ss_pred HHHHHHHHHHHhCCCHHHEEEEEC
Confidence 566777788888999999998764
No 214
>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=31.39 E-value=1.9e+02 Score=20.31 Aligned_cols=52 Identities=17% Similarity=0.274 Sum_probs=34.6
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT 54 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~ 54 (115)
+..|+.|-+....-..++..+|.+++.++-..|.-++.|.--.+..++-|+.
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 5667777653333356889999999998777666666665455656666653
No 215
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=31.18 E-value=1e+02 Score=22.02 Aligned_cols=28 Identities=14% Similarity=0.162 Sum_probs=21.8
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceEE
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i 98 (115)
+.+.+.++.+.+.+.+. ..||+++++++
T Consensus 132 t~~~~~~~l~~~v~~a~-~~GI~~~~Iil 159 (261)
T PRK07535 132 DAEDRLAVAKELVEKAD-EYGIPPEDIYI 159 (261)
T ss_pred CHHHHHHHHHHHHHHHH-HcCCCHhHEEE
Confidence 45666777777777665 78999999986
No 216
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=31.05 E-value=67 Score=20.55 Aligned_cols=32 Identities=16% Similarity=0.117 Sum_probs=20.3
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
.....+-++.++ +-++|||.++|+........
T Consensus 74 ~ka~rR~~~lke----~l~elgie~eRv~~~wiSa~ 105 (132)
T COG1908 74 YKAKRRMELLKE----LLKELGIEPERVRVLWISAA 105 (132)
T ss_pred hHHHHHHHHHHH----HHHHhCCCcceEEEEEEehh
Confidence 444444444333 34579999999988776653
No 217
>COG2845 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.04 E-value=2.3e+02 Score=21.35 Aligned_cols=51 Identities=14% Similarity=0.151 Sum_probs=42.8
Q ss_pred eCCceEEeccCCCceeEEEEEeecC--CChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 44 NGGVPIAFAGTEAPAAYGELISIGS--LGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 44 ~~~~~~~~gg~~~p~~~v~i~~~~~--~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
+.|..+..-|.+...-.|.++.-.| ++++-+++++..+.+.|..+|+..+.
T Consensus 274 e~G~~f~~~~~D~NGq~vrlR~~DGIh~T~~Gkrkla~~~~k~I~~~l~~a~~ 326 (354)
T COG2845 274 EGGKDFVTTGVDINGQPVRLRAKDGIHFTKEGKRKLAFYLEKPIRAELETARP 326 (354)
T ss_pred cCCceeEEeccccCCceEEEeccCCceechhhHHHHHHHHHHHHHhhhcccCc
Confidence 4466677778888888899998877 58999999999999999999998765
No 218
>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=31.04 E-value=63 Score=17.92 Aligned_cols=25 Identities=12% Similarity=0.162 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+.+.+++..|+|+++..+.|.
T Consensus 22 tV~~lK~~i~~~~gi~~~~q~L~~~ 46 (74)
T cd01807 22 SVSTLKKLVSEHLNVPEEQQRLLFK 46 (74)
T ss_pred cHHHHHHHHHHHHCCCHHHeEEEEC
Confidence 4556667778888999999888764
No 219
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=30.96 E-value=1.5e+02 Score=24.34 Aligned_cols=44 Identities=7% Similarity=-0.083 Sum_probs=37.4
Q ss_pred CceeEEEEEeecC-CChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 56 APAAYGELISIGS-LGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 56 ~p~~~v~i~~~~~-~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
.+.+.+++.+.+. ++++.-++.-..|.+.|.+.+++++++||..
T Consensus 436 ~~~~vvq~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~i~~k 480 (702)
T PRK11783 436 GDWVVVQEYAAPKTIDEEKARQRLFDALAATPEVLGIPPNKVVLK 480 (702)
T ss_pred CCEEEEEECCCccccCHHHHHHHHHHHHHHHHHHhCCCCCEEEEE
Confidence 6788888888773 6777778888889999999999999999988
No 220
>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=30.94 E-value=1.5e+02 Score=20.73 Aligned_cols=55 Identities=13% Similarity=0.014 Sum_probs=37.3
Q ss_pred eEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHh-CCCCCceEEEEEecC
Q 033597 48 PIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKL-LIDSSRFYIKLYDVE 104 (115)
Q Consensus 48 ~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~L-gv~~~ri~i~f~~~~ 104 (115)
++..-|...-.+.+++..-+..+.++-.+..+++.+.+++++ ++. ++.|.+++.+
T Consensus 227 ~~~~~g~~~~~v~i~v~v~~~~~v~~~~~i~~~i~~~l~~~~~~i~--~v~I~~~p~~ 282 (284)
T PF01545_consen 227 RVWQVGRNKYVVEIHVQVDPDMSVEEAHEIRERIEKRLREKFPGIY--DVTIHIEPDE 282 (284)
T ss_dssp EEEEETT-EEEEEEEEEETTTSBHHHHHHHHHHHHHHHHHHSTTCE--EEEEEEEECG
T ss_pred EEEEecCCcEEEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCCcE--EEEEEEEecC
Confidence 334444555566666665556788888889999999999987 453 3677777654
No 221
>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=30.90 E-value=1.2e+02 Score=20.62 Aligned_cols=61 Identities=21% Similarity=0.375 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeC-CceEEeccCCCceeEEEEEe-ecCC--ChhhhHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILING-GVPIAFAGTEAPAAYGELIS-IGSL--GPSVNGKLSS 79 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~-~~~~~~gg~~~p~~~v~i~~-~~~~--~~~~~~~~~~ 79 (115)
++++..++++++.+.++ | ..+.|.++. ..+|..-|..++.+...-.. .|.+ +++.+.+|-.
T Consensus 112 QERLT~qIa~~l~~~l~-p-~gV~V~i~A~H~Cm~~RGv~~~~s~t~T~a~~G~f~~d~~~r~ef~~ 176 (179)
T PF01227_consen 112 QERLTRQIADALEEILG-P-KGVAVVIEAEHMCMTMRGVRKPGSRTVTSAFRGAFAEDPSLRQEFLS 176 (179)
T ss_dssp HHHHHHHHHHHHHHHHT-S-SEEEEEEEEEEHHHHSSTTT-SS-EEEEEEEEEHHHHSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhC-C-CeEEEEEEeccCCccccCccCCCCEEEEEEEEeEeCCCHHHHHHHHH
Confidence 57899999999999997 3 345554542 34555556666655555444 4444 5666655544
No 222
>PRK09800 putative hypoxanthine oxidase; Provisional
Probab=30.88 E-value=64 Score=27.63 Aligned_cols=29 Identities=10% Similarity=0.139 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEEecCC
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLYDVER 105 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~ 105 (115)
.-..+.....+.||+|.++|.|..-|-..
T Consensus 690 ~~T~~~QiaAe~LGip~d~V~v~~~DT~~ 718 (956)
T PRK09800 690 LDTVVTKLAAEVLHCPPQDVHVISGDTDH 718 (956)
T ss_pred HHHHHHHHHHHHHCCCceeEEEEeCCCCC
Confidence 34455667778999999999999987643
No 223
>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=30.76 E-value=73 Score=15.41 Aligned_cols=25 Identities=16% Similarity=0.158 Sum_probs=17.2
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
.+.+.+.+.+..|+++++..+.+..
T Consensus 20 v~~l~~~i~~~~~~~~~~~~l~~~~ 44 (69)
T cd00196 20 VADLKEKLAKKLGLPPEQQRLLVNG 44 (69)
T ss_pred HHHHHHHHHHHHCcChHHeEEEECC
Confidence 4555666667778888887776543
No 224
>cd07991 LPLAT_LPCAT1-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LPCAT1-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lysophosphatidylcholine acyltransferase 1 (LPCAT-1), glycerol-3-phosphate acyltransferase 3 (GPAT3), and similar sequences.
Probab=30.72 E-value=1.3e+02 Score=20.37 Aligned_cols=37 Identities=16% Similarity=0.162 Sum_probs=27.9
Q ss_pred eeEEEEEeecCCCh----hhhHHHHHHHHHHHHhHhCCCCC
Q 033597 58 AAYGELISIGSLGP----SVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 58 ~~~v~i~~~~~~~~----~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
...+++.....+.+ +..+++++.+.+.+.+.|++++.
T Consensus 163 ~~~v~v~~l~pi~~~~~~~~~~~l~~~v~~~i~~~l~~~~~ 203 (211)
T cd07991 163 ANVLEVEFLPVYTPSEEGEDPKEFANRVRLIMANKLGLPAT 203 (211)
T ss_pred ceEEEEEECCCcccccCCCCHHHHHHHHHHHHHHhcCCCcc
Confidence 45677776655544 56789999999999999998653
No 225
>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=30.71 E-value=99 Score=21.95 Aligned_cols=31 Identities=6% Similarity=-0.024 Sum_probs=24.0
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
.+.+.+.++.+.+.+.+.+.-|++++|+++-
T Consensus 134 ~t~~~~~~~~~~~~~~~~~~~gi~~~~IiiD 164 (252)
T cd00740 134 KTRDKKVEIAERAYEALTEFVGFPPEDIIFD 164 (252)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCHHHEEEe
Confidence 4556667788888887877789999999873
No 226
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=30.69 E-value=1.4e+02 Score=19.05 Aligned_cols=27 Identities=26% Similarity=0.324 Sum_probs=19.9
Q ss_pred eeEEEEEe------ecC-CChhhhHHHHHHHHHH
Q 033597 58 AAYGELIS------IGS-LGPSVNGKLSSTIAEI 84 (115)
Q Consensus 58 ~~~v~i~~------~~~-~~~~~~~~~~~~i~~~ 84 (115)
...+.+.+ +|. ++++++.++++++.+.
T Consensus 106 ~~~l~L~~~g~~veiG~fL~~~eR~~la~~L~~a 139 (140)
T PF10003_consen 106 PPRLTLRSRGREVEIGRFLNPEEREELARELRRA 139 (140)
T ss_pred CcEEEEEECCEEEEEccCCCHHHHHHHHHHHHhh
Confidence 34666665 455 6899999999998764
No 227
>PRK00232 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed
Probab=30.64 E-value=2.3e+02 Score=21.19 Aligned_cols=65 Identities=17% Similarity=0.131 Sum_probs=40.2
Q ss_pred HHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEe-----ecCCChhhhHHHHHHHHHHHHhHhCCCCCceEE
Q 033597 24 ATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELIS-----IGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 24 l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~-----~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i 98 (115)
-++.+++.+|... ++ |++.+..-..++++.+. ...++.+.-.+....+.+.+.+. |++.-||-|
T Consensus 139 hTe~La~~~~~~~-~~---------Mml~~~~LrV~lvT~HipL~~V~~~it~e~i~~~i~~~~~~l~~~-gi~~PrIaV 207 (332)
T PRK00232 139 HTEFFAELSGTTG-VV---------MMLATEGLRVALVTTHLPLRDVADAITPERLEEVIRILHADLRRK-GIAEPRIAV 207 (332)
T ss_pred HHHHHHHHhCCCC-eE---------EEEecCCeEEEEeccchhHHHHHHHhCHHHHHHHHHHHHHHHHHh-CCCCCcEEE
Confidence 3566777776432 22 23332223334444432 23478888888889999999977 999888765
Q ss_pred E
Q 033597 99 K 99 (115)
Q Consensus 99 ~ 99 (115)
.
T Consensus 208 ~ 208 (332)
T PRK00232 208 C 208 (332)
T ss_pred E
Confidence 4
No 228
>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=30.26 E-value=1.1e+02 Score=17.48 Aligned_cols=28 Identities=21% Similarity=0.218 Sum_probs=19.3
Q ss_pred hhhhHHHH----HHHHHHHHhHhCCCCCceEEE
Q 033597 71 PSVNGKLS----STIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 71 ~~~~~~~~----~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
.+.|.+++ .++.++|.+ .||+++|+.+.
T Consensus 45 ~~~n~~LS~~RA~~V~~~L~~-~gi~~~ri~~~ 76 (97)
T PF00691_consen 45 AEYNQELSQRRAEAVKQYLVE-NGIPPERISVV 76 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-TTSSGGGEEEE
T ss_pred hhHHhHHHHHHHHHHHHHHHH-cCCChHhEEEE
Confidence 34455554 556666776 79999999774
No 229
>PF14516 AAA_35: AAA-like domain
Probab=30.26 E-value=97 Score=22.76 Aligned_cols=39 Identities=21% Similarity=0.144 Sum_probs=29.6
Q ss_pred CCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCC
Q 033597 55 EAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDS 93 (115)
Q Consensus 55 ~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~ 93 (115)
.-.++++++...+.-....-.++.+.|+..+.+.|+++.
T Consensus 59 ~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~ 97 (331)
T PF14516_consen 59 GYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDE 97 (331)
T ss_pred CCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCCh
Confidence 457888999887764444556688899999999998874
No 230
>PRK13689 hypothetical protein; Provisional
Probab=30.12 E-value=92 Score=18.02 Aligned_cols=24 Identities=21% Similarity=0.376 Sum_probs=20.3
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
..+++++.+++.+.+.|...+.-+
T Consensus 49 V~~~qR~~iAe~Fa~AL~~Sv~~~ 72 (75)
T PRK13689 49 VAPAQRQAIAESFARALQSSVKED 72 (75)
T ss_pred CCHHHHHHHHHHHHHHHHHHhhcc
Confidence 578999999999999998877644
No 231
>cd06926 RNAP_II_RPB11 RPB11 subunit of Eukaryotic RNA polymerase II. The eukaryotic RPB11 subunit of RNA polymerase (RNAP) II 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 II is responsible for the synthesis of mRNA precursor. 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.
Probab=29.89 E-value=1.3e+02 Score=17.97 Aligned_cols=26 Identities=12% Similarity=0.173 Sum_probs=15.5
Q ss_pred CeEEEEeCCCCCccCHHHHHHHHHHHHH
Q 033597 2 PTLNLYTNVPVDAVIASDILRDATKAVA 29 (115)
Q Consensus 2 P~i~i~tn~~~~~~~~~~~~~~l~~~~a 29 (115)
|.++|+|+.+.+. .+.+.+.+.+++.
T Consensus 59 ~~l~i~t~~~~~p--~~al~~a~~~l~~ 84 (93)
T cd06926 59 IELRIQTDGSITP--KEALKNAITDLIS 84 (93)
T ss_pred eEEEEEeCCCCCH--HHHHHHHHHHHHH
Confidence 5788999865443 2455555555444
No 232
>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=29.85 E-value=51 Score=27.30 Aligned_cols=36 Identities=17% Similarity=0.289 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEEecC--CCCceecC
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLYDVE--RSFFGFNG 112 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~~~~--~~~~g~~G 112 (115)
.--.++....++||+++++|.|..-|-+ +..+|..|
T Consensus 473 ~~T~laQIaAe~LGi~~d~V~v~~~DT~~~p~~~gT~g 510 (758)
T TIGR02965 473 LNTKVAQVVAEEFQVDIDRVKITATDTDKVPNTSATAA 510 (758)
T ss_pred HHHHHHHHHHHHhCCCHHHEEEEecCccCCCCCCCCch
Confidence 4456677788899999999999997663 33444443
No 233
>PLN02833 glycerol acyltransferase family protein
Probab=29.79 E-value=1.2e+02 Score=22.93 Aligned_cols=48 Identities=8% Similarity=0.103 Sum_probs=35.3
Q ss_pred ceeEEEEEeecCCC---hhhhHHHHHHHHHHHHhHhCCC--CCceEEEEEecC
Q 033597 57 PAAYGELISIGSLG---PSVNGKLSSTIAEILQTKLLID--SSRFYIKLYDVE 104 (115)
Q Consensus 57 p~~~v~i~~~~~~~---~~~~~~~~~~i~~~l~~~Lgv~--~~ri~i~f~~~~ 104 (115)
|...+++.....++ .+..+++++.+.+.+.+.+|++ |=+.|+.+..++
T Consensus 302 ~~~~v~V~~LpPi~~~~~e~~~efA~rv~~~Ia~~lgi~~~~wdg~lk~~~~~ 354 (376)
T PLN02833 302 WAVVCDVWYLEPQTLRPGETPIEFAERVRDMIAKRAGLKKVPWDGYLKYYRPS 354 (376)
T ss_pred CceEEEEEECCCcCCCCCCCHHHHHHHHHHHHHHhcCCCCCCCCCceeecCCC
Confidence 45567777666543 3568999999999999999987 556666665543
No 234
>CHL00124 acpP acyl carrier protein; Validated
Probab=29.62 E-value=48 Score=18.76 Aligned_cols=22 Identities=18% Similarity=0.321 Sum_probs=17.3
Q ss_pred hHHHHHHHHHHHHhHhCCCCCc
Q 033597 74 NGKLSSTIAEILQTKLLIDSSR 95 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~r 95 (115)
+.+....+.+.+.+.++++++.
T Consensus 3 ~~~i~~~l~~ii~~~~~~~~~~ 24 (82)
T CHL00124 3 KNDIFEKVQSIVAEQLGIEKSE 24 (82)
T ss_pred HHHHHHHHHHHHHHHHCCCHHH
Confidence 3567778888899999988765
No 235
>COG5609 Uncharacterized conserved protein [Function unknown]
Probab=29.62 E-value=1.3e+02 Score=19.21 Aligned_cols=56 Identities=20% Similarity=0.198 Sum_probs=39.8
Q ss_pred CCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCce-EEeccCCCceeEEEEEee
Q 033597 10 VPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVP-IAFAGTEAPAAYGELISI 66 (115)
Q Consensus 10 ~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~-~~~gg~~~p~~~v~i~~~ 66 (115)
...... ..+|.+.+++.-.+.+|+....|.+.+.++-- ...-|.-.|+=|+-+..-
T Consensus 3 ~t~g~~-e~EiS~~i~~~~ke~lGrgp~sI~t~f~~nm~i~sL~G~Ltp~E~~~~~~~ 59 (124)
T COG5609 3 KTKGQK-ESEISKAITSLEKEYLGRGPVSIKTDFLDNMAIISLEGILTPAEYFLLSTK 59 (124)
T ss_pred cchhhH-HHHHHHHHHHHHHHHhCCCCceeEeehhhhhhhhhhhcccCHHHhhhccCC
Confidence 333444 46899999999999999999999988876532 223366677776666554
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=29.51 E-value=71 Score=18.11 Aligned_cols=24 Identities=0% Similarity=-0.110 Sum_probs=18.5
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
.+.+-+.+++..|+|+++..+ |..
T Consensus 25 V~~lK~kI~~~~gip~~~QrL-~~G 48 (75)
T cd01799 25 VAQLKDKVFLDYGFPPAVQRW-VIG 48 (75)
T ss_pred HHHHHHHHHHHHCcCHHHEEE-EcC
Confidence 445667778889999999888 653
No 237
>PRK02264 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional
Probab=29.48 E-value=62 Score=24.01 Aligned_cols=24 Identities=17% Similarity=0.278 Sum_probs=20.4
Q ss_pred HHHHHHHhHhCCCCCceEEEEEec
Q 033597 80 TIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 80 ~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+..+.+.+.+||+|+++|+.+.+.
T Consensus 147 ~v~e~vA~~cgv~p~~v~~lvapT 170 (317)
T PRK02264 147 EVAEKVAEECGVDPENVYLLVAPT 170 (317)
T ss_pred HHHHHHHHHcCCCHHHEEEEEecC
Confidence 467788889999999999988765
No 238
>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=29.42 E-value=71 Score=17.67 Aligned_cols=24 Identities=8% Similarity=0.011 Sum_probs=18.9
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
.+.+-+.+++..|+|++...+.|.
T Consensus 22 V~~lK~~I~~~~gip~~~q~Li~~ 45 (71)
T cd01796 22 LENFKALCEAESGIPASQQQLIYN 45 (71)
T ss_pred HHHHHHHHHHHhCCCHHHeEEEEC
Confidence 456677788889999998888764
No 239
>PRK03371 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional
Probab=29.21 E-value=2.3e+02 Score=21.12 Aligned_cols=32 Identities=9% Similarity=0.113 Sum_probs=25.7
Q ss_pred cCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 67 GSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..++.+.-.+....+.+.+. .+|++.-||-|-
T Consensus 176 ~~it~e~i~~~i~~~~~~l~-~~gi~~PrIaV~ 207 (326)
T PRK03371 176 DTLNTARVETVIGIADTFLK-RVGYVKPRIAVA 207 (326)
T ss_pred HHhCHHHHHHHHHHHHHHHH-HhCCCCCCEEEE
Confidence 34778888888888888888 899988888654
No 240
>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=29.19 E-value=71 Score=18.79 Aligned_cols=35 Identities=9% Similarity=0.115 Sum_probs=25.3
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHh-CCC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKIL-GKS 35 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~-~kp 35 (115)
.|.+.+.++......+...+.+.+.+.+.+.. |-+
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 37888888887764557888888888888877 654
No 241
>PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional
Probab=28.85 E-value=50 Score=24.49 Aligned_cols=24 Identities=17% Similarity=0.264 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
-..++.|...+. ++|+|+++|++-
T Consensus 186 ln~ak~L~~~l~-~~Gi~~edIviD 209 (319)
T PRK04452 186 INLAKQLNILLT-ELGVPRERIVMD 209 (319)
T ss_pred HHHHHHHHHHHH-HcCCCHHHEEEe
Confidence 447777777787 789999999874
No 242
>PRK07938 enoyl-CoA hydratase; Provisional
Probab=28.83 E-value=2.1e+02 Score=20.03 Aligned_cols=52 Identities=12% Similarity=0.070 Sum_probs=34.1
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT 54 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~ 54 (115)
+..|+.|-+....-..++..+|.+++.++-..|.-++.|.-..+..++-|+.
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 4567777653333356788888888888776666566665555666666653
No 243
>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=28.53 E-value=82 Score=17.45 Aligned_cols=25 Identities=20% Similarity=-0.012 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+.+.+++..|+|+++..+.|.
T Consensus 20 tV~~lK~~i~~~~gip~~~q~Li~~ 44 (74)
T cd01793 20 TVSDIKAHVAGLEGIDVEDQVLLLA 44 (74)
T ss_pred cHHHHHHHHHhhhCCCHHHEEEEEC
Confidence 4556677788889999999988774
No 244
>PRK06495 enoyl-CoA hydratase; Provisional
Probab=28.23 E-value=2.1e+02 Score=20.00 Aligned_cols=52 Identities=10% Similarity=0.169 Sum_probs=33.5
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT 54 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~ 54 (115)
+..|+.|-+.-..-..++.++|.+++.++-..|.-++.|.-..+..++-|+.
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 4567777653232356888899999988877666566665455555666653
No 245
>KOG3226 consensus DNA repair protein [Replication, recombination and repair]
Probab=28.21 E-value=1.6e+02 Score=22.77 Aligned_cols=98 Identities=18% Similarity=0.116 Sum_probs=49.8
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHH------HhCCCcceeEEEEeCCceEEec-cCCCceeEEEEEeecC-CChh
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAK------ILGKSESYVMILINGGVPIAFA-GTEAPAAYGELISIGS-LGPS 72 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~------~~~kp~~~i~v~~~~~~~~~~g-g~~~p~~~v~i~~~~~-~~~~ 72 (115)
||.+.++.-+..+.++.-.....|-+.=+. ..|--..||...++..+++.-= =..+-+|||++.+... ...+
T Consensus 1 MP~~~~k~V~~~SSeDa~H~A~NLLK~~a~kKWRt~~~GEKs~~VVLe~E~~qQI~~iDIGNe~aAFiEVLV~~t~~~~~ 80 (508)
T KOG3226|consen 1 MPIALFKSVREVSSEDAVHVAANLLKENAGKKWRTKAPGEKSAYVVLEFEEPQQITGIDIGNEHAAFIEVLVSRTGCQAD 80 (508)
T ss_pred CchhhhhhhhhccccchHHHHHHHHhhhhcchhhhcCCCCceeEEEEEecccceeeeeeccCCcceeeeeeeccccccch
Confidence 899999888887776433333333221111 1222223677777765544321 1236679999875422 2222
Q ss_pred hhH--HHHHHHHHHHHhHhCCCCCceEE
Q 033597 73 VNG--KLSSTIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 73 ~~~--~~~~~i~~~l~~~Lgv~~~ri~i 98 (115)
..+ -++.-++.-++..-+-.|+|+..
T Consensus 81 D~~~LLlsSSFMtP~ESk~~SNPNRVR~ 108 (508)
T KOG3226|consen 81 DFRELLLSSSFMTPIESKNSSNPNRVRC 108 (508)
T ss_pred hHHHHhhhhcccCccccccCCCCcceee
Confidence 222 22333344455555666777654
No 246
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional
Probab=28.11 E-value=2.7e+02 Score=21.10 Aligned_cols=47 Identities=19% Similarity=0.207 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCC-ceeEEEEE
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEA-PAAYGELI 64 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~-p~~~v~i~ 64 (115)
.....++.+.++++++-|...|.|.-..+..+.|-|+.+ -+++..+.
T Consensus 323 ~~~~~~~~~~~~~~l~~~~~~v~~ka~t~e~lg~~g~~~gi~~~a~~~ 370 (378)
T PRK09382 323 GPHKQAMRENLAEILGIPKDRVSVKATTTEKLGFVGRGEGIAAIATAT 370 (378)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCcCCcCCCceEEEEEEE
Confidence 567889999999999999999999999999998888775 34444433
No 247
>PF05889 SLA_LP_auto_ag: Soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen); InterPro: IPR008829 This family consists of several eukaryotic and archaeal proteins which are related to the Homo sapiens soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen). Autoantibodies are a hallmark of autoimmune hepatitis, but most are not disease specific. Autoantibodies to soluble liver antigen (SLA) and to liver and pancreas antigen (LP) have been described as disease specific, occurring in about 30% of all patients with autoimmune hepatitis []. The function of SLA/LP is unknown, however, it has been suggested that the protein may function as a serine hydroxymethyltransferase and may be an important enzyme in the thus far poorly understood selenocysteine pathway []. The archaeal sequences Q8TXK0 from SWISSPROT and Q8TYR3 from SWISSPROT are annotated as being pyridoxal phosphate-dependent enzymes.; GO: 0016740 transferase activity; PDB: 2E7J_B 2E7I_B 2Z67_C 3HL2_D 3BC8_A 3BCA_A 3BCB_A.
Probab=27.65 E-value=2.9e+02 Score=21.28 Aligned_cols=65 Identities=14% Similarity=0.164 Sum_probs=41.8
Q ss_pred HHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHH
Q 033597 22 RDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQ 86 (115)
Q Consensus 22 ~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~ 86 (115)
++.+.+-++++.+...-+.|....+....-.-+.-|+.|+.+-+.=|++.|+-..+.+.|-+.++
T Consensus 325 k~~~~lgs~Lf~R~VsG~RvV~~~~~~~tsh~~~yp~~Ylt~AsaiG~~~eevd~~v~rL~k~i~ 389 (389)
T PF05889_consen 325 KDGTFLGSMLFKRGVSGIRVVTPGGKKQTSHSSNYPCPYLTAASAIGMTREEVDYFVKRLDKIIK 389 (389)
T ss_dssp SHHHHHHHHHHHTTEESSEEEETSSCEEETTSS--SSSEEEEEE-TT--HHHHHHHHHHHHHHHH
T ss_pred chhhhHHHHHHhCCcccceeeccCCCcccccCCCCchHHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 56677788888887776665443333333233347999999966656999999999988877663
No 248
>COG2004 RPS24A Ribosomal protein S24E [Translation, ribosomal structure and biogenesis]
Probab=27.62 E-value=98 Score=19.22 Aligned_cols=39 Identities=21% Similarity=0.123 Sum_probs=25.8
Q ss_pred EEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 60 YGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 60 ~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.+.+.--|.-+|.. ..+-+.|.+.||.++++++|....-
T Consensus 21 ~~~v~h~g~~TPSr-----~evrekla~~l~~d~e~VvV~~ikt 59 (107)
T COG2004 21 VFVVYHEGSPTPSR-----KEVREKLAAMLGADKELVVVDYIKT 59 (107)
T ss_pred EEEEEeCCCCCCCH-----HHHHHHHHHHHCCCcceEEEEehhh
Confidence 34444344445554 3456677888999999999877654
No 249
>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=27.38 E-value=1.9e+02 Score=22.55 Aligned_cols=36 Identities=11% Similarity=0.089 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeC-CceEEec
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILING-GVPIAFA 52 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~-~~~~~~g 52 (115)
+++.++++.+.++..+|.|+....-.+.+ +.....+
T Consensus 200 ~~~~~~~iy~il~~~lG~pP~~F~~~y~dkd~~~~~~ 236 (437)
T cd00585 200 KEEMLKEVYRILAIALGEPPEKFDWEYRDKDKKYHEI 236 (437)
T ss_pred HHHHHHHHHHHHHHHcCCCCceEEEEEEeCCCCeeeC
Confidence 57788999999999999999877666543 3444444
No 250
>PF15603 Imm45: Immunity protein 45
Probab=27.14 E-value=1.4e+02 Score=17.53 Aligned_cols=51 Identities=16% Similarity=0.214 Sum_probs=32.0
Q ss_pred ceeEEEEeCCc------eEEeccCCCce-eEEEEEeec---------CCChhhhHHHHHHHHHHHHh
Q 033597 37 SYVMILINGGV------PIAFAGTEAPA-AYGELISIG---------SLGPSVNGKLSSTIAEILQT 87 (115)
Q Consensus 37 ~~i~v~~~~~~------~~~~gg~~~p~-~~v~i~~~~---------~~~~~~~~~~~~~i~~~l~~ 87 (115)
+++.+.+..|. .|++++.+.+. ..+-..++. .++..+.+++..++.+.+.+
T Consensus 8 s~i~~el~~G~~~~~~GE~l~~~~~~~~~Fvvy~~si~~We~P~e~~~it~~e~q~II~aI~~~~~~ 74 (82)
T PF15603_consen 8 SYITFELEEGARRKAQGEMLLTGNDNDGDFVVYKDSIKNWEPPHENEPITIAERQKIIEAIEKYFSE 74 (82)
T ss_pred CceEEEecCCEEEEEeeeEEEeccCCCcCEEEEccccccccCCCCCcccCHHHHHHHHHHHHHHHhc
Confidence 45566655443 45555666666 555555664 36777788888888877764
No 251
>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=27.13 E-value=73 Score=23.60 Aligned_cols=24 Identities=13% Similarity=0.153 Sum_probs=20.6
Q ss_pred HHHHHHHhHhCCCCCceEEEEEec
Q 033597 80 TIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 80 ~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+..+.+.+.+||+|+++|+.+.+.
T Consensus 146 ~v~~~vA~~cgv~p~~l~~lvapT 169 (312)
T cd00545 146 EVAEKVAAECGVDPENVTLIVAPT 169 (312)
T ss_pred HHHHHHHHHcCCCHHHEEEEEecC
Confidence 467888889999999999988765
No 252
>PRK00341 hypothetical protein; Provisional
Probab=26.92 E-value=1.2e+02 Score=18.02 Aligned_cols=36 Identities=25% Similarity=0.286 Sum_probs=23.1
Q ss_pred ceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCce
Q 033597 57 PAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 57 p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
||.-..++.+|. ....+..++.+.++++.....+.+
T Consensus 14 Pc~~~~~KViG~----~~~~~~~~V~~iv~~~~~~~~~~~ 49 (91)
T PRK00341 14 PCEDYPIKVIGD----TGVGFKDLVIEILQKHADVDLSTL 49 (91)
T ss_pred CCCCccEEEEEc----CchhHHHHHHHHHHHhCCCcccce
Confidence 765577888884 344566777777777665554443
No 253
>PF08869 XisI: XisI protein; InterPro: IPR014968 The fdxN element, along with two other DNA elements, is excised from the chromosome during heterocyst differentiation in cyanobacteria. The xisH as well as the xisF and xisI genes are required []. ; PDB: 3D7Q_A 2NWV_A 2NVM_A 2NLV_B.
Probab=26.87 E-value=21 Score=22.31 Aligned_cols=22 Identities=18% Similarity=0.104 Sum_probs=13.7
Q ss_pred HHHHHHhHhCCCCCceEEEEEec
Q 033597 81 IAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 81 i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
|++.|. ++|||+++|.+-|++.
T Consensus 79 Ia~eLv-e~GVpk~dIVLgF~~P 100 (111)
T PF08869_consen 79 IAEELV-EAGVPKEDIVLGFHPP 100 (111)
T ss_dssp HHHHHH-HTT--GGGEEETTS-G
T ss_pred HHHHHH-HcCCCHHHEEEccCCc
Confidence 334444 4899999999998876
No 254
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.71 E-value=64 Score=22.35 Aligned_cols=23 Identities=9% Similarity=0.148 Sum_probs=19.7
Q ss_pred cCCChhhhHHHHHHHHHHHHhHh
Q 033597 67 GSLGPSVNGKLSSTIAEILQTKL 89 (115)
Q Consensus 67 ~~~~~~~~~~~~~~i~~~l~~~L 89 (115)
...+|+++++|.+++.+.|++..
T Consensus 85 k~aspeQ~~~F~~aF~~yl~q~Y 107 (202)
T COG2854 85 KTASPEQRQAFFKAFRTYLEQTY 107 (202)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHH
Confidence 34689999999999999998765
No 255
>COG1550 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.59 E-value=1.6e+02 Score=17.90 Aligned_cols=36 Identities=14% Similarity=0.023 Sum_probs=28.9
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
..+++...+..+-.+|+.+.+-+...|++.++|+-.
T Consensus 6 ~~~~l~~~~v~sLKeKRavlr~iv~rLk~KFnvSva 41 (95)
T COG1550 6 LECELRLYDVRSLKEKRAVLRPIVTRLKNKFNVSVA 41 (95)
T ss_pred EEEEEEecccccHHHHHHHHHHHHHHHHHhcceeee
Confidence 455666566688999999999999999999987643
No 256
>COG3221 PhnD ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=26.51 E-value=2.4e+02 Score=20.69 Aligned_cols=32 Identities=16% Similarity=0.051 Sum_probs=26.5
Q ss_pred EEEEeecCCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 61 GELISIGSLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 61 v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
+.+-.+..-++++..+..+-|.+.|+++||++
T Consensus 37 l~~gi~p~e~~~~~~~~~~pl~~~L~~~lG~~ 68 (299)
T COG3221 37 LRVGIVPTENPTNLIPAWAPLADYLEKELGIP 68 (299)
T ss_pred eEEEEcCCCChHHHHHHHHHHHHHHHHHhCCc
Confidence 44555555678888899999999999999999
No 257
>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=26.42 E-value=77 Score=23.49 Aligned_cols=24 Identities=13% Similarity=0.205 Sum_probs=20.6
Q ss_pred HHHHHHHhHhCCCCCceEEEEEec
Q 033597 80 TIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 80 ~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+..+.+.+.+||+|+++|+.+.+.
T Consensus 146 ~v~~~vA~~cgv~p~~l~~lvapT 169 (312)
T TIGR03120 146 EVAEYIADECGVDPENLTLLVAPT 169 (312)
T ss_pred HHHHHHHHHcCCCHHHEEEEEecC
Confidence 467788889999999999988765
No 258
>PRK04980 hypothetical protein; Provisional
Probab=26.07 E-value=1.3e+02 Score=18.53 Aligned_cols=35 Identities=14% Similarity=0.151 Sum_probs=22.0
Q ss_pred eCCceEEec--cCCCceeEEEEEeecCCC-hhhhHHHH
Q 033597 44 NGGVPIAFA--GTEAPAAYGELISIGSLG-PSVNGKLS 78 (115)
Q Consensus 44 ~~~~~~~~g--g~~~p~~~v~i~~~~~~~-~~~~~~~~ 78 (115)
.+|+..... +...|.+-+++.+...+. .+-+.++|
T Consensus 33 ~~G~~~~V~~~e~g~~~c~ieI~sV~~i~f~eLte~hA 70 (102)
T PRK04980 33 KPGDVLRVGTFEDDRYFCTIEVLSVSPVTFDELNEKHA 70 (102)
T ss_pred CCCCEEEEEECCCCcEEEEEEEEEEEEEehhhCCHHHH
Confidence 356666665 667888888888875533 33344444
No 259
>PRK04217 hypothetical protein; Provisional
Probab=26.04 E-value=1.6e+02 Score=18.20 Aligned_cols=62 Identities=11% Similarity=-0.000 Sum_probs=34.9
Q ss_pred CCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCCChhhhHHHHHHH-----HHHHHhHhCCCCCceE
Q 033597 33 GKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTI-----AEILQTKLLIDSSRFY 97 (115)
Q Consensus 33 ~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i-----~~~l~~~Lgv~~~ri~ 97 (115)
|+|.+--||.+.++.+.+.- +-.||.- . .....++++++..+.... .+.+.+.||++..-+|
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~-~p~~~Lt~eereai~l~~~eGlS~~EIAk~LGIS~sTV~ 76 (110)
T PRK04217 10 GRRRKMRMIGFIPQVRHFYP-AIPPVGP-P-KPPIFMTYEEFEALRLVDYEGLTQEEAGKRMGVSRGTVW 76 (110)
T ss_pred CCCCCCeEeeccCCcceEeC-CCCCccC-C-CCcccCCHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHH
Confidence 45666677888877654443 1222110 0 114447777765554444 4568888888876554
No 260
>PRK03557 zinc transporter ZitB; Provisional
Probab=25.65 E-value=2.5e+02 Score=20.48 Aligned_cols=28 Identities=7% Similarity=-0.031 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCC
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGG 46 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~ 46 (115)
.+++.+++.+.+.+.++ ...++|++++.
T Consensus 265 ~~~i~~~i~~~l~~~~~--i~~vtIh~e~~ 292 (312)
T PRK03557 265 HDALLDRIQDYLMHHYQ--IEHATIQMEYQ 292 (312)
T ss_pred HHHHHHHHHHHHHHhCC--CCEEEEEeccC
Confidence 56788888888887764 66899999875
No 261
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=25.31 E-value=1.9e+02 Score=20.19 Aligned_cols=37 Identities=11% Similarity=0.031 Sum_probs=30.7
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCC
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERS 106 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~ 106 (115)
.+.+-..++.+...-+....+++..++++.++|++-.
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 3667777888888888888999999999999998643
No 262
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=25.22 E-value=1.1e+02 Score=18.38 Aligned_cols=33 Identities=12% Similarity=0.143 Sum_probs=22.8
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+...+++-+-.+...+.++|++|.+..++ +.|+
T Consensus 38 ~~k~~K~ai~~Fi~ack~~L~~~~~e~Ft-Isdl 70 (89)
T PF06395_consen 38 DLKVCKKAIYKFIQACKQELGFPDEELFT-ISDL 70 (89)
T ss_pred hHHHHHHHHHHHHHHHHHhcCCCccceee-eecc
Confidence 34556666666777788899999888765 3444
No 263
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=25.18 E-value=82 Score=22.25 Aligned_cols=25 Identities=16% Similarity=0.153 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 76 KLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 76 ~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
--...+++.+.++|+++|+++.+.-
T Consensus 200 ~tY~~la~~Va~~l~~dP~~lr~~~ 224 (249)
T PF12436_consen 200 MTYDQLAEKVAEHLNVDPEHLRFFT 224 (249)
T ss_dssp --HHHHHHHHHHHHTS-GGGEEEE-
T ss_pred CCHHHHHHHHHHHHCCChHHEEEEE
Confidence 3456788889999999998775443
No 264
>COG4324 Predicted aminopeptidase [General function prediction only]
Probab=25.12 E-value=1.5e+02 Score=21.86 Aligned_cols=34 Identities=21% Similarity=0.268 Sum_probs=28.3
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEEecCCCCceec
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFN 111 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~ 111 (115)
+.+|-.+-+++|++|-++-|=.|.|+...+.-||
T Consensus 87 A~aiR~fAseeL~LPDN~SYR~YadIgRp~vvwn 120 (376)
T COG4324 87 ASAIRRFASEELALPDNSSYRSYADIGRPDVVWN 120 (376)
T ss_pred HHHHHHHHHHhccCCCCcceeeeeccCCcceeee
Confidence 4567788999999999999999999877766554
No 265
>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.
Probab=25.10 E-value=1.6e+02 Score=17.55 Aligned_cols=25 Identities=4% Similarity=-0.004 Sum_probs=16.6
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDS 93 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~ 93 (115)
.+..+.++++..+.+.+.++.|..+
T Consensus 38 ~S~rh~~aia~~v~~~~~k~~~~~~ 62 (100)
T PF02410_consen 38 RSERHVRAIADEVEKALKKEYGERP 62 (100)
T ss_dssp SSHHHHHHHHHHHHHHH-HHTT---
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCcc
Confidence 6677888888888888866665443
No 266
>KOG2112 consensus Lysophospholipase [Lipid transport and metabolism]
Probab=25.04 E-value=1.5e+02 Score=20.63 Aligned_cols=65 Identities=12% Similarity=0.091 Sum_probs=40.4
Q ss_pred CCcceeEEEEeCCceEEeccCCCceeEEEEEee---cCCChhhhHHHHHHHHHHHHhHh--CCCCCceEEE
Q 033597 34 KSESYVMILINGGVPIAFAGTEAPAAYGELISI---GSLGPSVNGKLSSTIAEILQTKL--LIDSSRFYIK 99 (115)
Q Consensus 34 kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~---~~~~~~~~~~~~~~i~~~l~~~L--gv~~~ri~i~ 99 (115)
+..++|+=+-.....-.++|-.-++ ...+..+ +..+.+...+-+..+..++.++. |++++||.|-
T Consensus 29 ~NiKwIcP~aP~rpvt~~~G~~~~a-Wfd~~~~~~~~~~d~~~~~~aa~~i~~Li~~e~~~Gi~~~rI~ig 98 (206)
T KOG2112|consen 29 PNIKWICPTAPSRPVTLNGGAFMNA-WFDIMELSSDAPEDEEGLHRAADNIANLIDNEPANGIPSNRIGIG 98 (206)
T ss_pred CCeeEEcCCCCCCcccccCCCcccc-eecceeeCcccchhhhHHHHHHHHHHHHHHHHHHcCCCccceeEc
Confidence 4445555433333445555555554 4444433 33456667788888888888877 7999999874
No 267
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=24.98 E-value=2.7e+02 Score=20.02 Aligned_cols=38 Identities=16% Similarity=0.225 Sum_probs=24.5
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeC
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILING 45 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~ 45 (115)
.+.|+|-.+.++++.+ .|.+.+++.+|++. .+.+.++|
T Consensus 202 ~a~VtSA~pLs~~q~~----~L~~~L~k~~g~~V-~l~~~VDp 239 (271)
T PRK13430 202 VATVTTAVPLSDEQKQ----RLAAALSRIYGRPV-HLNSEVDP 239 (271)
T ss_pred EEEEEecCCCCHHHHH----HHHHHHHHHHCCce-EEEeeECc
Confidence 3578888888776655 55666666788753 34455554
No 268
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=24.96 E-value=1.2e+02 Score=17.48 Aligned_cols=24 Identities=13% Similarity=0.048 Sum_probs=18.9
Q ss_pred hhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 71 PSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 71 ~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
++++++.+++....|.+.-+++++
T Consensus 57 a~ekKr~a~~eaR~Lae~~~i~~~ 80 (81)
T KOG4326|consen 57 AAEKKRWAKDEARYLAEVVNIPFE 80 (81)
T ss_pred HHHHHhhHHHHHHHHHHhccCCCC
Confidence 456778888899999888787765
No 269
>KOG3332 consensus N-acetylglucosaminyl phosphatidylinositol de-N-acetylase [Cell wall/membrane/envelope biogenesis]
Probab=24.93 E-value=2.6e+02 Score=19.93 Aligned_cols=63 Identities=22% Similarity=0.160 Sum_probs=35.8
Q ss_pred CcceeEEEEe--CCceEEeccCC----Cce--eEEEEEeecC---CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 35 SESYVMILIN--GGVPIAFAGTE----APA--AYGELISIGS---LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 35 p~~~i~v~~~--~~~~~~~gg~~----~p~--~~v~i~~~~~---~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
+++++...+- ++..|.|+-+- ..+ .++-+.|.|. .+...++++.++ ...||+|.+++.+.-.+
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 4455554443 46679999221 222 3444444443 456666666655 34689998888775443
No 270
>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=24.78 E-value=84 Score=26.78 Aligned_cols=33 Identities=21% Similarity=0.171 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecC
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNG 112 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G 112 (115)
+++-+.---++| +.||+|++||.- ...-|..||
T Consensus 159 K~EaI~~a~e~l-~~lgi~~~~i~~-----~enfW~~GG 191 (902)
T TIGR03683 159 KDETVEYCFEFL-EELGIDPEEITY-----KESPWEGGG 191 (902)
T ss_pred HHHHHHHHHHHH-HHcCCCHHHeee-----cCCccCCCC
Confidence 455666667888 889999999844 234565444
No 271
>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=24.75 E-value=1.6e+02 Score=17.25 Aligned_cols=35 Identities=17% Similarity=0.068 Sum_probs=23.0
Q ss_pred eeEEEEEeecC-CChhhhHHHHHHHHHHHHhHhCCC
Q 033597 58 AAYGELISIGS-LGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 58 ~~~v~i~~~~~-~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
|.-+.+++... ++.++-.++..++.+.|++.+|+.
T Consensus 57 ~~rl~~~~~~~TLt~~ev~~~~~~i~~~l~~~~~~~ 92 (94)
T PF03147_consen 57 TYRLTYQSPDRTLTDEEVNEIHDKIIKALEKKLGAE 92 (94)
T ss_dssp EEEEEE--SSS---HHHHHHHHHHHHHHHHHTCT-B
T ss_pred EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHhCcE
Confidence 34444555443 788999999999999999999864
No 272
>PRK13669 hypothetical protein; Provisional
Probab=24.54 E-value=1.6e+02 Score=17.21 Aligned_cols=42 Identities=17% Similarity=0.014 Sum_probs=29.5
Q ss_pred EeCCceEEec-cCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHh
Q 033597 43 INGGVPIAFA-GTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQT 87 (115)
Q Consensus 43 ~~~~~~~~~g-g~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~ 87 (115)
++.+..-+-| +...|.|+|+=+.+.+-++++ +.+.|.+.|++
T Consensus 32 ie~gCls~CG~C~~~~FAlVng~~V~a~t~ee---L~~kI~~~i~e 74 (78)
T PRK13669 32 LEYGCLGYCGICSEGLFALVNGEVVEGETPEE---LVENIYAHLEE 74 (78)
T ss_pred EEcchhhhCcCcccCceEEECCeEeecCCHHH---HHHHHHHHHhh
Confidence 4455555555 567899999888777766665 67777777665
No 273
>PLN02994 1-aminocyclopropane-1-carboxylate synthase
Probab=24.50 E-value=1e+02 Score=20.11 Aligned_cols=27 Identities=11% Similarity=0.122 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHHhHhC----CCCCceEEE
Q 033597 73 VNGKLSSTIAEILQTKLL----IDSSRFYIK 99 (115)
Q Consensus 73 ~~~~~~~~i~~~l~~~Lg----v~~~ri~i~ 99 (115)
-..++-+++++++.+..| +++++|.+.
T Consensus 93 G~~~lR~AiA~~l~~~~g~~v~~~pd~Ivvt 123 (153)
T PLN02994 93 GLANFRKAIANFMAEARGGRVKFDADMIVLS 123 (153)
T ss_pred CcHHHHHHHHHHHHHHhCCCCccchhheEEc
Confidence 346677888888888866 568887764
No 274
>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=24.50 E-value=1.1e+02 Score=16.93 Aligned_cols=25 Identities=8% Similarity=0.316 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+-+.+++..|+|+++..+.|.
T Consensus 20 tV~~lK~~I~~~~gi~~~~q~L~~~ 44 (74)
T cd01810 20 TVATLKQQVSQRERVQADQFWLSFE 44 (74)
T ss_pred hHHHHHHHHHHHhCCCHHHeEEEEC
Confidence 4667778888889999999988764
No 275
>PRK13987 cell division topological specificity factor MinE; Provisional
Probab=24.48 E-value=1.7e+02 Score=17.55 Aligned_cols=36 Identities=22% Similarity=0.350 Sum_probs=31.3
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
.+|+.-..+=+.|.+.+.+...|.++.+-|.+..-+
T Consensus 32 ~sp~~l~~lk~eIl~VI~kYv~Id~~~v~i~l~~~~ 67 (91)
T PRK13987 32 ISPDVLEMIKEDILKVISKYVEIDNEDVDIKMTKSE 67 (91)
T ss_pred CCHHHHHHHHHHHHHHHHHheeeCccceEEEEEeCC
Confidence 567778888889999999999999999999998754
No 276
>PRK08474 F0F1 ATP synthase subunit delta; Validated
Probab=24.46 E-value=2.1e+02 Score=18.89 Aligned_cols=28 Identities=14% Similarity=0.221 Sum_probs=19.3
Q ss_pred EEEEeCCCCCccCHHHHHHHHHHHHHHHhCCC
Q 033597 4 LNLYTNVPVDAVIASDILRDATKAVAKILGKS 35 (115)
Q Consensus 4 i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp 35 (115)
++|.|..+.++.+ .+.+.+.+++.+|+.
T Consensus 106 ~~V~SA~~Ls~~q----~~~i~~~l~~~~g~~ 133 (176)
T PRK08474 106 GVVYSNEKLSEET----LKKLEEKLSKKFNAK 133 (176)
T ss_pred EEEEECccCCHHH----HHHHHHHHHHHhCCe
Confidence 5677877776554 456677777788873
No 277
>TIGR03244 arg_catab_AstA arginine N-succinyltransferase. In many bacteria, the arginine succinyltransferase (ast) pathway operon consists of five genes, including this protein, arginine N-succinyltransferase (EC 2.3.1.109). In a few species, such as Pseudomonas aeruginosa, the member of this family is encoded adjacent to a paralog, and the two polypeptides form a heterodimeric enzyme, active on both arginine and ornithine. In such species, this polypeptide may be treated as the beta subunit of an enzyme that may be named either arginine N-succinyltransferase (AST) or arginine and orthithine N-succinyltransferase (AOST).
Probab=24.41 E-value=2.5e+02 Score=21.10 Aligned_cols=63 Identities=14% Similarity=0.207 Sum_probs=38.1
Q ss_pred eCCCCCccCHHHHHHHHHHHHHHHhC----CCcceeEEEEeCCceEEec--------cCCCceeEEEEEeecCCChhh
Q 033597 8 TNVPVDAVIASDILRDATKAVAKILG----KSESYVMILINGGVPIAFA--------GTEAPAAYGELISIGSLGPSV 73 (115)
Q Consensus 8 tn~~~~~~~~~~~~~~l~~~~a~~~~----kp~~~i~v~~~~~~~~~~g--------g~~~p~~~v~i~~~~~~~~~~ 73 (115)
||++.+ .+.+.+.|.......-+ .++.|+.|.-+....-..| |..+|.....+...-.-+++.
T Consensus 25 TsLP~d---~~~L~~rI~~S~~sF~~~~~~~~~~YlFVLEDt~tg~vvGts~I~a~vG~~~PfY~yr~~~~vhaS~~L 99 (336)
T TIGR03244 25 TSLPAN---EDLLSARIERAEKTFSGELTRAEQGYLFVLEDTETGTVAGVSAIEAAVGLEEPFYNYRVGTVVHASKEL 99 (336)
T ss_pred ccCCCC---HHHHHHHHHHHHHHhcCcCCCCCccEEEEEEeCCCCeEEEEEeEEecccCCCCCEEEEcCceeecCccc
Confidence 555443 46777777766665533 2355777765544444445 778898888877654444433
No 278
>KOG1321 consensus Protoheme ferro-lyase (ferrochelatase) [Coenzyme transport and metabolism]
Probab=24.39 E-value=1.3e+02 Score=22.62 Aligned_cols=32 Identities=16% Similarity=0.141 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHHHHhHhC--CCC--CceEEEEEecC
Q 033597 73 VNGKLSSTIAEILQTKLL--IDS--SRFYIKLYDVE 104 (115)
Q Consensus 73 ~~~~~~~~i~~~l~~~Lg--v~~--~ri~i~f~~~~ 104 (115)
+++-+++++++.++++|+ ..+ +.+.|.|.-+.
T Consensus 201 t~~glIkafA~~I~keL~~F~~~~r~~VVIlFSAHs 236 (395)
T KOG1321|consen 201 TREGLIKAFAENIEKELQTFPEPVRDDVVILFSAHS 236 (395)
T ss_pred ccchHHHHHHHHHHHHHHhcCCcccccEEEEEecCC
Confidence 456688889999999987 223 78888887653
No 279
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=24.37 E-value=1e+02 Score=21.72 Aligned_cols=34 Identities=9% Similarity=-0.068 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCce
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFG 109 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g 109 (115)
..+.+++.+.|. ++|++++||+..++..=.--.|
T Consensus 201 ~~mv~~~~~~L~-~~Gv~~~~i~~~~~~~m~cg~g 234 (263)
T PRK08221 201 PIMMKFTVLEFL-KRGIKEENIWVSYERKMCCGVG 234 (263)
T ss_pred HHHHHHHHHHHH-HcCCCHHHEEEEecceeEccCc
Confidence 557788888884 6899999999998766433333
No 280
>PRK13988 cell division topological specificity factor MinE; Provisional
Probab=24.35 E-value=1.8e+02 Score=17.71 Aligned_cols=36 Identities=19% Similarity=0.252 Sum_probs=30.9
Q ss_pred CCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 68 SLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 68 ~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+.+|+.-.++=+.|.+.+.+...|+++.+-|.+..-
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 366788888889999999999999999999998764
No 281
>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=24.26 E-value=1.7e+02 Score=22.71 Aligned_cols=31 Identities=16% Similarity=0.185 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHhHhCCCCCceEEEEEecC
Q 033597 74 NGKLSSTIAEILQTKLLIDSSRFYIKLYDVE 104 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~ 104 (115)
+.++-+++.+.|...||.||+.....|.|-+
T Consensus 200 ~~~~~~~iy~il~~~lG~pP~~F~~~y~dkd 230 (437)
T cd00585 200 KEEMLKEVYRILAIALGEPPEKFDWEYRDKD 230 (437)
T ss_pred HHHHHHHHHHHHHHHcCCCCceEEEEEEeCC
Confidence 5667788888899999999999999887765
No 282
>cd06193 siderophore_interacting Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from transferrin and lactoferrin for bacterial uptake, contributing to pathogen virulence. Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hy
Probab=24.25 E-value=92 Score=21.40 Aligned_cols=25 Identities=8% Similarity=0.135 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
..+.+++.+.+.+++|++++||+..
T Consensus 207 ~~mv~~v~~~l~~~~g~~~~~i~~~ 231 (235)
T cd06193 207 AGAVRALRRHLREERGVPRAQVYAS 231 (235)
T ss_pred HHHHHHHHHHHHHccCCCHHHEEEE
Confidence 4578888888988899999998753
No 283
>PRK00296 minE cell division topological specificity factor MinE; Reviewed
Probab=24.25 E-value=1.6e+02 Score=17.33 Aligned_cols=32 Identities=22% Similarity=0.364 Sum_probs=27.4
Q ss_pred hhhhHHHHHHHHHHHHhHhCCCCCceEEEEEe
Q 033597 71 PSVNGKLSSTIAEILQTKLLIDSSRFYIKLYD 102 (115)
Q Consensus 71 ~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~ 102 (115)
|+.-.++=+.|.+.+.+...|+++++-|.+..
T Consensus 36 p~~l~~lk~dIl~VIsKY~~Id~~~v~i~l~~ 67 (86)
T PRK00296 36 PDYLPQLRKEILEVIAKYVQIDPDKVSVQLDK 67 (86)
T ss_pred HHHHHHHHHHHHHHHHHheecChhhEEEEEEe
Confidence 55667788888999999999999999999874
No 284
>COG1907 Predicted archaeal sugar kinases [General function prediction only]
Probab=23.95 E-value=3.1e+02 Score=20.39 Aligned_cols=35 Identities=11% Similarity=0.165 Sum_probs=26.3
Q ss_pred HHHHHHHHhHhCCCCCceEEEEEecCCCCceecCcc
Q 033597 79 STIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGST 114 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~t 114 (115)
..+-+.+...|..+ ..++|.+...-|.+.|.+.+|
T Consensus 56 ~~~~~~a~~~le~~-~gv~I~I~~~~P~HvGLGS~T 90 (312)
T COG1907 56 ERVEKAARLVLEVG-EGVKIEIRSDIPAHVGLGSTT 90 (312)
T ss_pred HHHHHHHHHhhccc-CceEEEEEecCchhcCCChHH
Confidence 44455555555555 778999999999999998876
No 285
>PF03190 Thioredox_DsbH: Protein of unknown function, DUF255; InterPro: IPR004879 This is a group of uncharacterised proteins.; PDB: 3IRA_A.
Probab=23.93 E-value=2.3e+02 Score=18.90 Aligned_cols=51 Identities=16% Similarity=0.150 Sum_probs=26.5
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCc
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAP 57 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p 57 (115)
+|-|+.+...-++ .+......++++...-|=| ..|-+.|+....+||+.-|
T Consensus 73 FI~VkvDree~Pd-id~~y~~~~~~~~~~gGwP---l~vfltPdg~p~~~~tY~P 123 (163)
T PF03190_consen 73 FIPVKVDREERPD-IDKIYMNAVQAMSGSGGWP---LTVFLTPDGKPFFGGTYFP 123 (163)
T ss_dssp -EEEEEETTT-HH-HHHHHHHHHHHHHS---SS---EEEEE-TTS-EEEEESS--
T ss_pred EEEEEeccccCcc-HHHHHHHHHHHhcCCCCCC---ceEEECCCCCeeeeeeecC
Confidence 4556665543332 3445555555555444555 7788888888899887744
No 286
>TIGR03245 arg_AOST_alph arginine/ornithine succinyltransferase, alpha subunit. In some bacteria, including Pseudomonas aeruginosa, the astB gene (arginine N-succinyltransferase) is replaced by tandem paralogs that form a heterodimer. This heterodimer from P. aeruginosa is characterized as arginine and ornithine N-2 succinyltransferase (AOST). Members of this protein family represent the less widespread paralog, designated AruI, or arginine/ornithine succinyltransferase, alpha subunit.
Probab=23.91 E-value=2.8e+02 Score=20.83 Aligned_cols=63 Identities=13% Similarity=0.170 Sum_probs=37.3
Q ss_pred eCCCCCccCHHHHHHHHHHHHHHH---hC--CCcceeEEEEeCCceEEec--------cCCCceeEEEEEeecCCChhh
Q 033597 8 TNVPVDAVIASDILRDATKAVAKI---LG--KSESYVMILINGGVPIAFA--------GTEAPAAYGELISIGSLGPSV 73 (115)
Q Consensus 8 tn~~~~~~~~~~~~~~l~~~~a~~---~~--kp~~~i~v~~~~~~~~~~g--------g~~~p~~~v~i~~~~~~~~~~ 73 (115)
||++.+ .+.+.+.|....... -. .++.|+.|.-+....-..| |..+|.....+...-.-+++.
T Consensus 25 TsLP~d---~~~L~~rI~~S~~sF~~~~~~~~~~~YlFVLEDt~tg~vvGts~I~a~vG~~~PfY~yr~~~~vhaS~~L 100 (336)
T TIGR03245 25 TSLPAD---RAKLGEKIAQSERSFAAEVSFVGEERYLFVLEDTETGKLLGTSSIVASAGYGEPFYSYRNDTLIHASREL 100 (336)
T ss_pred ccCCCC---HHHHHHHHHHHHHHHHhhcCCCCCccEEEEEEeCCCCcEEEEEeEEecccCCCCCEEEEcCceeecCccc
Confidence 555543 456777776655544 22 3355787766544344444 778898888877654444443
No 287
>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=23.90 E-value=80 Score=27.04 Aligned_cols=29 Identities=10% Similarity=0.126 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEEecCC
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLYDVER 105 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~ 105 (115)
.-..+.....+.||+|.++|.|..-|-+.
T Consensus 686 ~~T~~~QiaAe~LGvp~d~V~v~~~DT~~ 714 (951)
T TIGR03313 686 LDTVVSKLTAEVLHCPMDDVHVISGDTDH 714 (951)
T ss_pred HHHHHHHHHHHHHCCCHHhEEEEeCCCCC
Confidence 34456667778999999999999987743
No 288
>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=23.60 E-value=1e+02 Score=19.91 Aligned_cols=25 Identities=12% Similarity=0.222 Sum_probs=21.6
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
-+|+++..+..-+++.+ +.+++|..
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 56889999999999999 88999864
No 289
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=23.57 E-value=2.1e+02 Score=18.37 Aligned_cols=65 Identities=25% Similarity=0.257 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecCC-------ChhhhHHHHHHHHHHH
Q 033597 17 ASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGSL-------GPSVNGKLSSTIAEIL 85 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~-------~~~~~~~~~~~i~~~l 85 (115)
.+.+.+.+...+++..+.|...+. ......+-.+..|+.++|+-.+... +++...+++++|.+-|
T Consensus 100 s~~lA~~l~~~l~~~~~~~~rg~~----~~~l~~l~~t~~PavlvE~~f~~n~~D~~~l~~~~~~~~ia~ai~~gi 171 (172)
T cd02696 100 SKRLAEAIQKELVKALGLRNRGVK----QANLYVLRNTKMPAVLVELGFISNPEDAKLLNSPEYQDKIAEAIAEGI 171 (172)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCee----ECCeEEecCCCCCEEEEEecccCCHHHHHHhCCHHHHHHHHHHHHHHh
Confidence 577888888888888764443221 1123444456699999999876442 2334556666665543
No 290
>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=23.55 E-value=1.7e+02 Score=17.31 Aligned_cols=34 Identities=12% Similarity=0.128 Sum_probs=24.8
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
..+++...+..+-..|++..+-|.+-+.+.+++.
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 4566666777899999999999999999988764
No 291
>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=23.54 E-value=31 Score=18.86 Aligned_cols=35 Identities=6% Similarity=-0.020 Sum_probs=20.6
Q ss_pred eeEEEEEeecC-CChhhhHHHHHHHHHHHHhHhCCC
Q 033597 58 AAYGELISIGS-LGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 58 ~~~v~i~~~~~-~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
..++.+...+| +++++-+.+++...++=...+.+.
T Consensus 9 ~~~v~~~~~~G~i~~~~l~~la~ia~~yg~~~irlT 44 (69)
T PF03460_consen 9 FYMVRIRIPGGRISAEQLRALAEIAEKYGDGEIRLT 44 (69)
T ss_dssp EEEEEEB-GGGEEEHHHHHHHHHHHHHHSTSEEEEE
T ss_pred EEEEEEeCCCEEECHHHHHHHHHHHHHhCCCeEEEC
Confidence 35777887766 788877776666544433344443
No 292
>cd06183 cyt_b5_reduct_like Cytochrome b5 reductase catalyzes the reduction of 2 molecules of cytochrome b5 using NADH as an electron donor. Like ferredoxin reductases, these proteins have an N-terminal FAD binding subdomain and a C-terminal NADH binding subdomain, separated by a cleft, which accepts FAD. The NADH-binding moiety interacts with part of the FAD and resembles a Rossmann fold. However, NAD is bound differently than in canonical Rossmann fold proteins. Nitrate reductases, flavoproteins similar to pyridine nucleotide cytochrome reductases, catalyze the reduction of nitrate to nitrite. The enzyme can be divided into three functional fragments that bind the cofactors molybdopterin, heme-iron, and FAD/NADH.
Probab=23.40 E-value=74 Score=21.45 Aligned_cols=23 Identities=9% Similarity=0.210 Sum_probs=18.2
Q ss_pred HHHHH-HHHHHHHhHhCCCCCceEE
Q 033597 75 GKLSS-TIAEILQTKLLIDSSRFYI 98 (115)
Q Consensus 75 ~~~~~-~i~~~l~~~Lgv~~~ri~i 98 (115)
..+.+ ++.+.+. ++|+++++|++
T Consensus 210 ~~~~~~~~~~~l~-~~G~~~~~i~~ 233 (234)
T cd06183 210 PPMIEGAVKGLLK-ELGYKKDNVFK 233 (234)
T ss_pred HHHHHHHHHHHHH-HcCCCHHHEEe
Confidence 44667 8888885 69999999986
No 293
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=23.33 E-value=3.5e+02 Score=20.79 Aligned_cols=44 Identities=23% Similarity=0.366 Sum_probs=29.4
Q ss_pred CceeEEEEEee-cCCC-hhh-hHHHHHHHHHH-------HHhHh---CCCCCceEEE
Q 033597 56 APAAYGELISI-GSLG-PSV-NGKLSSTIAEI-------LQTKL---LIDSSRFYIK 99 (115)
Q Consensus 56 ~p~~~v~i~~~-~~~~-~~~-~~~~~~~i~~~-------l~~~L---gv~~~ri~i~ 99 (115)
-|.++++--.. +.+. ||+ |++++..++++ -.+.| |++++||++.
T Consensus 117 IpV~HvEAGlRt~~~~~PEE~NR~l~~~~S~~hfapte~ar~nLl~EG~~~~~Ifvt 173 (383)
T COG0381 117 IPVGHVEAGLRTGDLYFPEEINRRLTSHLSDLHFAPTEIARKNLLREGVPEKRIFVT 173 (383)
T ss_pred CceEEEecccccCCCCCcHHHHHHHHHHhhhhhcCChHHHHHHHHHcCCCccceEEe
Confidence 57777775432 2233 554 99999998876 22333 8999999885
No 294
>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=23.25 E-value=1.3e+02 Score=15.98 Aligned_cols=35 Identities=20% Similarity=0.317 Sum_probs=24.5
Q ss_pred eecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEE
Q 033597 65 SIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIK 99 (115)
Q Consensus 65 ~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~ 99 (115)
.+|..+.....++=-++.-.+.+.|+++..++++.
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 34555555555555566777889999998888775
No 295
>COG0851 MinE Septum formation topological specificity factor [Cell division and chromosome partitioning]
Probab=23.23 E-value=1.8e+02 Score=17.41 Aligned_cols=36 Identities=22% Similarity=0.313 Sum_probs=30.3
Q ss_pred CCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 68 SLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 68 ~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
+..|+.-..+=+.|.+.+++...|+++.+-+.+..-
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 355777888889999999999999999998887654
No 296
>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=23.21 E-value=1.6e+02 Score=16.73 Aligned_cols=60 Identities=10% Similarity=0.025 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEecc-CCCceeEEEEEeecCCChhhhHHHHH
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAG-TEAPAAYGELISIGSLGPSVNGKLSS 79 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg-~~~p~~~v~i~~~~~~~~~~~~~~~~ 79 (115)
.++++.+.+.+...+|.....-.++++.. -.+|- ...|++.++=...++.+++.-+++.+
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 44444444444433332222234555543 34453 33798888777777888887665554
No 297
>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]
Probab=22.93 E-value=1.6e+02 Score=18.67 Aligned_cols=33 Identities=24% Similarity=0.209 Sum_probs=26.3
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKS 35 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp 35 (115)
|-++-|+-|.+... ...|..++.++.++.+=.|
T Consensus 79 mkf~~iH~n~s~~N--~rsF~qevHely~ktLmsp 111 (136)
T COG5603 79 MKFLFIHQNQSRKN--ARSFLQEVHELYAKTLMSP 111 (136)
T ss_pred ceEEEEeccchhhh--HHHHHHHHHHHHHHHhhCc
Confidence 55778888887655 4789999999999987655
No 298
>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=22.91 E-value=3.6e+02 Score=21.28 Aligned_cols=69 Identities=19% Similarity=0.265 Sum_probs=42.1
Q ss_pred CCeEEEEeCCCC-CccCHHHHHHHHHHHHHHHhCCCccee---EEEEeCCceEEeccCCCceeEEEEEeecCCC
Q 033597 1 MPTLNLYTNVPV-DAVIASDILRDATKAVAKILGKSESYV---MILINGGVPIAFAGTEAPAAYGELISIGSLG 70 (115)
Q Consensus 1 MP~i~i~tn~~~-~~~~~~~~~~~l~~~~a~~~~kp~~~i---~v~~~~~~~~~~gg~~~p~~~v~i~~~~~~~ 70 (115)
+|+++|-|-... +.++..+|++.|.+.+--+ |.....+ .+..+-|..+...|+....+-++|+.++.+.
T Consensus 151 vPLiEIVTePd~~s~eeA~~~~~~L~~ilr~~-gvsdg~me~GslR~DvNVSir~~g~~~~g~RvEIKNlnS~~ 223 (478)
T TIGR00133 151 APLIEIVTKPDINSPKEARAFLKKLRQILRYL-GISDGNLEEGSMRCDVNVSIRLKGQEHLGTRVEIKNINSFK 223 (478)
T ss_pred CceEEEecCCCCCCHHHHHHHHHHHHHHHHHh-CCCCCCcccCceeeeeeeecccCCCCCCcCeeEEeCcccHH
Confidence 699999997764 4455778999988877655 5333211 0111112222323555667889999888754
No 299
>COG5328 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.87 E-value=1.5e+02 Score=19.13 Aligned_cols=39 Identities=21% Similarity=0.341 Sum_probs=29.4
Q ss_pred eecCCChhhhHHHHHHHHHHHHhHhC------CCCCceEEEEEec
Q 033597 65 SIGSLGPSVNGKLSSTIAEILQTKLL------IDSSRFYIKLYDV 103 (115)
Q Consensus 65 ~~~~~~~~~~~~~~~~i~~~l~~~Lg------v~~~ri~i~f~~~ 103 (115)
++|.-+|+...+-+-+|+++++++.- =-|.|+.+.+.+.
T Consensus 19 sigrstpDvEhERaVAIFDLiEeN~FeP~~~~~GPYrl~lSL~e~ 63 (160)
T COG5328 19 SIGRSTPDVEHERAVAIFDLIEENSFEPVGHGGGPYRLKLSLVEA 63 (160)
T ss_pred hhccCCCchHHHHHhHHHHHhhccccccCCCCCCCeEEEeeeeee
Confidence 57777888888999999999999873 2356666666553
No 300
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=22.69 E-value=85 Score=13.47 Aligned_cols=19 Identities=11% Similarity=0.246 Sum_probs=13.7
Q ss_pred CCCCCceEEEEEecCCCCc
Q 033597 90 LIDSSRFYIKLYDVERSFF 108 (115)
Q Consensus 90 gv~~~ri~i~f~~~~~~~~ 108 (115)
|++.+.|+-.+.|-...-|
T Consensus 1 gL~~n~I~~i~~D~~G~lW 19 (24)
T PF07494_consen 1 GLPNNNIYSIYEDSDGNLW 19 (24)
T ss_dssp TBSSSCEEEEEE-TTSCEE
T ss_pred CCCCCeEEEEEEcCCcCEE
Confidence 5678889988888876555
No 301
>PRK10456 arginine succinyltransferase; Provisional
Probab=22.64 E-value=2.7e+02 Score=21.02 Aligned_cols=63 Identities=14% Similarity=0.238 Sum_probs=37.6
Q ss_pred eCCCCCccCHHHHHHHHHHHHHHHhC----CCcceeEEEEeCCceEEec--------cCCCceeEEEEEeecCCChhh
Q 033597 8 TNVPVDAVIASDILRDATKAVAKILG----KSESYVMILINGGVPIAFA--------GTEAPAAYGELISIGSLGPSV 73 (115)
Q Consensus 8 tn~~~~~~~~~~~~~~l~~~~a~~~~----kp~~~i~v~~~~~~~~~~g--------g~~~p~~~v~i~~~~~~~~~~ 73 (115)
||++.+ .+.+.+.|.......-+ .++.|+.|.-+....-..| |..+|.....+...-.-+++.
T Consensus 27 TsLP~d---~~~L~~rI~~S~~sF~~~~~~~~~~YlFVLED~~tg~vvGts~I~a~vG~~~PfY~yr~~~~vhaS~~L 101 (344)
T PRK10456 27 TSLPAN---EATLAARIERALKTWQGELPKSEQGYVFVLEDSETGTVAGICAIEVAVGLNDPWYNYRVGTLVHASKEL 101 (344)
T ss_pred ccCCCC---HHHHHHHHHHHHHHhcCcCCCCCccEEEEEEeCCCCcEEEEEeEEecccCCCCCEEEEcCceeecCccc
Confidence 555443 46777777766665533 2345777765544344444 778898888877654444333
No 302
>cd05016 SIS_PGI_2 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of glucose 6-phosphate to fructose 6-phosphate. As an extracellular protein, PGI also has functions equivalent to neuroleukin (NLK), autocrine motility factor (AMF), and maturation factor (MF). Evidence suggests that PGI, NLK, AMF, and MF are closely related or identical. NLK is a neurotrophic growth factor that promotes regeneration and survival of neurons. The dimeric form of NLK has isomerase function, whereas its monomeric form carries out neurotrophic activity. AMF is a cytokine that stimulates cell migration and metastasis. MF mediates the differentiation of human myeloid leukemic HL-60 cells to terminal monocytic cells.
Probab=22.63 E-value=2.4e+02 Score=18.66 Aligned_cols=21 Identities=14% Similarity=-0.075 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHhCCCcc
Q 033597 17 ASDILRDATKAVAKILGKSES 37 (115)
Q Consensus 17 ~~~~~~~l~~~~a~~~~kp~~ 37 (115)
-..|-.-+.++.+|..||..+
T Consensus 12 L~~f~~w~qQL~~ES~GK~~~ 32 (164)
T cd05016 12 LERFPAWLQQLDMESNGKSVT 32 (164)
T ss_pred HHHHHHHHHHhHhhcCCCccc
Confidence 467889999999999999765
No 303
>PF07788 DUF1626: Protein of unknown function (DUF1626); InterPro: IPR012431 This is a family consisting of sequences from hypothetical proteins of unknown function expressed by certain species of archaea. One member (Q9YCN7 from SWISSPROT) is thought to be similar to tropomyosin [].
Probab=22.62 E-value=1.6e+02 Score=16.73 Aligned_cols=35 Identities=14% Similarity=0.279 Sum_probs=26.5
Q ss_pred eEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeE
Q 033597 3 TLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVM 40 (115)
Q Consensus 3 ~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~ 40 (115)
.++|++.++..+. .....-.++..+..|++...+.
T Consensus 16 lvEikSs~~~~Dv---~~f~rk~~lYek~~grk~~r~i 50 (70)
T PF07788_consen 16 LVEIKSSVSRGDV---YIFKRKAELYEKVHGRKVDRLI 50 (70)
T ss_pred EEEEEccCCHHHH---HHHHHHHHHHHHHHCCCcceEE
Confidence 4778888887765 4567778999999998866543
No 304
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=22.29 E-value=1.7e+02 Score=17.89 Aligned_cols=31 Identities=10% Similarity=-0.024 Sum_probs=25.1
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
+..-++.+.+.+|.++|.+ .||+...+.+.=
T Consensus 16 f~~~qC~~cA~Al~~~L~~-~gI~Gk~i~l~T 46 (100)
T PF15643_consen 16 FKIFQCVECASALKQFLKQ-AGIPGKIIRLYT 46 (100)
T ss_pred cCceehHHHHHHHHHHHHH-CCCCceEEEEEe
Confidence 4567899999999999985 799988776653
No 305
>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=21.85 E-value=1.8e+02 Score=16.88 Aligned_cols=27 Identities=19% Similarity=0.367 Sum_probs=21.0
Q ss_pred HHHHHHHHHhHhCCCC-CceEEEEEecC
Q 033597 78 SSTIAEILQTKLLIDS-SRFYIKLYDVE 104 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~-~ri~i~f~~~~ 104 (115)
.+.|.+.+.+.|++.. ..+-+.|.|=+
T Consensus 22 ~~~L~~~i~~r~~~~~~~~f~LkY~Dde 49 (82)
T cd06407 22 FTELKQEIAKRFKLDDMSAFDLKYLDDD 49 (82)
T ss_pred HHHHHHHHHHHhCCCCCCeeEEEEECCC
Confidence 4556777788888876 78999998876
No 306
>PF13541 ChlI: Subunit ChlI of Mg-chelatase
Probab=21.69 E-value=1.6e+02 Score=18.44 Aligned_cols=30 Identities=7% Similarity=0.156 Sum_probs=19.2
Q ss_pred hhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 71 PSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 71 ~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.|.+.+...++.. .-+..|..|+||++.+.
T Consensus 23 ~esr~Rv~~al~~---~g~~~p~~~i~VNlap~ 52 (121)
T PF13541_consen 23 KESRERVRSALKN---SGFPFPNQDITVNLAPA 52 (121)
T ss_pred HHHHHHHHHHHHh---cCCCCCcceeeeEEEeC
Confidence 3444555544444 44557899999999754
No 307
>PRK13989 cell division topological specificity factor MinE; Provisional
Probab=21.68 E-value=1.9e+02 Score=17.03 Aligned_cols=35 Identities=11% Similarity=0.161 Sum_probs=30.4
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
.+|+.-..+=+.|.+.+++...|.++.+-|.+..-
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 56777788888999999999999999999998765
No 308
>PF09695 YtfJ_HI0045: Bacterial protein of unknown function (YtfJ_HI0045); InterPro: IPR006513 These are sequences from gammaproteobacteria that are related to the Escherichia coli protein, YtfJ.
Probab=21.60 E-value=2.6e+02 Score=18.68 Aligned_cols=47 Identities=13% Similarity=0.302 Sum_probs=28.2
Q ss_pred EEEEeecCCC--hhhhHHHHHHHHHHHHhHhCCCCCceE-EEEEecCCCCceecC
Q 033597 61 GELISIGSLG--PSVNGKLSSTIAEILQTKLLIDSSRFY-IKLYDVERSFFGFNG 112 (115)
Q Consensus 61 v~i~~~~~~~--~~~~~~~~~~i~~~l~~~Lgv~~~ri~-i~f~~~~~~~~g~~G 112 (115)
--|.-+.|++ .+.|..+..+| . ..+.|.++.- ..+.+.+..-||.++
T Consensus 40 rviq~iAGr~sake~N~~l~~ai----k-~a~f~~d~yqtttIiN~dDAi~gt~~ 89 (160)
T PF09695_consen 40 RVIQHIAGRSSAKEMNAPLIEAI----K-AAKFPHDKYQTTTIINLDDAIWGTGG 89 (160)
T ss_pred EEEEEeccCCchhHhhHHHHHHH----H-HcCCCccceeEEEEEecccccccchH
Confidence 3344455543 55566665555 3 3456777553 456777778888775
No 309
>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=21.49 E-value=2.3e+02 Score=17.96 Aligned_cols=29 Identities=7% Similarity=0.095 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHhHhCCCCCceEEEEEec
Q 033597 75 GKLSSTIAEILQTKLLIDSSRFYIKLYDV 103 (115)
Q Consensus 75 ~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~ 103 (115)
..-+.+.++.+.+.|+++.+++.+.|...
T Consensus 40 ~~~~~~~~~~v~~~l~~~~~~~~~~fqS~ 68 (135)
T cd00419 40 PDQCEETARLVAERLGLPFDEYELAYQSR 68 (135)
T ss_pred HHHHHHHHHHHHHHhCCCCCCEEEEecCC
Confidence 44555667777778888888899988874
No 310
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that 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=21.49 E-value=1.3e+02 Score=16.95 Aligned_cols=24 Identities=8% Similarity=0.065 Sum_probs=19.6
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
-.+.+-+.+++..|++++|..+.+
T Consensus 24 TV~~lK~~I~~~~~i~~~~qrL~~ 47 (80)
T cd01792 24 TVSELKQQIAQKIGVPAFQQRLAH 47 (80)
T ss_pred cHHHHHHHHHHHhCCCHHHEEEEe
Confidence 466777888888999999999853
No 311
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=21.40 E-value=2.1e+02 Score=20.80 Aligned_cols=70 Identities=11% Similarity=0.088 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccCCCceeEEEEEeecC-CChhhhHHHHHHHHHHHHhHhCC
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFAGTEAPAAYGELISIGS-LGPSVNGKLSSTIAEILQTKLLI 91 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~~~p~~~v~i~~~~~-~~~~~~~~~~~~i~~~l~~~Lgv 91 (115)
.+++..+...+++..+.| |.++++++..+..=-..-.+.|=.+..=|. ++-++|-+.++++.+..+. .|+
T Consensus 59 ~~~~~~~~~~~a~~~~VP---ValHLDH~~~~e~i~~ai~~GftSVMiDgS~lp~eeNi~~T~~vv~~Ah~-~gv 129 (284)
T PRK12737 59 TDYIVAIAEVAARKYNIP---LALHLDHHEDLDDIKKKVRAGIRSVMIDGSHLSFEENIAIVKEVVEFCHR-YDA 129 (284)
T ss_pred HHHHHHHHHHHHHHCCCC---EEEECCCCCCHHHHHHHHHcCCCeEEecCCCCCHHHHHHHHHHHHHHHHH-cCC
Confidence 355666777788877887 888888765322111111112333332233 7889999999999998775 444
No 312
>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=21.29 E-value=2.8e+02 Score=18.88 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=31.0
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecC----CCCceecCcc
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVE----RSFFGFNGST 114 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~----~~~~g~~G~t 114 (115)
-|..-.++..+|-+.|.+++|-+++...|.=.+.. -.-|||+|-|
T Consensus 27 ~P~~a~~yY~~id~~I~~~tG~~~~~tVvLT~d~~FlsyyPY~gFQalT 75 (178)
T PF12249_consen 27 RPPDAERYYPEIDAAIREQTGRPPDDTVVLTDDYSFLSYYPYWGFQALT 75 (178)
T ss_pred CCCchHHhHHHHHHHHHHhcCCCCCCeEEEeccccceEecccccccccc
Confidence 35566889999999999999977766555433221 1247887755
No 313
>PRK08172 putative acyl carrier protein IacP; Validated
Probab=21.23 E-value=71 Score=18.46 Aligned_cols=22 Identities=5% Similarity=0.323 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHhHhCCCCCceE
Q 033597 76 KLSSTIAEILQTKLLIDSSRFY 97 (115)
Q Consensus 76 ~~~~~i~~~l~~~Lgv~~~ri~ 97 (115)
.....+.+.+.+.|+++++.+-
T Consensus 4 ~i~~~v~~iiae~l~v~~~~i~ 25 (82)
T PRK08172 4 DIEARVKKVITSCIAVDVDSIN 25 (82)
T ss_pred cHHHHHHHHHHHHHCCCHHHCC
Confidence 4556778888888998887654
No 314
>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=21.19 E-value=1.2e+02 Score=16.75 Aligned_cols=25 Identities=12% Similarity=-0.048 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhHhCCCCCceEEEEE
Q 033597 77 LSSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 77 ~~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
-.+.+-+.+++..|+|+++..+.|.
T Consensus 20 TV~~lK~~I~~~~gi~~~~q~Li~~ 44 (70)
T cd01794 20 TVGQLKKQLQAAEGVDPCCQRWFFS 44 (70)
T ss_pred hHHHHHHHHHHHhCCCHHHeEEEEC
Confidence 3556667777888999998887664
No 315
>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=21.15 E-value=2e+02 Score=17.14 Aligned_cols=48 Identities=13% Similarity=0.182 Sum_probs=35.4
Q ss_pred CCeEEEEeCCCCCccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC
Q 033597 1 MPTLNLYTNVPVDAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT 54 (115)
Q Consensus 1 MP~i~i~tn~~~~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~ 54 (115)
||-|.|.-.-+...++..+-++++.+.+++.++. -.+|+ +..+.|.++
T Consensus 1 M~~I~I~r~H~Lg~~eAr~~~e~~a~~l~~~~~~-----e~~W~-GD~l~F~~~ 48 (91)
T TIGR02610 1 MSSISVERDHSLGPAAARAKAEDLARKLTDRYGL-----ASHWE-GDTLRIARS 48 (91)
T ss_pred CCceEEEecCCCCHHHHHHHHHHHHHHHHHHhCC-----EeEEe-CCEEEEEEe
Confidence 8889998888888776667777788888888874 45565 456777754
No 316
>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=21.13 E-value=2.2e+02 Score=17.62 Aligned_cols=45 Identities=9% Similarity=0.095 Sum_probs=29.3
Q ss_pred ecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceec
Q 033597 66 IGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFN 111 (115)
Q Consensus 66 ~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~ 111 (115)
++++.- +++.+.+++.+.....+.-...=+++.+.+++++.+=+|
T Consensus 50 VN~R~V-~~~~l~~ai~~~y~~~~~~~~~P~~vL~l~ipp~~vDvN 94 (123)
T cd03482 50 VNGRMV-RDKLISHAVRQAYSDVLHGGRHPAYVLYLELDPAQVDVN 94 (123)
T ss_pred EcCcEE-CChHHHHHHHHHHHHhccCCCCcEEEEEEEcChHheeec
Confidence 344432 357788888888777665444458888888887765444
No 317
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=20.93 E-value=2.5e+02 Score=20.32 Aligned_cols=70 Identities=14% Similarity=0.018 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEec--cCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 18 SDILRDATKAVAKILGKSESYVMILINGGVPIAFA--GTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 18 ~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~g--g~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
.+++..+...+++....| |.++++++..+..- .-...+..|++..-. .+.++|-+.++++.++.++ .|++
T Consensus 59 ~~~~~~~~~~~a~~~~vp---v~lHlDH~~~~e~i~~Al~~G~tsVm~d~s~-~~~~eni~~t~~v~~~a~~-~gv~ 130 (281)
T PRK06806 59 LHLIGPLMVAAAKQAKVP---VAVHFDHGMTFEKIKEALEIGFTSVMFDGSH-LPLEENIQKTKEIVELAKQ-YGAT 130 (281)
T ss_pred hHHHHHHHHHHHHHCCCC---EEEECCCCCCHHHHHHHHHcCCCEEEEcCCC-CCHHHHHHHHHHHHHHHHH-cCCe
Confidence 344555666677777777 88888876433221 011234555555332 7889999999999988875 5665
No 318
>PF02873 MurB_C: UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; InterPro: IPR011601 This entry represents a C-terminal conserved region of UDP-N-acetylenolpyruvoylglucosamine reductase 1.1.1.158 from EC, which is also called UDP-N-acetylmuramate dehydrogenase. It is a part of the pathway for the biosynthesis of the UDP-N-acetylmuramoyl-pentapeptide, which is a precursor of bacterial peptidoglycan. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 1MBB_A 2Q85_A 2MBR_A 1UXY_A 1MBT_A 1HSK_A 2GQU_A 2GQT_A 3I99_A 3TX1_A.
Probab=20.92 E-value=1.9e+02 Score=17.62 Aligned_cols=28 Identities=18% Similarity=0.105 Sum_probs=21.1
Q ss_pred ecCCChhhhHHHHHHHHHHHHhHhCCCC
Q 033597 66 IGSLGPSVNGKLSSTIAEILQTKLLIDS 93 (115)
Q Consensus 66 ~~~~~~~~~~~~~~~i~~~l~~~Lgv~~ 93 (115)
.|+-+...-.++++.+.+.+.+.+||.-
T Consensus 70 ~g~Ata~dv~~Li~~v~~~V~~~~Gi~L 97 (105)
T PF02873_consen 70 HGGATAADVLALIEEVRERVKEKFGIEL 97 (105)
T ss_dssp -SS--HHHHHHHHHHHHHHHHHHHS--B
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHCCee
Confidence 4667889999999999999999999864
No 319
>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=20.90 E-value=2.2e+02 Score=17.67 Aligned_cols=54 Identities=15% Similarity=0.249 Sum_probs=35.0
Q ss_pred ceEEeccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCC
Q 033597 47 VPIAFAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVER 105 (115)
Q Consensus 47 ~~~~~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~ 105 (115)
..+.+|-.+.|..+.+.....- -.++++-..+.+++++ + +++.++.+.|.+++-
T Consensus 3 ~~~~~G~~~a~~~v~~f~d~~C---p~C~~~~~~~~~~~~~-~-i~~~~v~~~~~~~~~ 56 (162)
T PF13462_consen 3 YDPTIGNPDAPITVTEFFDFQC---PHCAKFHEELEKLLKK-Y-IDPGKVKFVFRPVPL 56 (162)
T ss_dssp TSEEES-TTTSEEEEEEE-TTS---HHHHHHHHHHHHHHHH-H-TTTTTEEEEEEESSS
T ss_pred CCCeecCCCCCeEEEEEECCCC---HhHHHHHHHHhhhhhh-c-cCCCceEEEEEEccc
Confidence 3566776666755555554432 4566777777766655 3 688899999998853
No 320
>PF10820 DUF2543: Protein of unknown function (DUF2543); InterPro: IPR020251 This entry contains proteins with no known function.
Probab=20.88 E-value=76 Score=18.21 Aligned_cols=24 Identities=21% Similarity=0.274 Sum_probs=16.6
Q ss_pred hhHHHHHHHHHHHHhHhCCCCCce
Q 033597 73 VNGKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 73 ~~~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
.|.+++..-...+..+.||...||
T Consensus 45 nneeIsEeaQ~EMA~eAgi~~~rI 68 (81)
T PF10820_consen 45 NNEEISEEAQQEMASEAGIDEQRI 68 (81)
T ss_pred ccHhhhHHHHHHHHHHcCCcHHHH
Confidence 355666666777777778877765
No 321
>PTZ00411 transaldolase-like protein; Provisional
Probab=20.88 E-value=3.1e+02 Score=20.51 Aligned_cols=41 Identities=20% Similarity=0.131 Sum_probs=26.7
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
..+++...-..+.+..-+-+..|.++..+ .||+++|++|.+
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 34444322235566666667777766665 799999999876
No 322
>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=20.87 E-value=99 Score=19.21 Aligned_cols=24 Identities=17% Similarity=0.119 Sum_probs=15.3
Q ss_pred hhhhHHHHHHHHHHHHhHhCCCCC
Q 033597 71 PSVNGKLSSTIAEILQTKLLIDSS 94 (115)
Q Consensus 71 ~~~~~~~~~~i~~~l~~~Lgv~~~ 94 (115)
...-.+....+.+.+.++||++|+
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 344566777888899999999875
No 323
>PRK10431 N-acetylmuramoyl-l-alanine amidase II; Provisional
Probab=20.75 E-value=4.2e+02 Score=20.74 Aligned_cols=44 Identities=14% Similarity=0.109 Sum_probs=33.5
Q ss_pred ceEEeccCCCceeEEEEEeecC-------CChhhhHHHHHHHHHHHHhHhC
Q 033597 47 VPIAFAGTEAPAAYGELISIGS-------LGPSVNGKLSSTIAEILQTKLL 90 (115)
Q Consensus 47 ~~~~~gg~~~p~~~v~i~~~~~-------~~~~~~~~~~~~i~~~l~~~Lg 90 (115)
.....-+.+-|++++|+--+.. .+++..++++++|.+-+.+-+.
T Consensus 367 ~f~VLr~~~~PsVLVE~GFISNp~De~~L~s~~~q~kiA~aIa~GI~~Yf~ 417 (445)
T PRK10431 367 SLGVLRSPDIPSVLVETGFISNNSEERLLASDDYQQQIAEAIYKGLRNYFL 417 (445)
T ss_pred ceEEEccCCCCEEEEEecccCCHHHHHHhCCHHHHHHHHHHHHHHHHHHHh
Confidence 3444446778999999987633 2577789999999999988876
No 324
>COG0722 AroG 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=20.66 E-value=3.2e+02 Score=20.64 Aligned_cols=43 Identities=12% Similarity=0.215 Sum_probs=28.7
Q ss_pred ChhhhHHHHHHHHHHHHhHhCCCCCceEEEEEecCCCCceecCc
Q 033597 70 GPSVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVERSFFGFNGS 113 (115)
Q Consensus 70 ~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~~~~~g~~G~ 113 (115)
+++.-.+|+..|..+ .+++.=.-.=|+=.|.+-|...+||.|-
T Consensus 65 D~~AAleYA~RL~~l-~e~~~d~L~iVMRvYfeKPRTtVGWKGL 107 (351)
T COG0722 65 DPEAALEYARRLKAL-REELKDRLEIVMRVYFEKPRTTVGWKGL 107 (351)
T ss_pred CHHHHHHHHHHHHHH-HHHhhCceEEEEEEeecCCccccccccc
Confidence 467777788776554 3344433333455688899999999983
No 325
>KOG2772 consensus Transaldolase [Carbohydrate transport and metabolism]
Probab=20.64 E-value=71 Score=23.70 Aligned_cols=22 Identities=14% Similarity=0.208 Sum_probs=15.7
Q ss_pred HHHHHHHHhHhCCCCCceEEEEE
Q 033597 79 STIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 79 ~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
..|.++ -++.|||++|++|.+-
T Consensus 125 ~~Likl-y~~~gv~k~rvliKI~ 146 (337)
T KOG2772|consen 125 RHLIKL-YNEEGVPKERVLIKIA 146 (337)
T ss_pred HHHHHH-HHhcCCChheEEEecc
Confidence 334443 4568999999999874
No 326
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=20.63 E-value=61 Score=18.01 Aligned_cols=24 Identities=17% Similarity=0.040 Sum_probs=19.6
Q ss_pred HHHHHHHHHhHhCCCCCceEEEEE
Q 033597 78 SSTIAEILQTKLLIDSSRFYIKLY 101 (115)
Q Consensus 78 ~~~i~~~l~~~Lgv~~~ri~i~f~ 101 (115)
...|.+.+++.-||||.+-.+.|.
T Consensus 23 verIKErvEEkeGIPp~qqrli~~ 46 (70)
T KOG0005|consen 23 VERIKERVEEKEGIPPQQQRLIYA 46 (70)
T ss_pred HHHHHHHhhhhcCCCchhhhhhhc
Confidence 456788999999999988777663
No 327
>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=20.51 E-value=2.5e+02 Score=19.77 Aligned_cols=32 Identities=9% Similarity=0.076 Sum_probs=26.6
Q ss_pred CChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 69 LGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 69 ~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
.+++.+..+.+.|++.+.+.-.=+..++++.+
T Consensus 88 ~t~~d~~~~~~~I~~~i~~l~~~~~~~lh~sI 119 (224)
T PF09623_consen 88 RTEEDNEAFADFIYRLIRELKQDPGRRLHVSI 119 (224)
T ss_pred CCHHHHHHHHHHHHHHHHHHhhCCCCeEEEEe
Confidence 57899999999999999987766667777765
No 328
>PLN03002 oxidoreductase, 2OG-Fe(II) oxygenase family protein
Probab=20.49 E-value=90 Score=23.02 Aligned_cols=22 Identities=27% Similarity=0.286 Sum_probs=17.5
Q ss_pred hHHHHHHHHHHHHhHhCCCCCc
Q 033597 74 NGKLSSTIAEILQTKLLIDSSR 95 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~Lgv~~~r 95 (115)
..+++..|.+.+...||++++.
T Consensus 149 ~~~l~~~ll~~la~~Lgl~~~~ 170 (332)
T PLN03002 149 ALRVSMAIAKLLALALDLDVGY 170 (332)
T ss_pred HHHHHHHHHHHHHHHcCCChHH
Confidence 4567788888899999998764
No 329
>PF06324 Pigment_DH: Pigment-dispersing hormone (PDH); InterPro: IPR009396 This family consists of several eukaryotic pigment-dispersing hormone (PDH) proteins. The pigment-dispersing hormone (PDH) is produced in the eyestalks of Crustacea where it induces light-adapting movements of pigment in the compound eye and regulates the pigment dispersion in the chromatophores [].; GO: 0005179 hormone activity, 0009416 response to light stimulus, 0005576 extracellular region
Probab=20.30 E-value=80 Score=13.00 Aligned_cols=12 Identities=17% Similarity=0.282 Sum_probs=8.5
Q ss_pred HHHHhHhCCCCC
Q 033597 83 EILQTKLLIDSS 94 (115)
Q Consensus 83 ~~l~~~Lgv~~~ 94 (115)
+++..-||+|+.
T Consensus 3 elINslLglpk~ 14 (18)
T PF06324_consen 3 ELINSLLGLPKV 14 (18)
T ss_pred HHHHHHHcchhh
Confidence 567777888763
No 330
>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=20.29 E-value=90 Score=21.03 Aligned_cols=25 Identities=16% Similarity=0.427 Sum_probs=21.6
Q ss_pred CCChhhhHHHHHHHHHHHHhHhCCC
Q 033597 68 SLGPSVNGKLSSTIAEILQTKLLID 92 (115)
Q Consensus 68 ~~~~~~~~~~~~~i~~~l~~~Lgv~ 92 (115)
.-+|+-++++-+.+.++|.++|.+.
T Consensus 73 k~dPe~~eEmeK~~~~LL~EELkLq 97 (176)
T PF06364_consen 73 KHDPEVSEEMEKNFVDLLSEELKLQ 97 (176)
T ss_pred cCChhhhHHHHhhHHHHHHHHHHHH
Confidence 3578999999999999999999764
No 331
>cd02552 PseudoU_synth_TruD_like PseudoU_synth_TruD_like: Pseudouridine synthase, TruD family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruD and Saccharomyces cerevisiae Pus7. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD and S. cerevisiae Pus7 make psi13 in cytoplasmic tRNAs. In addition S. cerevisiae Pus7 makes psi35 in U2 small nuclear RNA (U2 snRNA) and psi35 in pre-tRNATyr. Psi35 in U2 snRNA and psi13 in tRNAs are highly phylogenetically conserved. Psi34 is the mammalian U2 snRNA counterpart of yeast U2 snRNA psi35.
Probab=20.24 E-value=3.2e+02 Score=19.20 Aligned_cols=56 Identities=13% Similarity=0.027 Sum_probs=31.6
Q ss_pred CCCcceeEEEEeCCceE-E-eccCCCceeEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCce
Q 033597 33 GKSESYVMILINGGVPI-A-FAGTEAPAAYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRF 96 (115)
Q Consensus 33 ~kp~~~i~v~~~~~~~~-~-~gg~~~p~~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri 96 (115)
..|++++...+.+...- . .++...+..++.+.-.+--+.+. ...|.+.|||++.++
T Consensus 5 ~~peDF~V~Ei~~~~~~~~~~~~~~G~~~~~~l~K~~~~T~~a--------~~~la~~l~i~~~~i 62 (232)
T cd02552 5 QRPEDFVVNEILLDGPVVHLWPKGEGEYLHFTLYKENKDTMEA--------LREIAKALGVPPRDI 62 (232)
T ss_pred cCCCCeEEEEecCCCcccccccCCCCCEEEEEEEECCCCHHHH--------HHHHHHHcCCCHHHE
Confidence 47889988777542211 1 22234567777777555333333 445566677776554
No 332
>COG3097 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.19 E-value=2.2e+02 Score=17.33 Aligned_cols=37 Identities=8% Similarity=0.094 Sum_probs=22.7
Q ss_pred EeCCceEEeccCCCceeEEEEEeecC--CC-hhhhHHHHH
Q 033597 43 INGGVPIAFAGTEAPAAYGELISIGS--LG-PSVNGKLSS 79 (115)
Q Consensus 43 ~~~~~~~~~gg~~~p~~~v~i~~~~~--~~-~~~~~~~~~ 79 (115)
+.+|..+..|...+...|++|...+. ++ .+.++++++
T Consensus 33 f~~g~vlrV~r~Ed~~~fc~I~vl~vspvtld~l~e~HAe 72 (106)
T COG3097 33 FKPGDVLRVGRFEDDRYFCTIEVLAVSPVTLDELTEKHAE 72 (106)
T ss_pred CCCCCEEEEEEecCCcEEEEEEEEEeccEehhhhhhhhhh
Confidence 44577777776667777777776553 33 344555554
No 333
>PLN02664 enoyl-CoA hydratase/delta3,5-delta2,4-dienoyl-CoA isomerase
Probab=20.15 E-value=3.3e+02 Score=19.30 Aligned_cols=51 Identities=22% Similarity=0.277 Sum_probs=34.6
Q ss_pred eEEEEeCCCC--CccCHHHHHHHHHHHHHHHhCCCcceeEEEEeCCceEEeccC
Q 033597 3 TLNLYTNVPV--DAVIASDILRDATKAVAKILGKSESYVMILINGGVPIAFAGT 54 (115)
Q Consensus 3 ~i~i~tn~~~--~~~~~~~~~~~l~~~~a~~~~kp~~~i~v~~~~~~~~~~gg~ 54 (115)
+..|+.|-+. ... ..++.++|.+++.++-..|.-++.|.--.+..++.|+.
T Consensus 18 v~~itlnrp~~~Nal-~~~~~~~l~~al~~~~~d~~vrvvVltg~g~~FcaG~D 70 (275)
T PLN02664 18 VFHLNLNRPSQRNAL-SLDFFTEFPKALSSLDQNPNVSVIILSGAGDHFCSGID 70 (275)
T ss_pred EEEEEECCCCccCCC-CHHHHHHHHHHHHHHHhCCCcEEEEEECCCCceeeCcC
Confidence 5667777652 333 46888999999988777666666665555666666654
No 334
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.06 E-value=2.1e+02 Score=18.46 Aligned_cols=72 Identities=10% Similarity=0.169 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHH--HHhCCCcceeEE--EEeCCceEEeccCCCceeEEEEE------------------eec-CCChhh
Q 033597 17 ASDILRDATKAVA--KILGKSESYVMI--LINGGVPIAFAGTEAPAAYGELI------------------SIG-SLGPSV 73 (115)
Q Consensus 17 ~~~~~~~l~~~~a--~~~~kp~~~i~v--~~~~~~~~~~gg~~~p~~~v~i~------------------~~~-~~~~~~ 73 (115)
.-++.+.+++--. .+++-|.-.-.| ...-..-+.+||..+|-.|++=- -.| .+++++
T Consensus 23 ~pel~eafcskcgeati~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwterkiaga~elvea~~~l~pde 102 (160)
T COG4306 23 SPELMEAFCSKCGEATITQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWTERKIAGAVELVEAGENLNPDE 102 (160)
T ss_pred CHHHHHHHHhhhchHHHhcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcHHHHHhHHHHHHHccccCCHHH
Confidence 3455555544332 245555432222 12223456777777766665421 112 367888
Q ss_pred hHHHHHHHHHHHHhH
Q 033597 74 NGKLSSTIAEILQTK 88 (115)
Q Consensus 74 ~~~~~~~i~~~l~~~ 88 (115)
.++|-..++++..+.
T Consensus 103 vqqf~tdlt~ltkds 117 (160)
T COG4306 103 VQQFRTDLTDLTKDS 117 (160)
T ss_pred HHHHHhhHHHHhhcC
Confidence 888888888776654
No 335
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=20.04 E-value=2.5e+02 Score=23.10 Aligned_cols=60 Identities=25% Similarity=0.267 Sum_probs=41.8
Q ss_pred EEeccCCCceeEEEEEeecCCCh---hhhHHHHHHHHHHHHhHhCCCCCceEEEEEecC----CCCceecCcc
Q 033597 49 IAFAGTEAPAAYGELISIGSLGP---SVNGKLSSTIAEILQTKLLIDSSRFYIKLYDVE----RSFFGFNGST 114 (115)
Q Consensus 49 ~~~gg~~~p~~~v~i~~~~~~~~---~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f~~~~----~~~~g~~G~t 114 (115)
-..|...+|+.+-|+. +|..++ +-..+++.++...|. +||+.. |.+-++. ..+||+.|+-
T Consensus 136 ~~~~~~~e~~vIYElH-vGs~~~~~~~~~~e~a~~llpYl~-elG~T~----IELMPv~e~p~~~sWGYq~~g 202 (628)
T COG0296 136 AWRGRFWEPIVIYELH-VGSFTPDRFLGYFELAIELLPYLK-ELGITH----IELMPVAEHPGDRSWGYQGTG 202 (628)
T ss_pred cccCCCCCCceEEEEE-eeeccCCCCcCHHHHHHHHhHHHH-HhCCCE----EEEcccccCCCCCCCCCCcce
Confidence 3344455899999999 555666 778888999888887 488864 3333332 3578988864
No 336
>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=20.02 E-value=3.7e+02 Score=19.97 Aligned_cols=41 Identities=15% Similarity=0.168 Sum_probs=26.0
Q ss_pred eEEEEEeecCCChhhhHHHHHHHHHHHHhHhCCCCCceEEEE
Q 033597 59 AYGELISIGSLGPSVNGKLSSTIAEILQTKLLIDSSRFYIKL 100 (115)
Q Consensus 59 ~~v~i~~~~~~~~~~~~~~~~~i~~~l~~~Lgv~~~ri~i~f 100 (115)
..+++...-..+.+..-+-++.|.++..+ .||+++|++|.+
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 44444322234556666666666666654 899999998865
Done!