Query psy2936
Match_columns 174
No_of_seqs 136 out of 587
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 21:23:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2936.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2936hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01187 MIF: Macrophage migra 100.0 1.4E-39 3.1E-44 242.3 12.8 114 2-115 1-114 (114)
2 PTZ00450 macrophage migration 100.0 1.1E-38 2.3E-43 238.0 13.1 112 1-114 1-113 (113)
3 PTZ00397 macrophage migration 100.0 1.4E-36 3.1E-41 226.4 14.7 115 1-115 1-116 (116)
4 KOG1759|consensus 100.0 2E-36 4.4E-41 223.6 13.0 115 1-115 1-115 (115)
5 PF01361 Tautomerase: Tautomer 99.3 2.6E-11 5.6E-16 80.0 7.1 58 59-116 2-59 (60)
6 PRK01964 4-oxalocrotonate taut 99.2 2E-11 4.3E-16 81.7 6.4 59 59-117 3-61 (64)
7 TIGR00013 taut 4-oxalocrotonat 99.2 3E-11 6.6E-16 80.2 6.7 59 59-117 2-61 (63)
8 cd00491 4Oxalocrotonate_Tautom 99.2 5.7E-11 1.2E-15 77.4 7.3 56 59-114 2-57 (58)
9 PRK02220 4-oxalocrotonate taut 99.2 4.6E-11 1E-15 78.9 6.8 58 59-116 3-60 (61)
10 PRK00745 4-oxalocrotonate taut 99.2 7.1E-11 1.5E-15 78.2 6.6 58 59-116 3-60 (62)
11 PF14552 Tautomerase_2: Tautom 99.0 1.2E-09 2.5E-14 77.3 8.2 74 37-110 3-82 (82)
12 PRK02289 4-oxalocrotonate taut 98.9 4.3E-09 9.3E-14 69.7 7.2 56 59-114 3-58 (60)
13 COG1942 Uncharacterized protei 98.9 6.8E-09 1.5E-13 71.1 7.4 59 59-117 3-62 (69)
14 cd00580 CHMI 5-carboxymethyl-2 98.6 1.9E-06 4E-11 63.9 13.1 104 2-105 1-112 (113)
15 PRK01271 4-oxalocrotonate taut 98.6 1.5E-07 3.2E-12 65.7 5.7 51 59-109 3-54 (76)
16 PF08921 DUF1904: Domain of un 98.5 1.5E-06 3.3E-11 64.4 9.1 107 1-112 1-107 (108)
17 PF14832 Tautomerase_3: Putati 98.5 1.4E-06 3.1E-11 67.0 9.3 116 1-117 1-123 (136)
18 PRK01964 4-oxalocrotonate taut 98.4 5.9E-07 1.3E-11 59.9 5.0 54 1-54 1-57 (64)
19 PRK00745 4-oxalocrotonate taut 98.4 7.8E-07 1.7E-11 58.6 4.8 54 1-54 1-57 (62)
20 PRK02220 4-oxalocrotonate taut 98.3 2E-06 4.3E-11 56.5 5.1 53 1-53 1-56 (61)
21 PRK02289 4-oxalocrotonate taut 98.3 2.9E-06 6.3E-11 56.1 5.8 53 1-53 1-56 (60)
22 COG1942 Uncharacterized protei 98.2 5.1E-06 1.1E-10 56.9 6.3 53 1-53 1-57 (69)
23 PRK15031 5-carboxymethyl-2-hyd 98.1 0.00016 3.4E-09 55.0 12.7 111 1-111 1-120 (126)
24 PF01361 Tautomerase: Tautomer 97.9 2.2E-05 4.7E-10 51.4 5.1 53 2-54 1-56 (60)
25 TIGR00013 taut 4-oxalocrotonat 97.9 2.7E-05 5.8E-10 51.3 5.4 53 2-54 1-57 (63)
26 PRK01271 4-oxalocrotonate taut 97.9 2.1E-05 4.7E-10 54.8 5.1 44 1-44 1-46 (76)
27 cd00491 4Oxalocrotonate_Tautom 97.9 3.2E-05 7E-10 49.9 5.2 52 2-53 1-55 (58)
28 PF02962 CHMI: 5-carboxymethyl 97.5 0.0027 5.9E-08 48.1 11.9 104 2-105 1-112 (124)
29 COG3232 HpaF 5-carboxymethyl-2 96.5 0.011 2.4E-07 44.7 6.8 91 1-91 1-95 (127)
30 PTZ00397 macrophage migration 96.5 0.0068 1.5E-07 44.7 5.4 52 3-54 60-114 (116)
31 PF14552 Tautomerase_2: Tautom 95.5 0.023 5E-07 40.0 4.0 49 3-51 31-82 (82)
32 PF14832 Tautomerase_3: Putati 95.4 0.038 8.2E-07 42.5 5.5 51 64-115 9-59 (136)
33 PTZ00450 macrophage migration 87.6 1.1 2.4E-05 33.2 4.4 41 13-53 71-111 (113)
34 PF01187 MIF: Macrophage migra 84.4 2.1 4.6E-05 31.3 4.5 42 12-53 68-111 (114)
35 TIGR02544 III_secr_YscJ type I 80.1 19 0.00042 29.0 9.0 84 17-104 106-190 (193)
36 TIGR02830 spore_III_AG stage I 79.7 12 0.00026 30.3 7.7 84 15-98 58-183 (186)
37 PF02594 DUF167: Uncharacteris 75.2 5 0.00011 27.8 3.7 57 37-98 5-63 (77)
38 PRK00647 hypothetical protein; 73.2 13 0.00029 26.9 5.6 62 37-103 7-69 (96)
39 PF08921 DUF1904: Domain of un 72.3 15 0.00033 27.0 5.9 69 65-136 6-82 (108)
40 cd00580 CHMI 5-carboxymethyl-2 70.9 8.6 0.00019 28.0 4.3 41 4-44 63-108 (113)
41 PRK05090 hypothetical protein; 70.5 18 0.00038 26.2 5.7 61 37-102 12-73 (95)
42 PF09581 Spore_III_AF: Stage I 69.4 36 0.00079 26.6 8.0 83 16-98 85-187 (188)
43 PF11090 DUF2833: Protein of u 69.2 20 0.00043 25.6 5.6 52 39-90 3-55 (86)
44 cd00673 AlaRS_core Alanyl-tRNA 68.1 8.1 0.00018 32.4 4.0 30 72-101 95-124 (232)
45 TIGR03196 pucD xanthine dehydr 60.2 16 0.00034 35.6 4.9 83 12-96 486-568 (768)
46 PRK01530 hypothetical protein; 57.1 13 0.00029 27.3 3.1 33 72-104 50-82 (105)
47 KOG1759|consensus 56.6 31 0.00067 25.9 4.9 49 3-51 59-108 (115)
48 PRK01310 hypothetical protein; 56.2 15 0.00033 26.9 3.3 65 36-103 12-80 (104)
49 COG0245 IspF 2C-methyl-D-eryth 51.9 25 0.00054 27.8 4.0 90 16-112 37-142 (159)
50 KOG0188|consensus 51.6 21 0.00046 34.9 4.2 35 68-102 97-131 (895)
51 TIGR02965 xanthine_xdhB xanthi 50.5 14 0.00031 35.7 3.0 84 12-97 466-549 (758)
52 PRK15348 type III secretion sy 49.8 1.2E+02 0.0026 25.6 8.1 78 20-102 109-187 (249)
53 PRK09800 putative hypoxanthine 48.1 32 0.0007 34.4 5.0 87 9-97 680-766 (956)
54 PF10850 DUF2653: Protein of u 47.5 1E+02 0.0023 22.1 6.4 77 17-101 8-86 (91)
55 COG3887 Predicted signaling pr 47.3 1.5E+02 0.0032 28.5 8.9 72 16-100 274-345 (655)
56 TIGR03194 4hydrxCoA_A 4-hydrox 47.2 18 0.0004 35.0 3.1 80 11-97 462-546 (746)
57 TIGR00344 alaS alanine--tRNA l 45.5 16 0.00035 36.0 2.5 31 72-102 93-123 (851)
58 TIGR03313 Se_sel_red_Mo probab 44.8 25 0.00053 35.2 3.7 86 9-96 676-761 (951)
59 TIGR02416 CO_dehy_Mo_lg carbon 44.5 23 0.0005 34.4 3.4 84 12-97 494-577 (770)
60 PF01411 tRNA-synt_2c: tRNA sy 43.6 26 0.00056 32.8 3.4 33 72-104 98-130 (552)
61 cd02696 MurNAc-LAA N-acetylmur 43.5 1.4E+02 0.0031 22.5 9.0 65 15-83 99-170 (172)
62 COG4631 XdhB Xanthine dehydrog 43.0 84 0.0018 30.0 6.5 85 6-97 477-566 (781)
63 PF02738 Ald_Xan_dh_C2: Molybd 42.5 13 0.00029 34.2 1.4 76 13-95 339-419 (547)
64 PF10057 DUF2294: Uncharacteri 41.0 88 0.0019 23.0 5.4 82 14-95 7-95 (118)
65 PLN02900 alanyl-tRNA synthetas 40.6 28 0.00061 34.8 3.3 29 72-100 116-144 (936)
66 PRK00252 alaS alanyl-tRNA synt 40.4 26 0.00056 34.7 3.0 31 72-102 98-128 (865)
67 cd06406 PB1_P67 A PB1 domain i 39.5 1.1E+02 0.0024 21.5 5.3 27 79-105 25-51 (80)
68 TIGR00151 ispF 2C-methyl-D-ery 39.3 57 0.0012 25.7 4.3 91 16-112 36-141 (155)
69 PHA00432 internal virion prote 37.6 1.4E+02 0.003 23.0 6.1 60 31-90 31-92 (137)
70 cd00554 MECDP_synthase MECDP_s 37.3 64 0.0014 25.3 4.3 90 16-112 36-141 (153)
71 PF10057 DUF2294: Uncharacteri 37.0 80 0.0017 23.2 4.6 45 71-115 7-51 (118)
72 PRK00084 ispF 2-C-methyl-D-ery 36.5 65 0.0014 25.5 4.2 91 16-112 39-144 (159)
73 PF10023 DUF2265: Predicted am 36.3 39 0.00084 29.9 3.2 44 68-111 44-89 (337)
74 COG1872 Uncharacterized conser 36.2 1E+02 0.0023 22.6 4.9 62 37-101 14-76 (102)
75 PF01514 YscJ_FliF: Secretory 35.4 92 0.002 25.2 5.1 80 17-101 114-195 (206)
76 PRK09970 xanthine dehydrogenas 35.3 54 0.0012 31.8 4.3 85 10-97 477-563 (759)
77 PRK09344 phosphoenolpyruvate c 34.5 1.1E+02 0.0023 28.9 5.9 97 54-166 382-485 (526)
78 PRK00084 ispF 2-C-methyl-D-ery 34.2 2.3E+02 0.0051 22.3 7.0 48 17-64 108-156 (159)
79 PF02738 Ald_Xan_dh_C2: Molybd 34.0 31 0.00067 31.8 2.4 59 57-115 321-386 (547)
80 TIGR00206 fliF flagellar basal 33.9 2.1E+02 0.0046 26.9 7.9 78 16-98 133-213 (555)
81 COG1995 PdxA Pyridoxal phospha 33.8 2.1E+02 0.0045 25.3 7.3 36 66-101 175-210 (332)
82 COG3643 Glutamate formiminotra 33.0 49 0.0011 28.3 3.1 53 35-91 70-122 (302)
83 PF03432 Relaxase: Relaxase/Mo 32.9 2.5E+02 0.0054 22.3 9.8 86 2-94 56-147 (242)
84 TIGR01547 phage_term_2 phage t 32.7 1.4E+02 0.0031 26.0 6.3 95 15-109 45-148 (396)
85 TIGR02883 spore_cwlD N-acetylm 32.5 2.5E+02 0.0053 22.0 7.5 67 16-85 114-187 (189)
86 TIGR00151 ispF 2C-methyl-D-ery 31.9 2.5E+02 0.0055 22.0 6.8 47 17-63 105-152 (155)
87 PF02542 YgbB: YgbB family; I 31.7 38 0.00083 26.7 2.2 48 60-111 94-141 (157)
88 PF01520 Amidase_3: N-acetylmu 31.5 1E+02 0.0023 23.3 4.7 68 15-85 100-174 (175)
89 TIGR03795 chp_BMA0021 conserve 31.3 1.3E+02 0.0028 22.5 4.9 38 68-105 26-64 (114)
90 cd01919 PEPCK Phosphoenolpyruv 31.0 1.3E+02 0.0029 28.1 6.0 74 74-165 395-476 (515)
91 KOG4493|consensus 31.0 2.5E+02 0.0054 23.3 6.8 68 47-114 44-118 (219)
92 PF01580 FtsK_SpoIIIE: FtsK/Sp 29.4 2.5E+02 0.0053 21.8 6.6 87 45-138 28-118 (205)
93 PF00691 OmpA: OmpA family; I 28.5 1.9E+02 0.0041 19.5 6.6 29 70-99 45-77 (97)
94 PRK01909 pdxA 4-hydroxythreoni 28.5 1E+02 0.0022 27.1 4.5 35 67-101 173-207 (329)
95 PF14535 AMP-binding_C_2: AMP- 28.4 1.1E+02 0.0024 21.2 4.0 30 70-102 50-79 (96)
96 PF01282 Ribosomal_S24e: Ribos 28.4 1.1E+02 0.0024 21.3 3.9 58 60-125 3-61 (84)
97 PRK13878 conjugal transfer rel 28.0 5.9E+02 0.013 25.1 11.4 86 2-94 67-158 (746)
98 cd00650 LDH_MDH_like NAD-depen 28.0 1.5E+02 0.0033 24.3 5.4 49 79-134 150-201 (263)
99 PRK01584 alanyl-tRNA synthetas 27.7 50 0.0011 31.4 2.6 30 72-101 96-127 (594)
100 PF13222 DUF4030: Protein of u 27.6 86 0.0019 24.3 3.4 36 1-36 85-122 (142)
101 PF07985 SRR1: SRR1; InterPro 27.5 1.7E+02 0.0037 18.6 4.6 36 63-98 5-40 (56)
102 COG0013 AlaS Alanyl-tRNA synth 27.3 55 0.0012 32.6 2.9 33 73-105 103-135 (879)
103 PF04954 SIP: Siderophore-inte 27.2 76 0.0017 23.1 3.1 25 74-98 89-113 (119)
104 smart00213 UBQ Ubiquitin homol 27.1 77 0.0017 19.4 2.7 24 77-100 22-45 (64)
105 cd06411 PB1_p51 The PB1 domain 27.0 2.1E+02 0.0045 20.0 5.0 33 79-111 21-54 (78)
106 cd03485 MutL_Trans_hPMS_1_like 26.8 2.6E+02 0.0057 20.6 8.9 73 62-134 52-129 (132)
107 TIGR00557 pdxA 4-hydroxythreon 26.6 2.1E+02 0.0046 25.1 6.1 35 67-101 170-204 (320)
108 PRK15324 type III secretion sy 26.1 4E+02 0.0087 22.5 8.5 86 17-105 107-193 (252)
109 PRK05312 pdxA 4-hydroxythreoni 26.1 1.2E+02 0.0027 26.7 4.6 35 67-101 182-216 (336)
110 TIGR03196 pucD xanthine dehydr 26.0 69 0.0015 31.2 3.3 59 57-115 467-534 (768)
111 COG1362 LAP4 Aspartyl aminopep 25.4 37 0.00079 31.1 1.2 102 66-173 183-297 (437)
112 PF00121 TIM: Triosephosphate 25.4 99 0.0021 25.8 3.8 32 81-116 141-176 (244)
113 PF11165 DUF2949: Protein of u 25.3 29 0.00064 22.9 0.5 23 77-99 2-24 (58)
114 KOG1219|consensus 25.2 1.5E+02 0.0033 33.5 5.6 82 61-142 3499-3592(4289)
115 PF08652 RAI1: RAI1 like PD-(D 25.2 2.1E+02 0.0047 19.0 4.9 46 3-48 18-65 (69)
116 COG3579 PepC Aminopeptidase C 25.2 70 0.0015 28.8 2.9 44 70-113 200-243 (444)
117 COG3509 LpqC Poly(3-hydroxybut 25.2 78 0.0017 27.7 3.1 27 74-100 125-151 (312)
118 COG0245 IspF 2C-methyl-D-eryth 24.9 2.5E+02 0.0055 22.2 5.7 48 17-64 106-154 (159)
119 PF00240 ubiquitin: Ubiquitin 24.9 1.1E+02 0.0023 19.5 3.2 23 78-100 19-41 (69)
120 PF14813 NADH_B2: NADH dehydro 24.9 34 0.00074 23.5 0.7 11 84-94 59-69 (71)
121 PF03780 Asp23: Asp23 family; 24.8 2.5E+02 0.0053 19.6 7.8 43 60-102 64-107 (108)
122 COG1907 Predicted archaeal sug 24.5 1.7E+02 0.0036 25.7 5.0 62 54-117 33-94 (312)
123 PLN02862 2-C-methyl-D-erythrit 24.5 1.3E+02 0.0029 25.0 4.2 91 16-112 96-201 (216)
124 PRK06007 fliF flagellar MS-rin 24.4 3.9E+02 0.0085 25.0 7.9 80 16-98 133-213 (542)
125 COG1766 fliF Flagellar basal b 24.2 3.7E+02 0.008 25.4 7.6 81 15-98 132-213 (545)
126 COG0092 RpsC Ribosomal protein 24.2 2.2E+02 0.0047 24.0 5.5 25 76-102 72-96 (233)
127 PF14804 Jag_N: Jag N-terminus 24.1 1.2E+02 0.0025 19.3 3.1 33 79-112 10-43 (52)
128 TIGR03311 Se_dep_Molyb_1 selen 23.8 85 0.0019 31.0 3.5 60 76-139 619-678 (848)
129 PF10503 Esterase_phd: Esteras 23.8 78 0.0017 26.0 2.8 25 74-98 78-102 (220)
130 PF14035 YlzJ: YlzJ-like prote 23.0 24 0.00051 23.7 -0.3 9 157-165 50-58 (66)
131 PTZ00487 ceramidase; Provision 22.4 5.9E+02 0.013 25.0 8.7 51 47-102 79-133 (715)
132 TIGR02965 xanthine_xdhB xanthi 22.4 63 0.0014 31.4 2.3 39 76-114 473-513 (758)
133 COG1325 Predicted exosome subu 22.3 3.9E+02 0.0084 21.0 8.1 90 1-102 5-107 (149)
134 PF04466 Terminase_3: Phage te 22.3 29 0.00063 30.7 0.0 76 32-110 66-146 (387)
135 cd03482 MutL_Trans_MutL MutL_T 22.3 3.2E+02 0.0069 20.0 6.7 53 62-115 47-99 (123)
136 cd00554 MECDP_synthase MECDP_s 22.3 3.9E+02 0.0084 20.9 6.4 45 17-61 105-150 (153)
137 PF10015 DUF2258: Uncharacteri 22.2 1.3E+02 0.0027 21.0 3.1 21 74-94 38-58 (75)
138 PF15603 Imm45: Immunity prote 22.0 2.9E+02 0.0062 19.3 5.9 51 36-86 8-74 (82)
139 PF12401 DUF3662: Protein of u 21.8 83 0.0018 23.2 2.4 37 113-149 15-52 (116)
140 cd03330 Macro_2 Macro domain, 21.7 3.2E+02 0.007 19.8 5.7 33 126-160 90-122 (133)
141 PRK02746 pdxA 4-hydroxythreoni 21.7 2.7E+02 0.0057 24.8 5.8 37 67-105 180-216 (345)
142 PF07837 FTCD_N: Formiminotran 21.6 2.2E+02 0.0047 22.9 4.9 30 62-91 91-120 (178)
143 PF00809 Pterin_bind: Pterin b 21.4 86 0.0019 25.3 2.6 42 56-97 116-168 (210)
144 PF09932 DUF2164: Uncharacteri 21.3 1.4E+02 0.0031 20.5 3.3 25 68-92 3-27 (76)
145 PF05450 Nicastrin: Nicastrin; 21.0 1.7E+02 0.0036 24.3 4.3 31 95-141 51-81 (234)
146 KOG3332|consensus 21.0 3.9E+02 0.0085 22.6 6.3 64 34-102 36-110 (247)
147 PRK09970 xanthine dehydrogenas 20.9 87 0.0019 30.4 2.9 40 76-115 486-528 (759)
148 PTZ00084 40S ribosomal protein 20.7 3.1E+02 0.0068 22.7 5.8 30 75-104 64-93 (220)
149 PRK07193 fliF flagellar MS-rin 20.6 5.5E+02 0.012 24.2 8.0 79 16-98 136-217 (552)
150 cd02413 40S_S3_KH K homology R 20.5 2.4E+02 0.0052 19.4 4.4 27 77-103 52-78 (81)
151 PF04787 Pox_H7: Late protein 20.4 3.4E+02 0.0074 21.2 5.5 65 21-87 20-88 (147)
152 COG4324 Predicted aminopeptida 20.3 1.4E+02 0.003 26.1 3.6 35 77-111 87-121 (376)
153 PF14468 DUF4427: Protein of u 20.3 2.2E+02 0.0048 21.8 4.4 42 56-97 65-107 (132)
154 PRK09382 ispDF bifunctional 2- 20.3 1.6E+02 0.0035 26.2 4.3 37 74-112 323-359 (378)
155 PF11694 DUF3290: Protein of u 20.2 1.7E+02 0.0036 22.7 3.9 29 77-105 81-109 (149)
156 TIGR02416 CO_dehy_Mo_lg carbon 20.2 80 0.0017 30.7 2.5 39 77-115 502-542 (770)
157 PF08584 Ribonuc_P_40: Ribonuc 20.0 75 0.0016 27.0 2.0 20 152-171 53-76 (284)
No 1
>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=1.4e-39 Score=242.34 Aligned_cols=114 Identities=48% Similarity=0.762 Sum_probs=106.2
Q ss_pred CeEEEEeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHH
Q psy2936 2 PVFRIETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLF 81 (174)
Q Consensus 2 P~i~i~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~ 81 (174)
|+|+|+||++.++++++|++++++++|+++||||+||||+++++++|+|||+++||||++|+++|++++++|++++++|+
T Consensus 1 P~~~i~TNv~~~~~~~~f~~~ls~~va~~lgKpe~~i~V~v~~~~~m~fgGs~~P~a~v~l~sig~~~~~~n~~~s~~i~ 80 (114)
T PF01187_consen 1 PCLEIKTNVSASKVPDDFLKELSKLVAELLGKPESYIMVTVEDGQRMSFGGSDDPAAFVELKSIGGLDPEQNKKYSAAIT 80 (114)
T ss_dssp -EEEEEESS-GGGSHTTHHHHHHHHHHHHHTSTGGGEEEEEEESTEEEETTB-SS-EEEEEEESSSSSHHHHHHHHHHHH
T ss_pred CEEEEEcCCCchhchHHHHHHHHHHHHHHhCcchhhEEEEeeCCceEEECCCCCCEEEEEEEEccCCCHHHHHHHHHHHH
Confidence 99999999997778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhCCCCCcEEEEEEeCCCCCeeecCceec
Q psy2936 82 PHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFH 115 (174)
Q Consensus 82 ~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~ 115 (174)
++++++||||++|+||.|+|+++++|||||+||+
T Consensus 81 ~~l~~~LgIp~~Riyi~f~d~~~~~~g~nG~tf~ 114 (114)
T PF01187_consen 81 EFLEEELGIPPDRIYINFHDLPAWNVGWNGTTFA 114 (114)
T ss_dssp HHHHHHHT--GGGEEEEEEEETGGGEEETTEESC
T ss_pred HHHHHHhCCCcCceEEEEEECCHHHeeeCcEEcC
Confidence 9999999999999999999999999999999985
No 2
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=100.00 E-value=1.1e-38 Score=238.01 Aligned_cols=112 Identities=27% Similarity=0.477 Sum_probs=104.8
Q ss_pred CCeEEEEeCCCCCCchhhHHHHHHH-HHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHH
Q psy2936 1 MPVFRIETNIPKEKIPANFGKETGA-LVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAV 79 (174)
Q Consensus 1 MP~i~i~TNv~~~~~~~~f~~~ls~-~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~a 79 (174)
||+++++||++.++++++++++.+. ++|+++||||+||||+++++++|+|||+++||||++|++||++++++|++++++
T Consensus 1 MP~~~i~tNv~~~~~~~~~l~~~~~~~~a~~lgKPe~yvmV~~~~~~~m~fgGs~~P~A~~~l~siG~~~~~~n~~~s~~ 80 (113)
T PTZ00450 1 MPFLQTIVSVSLDDQKRANLSQAYRMICREELGKPEDFVMTAFSDSTPMSFQGSTAPAAYVRVEAWGEYAPSKPKMMTPR 80 (113)
T ss_pred CCEEEEEecCCCcccCHHHHHHHHHHHHHHhhCCCHHHEEEEEeCCceEEEcCCCCCEEEEEEEEecCcCHHHHHHHHHH
Confidence 9999999999965566677777766 566999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCcee
Q psy2936 80 LFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTF 114 (174)
Q Consensus 80 I~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~ 114 (174)
||++++++||||++||||.|+|. ++|||||+||
T Consensus 81 i~~~l~~~LgIp~dRiYI~f~d~--~~~G~nG~tF 113 (113)
T PTZ00450 81 ITAAITKECGIPAERIYVFYYST--KHCGWNGTNF 113 (113)
T ss_pred HHHHHHHHcCCCcccEEEEEEcH--HHcccCcEeC
Confidence 99999999999999999999995 8899999997
No 3
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=100.00 E-value=1.4e-36 Score=226.39 Aligned_cols=115 Identities=25% Similarity=0.431 Sum_probs=112.3
Q ss_pred CCeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHH
Q psy2936 1 MPVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAV 79 (174)
Q Consensus 1 MP~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~a 79 (174)
||+|+|+||++ +++.+++|++++++++++++|||++|+||+++++.+|+|||+++||||++|+++|++++++|++++++
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 99999999999 55679999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceec
Q psy2936 80 LFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFH 115 (174)
Q Consensus 80 I~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~ 115 (174)
|+++++++||||++||||.|+|++++||||||+||+
T Consensus 81 i~~~l~~~lgi~~~rv~I~f~~~~~~~w~~~G~~f~ 116 (116)
T PTZ00397 81 ITKILASHLKVKSERVYIEFKDCSAQNWAFNGSTFG 116 (116)
T ss_pred HHHHHHHHhCcCcccEEEEEEECChhheeEcceeCC
Confidence 999999999999999999999999999999999984
No 4
>KOG1759|consensus
Probab=100.00 E-value=2e-36 Score=223.56 Aligned_cols=115 Identities=44% Similarity=0.763 Sum_probs=113.5
Q ss_pred CCeEEEEeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHH
Q psy2936 1 MPVFRIETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVL 80 (174)
Q Consensus 1 MP~i~i~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI 80 (174)
||+++|+||++.++++++|.++++.++|+++|||++||||++..++.|.|||+++||||++++|+|++++++|+++++++
T Consensus 1 MP~l~i~TNv~~~~V~~~fe~elt~~lAkimgkP~~~i~V~l~~~~~i~fggt~eP~A~~~l~Sig~v~~~~N~~~sa~l 80 (115)
T KOG1759|consen 1 MPVLRIQTNVPVDKVPDGFEKELTKALAKIMGKPEDYIMVELAGGVRIAFGGTTEPAAYASLKSIGGVGAIVNRSYSAAL 80 (115)
T ss_pred CCeEEEeccCCcccCCccHHHHHHHHHHHHhCCChhhEEEEecCCceEeccCCCCccEEEEEEeccccChhHhHHHHHHH
Confidence 99999999999889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceec
Q psy2936 81 FPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFH 115 (174)
Q Consensus 81 ~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~ 115 (174)
|++|+++|+++++|+||.|+|.++..+||||+||+
T Consensus 81 ~~il~~~L~l~~~rv~I~f~dl~~~~ig~nG~t~a 115 (115)
T KOG1759|consen 81 TEILEKELSLDPDRVYIKFYDLNAAFIGFNGSTLA 115 (115)
T ss_pred HHHHHHHhCCCCCeEEEEEecCChhHccccCeecC
Confidence 99999999999999999999999999999999985
No 5
>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=99.25 E-value=2.6e-11 Score=80.01 Aligned_cols=58 Identities=12% Similarity=0.281 Sum_probs=52.2
Q ss_pred EEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecc
Q psy2936 59 IASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHE 116 (174)
Q Consensus 59 ~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~ 116 (174)
+++++...+.+.++++++++++++.+.+.||+|+++++|.|++++++|||.+|..+.+
T Consensus 2 ~I~i~~~~g~~~e~K~~l~~~it~~~~~~lg~~~~~i~V~i~E~~~~~w~~gG~~~~~ 59 (60)
T PF01361_consen 2 FITIKIPEGRTAEQKRELAEAITDAVVEVLGIPPERISVVIEEVPPENWGIGGKSLSD 59 (60)
T ss_dssp EEEEEEESTS-HHHHHHHHHHHHHHHHHHHTS-GGGEEEEEEEE-CCCEEETTEETTH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCCCeEEEEEEEEChhheEECCEEcCc
Confidence 6788999999999999999999999999999999999999999999999999998765
No 6
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=99.25 E-value=2e-11 Score=81.69 Aligned_cols=59 Identities=19% Similarity=0.220 Sum_probs=55.7
Q ss_pred EEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceeccc
Q psy2936 59 IASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEI 117 (174)
Q Consensus 59 ~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l 117 (174)
+++++...+++.+++++++++|++.+.+.||+|+++++|.|.++++++||++|.++.++
T Consensus 3 ~v~i~l~~grt~eqk~~l~~~it~~l~~~lg~p~~~v~V~i~e~~~~~w~~gg~~~~~~ 61 (64)
T PRK01964 3 IVQIQLLEGRPEEKIKNLIREVTEAISATLDVPKERVRVIVNEVPSSHWGVAGVPKSEL 61 (64)
T ss_pred EEEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEcChHHeeECCEEHHHc
Confidence 56788778899999999999999999999999999999999999999999999998876
No 7
>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=99.23 E-value=3e-11 Score=80.15 Aligned_cols=59 Identities=8% Similarity=0.141 Sum_probs=55.5
Q ss_pred EEEEEEe-ecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceeccc
Q psy2936 59 IASLMSI-GKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEI 117 (174)
Q Consensus 59 ~veI~si-g~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l 117 (174)
+++|+.. .+++++++++++++|++.+.+.||+|+++++|.+.++++++||++|.+++++
T Consensus 2 ~i~i~i~~~grt~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~~~~w~~gG~~~~~~ 61 (63)
T TIGR00013 2 FVNIYILKEGRTDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMPKNNYGIGGELVSDR 61 (63)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcCHHHeeECCEEhhHh
Confidence 5678888 6899999999999999999999999999999999999999999999998875
No 8
>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=99.22 E-value=5.7e-11 Score=77.40 Aligned_cols=56 Identities=9% Similarity=0.184 Sum_probs=52.9
Q ss_pred EEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCcee
Q psy2936 59 IASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTF 114 (174)
Q Consensus 59 ~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~ 114 (174)
+++++...++++|++++++++|++.+.+.+|+++++++|.|.++++++||++|.++
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 56788888899999999999999999999999999999999999999999999875
No 9
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=99.21 E-value=4.6e-11 Score=78.85 Aligned_cols=58 Identities=12% Similarity=0.147 Sum_probs=54.2
Q ss_pred EEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecc
Q psy2936 59 IASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHE 116 (174)
Q Consensus 59 ~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~ 116 (174)
+++|....|++++++++++++|++.+.+.+|+|+++++|.|.++++++||++|.++.+
T Consensus 3 ~i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG~~~~~ 60 (61)
T PRK02220 3 YVHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGGKRLSD 60 (61)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECCEECCC
Confidence 5678878889999999999999999999999999999999999999999999998764
No 10
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=99.18 E-value=7.1e-11 Score=78.21 Aligned_cols=58 Identities=14% Similarity=0.143 Sum_probs=54.7
Q ss_pred EEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecc
Q psy2936 59 IASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHE 116 (174)
Q Consensus 59 ~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~ 116 (174)
+++|+...++++|++++++++|++.+.+.||+|+++++|.|.+++++|||++|.++.+
T Consensus 3 ~i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~w~~gG~~~~~ 60 (62)
T PRK00745 3 TFHIELFEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRENWATGGKLWSD 60 (62)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChHHeeECCEEcCc
Confidence 5788888889999999999999999999999999999999999999999999998765
No 11
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=99.05 E-value=1.2e-09 Score=77.27 Aligned_cols=74 Identities=12% Similarity=0.194 Sum_probs=55.8
Q ss_pred eEEEEEeCCeeEEecC------CCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeec
Q psy2936 37 YVAVIVVPDVNLVFGG------SDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYN 110 (174)
Q Consensus 37 ~ImV~i~~~~~m~fgG------s~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~ 110 (174)
+..++-++...|.+.. .++...+++|++..|++.|+|+++.++|.+.|++.+||+++++.|.+.+.+++||+++
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 4556666666777763 5789999999999899999999999999999999999999999999999999999985
No 12
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=98.94 E-value=4.3e-09 Score=69.73 Aligned_cols=56 Identities=7% Similarity=0.024 Sum_probs=52.3
Q ss_pred EEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCcee
Q psy2936 59 IASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTF 114 (174)
Q Consensus 59 ~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~ 114 (174)
+++++...|+++|++++++++|++.+.+.+|+|++.+.|.|.|+++++|+.+|..-
T Consensus 3 ~i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~~~~~~~~g~~~ 58 (60)
T PRK02289 3 FVRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMPEGTYYPQGEMK 58 (60)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeChhheEECCEEc
Confidence 56777888899999999999999999999999999999999999999999999753
No 13
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=98.91 E-value=6.8e-09 Score=71.13 Aligned_cols=59 Identities=14% Similarity=0.174 Sum_probs=54.0
Q ss_pred EEEEEEee-cCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceeccc
Q psy2936 59 IASLMSIG-KLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEI 117 (174)
Q Consensus 59 ~veI~sig-~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l 117 (174)
|++|+... ..+.++++++++.+++.+.+.||-+++.++|.|.+++++|||.+|....+.
T Consensus 3 ~v~Ik~~~g~~~~~~K~~la~~vT~~~~~~lg~~~~~i~Viieev~~~~w~~gG~~~~~~ 62 (69)
T COG1942 3 FVNIKLFEGRLDEEQKAELAAEVTEVTVETLGKDPSAIHVIIEEVPPENWGVGGESVSEQ 62 (69)
T ss_pred EEEEEecCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEecChhheeEccEEhhhc
Confidence 67888884 477888999999999999999999999999999999999999999987765
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=98.61 E-value=1.9e-06 Score=63.86 Aligned_cols=104 Identities=11% Similarity=0.050 Sum_probs=88.0
Q ss_pred CeEEEEeCCC--CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCC--CCceeEEEEEEeecCChHHHHHHH
Q psy2936 2 PVFRIETNIP--KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGS--DAPAAIASLMSIGKLGTAENKKHS 77 (174)
Q Consensus 2 P~i~i~TNv~--~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs--~~P~a~veI~sig~~~~e~n~~~s 77 (174)
|.+.|.-... .....++++..+.+++.+...-|+.-+-+..........|.. ++...+++|+...|++.|++++++
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 6777776655 345689999999999999999999988888877766555544 578888999999999999999999
Q ss_pred HHHHHHHHhhhCCCCC----cEEEEEEeCCCC
Q psy2936 78 AVLFPHIEKTLGIPKD----RMYISYIDSSTD 105 (174)
Q Consensus 78 ~aI~~~l~e~LGIp~d----RiyI~f~d~~~~ 105 (174)
++|++.|++.++-+.+ .+.|.+.|++++
T Consensus 81 ~~i~~~l~~~~~~~~~~~~~~~svei~e~~~~ 112 (113)
T cd00580 81 EALLAALRAHLAPVFAKRYLSLSVEIRELDPA 112 (113)
T ss_pred HHHHHHHHHhhhhhhhccceEEEEEEEecCCC
Confidence 9999999999998877 889999998764
No 15
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=98.57 E-value=1.5e-07 Score=65.67 Aligned_cols=51 Identities=10% Similarity=0.061 Sum_probs=47.8
Q ss_pred EEEEEEeec-CChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeee
Q psy2936 59 IASLMSIGK-LGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGY 109 (174)
Q Consensus 59 ~veI~sig~-~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~ 109 (174)
+++|+..+| ++.||+++++++|++.+.+.||.+++.+.|.|.++++++|+-
T Consensus 3 ~I~I~~~~g~~s~EqK~~La~~iT~a~~~~lg~~~e~v~V~I~ev~~~~W~~ 54 (76)
T PRK01271 3 HIDIKCFPRELDEEQKAALAADITDVIIRHLNSKDSSISIALQQIQPESWQA 54 (76)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEcCHHHhhH
Confidence 567888886 899999999999999999999999999999999999999983
No 16
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=98.47 E-value=1.5e-06 Score=64.44 Aligned_cols=107 Identities=15% Similarity=0.151 Sum_probs=68.0
Q ss_pred CCeEEEEeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHH
Q psy2936 1 MPVFRIETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVL 80 (174)
Q Consensus 1 MP~i~i~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI 80 (174)
||+|.+.---. +.-..+.+.+-+-+|++.+.|.+++++.+.+...+.-|+..++..||+|.=+. ++++...+.++.|
T Consensus 1 MPhlr~rGi~~--e~v~~~S~~LideLa~i~~~p~e~ftlE~i~s~~i~~G~~~~~~pfVEV~WF~-R~qe~qd~vA~~I 77 (108)
T PF08921_consen 1 MPHLRFRGIEE--EQVQELSKELIDELAEICGCPRENFTLEWINSTFIFDGEISEGYPFVEVLWFD-RGQEVQDKVAQAI 77 (108)
T ss_dssp --EEEEESS-H--HHHHHHHHHHHHHHHHHHT--GGG-EEEE-------TT-B-----EEEEEES----HHHHHHHHHHH
T ss_pred CCeEEEecCCH--HHHHHHhHHHHHHHHHHHCCCcceEEEEEeceEEEEcCcccccceeEEEEEec-CCHHHHHHHHHHH
Confidence 99999875433 44578888889999999999999999988886665555556777799998888 8999999999999
Q ss_pred HHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 81 FPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 81 ~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
++.+.+. .....+-|.|.++++.++=-||.
T Consensus 78 t~~v~~~--~g~~~V~V~F~~l~~~~YY~nG~ 107 (108)
T PF08921_consen 78 TEHVKKA--NGYQDVAVIFTDLNPSNYYENGE 107 (108)
T ss_dssp HHHHHHH---TT---EEEEEE--GGG-EETTE
T ss_pred HHHHHhc--CCCCeEEEEEEEcCccccccCCc
Confidence 9999987 66788999999999999998885
No 17
>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=98.46 E-value=1.4e-06 Score=67.01 Aligned_cols=116 Identities=12% Similarity=0.118 Sum_probs=92.3
Q ss_pred CCeEEEEeCCC--CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeC--CeeEEecCCCCce-eEEEEEEeec--CChHHH
Q psy2936 1 MPVFRIETNIP--KEKIPANFGKETGALVAKTLGKPENYVAVIVVP--DVNLVFGGSDAPA-AIASLMSIGK--LGTAEN 73 (174)
Q Consensus 1 MP~i~i~TNv~--~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~--~~~m~fgGs~~P~-a~veI~sig~--~~~e~n 73 (174)
||+-.|+.... +.+++++|.+++++..+.+ |-|.=||.|.+.+ ...++.||...+. ..+.+..+.. .+.+.+
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 99999999885 6678999999999999999 9999999998864 5699999987544 3345555443 457889
Q ss_pred HHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceeccc
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEI 117 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l 117 (174)
+++.+++.+.+...++.+.-+.-+.+.+.+...|=.||-..-.-
T Consensus 80 ~~~~~~i~~~l~p~~~~~g~~~e~~i~etp~~lw~~~G~~pP~~ 123 (136)
T PF14832_consen 80 RRLLDRIDEVLKPHTADKGYDWEFHIDETPRDLWKENGLVPPPP 123 (136)
T ss_dssp HHHHHHHHHHHHHHHCCGGGEEEEEEEEE-GGGEEETTEEE-ST
T ss_pred HHHHHHHHHHhcccccCCCceEEEEEecCCHHHHHHCCcCCCcc
Confidence 99999999999999999999999999999999999999876543
No 18
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=98.39 E-value=5.9e-07 Score=59.86 Aligned_cols=54 Identities=28% Similarity=0.346 Sum_probs=47.5
Q ss_pred CCeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEe--CCeeEEecCCC
Q psy2936 1 MPVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVV--PDVNLVFGGSD 54 (174)
Q Consensus 1 MP~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~--~~~~m~fgGs~ 54 (174)
||+++|+...+ +.+++++|.+++++++++.+|+|.+.+.|.+. +..+|.+||..
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 99999998777 77889999999999999999999998887775 45699999853
No 19
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=98.36 E-value=7.8e-07 Score=58.63 Aligned_cols=54 Identities=28% Similarity=0.353 Sum_probs=48.0
Q ss_pred CCeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEe--CCeeEEecCCC
Q psy2936 1 MPVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVV--PDVNLVFGGSD 54 (174)
Q Consensus 1 MP~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~--~~~~m~fgGs~ 54 (174)
||+++|+.-.+ +.+++++|.+.+++++++.+|+|.+.+.|.+. +..+|.+||..
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 99999998887 77889999999999999999999998888775 45699999964
No 20
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=98.26 E-value=2e-06 Score=56.49 Aligned_cols=53 Identities=26% Similarity=0.356 Sum_probs=47.0
Q ss_pred CCeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEe--CCeeEEecCC
Q psy2936 1 MPVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVV--PDVNLVFGGS 53 (174)
Q Consensus 1 MP~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~--~~~~m~fgGs 53 (174)
||+++|+.... +.+++++|.+++++.+++.+|.|.+.+.|.+. +..+|.+||.
T Consensus 1 MP~i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~~~~gG~ 56 (61)
T PRK02220 1 MPYVHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSKNHYAVGGK 56 (61)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeChhHeEECCE
Confidence 99999998777 77889999999999999999999998877775 5669999985
No 21
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=98.25 E-value=2.9e-06 Score=56.06 Aligned_cols=53 Identities=17% Similarity=0.274 Sum_probs=47.2
Q ss_pred CCeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeC--CeeEEecCC
Q psy2936 1 MPVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVVP--DVNLVFGGS 53 (174)
Q Consensus 1 MP~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~--~~~m~fgGs 53 (174)
||+++|+.... +.++++++.+++++++++.+|.|++.+.|.+++ ..++..||.
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 99999999988 778899999999999999999999999988864 557777773
No 22
>COG1942 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]
Probab=98.20 E-value=5.1e-06 Score=56.91 Aligned_cols=53 Identities=26% Similarity=0.342 Sum_probs=46.0
Q ss_pred CCeEEEEeCCC-CC-CchhhHHHHHHHHHHHHhCCCcceEEEEEeC--CeeEEecCC
Q psy2936 1 MPVFRIETNIP-KE-KIPANFGKETGALVAKTLGKPENYVAVIVVP--DVNLVFGGS 53 (174)
Q Consensus 1 MP~i~i~TNv~-~~-~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~--~~~m~fgGs 53 (174)
||+++|+.... .+ +++++|.+++++++++.+|+|.+.+.|.|++ ..++..||.
T Consensus 1 MP~v~Ik~~~g~~~~~~K~~la~~vT~~~~~~lg~~~~~i~Viieev~~~~w~~gG~ 57 (69)
T COG1942 1 MPFVNIKLFEGRLDEEQKAELAAEVTEVTVETLGKDPSAIHVIIEEVPPENWGVGGE 57 (69)
T ss_pred CCEEEEEecCCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEecChhheeEccE
Confidence 99999999975 44 4589999999999999999999999998874 457888885
No 23
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=98.07 E-value=0.00016 Score=55.05 Aligned_cols=111 Identities=11% Similarity=-0.038 Sum_probs=85.0
Q ss_pred CCeEEEEeCCC--CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCC--ceeEEEEEEeecCChHHHHHH
Q psy2936 1 MPVFRIETNIP--KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDA--PAAIASLMSIGKLGTAENKKH 76 (174)
Q Consensus 1 MP~i~i~TNv~--~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~--P~a~veI~sig~~~~e~n~~~ 76 (174)
||.+.|.=.-. ..-..+++++.+.+.+.+.=--|+.-|-+...+-..+..|...+ ...++.++...|++.|+++++
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 99888876555 33457899999988888744467778888888888888875454 455666666888999999999
Q ss_pred HHHHHHHHHhhhC----CCCCcEEEEEEeCCCC-CeeecC
Q psy2936 77 SAVLFPHIEKTLG----IPKDRMYISYIDSSTD-VVGYNG 111 (174)
Q Consensus 77 s~aI~~~l~e~LG----Ip~dRiyI~f~d~~~~-nwG~~G 111 (174)
++++.+.+++.+. -+.-.+-+.+.|++++ +|-.|.
T Consensus 81 ~~~l~~~l~~~~~~~~~~~~~~LS~Ei~d~d~~~s~k~~~ 120 (126)
T PRK15031 81 GEMLFALIKAHFAALMESRYLALSFEIEELHPTLNFKQNN 120 (126)
T ss_pred HHHHHHHHHHHhhhhhcccceEEEEEEEEcCCccChhhhh
Confidence 9999999887764 3346688889999888 776643
No 24
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=97.93 E-value=2.2e-05 Score=51.45 Aligned_cols=53 Identities=21% Similarity=0.369 Sum_probs=43.2
Q ss_pred CeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEe--CCeeEEecCCC
Q psy2936 2 PVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVV--PDVNLVFGGSD 54 (174)
Q Consensus 2 P~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~--~~~~m~fgGs~ 54 (174)
|+|+|+.... +.+++++|.+++++++++++|+|.+.+.|.++ +..+|..||..
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 8999999988 67889999999999999999999998877664 56789999853
No 25
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=97.93 E-value=2.7e-05 Score=51.30 Aligned_cols=53 Identities=23% Similarity=0.250 Sum_probs=46.0
Q ss_pred CeEEEEeC-CC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEe--CCeeEEecCCC
Q psy2936 2 PVFRIETN-IP-KEKIPANFGKETGALVAKTLGKPENYVAVIVV--PDVNLVFGGSD 54 (174)
Q Consensus 2 P~i~i~TN-v~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~--~~~~m~fgGs~ 54 (174)
|+++|+.. .. +.+++++|.+++++++++.+|+|.+.+.|.+. +..+|.+||..
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 55 67889999999999999999999998887775 45689999864
No 26
>PRK01271 4-oxalocrotonate tautomerase; Provisional
Probab=97.92 E-value=2.1e-05 Score=54.79 Aligned_cols=44 Identities=14% Similarity=0.268 Sum_probs=40.7
Q ss_pred CCeEEEEeCCC--CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeC
Q psy2936 1 MPVFRIETNIP--KEKIPANFGKETGALVAKTLGKPENYVAVIVVP 44 (174)
Q Consensus 1 MP~i~i~TNv~--~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~ 44 (174)
||+++|+.--. +.+++++|.+++++++++++|+|++.+.|.|++
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 99999999774 678899999999999999999999999999876
No 27
>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=97.89 E-value=3.2e-05 Score=49.92 Aligned_cols=52 Identities=25% Similarity=0.365 Sum_probs=45.7
Q ss_pred CeEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEe--CCeeEEecCC
Q psy2936 2 PVFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVV--PDVNLVFGGS 53 (174)
Q Consensus 2 P~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~--~~~~m~fgGs 53 (174)
|+++|+.... +.+++++|.+++++++++.+|+|.+.+.|.++ +..+|.+||.
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 8999998887 67889999999999999999999998877775 4568999985
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=97.55 E-value=0.0027 Score=48.14 Aligned_cols=104 Identities=13% Similarity=0.081 Sum_probs=74.2
Q ss_pred CeEEEEe--CCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCC--CceeEEEEEEeecCChHHHHHHH
Q psy2936 2 PVFRIET--NIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSD--APAAIASLMSIGKLGTAENKKHS 77 (174)
Q Consensus 2 P~i~i~T--Nv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~--~P~a~veI~sig~~~~e~n~~~s 77 (174)
|.+.|.= |+.......+|+..+.+.+.+.=--|+.-|.+...+......|+.. +...++++....|++.|++++++
T Consensus 1 PH~viEYS~nL~~~~d~~~ll~~l~~~~~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~FvHv~l~il~GRs~e~k~~l~ 80 (124)
T PF02962_consen 1 PHLVIEYSANLEDDVDIPALLRALHDALLASGLFPEGGIKVRAIRCDHYRVGDGQPDDAFVHVTLRILAGRSEEQKKALS 80 (124)
T ss_dssp -EEEEEEECCGCCTTTHHHHHHHHHHHHHCTTSS-GGG-EEEEEEESSEEETTSSS-EEEEEEEEEEETT--HHHHHHHH
T ss_pred CeEEEEeCCCccccCCHHHHHHHHHHHHHHcCCcChhceeeeeEecccEEEccCCCCCcEEEEEeeecCCCCHHHHHHHH
Confidence 5555544 5554434679999999999988447888999998888888887543 45666666778899999999999
Q ss_pred HHHHHHHHhhhCCCCC----cEEEEEEeCCCC
Q psy2936 78 AVLFPHIEKTLGIPKD----RMYISYIDSSTD 105 (174)
Q Consensus 78 ~aI~~~l~e~LGIp~d----RiyI~f~d~~~~ 105 (174)
+++.+.+++.+.-..+ .+-+.+.|+++.
T Consensus 81 ~~l~~~l~~~~~~~~~~~~~~LsvEi~E~~~~ 112 (124)
T PF02962_consen 81 EALLAVLKAHLAPLFAQRYLQLSVEIREMDPA 112 (124)
T ss_dssp HHHHHHHHHHCCCHCCHSEEEEEEEEEEE-CC
T ss_pred HHHHHHHHHHhhHhhcCCeeEEEEEEEEcCcc
Confidence 9999999999875443 456778888875
No 29
>COG3232 HpaF 5-carboxymethyl-2-hydroxymuconate isomerase [Amino acid transport and metabolism]
Probab=96.55 E-value=0.011 Score=44.73 Aligned_cols=91 Identities=10% Similarity=0.039 Sum_probs=65.7
Q ss_pred CCeEEE--EeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEE--eecCChHHHHHH
Q psy2936 1 MPVFRI--ETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMS--IGKLGTAENKKH 76 (174)
Q Consensus 1 MP~i~i--~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~s--ig~~~~e~n~~~ 76 (174)
||.+.+ +-|+..+.....|++++..++...=--|..-|.....--..+..|...++.+||.++. --|+++|++++.
T Consensus 1 MPHli~EyT~Nl~~~~~~~~L~~~vn~~l~asG~FplggIRsRa~rld~y~maD~~~~~aFvH~tl~IgaGRs~e~rq~v 80 (127)
T COG3232 1 MPHLIMEYTDNLREEADLPGLLEKVNAALIASGLFPLGGIRSRALRLDAYRMADGAEDDAFVHMTLKIGAGRSEEQRQEV 80 (127)
T ss_pred CCceehhhhcCccccCCcHHHHHHHHHHHHhcCCCcccceeehhhhhhHHHhcccCCCcceEEEEEEecCCCCHHHHHHH
Confidence 896644 4566644456799999988888777778888876654444444454345566666554 457999999999
Q ss_pred HHHHHHHHHhhhCCC
Q psy2936 77 SAVLFPHIEKTLGIP 91 (174)
Q Consensus 77 s~aI~~~l~e~LGIp 91 (174)
.+++++.|...+.--
T Consensus 81 ge~Lf~~l~~~~A~l 95 (127)
T COG3232 81 GEALFAVLTAHFAPL 95 (127)
T ss_pred HHHHHHHHHHHHhhh
Confidence 999999999998533
No 30
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=96.48 E-value=0.0068 Score=44.73 Aligned_cols=52 Identities=15% Similarity=0.128 Sum_probs=41.9
Q ss_pred eEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCe--eEEecCCC
Q psy2936 3 VFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDV--NLVFGGSD 54 (174)
Q Consensus 3 ~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~--~m~fgGs~ 54 (174)
+++|+.--. +.+++++|.+++++++++.+|.|.++|.|.+.+.. +|.|||+.
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 345554343 55778999999999999999999999999998765 59999963
No 31
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=95.48 E-value=0.023 Score=39.98 Aligned_cols=49 Identities=16% Similarity=0.280 Sum_probs=37.5
Q ss_pred eEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeC--CeeEEec
Q psy2936 3 VFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVVP--DVNLVFG 51 (174)
Q Consensus 3 ~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~--~~~m~fg 51 (174)
+|+|....+ +.+++++|-+.+++.+++.+|-+.+-|||.+.+ ..+|.||
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 678888877 778899999999999999999999988887754 4578776
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=95.44 E-value=0.038 Score=42.53 Aligned_cols=51 Identities=12% Similarity=0.178 Sum_probs=42.8
Q ss_pred EeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceec
Q psy2936 64 SIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFH 115 (174)
Q Consensus 64 sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~ 115 (174)
+.|.+++++|++++++|+++-... |+|.=-|.|.|+++++.++=.+|..-.
T Consensus 9 ~~~~lt~~~K~~LA~~IT~~y~~~-glP~FyV~V~F~~~~~~~~fvGG~~~~ 59 (136)
T PF14832_consen 9 PPGTLTPEQKQALAEAITDIYTSI-GLPAFYVNVRFIEVPPGDFFVGGKPRD 59 (136)
T ss_dssp ETTSS-HHHHHHHHHHHHHHHHHT-TTTGGG-EEEEEEE-TTSEEETTEE-S
T ss_pred CCCCCCHHHHHHHHHHHHHHHhCC-CCCCEEEEEEEEEcCCCCeEECCcCcC
Confidence 456799999999999999999888 999999999999999999999997653
No 33
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=87.60 E-value=1.1 Score=33.24 Aligned_cols=41 Identities=17% Similarity=0.238 Sum_probs=35.6
Q ss_pred CCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCC
Q psy2936 13 EKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGS 53 (174)
Q Consensus 13 ~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs 53 (174)
.+..+++.+.+++++.+.||-|.++|-|.+.+...|-+.|+
T Consensus 71 ~~~n~~~s~~i~~~l~~~LgIp~dRiYI~f~d~~~~G~nG~ 111 (113)
T PTZ00450 71 PSKPKMMTPRITAAITKECGIPAERIYVFYYSTKHCGWNGT 111 (113)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCcccEEEEEEcHHHcccCcE
Confidence 35567999999999999999999999999998777777675
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=84.38 E-value=2.1 Score=31.32 Aligned_cols=42 Identities=12% Similarity=0.265 Sum_probs=32.6
Q ss_pred CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeC--CeeEEecCC
Q psy2936 12 KEKIPANFGKETGALVAKTLGKPENYVAVIVVP--DVNLVFGGS 53 (174)
Q Consensus 12 ~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~--~~~m~fgGs 53 (174)
..+..+.+.+++++++.+.||-|.+++.|.+.+ ...+-+.|+
T Consensus 68 ~~~~n~~~s~~i~~~l~~~LgIp~~Riyi~f~d~~~~~~g~nG~ 111 (114)
T PF01187_consen 68 DPEQNKKYSAAITEFLEEELGIPPDRIYINFHDLPAWNVGWNGT 111 (114)
T ss_dssp SHHHHHHHHHHHHHHHHHHHT--GGGEEEEEEEETGGGEEETTE
T ss_pred CHHHHHHHHHHHHHHHHHHhCCCcCceEEEEEECCHHHeeeCcE
Confidence 344567999999999999999999999999974 456677775
No 35
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=80.09 E-value=19 Score=29.04 Aligned_cols=84 Identities=8% Similarity=0.022 Sum_probs=62.8
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh-CCCCCcE
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL-GIPKDRM 95 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L-GIp~dRi 95 (174)
.++..++++.+..+-|.-..+|.+.+-... .+......|.|-|-++.-++.+.+ . ...+|..++..-. |+.+++|
T Consensus 106 ~ale~EL~rtI~~i~~V~~ArVhl~~P~~~-~f~~~~~~~sASV~l~~~~g~~l~--~-qv~~I~~LVa~SV~~L~~enV 181 (193)
T TIGR02544 106 YAIEQRLEQTLSQIDGVISARVHVVLPEND-NNGRPKKPSSASVFIKYRPGLNLD--A-LIPKIKRLVANSIPGLDYDNV 181 (193)
T ss_pred HHHHHHHHHHHHhcCCeeeeEEEEECCCCC-cccccCCCCcEEEEEEeCCCCCcH--H-HHHHHHHHHHHhcCCCCccce
Confidence 466777888888888887788888775543 333445578888888887776543 2 6788888888877 7999999
Q ss_pred EEEEEeCCC
Q psy2936 96 YISYIDSST 104 (174)
Q Consensus 96 yI~f~d~~~ 104 (174)
-|...+.++
T Consensus 182 tVv~~~~~~ 190 (193)
T TIGR02544 182 SVVLVPAEE 190 (193)
T ss_pred EEEEecccc
Confidence 999988754
No 36
>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=79.71 E-value=12 Score=30.26 Aligned_cols=84 Identities=18% Similarity=0.297 Sum_probs=56.5
Q ss_pred chhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEe-----------------c-------------------C-CCCce
Q psy2936 15 IPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVF-----------------G-------------------G-SDAPA 57 (174)
Q Consensus 15 ~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~f-----------------g-------------------G-s~~P~ 57 (174)
..+.+..++..++.++-|...-.|||++..+..-.+ | | ...|.
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 455688889999999999999999999986654443 1 1 12344
Q ss_pred eEEEEEE--eec---CChHHHHHHHHHHHHHHHhhhCCCCCcEEEE
Q psy2936 58 AIASLMS--IGK---LGTAENKKHSAVLFPHIEKTLGIPKDRMYIS 98 (174)
Q Consensus 58 a~veI~s--ig~---~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~ 98 (174)
..=++.- .|. -.-..|...-..|++.++..|+||++||.|.
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 3333211 111 0123556677778888999999999999874
No 37
>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=75.17 E-value=5 Score=27.78 Aligned_cols=57 Identities=23% Similarity=0.317 Sum_probs=30.5
Q ss_pred eEEEEEeCCe-eEEe-cCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEE
Q psy2936 37 YVAVIVVPDV-NLVF-GGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYIS 98 (174)
Q Consensus 37 ~ImV~i~~~~-~m~f-gGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~ 98 (174)
.+.|.+.|+. .-.+ |...++...+.++. +...-+-.++++++|.+.||+|+.+|.|.
T Consensus 5 ~l~v~V~P~ak~~~i~~~~~~~~l~i~v~a-----pp~~GkAN~ali~~La~~l~v~ks~i~i~ 63 (77)
T PF02594_consen 5 ILSVRVKPGAKRNAIVGVEGDGALKIRVTA-----PPVDGKANKALIRFLAKALGVPKSDIEIV 63 (77)
T ss_dssp EEEEECEBSSSS-EEEEE-TTT-EEEEBST-----TCCCCCHHHHHHHHHHHHCT--TTCEEEC
T ss_pred EEEEEEEeCCCccccccccCceEEEEEEec-----CCCcChhHHHHHHHHHHHhCCCcccEEEE
Confidence 4556666654 1222 22223344344322 22333445678999999999999999875
No 38
>PRK00647 hypothetical protein; Validated
Probab=73.22 E-value=13 Score=26.93 Aligned_cols=62 Identities=18% Similarity=0.217 Sum_probs=38.6
Q ss_pred eEEEEEeCCe-eEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCC
Q psy2936 37 YVAVIVVPDV-NLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSS 103 (174)
Q Consensus 37 ~ImV~i~~~~-~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~ 103 (174)
.+.|.+.|+. .=.+.|-.+...-+.|+. +-.+-+-.++++++|.+.||||+.+|-|..=.-+
T Consensus 7 ~l~V~V~P~Ak~~~I~g~~~~~Lkvrv~A-----pPvdGKAN~ali~~LAk~l~vpks~I~Iv~G~tS 69 (96)
T PRK00647 7 ILEVKVTPKARENKIVGFEGGILKVRVTE-----VPEKGKANDAVIALLAKFLSLPKRDVTLIAGETS 69 (96)
T ss_pred EEEEEEeeCCCcceeccccCCEEEEEEec-----CCCCChHHHHHHHHHHHHhCCChhhEEEEecCCC
Confidence 3456777764 223444444444344433 2233445577899999999999999998765543
No 39
>PF08921 DUF1904: Domain of unknown function (DUF1904); InterPro: IPR015017 This entry represents a family of hypothetical bacterial proteins. ; PDB: 1U9D_B.
Probab=72.33 E-value=15 Score=27.04 Aligned_cols=69 Identities=17% Similarity=0.359 Sum_probs=40.2
Q ss_pred eecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCce-----ecc--cccC-ccchHHHHHHHHHhhh
Q psy2936 65 IGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTT-----FHE--IFGG-PVLNKRAMESIVLEFK 136 (174)
Q Consensus 65 ig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T-----~~~--l~~~-~~~~~~~~~~~~~~~~ 136 (174)
+.|+..++-+++|+.+.+.|++..+.|++.+.+.+.+. .+=.+|.. |-+ +|.. ++.+++.++.|..-++
T Consensus 6 ~rGi~~e~v~~~S~~LideLa~i~~~p~e~ftlE~i~s---~~i~~G~~~~~~pfVEV~WF~R~qe~qd~vA~~It~~v~ 82 (108)
T PF08921_consen 6 FRGIEEEQVQELSKELIDELAEICGCPRENFTLEWINS---TFIFDGEISEGYPFVEVLWFDRGQEVQDKVAQAITEHVK 82 (108)
T ss_dssp EESS-HHHHHHHHHHHHHHHHHHHT--GGG-EEEE----------TT-B-----EEEEEES---HHHHHHHHHHHHHHHH
T ss_pred EecCCHHHHHHHhHHHHHHHHHHHCCCcceEEEEEece---EEEEcCcccccceeEEEEEecCCHHHHHHHHHHHHHHHH
Confidence 35688999999999999999999999999999998884 33333433 332 3343 4444466666655554
No 40
>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=70.87 E-value=8.6 Score=28.00 Aligned_cols=41 Identities=10% Similarity=0.002 Sum_probs=31.3
Q ss_pred EEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcc----eEEEEEeC
Q psy2936 4 FRIETNIP-KEKIPANFGKETGALVAKTLGKPEN----YVAVIVVP 44 (174)
Q Consensus 4 i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~----~ImV~i~~ 44 (174)
++|+...+ +.+++++|.+.+.+.+++.++.+.+ .+.|.+.+
T Consensus 63 i~i~l~~GRs~eqK~~l~~~i~~~l~~~~~~~~~~~~~~~svei~e 108 (113)
T cd00580 63 VTLRILAGRSEEQKQELSEALLAALRAHLAPVFAKRYLSLSVEIRE 108 (113)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHhhhhhhhccceEEEEEEEe
Confidence 45555555 6788999999999999999998755 66666544
No 41
>PRK05090 hypothetical protein; Validated
Probab=70.47 E-value=18 Score=26.18 Aligned_cols=61 Identities=11% Similarity=0.169 Sum_probs=36.9
Q ss_pred eEEEEEeCCe-eEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 37 YVAVIVVPDV-NLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 37 ~ImV~i~~~~-~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
.+.|.+.|+. .-...|-.+...-+.++. +-..-+-.++++++|.+.||+++.+|.|.-=..
T Consensus 12 ~l~i~V~P~A~~~~i~~~~~~~lkv~v~A-----pPveGkAN~ali~~LAk~l~v~ks~I~i~~G~t 73 (95)
T PRK05090 12 VLRLYIQPKASRDQIVGLHGDELKVAITA-----PPVDGQANAHLLKFLAKQFRVAKSQVVIEKGEL 73 (95)
T ss_pred EEEEEEeeCCCcceeccccCCEEEEEEec-----CCCCChHHHHHHHHHHHHhCCChhhEEEEecCC
Confidence 4566777764 223344333333333332 223344556789999999999999999865443
No 42
>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=69.37 E-value=36 Score=26.62 Aligned_cols=83 Identities=13% Similarity=0.186 Sum_probs=54.4
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCe----------eEEecCCC-------CceeEEEEEE---eecCChHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDV----------NLVFGGSD-------APAAIASLMS---IGKLGTAENKK 75 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~----------~m~fgGs~-------~P~a~veI~s---ig~~~~e~n~~ 75 (174)
.+.+...+.+.+.+..|.+...+.|.+..+. .++..... .|.-=++|.. -..-......+
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 4566667777777788888889999887653 22232211 1222233333 11123456678
Q ss_pred HHHHHHHHHHhhhCCCCCcEEEE
Q psy2936 76 HSAVLFPHIEKTLGIPKDRMYIS 98 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dRiyI~ 98 (174)
....|.+.+++.+||++++|-|.
T Consensus 165 ~~~~i~~~la~~~~i~~~~I~V~ 187 (188)
T PF09581_consen 165 EEEEIKQYLADFYGISPEQIKVY 187 (188)
T ss_pred HHHHHHHHHHHHhCCCHHHeEEe
Confidence 88889999999999999999875
No 43
>PF11090 DUF2833: Protein of unknown function (DUF2833); InterPro: IPR020335 This entry contains proteins with no known function.
Probab=69.17 E-value=20 Score=25.57 Aligned_cols=52 Identities=15% Similarity=0.191 Sum_probs=40.8
Q ss_pred EEEEeCCeeEEecCCC-CceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCC
Q psy2936 39 AVIVVPDVNLVFGGSD-APAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGI 90 (174)
Q Consensus 39 mV~i~~~~~m~fgGs~-~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGI 90 (174)
|+.-..|..+..||+. +-+=++.-.-+..++++++.++.+.+.+.+.+-|..
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 4445678899999998 555566666677788999999999999888877765
No 44
>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=68.11 E-value=8.1 Score=32.39 Aligned_cols=30 Identities=30% Similarity=0.614 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCcEEEEEEe
Q psy2936 72 ENKKHSAVLFPHIEKTLGIPKDRMYISYID 101 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d 101 (174)
-+++..+---++|.+.||++++|+||+++.
T Consensus 95 FK~eaI~~awe~LT~~l~l~~~rl~vTv~~ 124 (232)
T cd00673 95 FKEEAIAFAWELLTEVLGLPKDRLYVSVFE 124 (232)
T ss_pred hHHHHHHHHHHHHHhhcCCCccceEEEEeC
Confidence 456666667889999999999999999985
No 45
>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=60.21 E-value=16 Score=35.59 Aligned_cols=83 Identities=14% Similarity=0.131 Sum_probs=52.7
Q ss_pred CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCC
Q psy2936 12 KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIP 91 (174)
Q Consensus 12 ~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp 91 (174)
..+..+...+.+++.+|+.||-|.+.|.|..-+-...-+++.+ .+--.....|.--....+++-+++.+...+.|+++
T Consensus 486 ~~d~GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt--~~Sr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l~~~ 563 (768)
T TIGR03196 486 CAECGQGFLAAAEQIAMEELGCAAEDISIAIADTAKGPKAGSS--SASRGTSMSGGAIQGACAAFAAQLKARAAETAGLP 563 (768)
T ss_pred CCCcCCCHHHHHHHHHHHHhCCCHHHEEEecCCCCCCCCCCCC--chhhhhHhHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4467789999999999999999999999976543333333211 00001111222224455666677777778888988
Q ss_pred CCcEE
Q psy2936 92 KDRMY 96 (174)
Q Consensus 92 ~dRiy 96 (174)
++.+-
T Consensus 564 ~~~~~ 568 (768)
T TIGR03196 564 AEVVE 568 (768)
T ss_pred hhhEE
Confidence 77544
No 46
>PRK01530 hypothetical protein; Reviewed
Probab=57.05 E-value=13 Score=27.33 Aligned_cols=33 Identities=12% Similarity=0.151 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCC
Q psy2936 72 ENKKHSAVLFPHIEKTLGIPKDRMYISYIDSST 104 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~ 104 (174)
.+-+-.++++++|.+.||||+.+|-|.-=..++
T Consensus 50 vdGkAN~ali~~LAk~l~v~ks~I~IvsG~tSR 82 (105)
T PRK01530 50 EQGKANEEIINYLAKEWKLSRSNIEIIKGHTHS 82 (105)
T ss_pred CCChHHHHHHHHHHHHhCCChhhEEEEecCCCC
Confidence 334556778999999999999999987654433
No 47
>KOG1759|consensus
Probab=56.56 E-value=31 Score=25.90 Aligned_cols=49 Identities=8% Similarity=0.034 Sum_probs=39.0
Q ss_pred eEEEEeCCC-CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEec
Q psy2936 3 VFRIETNIP-KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFG 51 (174)
Q Consensus 3 ~i~i~TNv~-~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fg 51 (174)
++++++--. ..++.+++.+.++..+.+-|+-|.+++-+.+.+-....+|
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 456666655 5566789999999999999999999999999875554444
No 48
>PRK01310 hypothetical protein; Validated
Probab=56.23 E-value=15 Score=26.89 Aligned_cols=65 Identities=20% Similarity=0.243 Sum_probs=38.7
Q ss_pred ceEEEEEeCCe-eEEecCCC-Cce--eEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCC
Q psy2936 36 NYVAVIVVPDV-NLVFGGSD-APA--AIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSS 103 (174)
Q Consensus 36 ~~ImV~i~~~~-~m~fgGs~-~P~--a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~ 103 (174)
-.+.|.+.|+. .-.+.|-. ++. ..+.|...- +-..-+-.++++++|.+.||||+.+|-|.-=.-+
T Consensus 12 ~~i~v~V~P~A~~~~i~g~~~~~~g~~~lkv~v~a---pPv~GkAN~ali~~LA~~l~v~ks~I~iv~G~ts 80 (104)
T PRK01310 12 LRLAVRLTPRGGRDAIDGIETLADGRAVLKVRVRA---VPEGGEANRALIELLAKALGVPKSSVRLLSGATS 80 (104)
T ss_pred EEEEEEEeeCCCcceeccccccCCCccEEEEEEec---CCCCChHHHHHHHHHHHHhCCChhhEEEEecCCC
Confidence 35677888864 22244432 111 134443322 2233445577899999999999999998755443
No 49
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=51.86 E-value=25 Score=27.85 Aligned_cols=90 Identities=17% Similarity=0.268 Sum_probs=56.9
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCC--------------C--ceeEEEEEEeecCChHHHHHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSD--------------A--PAAIASLMSIGKLGTAENKKHSAV 79 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~--------------~--P~a~veI~sig~~~~e~n~~~s~a 79 (174)
.+-++..++.++-.+.+... +=-.+ |.....|.|.+ . --.-+.++.++... +-.-+-.+
T Consensus 37 gDVllHAi~DAllgA~glGD--IG~~F-p~~d~~~kgadS~~lL~~~~~~v~~~g~~i~Nvd~tii~~~P--K~~P~~~a 111 (159)
T COG0245 37 GDVLLHALTDALLGAAGLGD--IGKHF-PDTDPRWKGADSRILLKEAVELVREKGYRIGNVDITIIAQRP--KLGPYREA 111 (159)
T ss_pred HHHHHHHHHHHHHHhhccCc--chhcC-CCCCcccCCCchHHHHHHHHHHHHHhCcEEEeEEEEEEEecC--cccchHHH
Confidence 56677777777777766533 22223 22334555542 1 12334455555332 22346678
Q ss_pred HHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 80 LFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 80 I~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
+.+.+.+.|+++.++|.|..+.. +..|+-|+
T Consensus 112 mr~~ia~~L~i~~~~invKatT~--E~LGf~Gr 142 (159)
T COG0245 112 MRANIAELLGIPVDRINVKATTT--EKLGFTGR 142 (159)
T ss_pred HHHHHHHHhCCCchheEEEEecc--Cccccccc
Confidence 89999999999999999999987 77887764
No 50
>KOG0188|consensus
Probab=51.59 E-value=21 Score=34.87 Aligned_cols=35 Identities=26% Similarity=0.538 Sum_probs=29.2
Q ss_pred CChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 68 LGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 68 ~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
++.=-+++.++---++|.+.+|||++|.||+|.+=
T Consensus 97 FGdYfK~Eac~~AwelLt~vygi~~dRLYVtYF~G 131 (895)
T KOG0188|consen 97 FGDYFKEEACAWAWELLTFVYGIPTDRLYVTYFGG 131 (895)
T ss_pred cchHHHHHHHHHHHHHHHHhhcCCCceEEEEEecC
Confidence 45556677777778999999999999999999873
No 51
>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=50.52 E-value=14 Score=35.69 Aligned_cols=84 Identities=10% Similarity=0.103 Sum_probs=52.1
Q ss_pred CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCC
Q psy2936 12 KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIP 91 (174)
Q Consensus 12 ~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp 91 (174)
..+.-+...+.+++.+|+.||-|.+.|.|..-+....-+++.+ .+--.....|.--....+++-+++.+.-.+.|+++
T Consensus 466 ~~e~GQG~~T~laQIaAe~LGi~~d~V~v~~~DT~~~p~~~gT--~gSr~t~~~g~Av~~Aa~~lr~~l~~~Aa~~l~~~ 543 (758)
T TIGR02965 466 GTEMGQGLNTKVAQVVAEEFQVDIDRVKITATDTDKVPNTSAT--AASSGSDLNGMAAQDAARQIKERLVAFAAEKWQVP 543 (758)
T ss_pred CCCCCCCHHHHHHHHHHHHhCCCHHHEEEEecCccCCCCCCCC--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 3466789999999999999999999999977543322222211 00000111122123344555566666678899999
Q ss_pred CCcEEE
Q psy2936 92 KDRMYI 97 (174)
Q Consensus 92 ~dRiyI 97 (174)
++.+.+
T Consensus 544 ~~~l~~ 549 (758)
T TIGR02965 544 AEDVRF 549 (758)
T ss_pred HHHEEE
Confidence 987554
No 52
>PRK15348 type III secretion system lipoprotein SsaJ; Provisional
Probab=49.79 E-value=1.2e+02 Score=25.65 Aligned_cols=78 Identities=8% Similarity=0.070 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh-CCCCCcEEEE
Q psy2936 20 GKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL-GIPKDRMYIS 98 (174)
Q Consensus 20 ~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L-GIp~dRiyI~ 98 (174)
..++++.+..+-|.-..+|.+.+-.... |.....|.|-|-++.-++.+.++.+- +|..++..-. |..+++|-|.
T Consensus 109 egELarTI~~idgV~~ArVhL~lP~~~~--~~~~~~asASV~I~~~~~~~~~~~~v---~I~~LVA~SV~gL~~enVTVv 183 (249)
T PRK15348 109 EQRIEGMLSQMEGVINAKVTIALPTYDE--GSNASPSSVAVFIKYSPQVNMEAFRV---KIKDLIEMSIPGLQYSKISIL 183 (249)
T ss_pred HHHHHHHHHhCCCeeEeEEEEECCCCCc--ccCCCCccEEEEEEeCCCCChHHHHH---HHHHHHHHhcCCCCccceEEE
Confidence 4557777777777777777777654433 44445677878887777766654332 5888887766 7999999998
Q ss_pred EEeC
Q psy2936 99 YIDS 102 (174)
Q Consensus 99 f~d~ 102 (174)
..+.
T Consensus 184 d~~~ 187 (249)
T PRK15348 184 MQPA 187 (249)
T ss_pred ecCC
Confidence 8775
No 53
>PRK09800 putative hypoxanthine oxidase; Provisional
Probab=48.06 E-value=32 Score=34.43 Aligned_cols=87 Identities=17% Similarity=0.146 Sum_probs=55.1
Q ss_pred CCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh
Q psy2936 9 NIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL 88 (174)
Q Consensus 9 Nv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L 88 (174)
+....+..+...+.+++.+|+.||-|.+.|.|...+-...-+++.+- +--.....|.--....+++-++|.+...+.|
T Consensus 680 ~~g~~e~GqG~~T~~~QiaAe~LGip~d~V~v~~~DT~~~p~~~gt~--aSr~t~~~G~Av~~Aa~~l~~kl~~~aa~~l 757 (956)
T PRK09800 680 HSGGADIGTGLDTVVTKLAAEVLHCPPQDVHVISGDTDHALFDKGAY--ASSGTCFSGNAARLAAENLREKILFHGAQML 757 (956)
T ss_pred EECCCCCCccHHHHHHHHHHHHHCCCceeEEEEeCCCCCCCCCCCcc--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455678899999999999999999999999775533222222110 0000111222224556667777777778889
Q ss_pred CCCCCcEEE
Q psy2936 89 GIPKDRMYI 97 (174)
Q Consensus 89 GIp~dRiyI 97 (174)
+++++.+.+
T Consensus 758 ~~~~~~~~~ 766 (956)
T PRK09800 758 GEPVADVQL 766 (956)
T ss_pred CCCHHHEEE
Confidence 999885433
No 54
>PF10850 DUF2653: Protein of unknown function (DUF2653); InterPro: IPR020516 This entry contains proteins with no known function.
Probab=47.55 E-value=1e+02 Score=22.14 Aligned_cols=77 Identities=13% Similarity=0.038 Sum_probs=53.6
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCc--
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDR-- 94 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dR-- 94 (174)
+++.-++|-.+|+--+--.+-|.|.+.-+...- +..++..-|....=--..+..+|..++.+++++.|-+
T Consensus 8 qeIiNAvCl~~A~~~~i~P~dVeVeL~yDdd~G--------FsAEv~~ngr~q~l~~~nlieAIr~~l~~~~~~~p~~~~ 79 (91)
T PF10850_consen 8 QEIINAVCLHIAERKGIQPEDVEVELMYDDDYG--------FSAEVWVNGRSQYLIEANLIEAIRQYLEEEYNMDPFRAG 79 (91)
T ss_pred HHHHHHHHHHHHHhcCCCcccEEEEEEEecCCC--------eeEEEEECCeEEEEchhhHHHHHHHHHHHHhCCCcchhh
Confidence 577888999999998866666666665543333 3346666555433344678999999999999999866
Q ss_pred EEEEEEe
Q psy2936 95 MYISYID 101 (174)
Q Consensus 95 iyI~f~d 101 (174)
+.+.+.|
T Consensus 80 i~L~ldd 86 (91)
T PF10850_consen 80 IELELDD 86 (91)
T ss_pred eEEEEcc
Confidence 5554444
No 55
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=47.29 E-value=1.5e+02 Score=28.53 Aligned_cols=72 Identities=18% Similarity=0.226 Sum_probs=52.4
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcE
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRM 95 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRi 95 (174)
..++-+-.-..+--++|+..+.|.+....++..+|||.++|.- .++...-+.++.+|.+.+.+ .++|
T Consensus 274 ~~elg~vA~~~L~lAlgRGGDQVvIke~~~k~~fyGG~s~~~e--------krTRvRaRvis~al~d~i~e-----~d~V 340 (655)
T COG3887 274 LIELGEVAQSNLDLALGRGGDQVVIKENNGKVRFYGGKSNPME--------KRTRVRARVISTALSDIIKE-----SDNV 340 (655)
T ss_pred HHHHHHHHHHhHHHHhccCCceEEEEcCCCceeeeCCCcchhH--------HhHHHHHHHHHHHHHHHHhh-----cCcE
Confidence 3444444455566788999999999988888889999988864 45556666677777777666 7888
Q ss_pred EEEEE
Q psy2936 96 YISYI 100 (174)
Q Consensus 96 yI~f~ 100 (174)
+|.=|
T Consensus 341 fImGH 345 (655)
T COG3887 341 FIMGH 345 (655)
T ss_pred EEEcc
Confidence 87633
No 56
>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=47.22 E-value=18 Score=34.97 Aligned_cols=80 Identities=16% Similarity=0.131 Sum_probs=53.0
Q ss_pred CCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEE-----eecCChHHHHHHHHHHHHHHH
Q psy2936 11 PKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMS-----IGKLGTAENKKHSAVLFPHIE 85 (174)
Q Consensus 11 ~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~s-----ig~~~~e~n~~~s~aI~~~l~ 85 (174)
...+.-+.+.+.+++.+|+.||-|.+.|.|..-+-...-++ +-...| .|.--....+++-++|.+...
T Consensus 462 g~~e~GqG~~T~~~qiaAe~LGip~d~V~v~~~DT~~~p~~-------~gt~~Sr~t~~~G~Av~~Aa~~l~~~l~~~aa 534 (746)
T TIGR03194 462 GAADIGQGSSTIASQVAAEVLGVRLSRIRVISADSALTPKD-------NGSYSSRVTFMVGNAAIDAAEELKGVLVAAAA 534 (746)
T ss_pred cCCCCCCCHHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCC-------CCChhHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567789999999999999999999999966543221111 111111 122224456677777788888
Q ss_pred hhhCCCCCcEEE
Q psy2936 86 KTLGIPKDRMYI 97 (174)
Q Consensus 86 e~LGIp~dRiyI 97 (174)
+.|+++++.+.+
T Consensus 535 ~~l~~~~~~l~~ 546 (746)
T TIGR03194 535 KKLDAREEDIEC 546 (746)
T ss_pred HHhCCCHHHEEE
Confidence 889999886443
No 57
>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=45.51 E-value=16 Score=36.04 Aligned_cols=31 Identities=19% Similarity=0.452 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 72 ENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
-+++-..---++|.+.||+|++|+|++++.-
T Consensus 93 fK~eai~~awe~lT~~~~i~~~rl~vTv~~~ 123 (851)
T TIGR00344 93 FKEEAIAFAWELLTSVLGLDKERLYVTVYED 123 (851)
T ss_pred hHHHHHHHHHHHHhhhcCCChHHEEEEEcCC
Confidence 4566666678999999999999999977753
No 58
>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=44.84 E-value=25 Score=35.19 Aligned_cols=86 Identities=16% Similarity=0.143 Sum_probs=53.8
Q ss_pred CCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh
Q psy2936 9 NIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL 88 (174)
Q Consensus 9 Nv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L 88 (174)
+....+..+...+.+++.+|+.||-|.+.|.|...+-...-+++.+--. -.....|.--....+++-++|.+...+.|
T Consensus 676 ~~g~~e~GqG~~T~~~QiaAe~LGvp~d~V~v~~~DT~~~p~~~gt~aS--r~t~~~G~Av~~Aa~~l~~kl~~~aa~~l 753 (951)
T TIGR03313 676 HSGGADIGTGLDTVVSKLTAEVLHCPMDDVHVISGDTDHALFDKGAYAS--SGTCFSGNAAKRAAENLREKILFHGAEML 753 (951)
T ss_pred EECCCCCCccHHHHHHHHHHHHHCCCHHhEEEEeCCCCCCCCCCCCcHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444567889999999999999999999999977543322222111000 00000122224455666677777778889
Q ss_pred CCCCCcEE
Q psy2936 89 GIPKDRMY 96 (174)
Q Consensus 89 GIp~dRiy 96 (174)
|++++.+.
T Consensus 754 ~~~~~~~~ 761 (951)
T TIGR03313 754 GEPVADVD 761 (951)
T ss_pred CCCHHHEE
Confidence 99988643
No 59
>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=44.51 E-value=23 Score=34.40 Aligned_cols=84 Identities=13% Similarity=0.054 Sum_probs=52.5
Q ss_pred CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCC
Q psy2936 12 KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIP 91 (174)
Q Consensus 12 ~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp 91 (174)
..+.-+...+.+++.+|+.||-|.+.|.|..-+-...-+++.+ ++--.....|.--....+++-+++.+.-.+.|+++
T Consensus 494 ~~e~GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt--~~Sr~t~~~G~Av~~Aa~~l~~~l~~~aa~~l~~~ 571 (770)
T TIGR02416 494 TKSQGQGHETTYAQIIATELGIPAEDIMVEEGDTDTAPYGLGT--YGSRSTPVAGAATALAARKIKAKAQMIAAHMLEVH 571 (770)
T ss_pred CCCCCCCchHHHHHHHHHHHCCCHHHEEEEecCCCCCCCCCCC--chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 4567789999999999999999999999976543222222110 00000011222224556666677777778888998
Q ss_pred CCcEEE
Q psy2936 92 KDRMYI 97 (174)
Q Consensus 92 ~dRiyI 97 (174)
++.+.+
T Consensus 572 ~~~l~~ 577 (770)
T TIGR02416 572 EGDLEW 577 (770)
T ss_pred HHHEEE
Confidence 886444
No 60
>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=43.56 E-value=26 Score=32.82 Aligned_cols=33 Identities=21% Similarity=0.468 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCC
Q psy2936 72 ENKKHSAVLFPHIEKTLGIPKDRMYISYIDSST 104 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~ 104 (174)
-+++..+---++|.+.||+|++|+|++++.=+.
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 455566666789999999999999999987543
No 61
>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=43.45 E-value=1.4e+02 Score=22.54 Aligned_cols=65 Identities=15% Similarity=0.119 Sum_probs=39.3
Q ss_pred chhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecC-------ChHHHHHHHHHHHHH
Q psy2936 15 IPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKL-------GTAENKKHSAVLFPH 83 (174)
Q Consensus 15 ~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~-------~~e~n~~~s~aI~~~ 83 (174)
..+.+.+.+...+++..+-|...+ .......+-.+..|+.++|+-.+... +++...+++++|.+-
T Consensus 99 ~s~~lA~~l~~~l~~~~~~~~rg~----~~~~l~~l~~t~~PavlvE~~f~~n~~D~~~l~~~~~~~~ia~ai~~g 170 (172)
T cd02696 99 ESKRLAEAIQKELVKALGLRNRGV----KQANLYVLRNTKMPAVLVELGFISNPEDAKLLNSPEYQDKIAEAIAEG 170 (172)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCe----eECCeEEecCCCCCEEEEEecccCCHHHHHHhCCHHHHHHHHHHHHHH
Confidence 356778888888887776544422 11113333466799999999887653 233445555555543
No 62
>COG4631 XdhB Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]
Probab=43.04 E-value=84 Score=30.03 Aligned_cols=85 Identities=15% Similarity=0.224 Sum_probs=59.1
Q ss_pred EEeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeec-C----ChHHHHHHHHHH
Q psy2936 6 IETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGK-L----GTAENKKHSAVL 80 (174)
Q Consensus 6 i~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~-~----~~e~n~~~s~aI 80 (174)
|..|-.-.+-.+.|-.++.+.+|+.++.+.++|-|+-..-.. .|-.-....|.|. + -....+++-+.+
T Consensus 477 i~lNHGGTEMGQGL~tKvaQVvA~~fqvd~~rVkitaT~T~K-------VpNTSaTAASSGsDLNGmAa~dAa~qIk~RL 549 (781)
T COG4631 477 IHLNHGGTEMGQGLYTKVAQVVAEEFQVDIDRVKITATTTDK-------VPNTSATAASSGSDLNGMAAQDAARQIKERL 549 (781)
T ss_pred EEEcCCCcccccchhHHHHHHHHHHhCcccceEEEeccccCC-------CCCCccccccccCCcccHHHHHHHHHHHHHH
Confidence 566777677889999999999999999999999886532110 1111112223332 2 244566777889
Q ss_pred HHHHHhhhCCCCCcEEE
Q psy2936 81 FPHIEKTLGIPKDRMYI 97 (174)
Q Consensus 81 ~~~l~e~LGIp~dRiyI 97 (174)
.+|-.+.++++.+.|..
T Consensus 550 v~fAA~~~~V~~~~v~F 566 (781)
T COG4631 550 VAFAAEHWGVPEEDVAF 566 (781)
T ss_pred HHHHHHhcCCCHHHeEe
Confidence 99999999999988643
No 63
>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=42.52 E-value=13 Score=34.21 Aligned_cols=76 Identities=16% Similarity=0.184 Sum_probs=47.6
Q ss_pred CCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEE-----eecCChHHHHHHHHHHHHHHHhh
Q psy2936 13 EKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMS-----IGKLGTAENKKHSAVLFPHIEKT 87 (174)
Q Consensus 13 ~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~s-----ig~~~~e~n~~~s~aI~~~l~e~ 87 (174)
.+..+...+.+++.+||.||-|.+.|.|...+-..+-+++ ...-| .|..-....+++-+++.+.-.+.
T Consensus 339 ~e~GqG~~T~~~qiaAe~Lgi~~~~V~v~~~dT~~~p~~~-------~t~gSr~t~~~g~Av~~Aa~~lr~~l~~~Aa~~ 411 (547)
T PF02738_consen 339 VEMGQGSRTALAQIAAEELGIPPEDVRVVSGDTDTTPYDG-------GTGGSRSTYMSGNAVRKAAEDLREKLLEIAAEI 411 (547)
T ss_dssp -BSSSSHHHHHHHHHHHHHTS-GGGEEEEECBTTTS-SB---------S-TTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCcchhhhHHHHHHHHhCCChhhEEEEeCCCcCCCCCC-------CCccchhhHhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 4567889999999999999999999998765532222221 11111 11111344556667777777888
Q ss_pred hCCCCCcE
Q psy2936 88 LGIPKDRM 95 (174)
Q Consensus 88 LGIp~dRi 95 (174)
|+++++.+
T Consensus 412 ~~~~~~~l 419 (547)
T PF02738_consen 412 LGVDPEDL 419 (547)
T ss_dssp TTSSGGGE
T ss_pred cccccchh
Confidence 99887664
No 64
>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=40.97 E-value=88 Score=22.98 Aligned_cols=82 Identities=15% Similarity=0.117 Sum_probs=48.0
Q ss_pred CchhhHHHHHHHHHHHHhCCCcceEEEEEeCCe-eEEecCCCCceeEEEEEEeecCC--hH----HHHHHHHHHHHHHHh
Q psy2936 14 KIPANFGKETGALVAKTLGKPENYVAVIVVPDV-NLVFGGSDAPAAIASLMSIGKLG--TA----ENKKHSAVLFPHIEK 86 (174)
Q Consensus 14 ~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~-~m~fgGs~~P~a~veI~sig~~~--~e----~n~~~s~aI~~~l~e 86 (174)
+..+.|...+++...+.+||....+-+.+.++- -.++-|.-.|+=..=+..-++.. .. -.+.+...+.+.+++
T Consensus 7 ~lE~~is~~i~k~~ke~~GkGP~~i~~~i~~~~iiv~l~g~LTp~Ek~L~~~~~g~~lv~~~R~~l~~~~~~~l~~~ie~ 86 (118)
T PF10057_consen 7 ELEQEISNAIRKFYKEYFGKGPKSIKVTISDDMIIVRLEGFLTPAEKFLAETEEGRELVKQVRTSLIESLKPELKEMIEE 86 (118)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCcEEEEEEECCEEEEEEECCCCHHHHHHHhCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678888889999999999999999997764 33333544443322222212221 11 122334456666777
Q ss_pred hhCCCCCcE
Q psy2936 87 TLGIPKDRM 95 (174)
Q Consensus 87 ~LGIp~dRi 95 (174)
.+|+.-...
T Consensus 87 i~g~~V~~l 95 (118)
T PF10057_consen 87 ILGVKVISL 95 (118)
T ss_pred HhCCeeEEE
Confidence 777665443
No 65
>PLN02900 alanyl-tRNA synthetase
Probab=40.58 E-value=28 Score=34.78 Aligned_cols=29 Identities=28% Similarity=0.559 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCcEEEEEE
Q psy2936 72 ENKKHSAVLFPHIEKTLGIPKDRMYISYI 100 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~LGIp~dRiyI~f~ 100 (174)
-+++-+.---++|.+.||+|++|+||+++
T Consensus 116 fK~eaI~~awe~lT~~l~i~~~~l~vTv~ 144 (936)
T PLN02900 116 FKKEAIGWAWELLTKVYGLPADRLYATYF 144 (936)
T ss_pred hHHHHHHHHHHHHHHhcCCCHHHEEEEEe
Confidence 34566666688999999999999999966
No 66
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=40.41 E-value=26 Score=34.69 Aligned_cols=31 Identities=16% Similarity=0.464 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 72 ENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
-+++-..---++|.+.||+|++|+||+++.-
T Consensus 98 fK~eai~~awe~lt~~~~i~~~~l~vt~~~~ 128 (865)
T PRK00252 98 FKEEAIEWAWELLTSVLGLPKEKLYVTVYED 128 (865)
T ss_pred hHHHHHHHHHHHHHHHhCCCHHHEEEEEcCC
Confidence 3456666668889999999999999988753
No 67
>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=39.45 E-value=1.1e+02 Score=21.46 Aligned_cols=27 Identities=22% Similarity=0.519 Sum_probs=23.2
Q ss_pred HHHHHHHhhhCCCCCcEEEEEEeCCCC
Q psy2936 79 VLFPHIEKTLGIPKDRMYISYIDSSTD 105 (174)
Q Consensus 79 aI~~~l~e~LGIp~dRiyI~f~d~~~~ 105 (174)
.+.+.+.+.|++|++++.+.|.+-+..
T Consensus 25 ~L~~ki~~kLkl~~e~i~LsYkde~s~ 51 (80)
T cd06406 25 TLLQKISSKLELPAEHITLSYKSEASG 51 (80)
T ss_pred HHHHHHHHHhCCCchhcEEEeccCCCC
Confidence 478888999999999999999997553
No 68
>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=39.25 E-value=57 Score=25.66 Aligned_cols=91 Identities=14% Similarity=0.128 Sum_probs=54.4
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCC-------------CCce--eEEEEEEeecCChHHHHHHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGS-------------DAPA--AIASLMSIGKLGTAENKKHSAVL 80 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs-------------~~P~--a~veI~sig~~~~e~n~~~s~aI 80 (174)
.+-++..++.++-.+.+.+.=- ..+.+..+-+-|-+ ..-+ .-+.++.+.... .-..+-.++
T Consensus 36 gDVl~HAi~DAlLGA~glgDIG--~~Fpdtd~~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P--Ki~p~~~~m 111 (155)
T TIGR00151 36 GDVLLHALTDALLGALGLGDIG--KHFPDTDPRWKGADSRVLLRHAVALIKEKGYRIGNVDITIIAQRP--KLLPHIPAM 111 (155)
T ss_pred HHHHHHHHHHHHHHHccCCcCc--ccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC--cchHHHHHH
Confidence 5677777788887777765422 12222211111211 0112 223444454322 234577889
Q ss_pred HHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 81 FPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 81 ~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
.+.+.+.|+++.++|.|...-. +..|+-|+
T Consensus 112 ~~~la~~L~~~~~~V~iKatT~--E~lg~~Gr 141 (155)
T TIGR00151 112 RENIAELLGIPLDSVNVKATTT--EKLGFTGR 141 (155)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCCCcC
Confidence 9999999999999999999876 66776554
No 69
>PHA00432 internal virion protein A
Probab=37.60 E-value=1.4e+02 Score=23.03 Aligned_cols=60 Identities=12% Similarity=0.172 Sum_probs=44.2
Q ss_pred hCCCcc-eEEEEEeCCeeEEecC-CCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCC
Q psy2936 31 LGKPEN-YVAVIVVPDVNLVFGG-SDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGI 90 (174)
Q Consensus 31 lgKPe~-~ImV~i~~~~~m~fgG-s~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGI 90 (174)
.+-|.+ .++..+..|.....|| ..+|+=++.-..+...+.+.++++.+.+.+.+.+-|..
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 443444 5556666777666665 45897878888888899999999999999988776654
No 70
>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=37.33 E-value=64 Score=25.31 Aligned_cols=90 Identities=12% Similarity=0.139 Sum_probs=55.2
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCC--------------CC--ceeEEEEEEeecCChHHHHHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGS--------------DA--PAAIASLMSIGKLGTAENKKHSAV 79 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs--------------~~--P~a~veI~sig~~~~e~n~~~s~a 79 (174)
.+-++..++.++-.+.+.+.=- ..+.+... .+.|. .. --.-+.++.+... | .-..+-.+
T Consensus 36 gDVl~HAl~DAlLGA~glgDIG--~~Fp~~d~-~~k~~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~-P-Ki~p~~~~ 110 (153)
T cd00554 36 GDVLLHALTDALLGAAGLGDIG--EHFPDTDP-KWKGADSRILLEEALKLIREKGYEIVNIDITIIAER-P-KISPYREA 110 (153)
T ss_pred HHHHHHHHHHHHHHHccCCccc--ccCCCCCh-hhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEecC-C-cchHHHHH
Confidence 5677777888887777765422 22222211 22221 01 1223445555543 2 23457788
Q ss_pred HHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 80 LFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 80 I~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
+.+.|++.|+++.++|.|...-- +..|+-|+
T Consensus 111 m~~~ls~~L~~~~~~V~iKatT~--E~lg~~Gr 141 (153)
T cd00554 111 MRANLAELLGIPPSRVNIKATTT--EGLGFTGR 141 (153)
T ss_pred HHHHHHHHhCCCCceEEEEEecC--CCCCCCcC
Confidence 99999999999999999999887 66776554
No 71
>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=36.97 E-value=80 Score=23.20 Aligned_cols=45 Identities=11% Similarity=-0.057 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceec
Q psy2936 71 AENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFH 115 (174)
Q Consensus 71 e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~ 115 (174)
+.-.+++.++..+..+.+|-.|+.+.+.|.+-----+-.|.-|-.
T Consensus 7 ~lE~~is~~i~k~~ke~~GkGP~~i~~~i~~~~iiv~l~g~LTp~ 51 (118)
T PF10057_consen 7 ELEQEISNAIRKFYKEYFGKGPKSIKVTISDDMIIVRLEGFLTPA 51 (118)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCcEEEEEEECCEEEEEEECCCCHH
Confidence 456789999999999999999999999998753333333333333
No 72
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=36.54 E-value=65 Score=25.47 Aligned_cols=91 Identities=12% Similarity=0.120 Sum_probs=53.8
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCC-------------CC--ceeEEEEEEeecCChHHHHHHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGS-------------DA--PAAIASLMSIGKLGTAENKKHSAVL 80 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs-------------~~--P~a~veI~sig~~~~e~n~~~s~aI 80 (174)
.+-++..++.++-.+.|.+.= =-.+.+...-+-|-+ .. --..+.++.+.... .-..+-.++
T Consensus 39 gDVl~HAi~DAlLGA~glgDI--G~~Fp~td~~~kg~~S~~lL~~~~~~~~~~g~~i~niD~tii~e~P--Ki~p~~~~m 114 (159)
T PRK00084 39 GDVLLHAICDALLGAAALGDI--GKHFPDTDPAFKGADSRVLLREVARLLRAKGYRIGNVDITIIAQRP--KMAPHIEEM 114 (159)
T ss_pred HHHHHHHHHHHHHHHccCCch--hhhCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC--cchHHHHHH
Confidence 566777777777777775431 112222211111111 01 12234445554332 224477889
Q ss_pred HHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 81 FPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 81 ~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
.+.+++.|+++.+||.|...-- +..|+-|+
T Consensus 115 ~~~la~~L~i~~~~V~iKatT~--E~lg~~Gr 144 (159)
T PRK00084 115 RANIAEDLGIPLDDVNVKATTT--EKLGFTGR 144 (159)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCCCcC
Confidence 9999999999999999999886 66666554
No 73
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=36.27 E-value=39 Score=29.92 Aligned_cols=44 Identities=23% Similarity=0.287 Sum_probs=37.4
Q ss_pred CChHHHHH--HHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecC
Q psy2936 68 LGTAENKK--HSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNG 111 (174)
Q Consensus 68 ~~~e~n~~--~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G 111 (174)
++++.+.+ .+..|-+|-.++||.|.++.|=.|.|+....+.||=
T Consensus 44 ~~~~lr~rL~~~~~iR~FA~~~L~Lpdn~sY~~YadL~Rp~vvWnV 89 (337)
T PF10023_consen 44 TPPALRARLRLAQQIRRFASEELGLPDNGSYRSYADLDRPYVVWNV 89 (337)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhcCCCCCCChhhhhhcCCCcEEEEE
Confidence 44555544 788999999999999999999999999999888873
No 74
>COG1872 Uncharacterized conserved protein [Function unknown]
Probab=36.17 E-value=1e+02 Score=22.58 Aligned_cols=62 Identities=21% Similarity=0.205 Sum_probs=36.0
Q ss_pred eEEEEEeCCe-eEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEe
Q psy2936 37 YVAVIVVPDV-NLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYID 101 (174)
Q Consensus 37 ~ImV~i~~~~-~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d 101 (174)
.+.|.+.|+. .-...|-.+-.-++.+.... |-+.-+-.+++..+|.+.|++|+.+|.|.==+
T Consensus 14 ~l~V~V~P~a~~~~i~g~~~~~~~Lkv~i~a---pP~~GKAN~~li~~Lak~~~v~kS~V~ivsGe 76 (102)
T COG1872 14 LLRVRVKPKAKRDSIVGLDEWRKRLKVRITA---PPVDGKANEELIKFLAKTFGVPKSSVEIVSGE 76 (102)
T ss_pred EEEEEECCCCccCcccceecCcceEEEEEec---CCCCcchhHHHHHHHHHHhCCCcccEEEEecC
Confidence 4456666653 11111212112156665533 23344555778899999999999999886433
No 75
>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=35.39 E-value=92 Score=25.22 Aligned_cols=80 Identities=13% Similarity=0.155 Sum_probs=45.2
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEec-CCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh-CCCCCc
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFG-GSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL-GIPKDR 94 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fg-Gs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L-GIp~dR 94 (174)
.++..++.+.+..+-|.-..+|.+.+... -.|+ ....|.|-|-|+.-++...+ +-.+.|..++..-- |+.+++
T Consensus 114 ~ale~eL~~tI~~i~gV~~A~V~l~~Pe~--~~f~~~~~~~sASV~l~~~~g~~l~---~qv~~I~~LVa~sV~gL~~en 188 (206)
T PF01514_consen 114 RALEGELERTIESIDGVESARVHLVLPER--SVFGENQQPPSASVVLKLKPGSELS---EQVQGIQNLVASSVPGLKPEN 188 (206)
T ss_dssp HHHHHHHHHHHTTSTTEEEEEEEEEE------BTTB----EEEEEEEEE-TTS--G---GGHHHHHHHHHHHSTT--GGG
T ss_pred HHHHHHHHHHHHcCCCeeEEEEEEecCCc--cccccCCCCCeEEEEEEECCCCChH---HHHHHHHHHHHHhcCCCCccc
Confidence 35556666666666565555666555443 3333 33478888888888877654 45566777766655 789999
Q ss_pred EEEEEEe
Q psy2936 95 MYISYID 101 (174)
Q Consensus 95 iyI~f~d 101 (174)
|-|.-.+
T Consensus 189 VtVvD~~ 195 (206)
T PF01514_consen 189 VTVVDQN 195 (206)
T ss_dssp EEEEEEE
T ss_pred EEEEeCC
Confidence 9887665
No 76
>PRK09970 xanthine dehydrogenase subunit XdhA; Provisional
Probab=35.34 E-value=54 Score=31.82 Aligned_cols=85 Identities=19% Similarity=0.117 Sum_probs=50.1
Q ss_pred CCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEe-CCeeEEec-CCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhh
Q psy2936 10 IPKEKIPANFGKETGALVAKTLGKPENYVAVIVV-PDVNLVFG-GSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKT 87 (174)
Q Consensus 10 v~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~-~~~~m~fg-Gs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~ 87 (174)
.+..+.-+...+.+++.+|+.||-|.+.|.|... +-...-++ |+. +--.....|.--....+++-+++.+...+.
T Consensus 477 ~g~~e~GQG~~T~~aQiaAe~LGi~~~~V~v~~~~dT~~~p~~~gt~---aSr~t~~~g~Av~~Aa~~lr~~l~~~aa~~ 553 (759)
T PRK09970 477 SGATEIGQGSDTVFSQMVAETVGIPVSDVRVISTQDTDVTPFDPGAY---ASRQSYVAGPAIRKAALELKEKILAHAAVM 553 (759)
T ss_pred ECCCCcCCCHHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCCCCc---hhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345677899999999999999999999999654 21111111 110 000000111111233355666667777888
Q ss_pred hCCCCCcEEE
Q psy2936 88 LGIPKDRMYI 97 (174)
Q Consensus 88 LGIp~dRiyI 97 (174)
|+++++.+.+
T Consensus 554 l~~~~~~l~~ 563 (759)
T PRK09970 554 LHQSAMNLDI 563 (759)
T ss_pred hCCChHHEEE
Confidence 8998876443
No 77
>PRK09344 phosphoenolpyruvate carboxykinase; Provisional
Probab=34.55 E-value=1.1e+02 Score=28.87 Aligned_cols=97 Identities=20% Similarity=0.257 Sum_probs=60.8
Q ss_pred CCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecccccCccchHHHHHHHHH
Q psy2936 54 DAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEIFGGPVLNKRAMESIVL 133 (174)
Q Consensus 54 ~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l~~~~~~~~~~~~~~~~ 133 (174)
.+|.+-+.-..-..+-+-+..+++..+.+.+.++ + -++|+.-+ ||-|+-... .-.-..+++++|++
T Consensus 382 tep~~tfs~cFg~PF~p~~p~~ya~~L~~kl~~~-~---~~vylvNT-------Gw~GG~~g~---g~ri~~~~Traii~ 447 (526)
T PRK09344 382 TEPQPTFSTCFGAPFLPLHPTVYAELLGERIKAH-G---AKVYLVNT-------GWTGGPYGT---GKRISIKYTRAIIN 447 (526)
T ss_pred ccCCceeecccCCCCcCCCHHHHHHHHHHHHHHc-C---CCEEEEec-------ccccCCCCC---CccCCHHHHHHHHH
Confidence 4555533333223366777788888888888775 3 56776644 343321111 11223478888888
Q ss_pred hhhcceeeeeeee-------eeeeeeeccCCCCCCCCceE
Q psy2936 134 EFKNVLIKNQSTT-------TVAFSCGLLGKPSDYLNPYV 166 (174)
Q Consensus 134 ~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~ 166 (174)
..-++-++....+ .||-+|. |-|++.|||.-
T Consensus 448 ai~~G~l~~~~~~~~p~fg~~vP~~~~--gv~~~~l~P~~ 485 (526)
T PRK09344 448 AILDGSLDNAETTTDPIFGLAVPTSVP--GVDSEILDPRN 485 (526)
T ss_pred HHhcCCccCCCceeCCccCccCCCcCC--CCChHhcChhh
Confidence 8888888865443 4666665 88999999963
No 78
>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed
Probab=34.22 E-value=2.3e+02 Score=22.34 Aligned_cols=48 Identities=31% Similarity=0.281 Sum_probs=39.5
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCC-CceeEEEEEE
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSD-APAAIASLMS 64 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~-~P~a~veI~s 64 (174)
.....++-+.++++++-|++.|.|...+++.|-|-|.. .-+|+..+..
T Consensus 108 ~p~~~~m~~~la~~L~i~~~~V~iKatT~E~lg~~Gr~egi~~~avv~l 156 (159)
T PRK00084 108 APHIEEMRANIAEDLGIPLDDVNVKATTTEKLGFTGRGEGIAAQAVVLL 156 (159)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCcCCCceEEEEEEEE
Confidence 46788999999999999999999999999998887764 4566665544
No 79
>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=34.03 E-value=31 Score=31.83 Aligned_cols=59 Identities=20% Similarity=0.236 Sum_probs=32.8
Q ss_pred eeEEEEEEeecC-----ChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC--CCCCeeecCceec
Q psy2936 57 AAIASLMSIGKL-----GTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDS--STDVVGYNGTTFH 115 (174)
Q Consensus 57 ~a~veI~sig~~-----~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~--~~~nwG~~G~T~~ 115 (174)
.+.++|..=|.+ ..+.=.-....+...+.++||||.++|.|..-|. .+..+|..|+...
T Consensus 321 ~a~v~l~~DG~v~v~~~~~e~GqG~~T~~~qiaAe~Lgi~~~~V~v~~~dT~~~p~~~~t~gSr~t 386 (547)
T PF02738_consen 321 SARVRLNPDGSVTVYTGGVEMGQGSRTALAQIAAEELGIPPEDVRVVSGDTDTTPYDGGTGGSRST 386 (547)
T ss_dssp EEEEEE-TTS-EEEEES--BSSSSHHHHHHHHHHHHHTS-GGGEEEEECBTTTS-SB--S-TTTHH
T ss_pred cEEEEEEeCCCEEEEEecccCCcchhhhHHHHHHHHhCCChhhEEEEeCCCcCCCCCCCCccchhh
Confidence 566666553331 1122123345678889999999999999998883 3445555555443
No 80
>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=33.94 E-value=2.1e+02 Score=26.86 Aligned_cols=78 Identities=18% Similarity=0.146 Sum_probs=57.1
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeec--CChHHHHHHHHHHHHHHHhhh-CCCC
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGK--LGTAENKKHSAVLFPHIEKTL-GIPK 92 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~--~~~e~n~~~s~aI~~~l~e~L-GIp~ 92 (174)
..++-.+|++.+..+=+.-..+|.+.+-.. ..+......|.|-|-|+.-+| +++++ .++|..++..-- |.++
T Consensus 133 ~rALegELartI~~l~~V~~ArVhLalPe~-s~F~~~~~~~tASV~l~l~~g~~L~~~Q----V~aI~~LVA~SVpgL~~ 207 (555)
T TIGR00206 133 RRAIEGELSRTIEALDPVKAASVHLAMPKD-ALFVEEQEPPSASVRLTLRPGSDLDTNQ----IEGLVHLISYAVPGLES 207 (555)
T ss_pred HHHHHHHHHHHHHhcCCeeeEEEEEECCCC-CccccCCCCCCEEEEEecCCCCCCCHHH----HHHHHHHHHhhcCCCCc
Confidence 457778889999988888788888877554 444455668899888888776 44544 667777776654 7999
Q ss_pred CcEEEE
Q psy2936 93 DRMYIS 98 (174)
Q Consensus 93 dRiyI~ 98 (174)
++|.|.
T Consensus 208 enVtVv 213 (555)
T TIGR00206 208 DNIAIV 213 (555)
T ss_pred cceEEE
Confidence 998765
No 81
>COG1995 PdxA Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]
Probab=33.85 E-value=2.1e+02 Score=25.35 Aligned_cols=36 Identities=14% Similarity=0.211 Sum_probs=30.0
Q ss_pred ecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEe
Q psy2936 66 GKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYID 101 (174)
Q Consensus 66 g~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d 101 (174)
+.++.+.-.+..+.+.+.|.+.+|+...||.|.=-+
T Consensus 175 ~~iT~e~l~~~~~i~~~~L~~~fGi~~PriaVaGLN 210 (332)
T COG1995 175 DAITPELLLEVLRILDKDLRKKFGIAEPRIAVAGLN 210 (332)
T ss_pred hhhCHHHHHHHHHHHHHHHHHhhCCCCcceEEeccC
Confidence 346788888888888889989999999999987554
No 82
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=32.97 E-value=49 Score=28.31 Aligned_cols=53 Identities=19% Similarity=0.172 Sum_probs=38.3
Q ss_pred cceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCC
Q psy2936 35 ENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIP 91 (174)
Q Consensus 35 e~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp 91 (174)
.+.|-..-+.|++=.+|. .|-+-|+-+. .++-|++-++++.+-+.+-++||||
T Consensus 70 aelIDM~~H~GeHpRmGA-~DViPfvPl~---d~tteecveiske~gkrvgeelgiP 122 (302)
T COG3643 70 AELIDMRNHKGEHPRMGA-ADVIPFVPLK---DTTTEECVEISKELGKRVGEELGIP 122 (302)
T ss_pred HHhhchhccCCCCCCCCc-cceeceeecc---cccHHHHHHHHHHHHHHhhHhhCCc
Confidence 334444566777766665 4444455553 4667999999999999999999998
No 83
>PF03432 Relaxase: Relaxase/Mobilisation nuclease domain ; InterPro: IPR005094 Relaxases/mobilisation proteins are required for the horizontal transfer of genetic information contained on plasmids that occurs during bacterial conjugation. The relaxase, in conjunction with several auxiliary proteins, forms the relaxation complex or relaxosome. Relaxases nick duplex DNA in a specific manner by catalysing trans-esterification [].
Probab=32.92 E-value=2.5e+02 Score=22.29 Aligned_cols=86 Identities=20% Similarity=0.339 Sum_probs=55.7
Q ss_pred CeEEEEeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEee----c-CChHH-HHH
Q psy2936 2 PVFRIETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIG----K-LGTAE-NKK 75 (174)
Q Consensus 2 P~i~i~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig----~-~~~e~-n~~ 75 (174)
|..++..+.++++...+-+.+++..+++-++..+....+..+.+ ++.|-+.+-+..+. . +++.. ..+
T Consensus 56 ~~~h~i~Sf~~~e~~~e~~~~~~~~~~~~~~~~~~~~v~~~H~D-------~~h~H~Hivin~v~~~tGk~~~~~~~~~~ 128 (242)
T PF03432_consen 56 PVYHIIISFPPDELTPEQAHEIAREFAEEMGPGNHQYVVVVHTD-------TDHPHVHIVINRVDLDTGKKLNPSNKDYR 128 (242)
T ss_pred eEEEEeccCCccccCHHHHHHHHHHHHHHcCCCCcceEEEECCC-------cCeeeeeEEEeecccccccccccchhHHH
Confidence 45666667775556678888999999999986455445555655 33454555554442 2 23333 566
Q ss_pred HHHHHHHHHHhhhCCCCCc
Q psy2936 76 HSAVLFPHIEKTLGIPKDR 94 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dR 94 (174)
....+++.|+.+.|+....
T Consensus 129 ~~~~~~~~l~~~~gl~~~~ 147 (242)
T PF03432_consen 129 RLREASDELEKEYGLSVVE 147 (242)
T ss_pred HHHHHHHHHHHhcCCccCc
Confidence 6777889999998976544
No 84
>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=32.67 E-value=1.4e+02 Score=25.97 Aligned_cols=95 Identities=15% Similarity=0.108 Sum_probs=49.9
Q ss_pred chhhHHHHHHHHHHH-----HhCCCcceEEEEEeC-CeeEEecCC-CCceeEEEEEEeecCChHHHHHHHHHHHHHHHhh
Q psy2936 15 IPANFGKETGALVAK-----TLGKPENYVAVIVVP-DVNLVFGGS-DAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKT 87 (174)
Q Consensus 15 ~~~~f~~~ls~~vae-----vlgKPe~~ImV~i~~-~~~m~fgGs-~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~ 87 (174)
+.+.....+-.++.. .+...+.-+.+.+.. |..+.|+|. ++|.-.-....++..=-++-..+.....+.+...
T Consensus 45 l~~sv~~~l~~~i~~~g~~~~~~~~~~~~~i~~~~~g~~i~f~g~~d~~~~ik~~~~~~~~~idEa~~~~~~~~~~l~~r 124 (396)
T TIGR01547 45 IRDSVFKDIENLLSIEGINYEFKKSKSSMEIKILNTGKKFIFKGLNDKPNKLKSGAGIAIIWFEEASQLTFEDIKELIPR 124 (396)
T ss_pred HHHHHHHHHHHHHHHcCChhheeecCCccEEEecCCCeEEEeecccCChhHhhCcceeeeehhhhhhhcCHHHHHHHHHH
Confidence 445555555544443 233334433455544 888999887 6775544444333322233233333344444444
Q ss_pred hCCCCCc--EEEEEEeCCCCCeee
Q psy2936 88 LGIPKDR--MYISYIDSSTDVVGY 109 (174)
Q Consensus 88 LGIp~dR--iyI~f~d~~~~nwG~ 109 (174)
|--+..+ +++.+.+..+.+|=+
T Consensus 125 lr~~~~~~~i~~t~NP~~~~~w~~ 148 (396)
T TIGR01547 125 LRETGGKKFIIFSSNPESPLHWVK 148 (396)
T ss_pred hhccCCccEEEEEcCcCCCccHHH
Confidence 5434444 888888877777743
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=32.46 E-value=2.5e+02 Score=22.04 Aligned_cols=67 Identities=9% Similarity=0.138 Sum_probs=42.0
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecC-------ChHHHHHHHHHHHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKL-------GTAENKKHSAVLFPHIE 85 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~-------~~e~n~~~s~aI~~~l~ 85 (174)
...|.+.+...+.+.++.+...+-- . +.......+.-|+.++|+-.+... +++..++++++|.+-+.
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 3467777777777777655443321 1 233445567799999999877642 33445677777776554
No 86
>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=31.92 E-value=2.5e+02 Score=22.05 Aligned_cols=47 Identities=23% Similarity=0.205 Sum_probs=38.5
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCC-CceeEEEEE
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSD-APAAIASLM 63 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~-~P~a~veI~ 63 (174)
.....++-+.++++++-|+..|.|...+++.|-|-|.. .-+|+..+.
T Consensus 105 ~p~~~~m~~~la~~L~~~~~~V~iKatT~E~lg~~Gr~egia~~av~l 152 (155)
T TIGR00151 105 LPHIPAMRENIAELLGIPLDSVNVKATTTEKLGFTGRGEGIACQAVVL 152 (155)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecCCCCCCCcCCCceEEEEEEE
Confidence 46888999999999999999999999999999887764 455555443
No 87
>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=31.72 E-value=38 Score=26.70 Aligned_cols=48 Identities=23% Similarity=0.373 Sum_probs=32.4
Q ss_pred EEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecC
Q psy2936 60 ASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNG 111 (174)
Q Consensus 60 veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G 111 (174)
+.++.+.... .-..+..++.+.+.+.|++++++|.|...-. +..|+-|
T Consensus 94 iD~tii~e~P--Ki~p~~~~m~~~la~~L~~~~~~V~iKatT~--E~lg~~G 141 (157)
T PF02542_consen 94 IDITIIAERP--KISPYRPAMRENLAKLLGIPPDRVNIKATTT--EGLGFIG 141 (157)
T ss_dssp EEEEEESSSS--TTGGGHHHHHHHHHHHHTS-GGGEEEEEE-T--TTSHHHH
T ss_pred EEEEEEcCCC--ccHHHHHHHHHHHHHHhCCCcceEEEEEecC--CCCCccc
Confidence 4455555432 2244667889999999999999999999876 5565544
No 88
>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=31.53 E-value=1e+02 Score=23.30 Aligned_cols=68 Identities=18% Similarity=0.187 Sum_probs=43.3
Q ss_pred chhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecC-------ChHHHHHHHHHHHHHHH
Q psy2936 15 IPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKL-------GTAENKKHSAVLFPHIE 85 (174)
Q Consensus 15 ~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~-------~~e~n~~~s~aI~~~l~ 85 (174)
..+.|.+.+...+.+.++.+...+. ..++-. ....+..|+.++|+-.+... ++...++++++|.+-+.
T Consensus 100 ~s~~lA~~i~~~l~~~~~~~~rgv~--~~~~~~-~l~~~~~pavliE~gfi~n~~D~~~l~~~~~~~~~A~ai~~gI~ 174 (175)
T PF01520_consen 100 KSKKLAKSIQKELSKRTGLPNRGVK--ERNNLY-VLRNTNMPAVLIELGFIDNPEDAKKLNDPKFQQKIAEAIAKGIA 174 (175)
T ss_dssp HHHHHHHHHHHHHHHCHTTEEEEEE--EECT-H-HHHCCSSCEEEEEEEETTSHHHHHHHTHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHhhhhccccCCcc--cchHHH-HHhcCCCCEEEEEeccCCCHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence 3567888888888888887744322 222111 11246789999999887642 34455667777776654
No 89
>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=31.26 E-value=1.3e+02 Score=22.51 Aligned_cols=38 Identities=13% Similarity=0.022 Sum_probs=33.2
Q ss_pred CChHHHHHHHHHHHHHHHhhhCCC-CCcEEEEEEeCCCC
Q psy2936 68 LGTAENKKHSAVLFPHIEKTLGIP-KDRMYISYIDSSTD 105 (174)
Q Consensus 68 ~~~e~n~~~s~aI~~~l~e~LGIp-~dRiyI~f~d~~~~ 105 (174)
-+++.+.++.+--...|++.+|.. +..+.|.+++.++.
T Consensus 26 ~DpaFr~eLl~DPk~~L~e~Fgy~~P~~v~l~v~E~~~d 64 (114)
T TIGR03795 26 HSPEFKDELLADPVDALEKYFDYRCPWILDLKVTENSSD 64 (114)
T ss_pred CCHHHHHHHHHCHHHHHHHHhCCCCCCceEEEEEecCCC
Confidence 368889999999999999999977 78899999998766
No 90
>cd01919 PEPCK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).
Probab=31.02 E-value=1.3e+02 Score=28.07 Aligned_cols=74 Identities=16% Similarity=0.152 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecccccCccc-hHHHHHHHHHhhhcceeeeeeee------
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEIFGGPVL-NKRAMESIVLEFKNVLIKNQSTT------ 146 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~------ 146 (174)
..|++.+.+.+++. .-+||+. ||||.|.. +...+ ..+...+|+..+-++.++.....
T Consensus 395 ~~Ya~~l~e~~~~~----~~~i~lv-------Ntg~~gg~-----G~g~r~~~~~tr~il~~i~~g~~~~~~~~~~pif~ 458 (515)
T cd01919 395 TKYLEHLLSMMQHP----LPKIFLV-------NTGRKGKE-----GKFKRPGFGETRAIIDAIFNGILDKAETKLTPIFN 458 (515)
T ss_pred HHHHHHHHHHHhhc----CCcEEEE-------eccccCCC-----CCcccCCHHHHHHHHHHHHhCCcCCCCeEEccccC
Confidence 55667777777663 5666663 79999863 33444 33777778887777777743322
Q ss_pred -eeeeeeeccCCCCCCCCce
Q psy2936 147 -TVAFSCGLLGKPSDYLNPY 165 (174)
Q Consensus 147 -~~~~~~~~~~~~~~~~~~~ 165 (174)
.+|- -+-|-|++.|||.
T Consensus 459 ~~iP~--~~~gv~~~~l~p~ 476 (515)
T cd01919 459 LYIPK--ALNLVGLGHLNPR 476 (515)
T ss_pred EEeCc--ccCCCCcccCCHH
Confidence 2344 4557788888884
No 91
>KOG4493|consensus
Probab=30.96 E-value=2.5e+02 Score=23.27 Aligned_cols=68 Identities=13% Similarity=0.235 Sum_probs=50.9
Q ss_pred eEEec--C-CCCceeEEEEEEeecCChHHHHHHHHHHHHH---HHhhhCCCCCcEEEEEEeC-CCCCeeecCcee
Q psy2936 47 NLVFG--G-SDAPAAIASLMSIGKLGTAENKKHSAVLFPH---IEKTLGIPKDRMYISYIDS-STDVVGYNGTTF 114 (174)
Q Consensus 47 ~m~fg--G-s~~P~a~veI~sig~~~~e~n~~~s~aI~~~---l~e~LGIp~dRiyI~f~d~-~~~nwG~~G~T~ 114 (174)
+..+| | .+-.|=+++++-..-.+.|.++++.++|-+| ++++-|--...+-+.|++. +..+|-+.+.++
T Consensus 44 ~~s~GtVg~kdvdce~iDiTYV~~~s~EL~~kl~~~i~qF~~~ir~~~~~g~gQi~L~FYekskK~~Wf~~~e~i 118 (219)
T KOG4493|consen 44 HRSFGTVGAKDVDCEFIDITYVRCVSAELNEKLDEKIAQFIDTIRNEAGAGVGQISLEFYEKSKKKRWFFKDETI 118 (219)
T ss_pred EEEeccccccccceeEEEEEEEEechHHHHHHHHHHHHHHHHHHHhCCCCCcceEeeeeeecccCCCCCcCCCCc
Confidence 44555 3 3568999999998888888888888777766 5555555557899999999 667888766555
No 92
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=29.36 E-value=2.5e+02 Score=21.84 Aligned_cols=87 Identities=17% Similarity=0.177 Sum_probs=46.6
Q ss_pred CeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecc----cccC
Q psy2936 45 DVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHE----IFGG 120 (174)
Q Consensus 45 ~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~----l~~~ 120 (174)
+..+.+.-...| ++-..|..+..+..-+...+..++. ...++.+.+.+.|.....++.-....+. ...+
T Consensus 28 ~~~v~~dl~~~~----h~li~G~tgsGKS~~l~~ll~~l~~---~~~p~~~~l~iiD~k~~~l~~~~~~~~~~~~~~~~~ 100 (205)
T PF01580_consen 28 GDPVVLDLKKNP----HLLIAGATGSGKSTLLRTLLLSLAL---TYSPDDVQLYIIDPKGSDLAPLADLPHVAAVAVATD 100 (205)
T ss_dssp S-EEEEEGGGS-----SEEEE--TTSSHHHHHHHHHHHHHT---T--TTTEEEEEE-TTSSCCGGGTT-TTBSS-S-B-S
T ss_pred CCEEEEEcCCCc----eEEEEcCCCCCccHHHHHHHHHHHH---HhcCCccEEEEEcCCccccchhhhhhhhcccccccc
Confidence 445555444445 5555665554443333333333332 2478889999999986666654443322 4457
Q ss_pred ccchHHHHHHHHHhhhcc
Q psy2936 121 PVLNKRAMESIVLEFKNV 138 (174)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~ 138 (174)
++...+.++.+..||+.|
T Consensus 101 ~~~~~~~l~~l~~em~~R 118 (205)
T PF01580_consen 101 PEEILRLLEELVEEMERR 118 (205)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 777789999999999844
No 93
>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=28.52 E-value=1.9e+02 Score=19.49 Aligned_cols=29 Identities=21% Similarity=0.274 Sum_probs=21.2
Q ss_pred hHHHHHHH----HHHHHHHHhhhCCCCCcEEEEE
Q psy2936 70 TAENKKHS----AVLFPHIEKTLGIPKDRMYISY 99 (174)
Q Consensus 70 ~e~n~~~s----~aI~~~l~e~LGIp~dRiyI~f 99 (174)
.+.|.+++ .++.++|.+ .||+++|+.+.-
T Consensus 45 ~~~n~~LS~~RA~~V~~~L~~-~gi~~~ri~~~~ 77 (97)
T PF00691_consen 45 AEYNQELSQRRAEAVKQYLVE-NGIPPERISVVG 77 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-TTSSGGGEEEEE
T ss_pred hhHHhHHHHHHHHHHHHHHHH-cCCChHhEEEEE
Confidence 44455554 678888888 899999997743
No 94
>PRK01909 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=28.49 E-value=1e+02 Score=27.14 Aligned_cols=35 Identities=11% Similarity=0.263 Sum_probs=28.5
Q ss_pred cCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEe
Q psy2936 67 KLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYID 101 (174)
Q Consensus 67 ~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d 101 (174)
.++.+.-.+..+.+.+.|.+.+||...||-|.=-+
T Consensus 173 ~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~GLN 207 (329)
T PRK01909 173 ALTIDGLVETLAIIDRDLRRDFGLAAPRILVTGLN 207 (329)
T ss_pred HhCHHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeC
Confidence 46788888888889999999999999997665443
No 95
>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=28.40 E-value=1.1e+02 Score=21.25 Aligned_cols=30 Identities=7% Similarity=0.218 Sum_probs=23.2
Q ss_pred hHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 70 TAENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 70 ~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
.+...++.++|.+.+.+.||+.+ -|.+.+.
T Consensus 50 ~~~~~~l~~~i~~~lk~~lgv~~---~V~lv~~ 79 (96)
T PF14535_consen 50 AEDLEALAERIAERLKERLGVRP---EVELVPP 79 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHSS-E---EEEEE-T
T ss_pred hHHHHHHHHHHHHHHHhhcCceE---EEEEECC
Confidence 46889999999999999999975 5555554
No 96
>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=28.37 E-value=1.1e+02 Score=21.28 Aligned_cols=58 Identities=17% Similarity=0.217 Sum_probs=33.8
Q ss_pred EEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCce-ecccccCccchH
Q psy2936 60 ASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTT-FHEIFGGPVLNK 125 (174)
Q Consensus 60 veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T-~~~l~~~~~~~~ 125 (174)
+++.--|.-+|... .|.+-|.+.++++++.|+|.=.. ..+|.+-++ ++.++..++...
T Consensus 3 ~~v~h~g~~Tpsr~-----ei~~klA~~~~~~~~~ivv~~~~---t~fG~~~s~g~a~IYd~~e~~k 61 (84)
T PF01282_consen 3 FEVLHPGKPTPSRK-----EIREKLAAMLNVDPDLIVVFGIK---TEFGGGKSTGFAKIYDSAEALK 61 (84)
T ss_dssp EEEE-SSSSS--HH-----HHHHHHHHHHTSTGCCEEEEEEE---ESSSSSEEEEEEEEESSHHHHH
T ss_pred EEEECCCCCCCCHH-----HHHHHHHHHhCCCCCeEEEeccE---ecCCCceEEEEEEEeCCHHHHH
Confidence 34444443445443 46777888899999999987766 345544333 455665554443
No 97
>PRK13878 conjugal transfer relaxase TraI; Provisional
Probab=28.03 E-value=5.9e+02 Score=25.08 Aligned_cols=86 Identities=15% Similarity=0.164 Sum_probs=55.3
Q ss_pred CeEEEEeCCCCCCc-hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeec----C-ChHHHHH
Q psy2936 2 PVFRIETNIPKEKI-PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGK----L-GTAENKK 75 (174)
Q Consensus 2 P~i~i~TNv~~~~~-~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~----~-~~e~n~~ 75 (174)
|..++-.+.++.+. ..+.+.++...+++.||..+--..+.++.+. +..-.+|-+..+.. + ++....+
T Consensus 67 ~vyH~ilSF~PgE~pt~e~~~~I~~~~~~~LG~~~hQ~Vva~H~DT-------dh~HiHIviNrV~p~g~Ki~d~~~~yr 139 (746)
T PRK13878 67 KTYHLIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRVSAVHHDT-------DNLHIHIAINKIHPTRHTIHEPYYAYR 139 (746)
T ss_pred eeEEEEECCCCCCCCCHHHHHHHHHHHHHHhCCCCceEEEEEECCC-------CCceeEEEEeeecCCCCeecCchHHHH
Confidence 56677777776655 4788899999999999988876666666552 22223333333321 1 2322233
Q ss_pred HHHHHHHHHHhhhCCCCCc
Q psy2936 76 HSAVLFPHIEKTLGIPKDR 94 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dR 94 (174)
-...+|+.|+.+.|....+
T Consensus 140 ~L~kicreLE~eyGLsv~n 158 (746)
T PRK13878 140 TLAELCTKLERDYGLERDN 158 (746)
T ss_pred HHHHHHHHHHHHhCCEecC
Confidence 3478999999999986543
No 98
>cd00650 LDH_MDH_like NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family. Members of this family include ubiquitous enzymes like L-lactate dehydrogenases (LDH), L-2-hydroxyisocaproate dehydrogenases, and some malate dehydrogenases (MDH). LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH/MDH-like proteins are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains
Probab=28.03 E-value=1.5e+02 Score=24.35 Aligned_cols=49 Identities=12% Similarity=0.161 Sum_probs=31.9
Q ss_pred HHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecccccCc---cchHHHHHHHHHh
Q psy2936 79 VLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEIFGGP---VLNKRAMESIVLE 134 (174)
Q Consensus 79 aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l~~~~---~~~~~~~~~~~~~ 134 (174)
.+..++.+.|+++++++...+ ||-+|.+.--+|++. ....+.+++|.+.
T Consensus 150 r~~~~la~~l~v~~~~v~~~v-------~G~hg~~~~~~~s~~~~a~~~~~ii~ai~~~ 201 (263)
T cd00650 150 RFRRILAEKLGVDPDDVKVYI-------LGEHGGSQVPDWSTVRIATSIADLIRSLLND 201 (263)
T ss_pred HHHHHHHHHhCCCccceEEEE-------EEcCCCceEeccccchHHHHHHHHHHHHHcC
Confidence 367788899999998865322 777777654444433 3333667777665
No 99
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=27.71 E-value=50 Score=31.40 Aligned_cols=30 Identities=23% Similarity=0.527 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHhh--hCCCCCcEEEEEEe
Q psy2936 72 ENKKHSAVLFPHIEKT--LGIPKDRMYISYID 101 (174)
Q Consensus 72 ~n~~~s~aI~~~l~e~--LGIp~dRiyI~f~d 101 (174)
-+++-..---++|.+. ||++++|+||+++.
T Consensus 96 fK~eai~~awe~lt~~~~l~l~~~rl~vTv~~ 127 (594)
T PRK01584 96 FKEESIKYSFEFLTSPDYLNIPKDKLYVTVFE 127 (594)
T ss_pred hHHHHHHHHHHHhccchhcCCCHHHeEEEEeC
Confidence 4566666668899887 99999999999984
No 100
>PF13222 DUF4030: Protein of unknown function (DUF4030)
Probab=27.59 E-value=86 Score=24.29 Aligned_cols=36 Identities=25% Similarity=0.339 Sum_probs=28.9
Q ss_pred CC-eEEEEeCCCCCC-chhhHHHHHHHHHHHHhCCCcc
Q psy2936 1 MP-VFRIETNIPKEK-IPANFGKETGALVAKTLGKPEN 36 (174)
Q Consensus 1 MP-~i~i~TNv~~~~-~~~~f~~~ls~~vaevlgKPe~ 36 (174)
|| ++.|+|..+.++ -.++|.+++-+.+-++|..++-
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 889999777433 3579999999999999988764
No 101
>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=27.49 E-value=1.7e+02 Score=18.64 Aligned_cols=36 Identities=19% Similarity=0.480 Sum_probs=28.2
Q ss_pred EEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEE
Q psy2936 63 MSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYIS 98 (174)
Q Consensus 63 ~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~ 98 (174)
--+|.++......+--++.-.+.+.++++..++++.
T Consensus 5 lGLGsf~~~~~a~~QLA~ll~l~~~l~~~~~~v~~y 40 (56)
T PF07985_consen 5 LGLGSFSSSRSARYQLALLLLLKEELSIPRDQVSIY 40 (56)
T ss_pred EEecCccccccHHHHHHHHHHHHHHhCCCCCcEEEE
Confidence 346667777777888888889999999998887765
No 102
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=27.34 E-value=55 Score=32.57 Aligned_cols=33 Identities=18% Similarity=0.584 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCC
Q psy2936 73 NKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTD 105 (174)
Q Consensus 73 n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~ 105 (174)
+++-..--.++|.+.||+|++++|+++++-+.+
T Consensus 103 KeeAI~~AwEflT~~lgl~~ekL~vtvy~~Dde 135 (879)
T COG0013 103 KEEAIEFAWEFLTKVLGLPKEKLYVTVYEDDDE 135 (879)
T ss_pred HHHHHHHHHHHHHhhcCCCHHHEEEEEecCchH
Confidence 445555557888899999999999998886544
No 103
>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=27.19 E-value=76 Score=23.07 Aligned_cols=25 Identities=32% Similarity=0.616 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHhhhCCCCCcEEEE
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDRMYIS 98 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dRiyI~ 98 (174)
...+++|-+++.+++|++++++++.
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 5677899999999999999999875
No 104
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=27.10 E-value=77 Score=19.43 Aligned_cols=24 Identities=25% Similarity=0.365 Sum_probs=19.4
Q ss_pred HHHHHHHHHhhhCCCCCcEEEEEE
Q psy2936 77 SAVLFPHIEKTLGIPKDRMYISYI 100 (174)
Q Consensus 77 s~aI~~~l~e~LGIp~dRiyI~f~ 100 (174)
.+.+.+.+++.+|+|+++..+.|.
T Consensus 22 v~~lk~~i~~~~~~~~~~~~L~~~ 45 (64)
T smart00213 22 VSELKEKIAELTGIPVEQQRLIYK 45 (64)
T ss_pred HHHHHHHHHHHHCCCHHHEEEEEC
Confidence 455777888889999999888764
No 105
>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=27.04 E-value=2.1e+02 Score=19.96 Aligned_cols=33 Identities=18% Similarity=0.060 Sum_probs=27.7
Q ss_pred HHHHHHHhhhCCCCCcEEEEEEeCCCC-CeeecC
Q psy2936 79 VLFPHIEKTLGIPKDRMYISYIDSSTD-VVGYNG 111 (174)
Q Consensus 79 aI~~~l~e~LGIp~dRiyI~f~d~~~~-nwG~~G 111 (174)
.+.+.+.+.|+.+++++.+.|.+.+.+ .|....
T Consensus 21 ~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~ 54 (78)
T cd06411 21 SLRALLSQALPQQAQRGQLSYRAPGEDGHWVPIS 54 (78)
T ss_pred HHHHHHHHHhcCChhhcEEEecCCCCCccEeecC
Confidence 478889999999999999999998877 775443
No 106
>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=26.78 E-value=2.6e+02 Score=20.57 Aligned_cols=73 Identities=11% Similarity=0.111 Sum_probs=48.4
Q ss_pred EEEeecCChHHHHHHHHHHHHHHHhhh---CCCCCcEEEEEEeCCCCCeeecCceec-c-cccCccchHHHHHHHHHh
Q psy2936 62 LMSIGKLGTAENKKHSAVLFPHIEKTL---GIPKDRMYISYIDSSTDVVGYNGTTFH-E-IFGGPVLNKRAMESIVLE 134 (174)
Q Consensus 62 I~sig~~~~e~n~~~s~aI~~~l~e~L---GIp~dRiyI~f~d~~~~nwG~~G~T~~-~-l~~~~~~~~~~~~~~~~~ 134 (174)
...++++.-+..+.+.++|.+.....+ .....=+++.+.+++++.+=+|=+.-. + ++.+.....+.++..+.+
T Consensus 52 ~~fVN~R~v~~~~~l~k~i~~~y~~~~~~~~~~~~P~~~L~i~~~~~~vDVNVhP~K~eV~f~~e~~v~~~i~~~v~~ 129 (132)
T cd03485 52 FISVNSRPVSLGKDIGKLLRQYYSSAYRKSSLRRYPVFFLNILCPPGLVDVNIEPDKDDVLLQNKEAVLQAVENLLES 129 (132)
T ss_pred EEEECCeecccchHHHHHHHHHHHHHhccccccCCCEEEEEEEcCCCceeeccCCccCEEEEcChHHHHHHHHHHHHH
Confidence 345566665544788888988888887 666777999999999998887765443 2 444433333454444443
No 107
>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=26.55 E-value=2.1e+02 Score=25.07 Aligned_cols=35 Identities=14% Similarity=0.315 Sum_probs=28.3
Q ss_pred cCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEe
Q psy2936 67 KLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYID 101 (174)
Q Consensus 67 ~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d 101 (174)
.++.+.-.+..+.+.+.+.+.+||+..||-|.=-+
T Consensus 170 ~it~~~i~~~i~~~~~~l~~~~gi~~PrIaV~gLN 204 (320)
T TIGR00557 170 ALTPELLVEKLRILHADLRRDFGIARPRIAVAGLN 204 (320)
T ss_pred HhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEEecC
Confidence 36788888888899999999999999998665333
No 108
>PRK15324 type III secretion system lipoprotein PrgK; Provisional
Probab=26.10 E-value=4e+02 Score=22.47 Aligned_cols=86 Identities=9% Similarity=0.093 Sum_probs=52.5
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh-CCCCCcE
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL-GIPKDRM 95 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L-GIp~dRi 95 (174)
.++..++++.+..+-|.-..+|-+.+-.... ..+-...|..--.+.... +....+....+|..++..-. |+.+|+|
T Consensus 107 ~ALe~ELarTI~~IdgV~~ARVHl~lP~~s~-~~~~~~~~~~aSv~~~~~--~~~~~~~qv~~I~~LVA~SV~gL~~enV 183 (252)
T PRK15324 107 SAIEQRLEQSLQTMEGVLSARVHISYDIDAG-ENGRPPKPVHLSALAVYE--RGSPLAHQISDIKRFLKNSFADVDYDNI 183 (252)
T ss_pred HHHHHHHHHHHHhcCCcceEEEEEECCCCcc-ccccccCCcceeEEEecC--CCCCCHHHHHHHHHHHHhcCCCCCcccE
Confidence 3566677777777777777777776643322 222212222111111122 22333777888888888877 7999999
Q ss_pred EEEEEeCCCC
Q psy2936 96 YISYIDSSTD 105 (174)
Q Consensus 96 yI~f~d~~~~ 105 (174)
-|.|.+.++.
T Consensus 184 tVV~~~~~~~ 193 (252)
T PRK15324 184 SVVLSERSDA 193 (252)
T ss_pred EEEEEEcccc
Confidence 9999987654
No 109
>PRK05312 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=26.08 E-value=1.2e+02 Score=26.72 Aligned_cols=35 Identities=11% Similarity=0.228 Sum_probs=28.5
Q ss_pred cCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEe
Q psy2936 67 KLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYID 101 (174)
Q Consensus 67 ~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d 101 (174)
.++.+.-.+..+.+.+.|.+.+||...||-|.=-+
T Consensus 182 ~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~GLN 216 (336)
T PRK05312 182 ALTPELIVATARITAADLRRRFGIASPRLAVAGLN 216 (336)
T ss_pred HhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeeC
Confidence 46788888888899999999999999998765443
No 110
>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=25.98 E-value=69 Score=31.19 Aligned_cols=59 Identities=14% Similarity=0.088 Sum_probs=37.2
Q ss_pred eeEEEEEEeec--C----C-hHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCC--CCCeeecCceec
Q psy2936 57 AAIASLMSIGK--L----G-TAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSS--TDVVGYNGTTFH 115 (174)
Q Consensus 57 ~a~veI~sig~--~----~-~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~--~~nwG~~G~T~~ 115 (174)
.+.+.+..=|. + + .+.=+-.-..+.....+.||||.++|.|..-|.+ +..+|..|+...
T Consensus 467 ~a~v~l~~dGsv~v~v~~g~~d~GQG~~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt~~Sr~t 534 (768)
T TIGR03196 467 GARLELAEDGTVKIRAHFACAECGQGFLAAAEQIAMEELGCAAEDISIAIADTAKGPKAGSSSASRGT 534 (768)
T ss_pred cEEEEEeCCCCeEEEEEECCCCcCCCHHHHHHHHHHHHhCCCHHHEEEecCCCCCCCCCCCCchhhhh
Confidence 45666665442 1 1 2222344556788889999999999999988763 444554554443
No 111
>COG1362 LAP4 Aspartyl aminopeptidase [Amino acid transport and metabolism]
Probab=25.44 E-value=37 Score=31.06 Aligned_cols=102 Identities=24% Similarity=0.364 Sum_probs=61.5
Q ss_pred ecCChHHHHHHHHHHHHHHHhhhCCCCCcEE---EEEEeCC-CCCeeecCceecc-cccCccchHHHHHHHHHhhhccee
Q psy2936 66 GKLGTAENKKHSAVLFPHIEKTLGIPKDRMY---ISYIDSS-TDVVGYNGTTFHE-IFGGPVLNKRAMESIVLEFKNVLI 140 (174)
Q Consensus 66 g~~~~e~n~~~s~aI~~~l~e~LGIp~dRiy---I~f~d~~-~~nwG~~G~T~~~-l~~~~~~~~~~~~~~~~~~~~~~~ 140 (174)
|....+.+++....+.+++.+++||..+++. +.++|.. +..+|.++.-+.. ...+-...--.||++...
T Consensus 183 g~~~~~~~~~~~~~ll~~iae~~~v~~ed~vs~dL~~~~~~~a~~~G~~~efi~a~rlDn~~~~~a~m~AL~~~------ 256 (437)
T COG1362 183 GVIPGEEKNKVKASLLKLLAEQLGVEEEDFVSFDLILVDAQKARLVGADGEFLSAPRLDNLICCHAGMEALLAA------ 256 (437)
T ss_pred eccCcccccchhHHHHHHHHHHhCCcHhhhhhceEEEecCCcceeeccchhhhccCCccchHHHHHHHHHHHhc------
Confidence 3343666677889999999999999988742 4445544 4577777764432 111111111456666653
Q ss_pred eeeeeeeeee--------eeeccCCCCCCCCceEEEeeccC
Q psy2936 141 KNQSTTTVAF--------SCGLLGKPSDYLNPYVVRISLPL 173 (174)
Q Consensus 141 ~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~ 173 (174)
++.+-+.+.. |++--|--|.||.-.+-||++.+
T Consensus 257 ~~~~~~~v~~~fD~EEIGS~s~~GAds~fL~~vLeri~~a~ 297 (437)
T COG1362 257 ANSDKTCVLALFDHEEIGSLSAQGADSPFLENVLERIILAL 297 (437)
T ss_pred cCCCCceEEEEechhhcccccccCcCchhHHHHHHHHHHHc
Confidence 3444333332 66777888888876666666554
No 112
>PF00121 TIM: Triosephosphate isomerase; InterPro: IPR000652 Triosephosphate isomerase (5.3.1.1 from EC) (TIM) [] is the glycolytic enzyme that catalyses the reversible interconversion of glyceraldehyde 3-phosphate and dihydroxyacetone phosphate. TIM plays an important role in several metabolic pathways and is essential for efficient energy production. It is present in eukaryotes as well as in prokaryotes. TIM is a dimer of identical subunits, each of which is made up of about 250 amino-acid residues. A glutamic acid residue is involved in the catalytic mechanism [, ]. The tertiary structure of TIM has eight beta/alpha motifs folded into a barrel structure. The TIM barrel fold occurs ubiquitously and is found in numerous other enzymes that can be involved in energy metabolism, macromolecule metabolism, or small molecule metabolism []. The sequence around the active site residue is perfectly conserved in all known TIM's. Deficiencies in TIM are associated with haemolytic anaemia coupled with a progressive, severe neurological disorder [].; GO: 0004807 triose-phosphate isomerase activity, 0008152 metabolic process; PDB: 2YPI_A 1YPI_A 1NEY_B 1NF0_B 1I45_A 7TIM_A 3YPI_B 2H6R_H 2Y63_A 1N55_A ....
Probab=25.43 E-value=99 Score=25.82 Aligned_cols=32 Identities=19% Similarity=0.248 Sum_probs=20.7
Q ss_pred HHHHHhhh-CCCCC---cEEEEEEeCCCCCeeecCceecc
Q psy2936 81 FPHIEKTL-GIPKD---RMYISYIDSSTDVVGYNGTTFHE 116 (174)
Q Consensus 81 ~~~l~e~L-GIp~d---RiyI~f~d~~~~nwG~~G~T~~~ 116 (174)
.+.+...| +++++ +++|.|.++ |+.+.+..+.
T Consensus 141 ~~Ql~~~l~~i~~~~~~~~iIAYEPv----WAIGtG~~as 176 (244)
T PF00121_consen 141 KRQLKSILKGIDKEELKNIIIAYEPV----WAIGTGKTAS 176 (244)
T ss_dssp HHHHHHHHTTSSGGGGTCEEEEEEEG----GGTSSSS-CC
T ss_pred HHHHHHHHhccccccccceEEEEccc----ccccCCCCCC
Confidence 33344444 56665 999999999 8888654443
No 113
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=25.32 E-value=29 Score=22.86 Aligned_cols=23 Identities=17% Similarity=0.430 Sum_probs=18.0
Q ss_pred HHHHHHHHHhhhCCCCCcEEEEE
Q psy2936 77 SAVLFPHIEKTLGIPKDRMYISY 99 (174)
Q Consensus 77 s~aI~~~l~e~LGIp~dRiyI~f 99 (174)
+.++..|++++|+|+.+.+-+..
T Consensus 2 ~~~l~~fL~~el~ls~~~i~lal 24 (58)
T PF11165_consen 2 STQLIRFLQEELGLSEASIALAL 24 (58)
T ss_pred cHHHHHHHHHHcCCCHHHHHHHH
Confidence 35789999999999987765443
No 114
>KOG1219|consensus
Probab=25.25 E-value=1.5e+02 Score=33.52 Aligned_cols=82 Identities=13% Similarity=0.015 Sum_probs=59.8
Q ss_pred EEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCc-EE-EEEEeCCCCC-------eeecCceec---ccccCccchHHHH
Q psy2936 61 SLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDR-MY-ISYIDSSTDV-------VGYNGTTFH---EIFGGPVLNKRAM 128 (174)
Q Consensus 61 eI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dR-iy-I~f~d~~~~n-------wG~~G~T~~---~l~~~~~~~~~~~ 128 (174)
+|..-.....+-...+-+.+.+++..+|++.... +. +.|+.+.+.+ ++..|.+|- .+.+.=+..-+-|
T Consensus 3499 ~IrfrnlTpeefv~~h~r~fRRils~~ld~rr~dsiqliSlQ~v~gt~~VdvLl~ve~~g~tf~ktd~l~skI~ns~~~m 3578 (4289)
T KOG1219|consen 3499 EIRFRNLTPEEFVGDHWRNFRRILSHELDFRRVDSIQLISLQPVEGTQDVDVLLLVEGHGSTFYKTDALASKIENSIEKM 3578 (4289)
T ss_pred EEEEecCCHHHHhhhhhhhHHHHHHHhhccccccceeeEEeeecCCCCceeEEEEEccCCcceecHHHHHHHhhhHHHHH
Confidence 3333334457788889999999999999999776 44 5666666666 455677884 4655556666889
Q ss_pred HHHHHhhhcceeee
Q psy2936 129 ESIVLEFKNVLIKN 142 (174)
Q Consensus 129 ~~~~~~~~~~~~~~ 142 (174)
|-|+.-|++.+.|+
T Consensus 3579 en~~~rmr~~fqm~ 3592 (4289)
T KOG1219|consen 3579 ENIGGRMRLLFQMS 3592 (4289)
T ss_pred HHHHHHHHHHHHhh
Confidence 99998889888887
No 115
>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=25.19 E-value=2.1e+02 Score=19.03 Aligned_cols=46 Identities=13% Similarity=0.008 Sum_probs=34.5
Q ss_pred eEEEEeCCC--CCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeE
Q psy2936 3 VFRIETNIP--KEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNL 48 (174)
Q Consensus 3 ~i~i~TNv~--~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m 48 (174)
|++++|... .......|..++-+..++.+=-+...|.|.++++..+
T Consensus 18 yvELKT~~~~~~~~~~~~f~rKllkwW~QsfL~Gi~~IvvG~Rd~~~~ 65 (69)
T PF08652_consen 18 YVELKTSKDIMSPKQWSNFERKLLKWWLQSFLVGIPRIVVGFRDDDGI 65 (69)
T ss_dssp EEEEEEEE---SHCCCHHHHHHHHHHHHHHHCTT--EEEEEEE-TTSE
T ss_pred EEEEeeeccccCchHHHHHhHHHHHHHHHHhccCCCEEEEEEeCCCCc
Confidence 789999885 3345678888999999999999999999999987543
No 116
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=25.16 E-value=70 Score=28.77 Aligned_cols=44 Identities=23% Similarity=0.375 Sum_probs=35.4
Q ss_pred hHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCce
Q psy2936 70 TAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTT 113 (174)
Q Consensus 70 ~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T 113 (174)
.+.++++-..|+.+|...||+||+.+-..|.|-+.+---..|-|
T Consensus 200 ~~~kEe~l~eif~~l~~~lg~PP~~Fdf~YrdKd~~~h~~k~lT 243 (444)
T COG3579 200 EALKEELLQEIFNFLAMTLGLPPEKFDFAYRDKDNKYHKEKGLT 243 (444)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCchhcceEEeccccchhhhcCCC
Confidence 46788899999999999999999999999988766544444433
No 117
>COG3509 LpqC Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.15 E-value=78 Score=27.73 Aligned_cols=27 Identities=19% Similarity=0.342 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHhhhCCCCCcEEEEEE
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDRMYISYI 100 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dRiyI~f~ 100 (174)
-.+..++-+.|..+.||.++||||.=.
T Consensus 125 Vgflr~lva~l~~~~gidp~RVyvtGl 151 (312)
T COG3509 125 VGFLRALVAKLVNEYGIDPARVYVTGL 151 (312)
T ss_pred HHHHHHHHHHHHHhcCcCcceEEEEee
Confidence 456777778888889999999999733
No 118
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]
Probab=24.91 E-value=2.5e+02 Score=22.22 Aligned_cols=48 Identities=23% Similarity=0.292 Sum_probs=39.1
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCC-CceeEEEEEE
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSD-APAAIASLMS 64 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~-~P~a~veI~s 64 (174)
.-...++-+.+|++|+-|.+.|.|...+...|-|-|.. .=+|+..+..
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 46778899999999999999999999999999998865 4455555544
No 119
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=24.90 E-value=1.1e+02 Score=19.48 Aligned_cols=23 Identities=30% Similarity=0.427 Sum_probs=19.5
Q ss_pred HHHHHHHHhhhCCCCCcEEEEEE
Q psy2936 78 AVLFPHIEKTLGIPKDRMYISYI 100 (174)
Q Consensus 78 ~aI~~~l~e~LGIp~dRiyI~f~ 100 (174)
..+.+.+++..|+|++++.+.|.
T Consensus 19 ~~lK~~i~~~~~~~~~~~~L~~~ 41 (69)
T PF00240_consen 19 ADLKQKIAEETGIPPEQQRLIYN 41 (69)
T ss_dssp HHHHHHHHHHHTSTGGGEEEEET
T ss_pred HHhhhhcccccccccccceeeee
Confidence 45778899999999999998874
No 120
>PF14813 NADH_B2: NADH dehydrogenase 1 beta subcomplex subunit 2
Probab=24.90 E-value=34 Score=23.49 Aligned_cols=11 Identities=45% Similarity=0.884 Sum_probs=8.2
Q ss_pred HHhhhCCCCCc
Q psy2936 84 IEKTLGIPKDR 94 (174)
Q Consensus 84 l~e~LGIp~dR 94 (174)
--+|||||+|.
T Consensus 59 TDeELGIppdd 69 (71)
T PF14813_consen 59 TDEELGIPPDD 69 (71)
T ss_pred chhhcCCCCCC
Confidence 35788998875
No 121
>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=24.84 E-value=2.5e+02 Score=19.56 Aligned_cols=43 Identities=9% Similarity=0.060 Sum_probs=35.4
Q ss_pred EEEEEeecCC-hHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 60 ASLMSIGKLG-TAENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 60 veI~sig~~~-~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
+.+..-.+.+ ++--+++-+++.+.+++.+|+...++.|.+.++
T Consensus 64 l~v~v~~g~~i~~v~~~iq~~V~~~v~~~tg~~v~~V~V~V~~v 107 (108)
T PF03780_consen 64 LHVVVEYGVNIPEVAEEIQEKVKEAVEEMTGIEVSEVNVHVEDV 107 (108)
T ss_pred EEEEEECCccHHHHHHHHHHHHHHHHHHHHCCeeEEEEEEEEec
Confidence 3444444556 888899999999999999999999999999886
No 122
>COG1907 Predicted archaeal sugar kinases [General function prediction only]
Probab=24.52 E-value=1.7e+02 Score=25.70 Aligned_cols=62 Identities=11% Similarity=0.096 Sum_probs=40.1
Q ss_pred CCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceeccc
Q psy2936 54 DAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEI 117 (174)
Q Consensus 54 ~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l 117 (174)
..|..-++++-...+..+.-... ..+.+.+.+.|..+ .-++|.+...-|.++|.+.+|+..|
T Consensus 33 e~P~l~i~~~~s~~~~~~ge~~~-~~~~~~a~~~le~~-~gv~I~I~~~~P~HvGLGS~TQlaL 94 (312)
T COG1907 33 EEPRLEIEAKPSDDIEVDGEDRR-ERVEKAARLVLEVG-EGVKIEIRSDIPAHVGLGSTTQLAL 94 (312)
T ss_pred eCCceEEEEeccccccccchhhH-HHHHHHHHHhhccc-CceEEEEEecCchhcCCChHHHHHH
Confidence 36766555554433222111111 55555566666665 7789999999999999999999766
No 123
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=24.50 E-value=1.3e+02 Score=24.98 Aligned_cols=91 Identities=14% Similarity=0.050 Sum_probs=53.0
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCC-------------CCcee--EEEEEEeecCChHHHHHHHHHH
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGS-------------DAPAA--IASLMSIGKLGTAENKKHSAVL 80 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs-------------~~P~a--~veI~sig~~~~e~n~~~s~aI 80 (174)
.+-++..+++++-.+.|.+.= =-.+-+...-+-|-+ ..-+. -+.++.+.... .-..+-.++
T Consensus 96 gDVllHAi~DALLGA~glGDI--G~~FPdtd~~~Kg~~S~~lL~~a~~ll~~~G~~I~NvD~tII~q~P--Ki~p~~~~m 171 (216)
T PLN02862 96 GDVLLHCVVDAILGALGLPDI--GQIFPDTDPKWKGADSSVFIKEAVRLMHEAGYEIGNLDATLILQRP--KLSPHKEAI 171 (216)
T ss_pred HHHHHHHHHHHHHHHccCCcc--cccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCC--cchHHHHHH
Confidence 456777777777777766432 112222211122211 11222 23444455332 224577888
Q ss_pred HHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 81 FPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 81 ~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
.+.|.+.|++++++|.|...-. +..|+-|.
T Consensus 172 ~~~La~lL~i~~~~VnIKAtT~--E~LG~~Gr 201 (216)
T PLN02862 172 RSNLSKLLGADPSVVNLKAKTH--EKVDSLGE 201 (216)
T ss_pred HHHHHHHhCCCcceEEEEEecC--CCCCCCcc
Confidence 9999999999999999999876 55666553
No 124
>PRK06007 fliF flagellar MS-ring protein; Reviewed
Probab=24.43 E-value=3.9e+02 Score=24.98 Aligned_cols=80 Identities=10% Similarity=0.130 Sum_probs=56.9
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhh-CCCCCc
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTL-GIPKDR 94 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~L-GIp~dR 94 (174)
..++-.+|++.+..+-+.-..+|.+.+-.. ..+......|.|-|-|+.-+|.. ..++-.++|..++..-- |+++++
T Consensus 133 ~rAlegELartI~~i~~V~~ArVhl~lP~~-s~F~~~~~~~tASV~l~l~~g~~--L~~~qV~aI~~LVA~sVpgL~~en 209 (542)
T PRK06007 133 QRALEGELARTIESLDGVKAARVHLALPKE-SVFVREQQPPSASVVLTLKPGRA--LDPEQVKAIVHLVASAVPGLKPEN 209 (542)
T ss_pred HHHHHHHHHHHHHhcCCcceeEEEEECCCC-ccccccCCCCcEEEEEeccCCCC--CCHHHHHHHHHHHHhccCCCCccc
Confidence 457788889999988888777887777554 43445556889988888877643 23344566777776654 799999
Q ss_pred EEEE
Q psy2936 95 MYIS 98 (174)
Q Consensus 95 iyI~ 98 (174)
|.|.
T Consensus 210 VtVv 213 (542)
T PRK06007 210 VTIV 213 (542)
T ss_pred eEEE
Confidence 8876
No 125
>COG1766 fliF Flagellar basal body M-ring protein [Cell motility and secretion]
Probab=24.21 E-value=3.7e+02 Score=25.37 Aligned_cols=81 Identities=11% Similarity=0.137 Sum_probs=57.7
Q ss_pred chhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhh-hCCCCC
Q psy2936 15 IPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKT-LGIPKD 93 (174)
Q Consensus 15 ~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~-LGIp~d 93 (174)
...++--++++.+..+=+.-..+|.+.+-... .+......|.|-|.|..-.|. ..++.-..+|..++... -|++++
T Consensus 132 ~~RAlegELartI~~l~~V~~ArVhl~lPk~s-~Fv~~q~~psASV~l~l~pG~--~l~~~qV~aI~~LVs~aVpgL~~e 208 (545)
T COG1766 132 YQRALEGELARTIVAIDGVKAARVHLVLPKDS-LFVRDQQPPSASVVLKLKPGR--NLSREQVRAIVHLVSSAVPGLKPE 208 (545)
T ss_pred HHHHHHHHHHHHHHHhhchhheeEEEecCCcc-hhhcccCCCceEEEEEccCCC--CCCHHHHHHHHHHHHhhcCCCCcc
Confidence 35688888999999998877778887775544 444557899999999888774 22333345566665543 489999
Q ss_pred cEEEE
Q psy2936 94 RMYIS 98 (174)
Q Consensus 94 RiyI~ 98 (174)
+|.|.
T Consensus 209 nVtVv 213 (545)
T COG1766 209 NVTVV 213 (545)
T ss_pred ceEEe
Confidence 98775
No 126
>COG0092 RpsC Ribosomal protein S3 [Translation, ribosomal structure and biogenesis]
Probab=24.15 E-value=2.2e+02 Score=23.96 Aligned_cols=25 Identities=20% Similarity=0.215 Sum_probs=20.2
Q ss_pred HHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 76 HSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
-.++|++.|++.+|+. .+.|++.++
T Consensus 72 ~I~~L~~~l~k~~g~~--~v~I~i~EV 96 (233)
T COG0092 72 NIEKLRKELEKLFGKE--NVQINIEEV 96 (233)
T ss_pred cHHHHHHHHHHHhCCC--CceEEEEEc
Confidence 3456888899999998 788888888
No 127
>PF14804 Jag_N: Jag N-terminus; PDB: 3GKU_B.
Probab=24.10 E-value=1.2e+02 Score=19.35 Aligned_cols=33 Identities=18% Similarity=0.482 Sum_probs=15.5
Q ss_pred HHHHHHHhhhCCCCCcEEEEEEeC-CCCCeeecCc
Q psy2936 79 VLFPHIEKTLGIPKDRMYISYIDS-STDVVGYNGT 112 (174)
Q Consensus 79 aI~~~l~e~LGIp~dRiyI~f~d~-~~~nwG~~G~ 112 (174)
+|...+ ++||++.+++-+...+- +..-+|++.+
T Consensus 10 Ai~~A~-~~l~~~~~~~~~eVi~~g~kGf~G~g~k 43 (52)
T PF14804_consen 10 AIEKAL-KELGVPREELEYEVIEEGKKGFFGFGKK 43 (52)
T ss_dssp HHHHHH-HHTT--GGGEEEEEEE--B--------B
T ss_pred HHHHHH-HHhCCChHHEEEEEEEcCCCcEEeecce
Confidence 344444 45999999999999887 3345664443
No 128
>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=23.76 E-value=85 Score=30.99 Aligned_cols=60 Identities=20% Similarity=0.249 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceecccccCccchHHHHHHHHHhhhcce
Q psy2936 76 HSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFHEIFGGPVLNKRAMESIVLEFKNVL 139 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~~l~~~~~~~~~~~~~~~~~~~~~~ 139 (174)
+...+.....+.||||.|+|.|..-|. ....+++.|.+.. .-...-.+...-.++++.++
T Consensus 619 ~~T~~aQiaAe~LGip~e~V~v~~~DT--~~~p~~~gt~aSR--~t~~~G~Av~~Aa~~l~~~l 678 (848)
T TIGR03311 619 LGTVLTQIVCETTGLPPEVIVCELPDT--ALTPDSGTTTASR--QSLFTGEATRRAAAKLKEAL 678 (848)
T ss_pred HHHHHHHHHHHHHCCCHHHEEEEcCCC--CCCCCCCCCchhh--HHHHHHHHHHHHHHHHHHHH
No 129
>PF10503 Esterase_phd: Esterase PHB depolymerase
Probab=23.75 E-value=78 Score=26.02 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHhhhCCCCCcEEEE
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDRMYIS 98 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dRiyI~ 98 (174)
..+.+.+.+.+..+.+|+++|||+.
T Consensus 78 ~~~i~~lv~~v~~~~~iD~~RVyv~ 102 (220)
T PF10503_consen 78 VAFIAALVDYVAARYNIDPSRVYVT 102 (220)
T ss_pred hhhHHHHHHhHhhhcccCCCceeeE
Confidence 4567777888888999999999996
No 130
>PF14035 YlzJ: YlzJ-like protein
Probab=23.04 E-value=24 Score=23.67 Aligned_cols=9 Identities=67% Similarity=1.246 Sum_probs=7.5
Q ss_pred CCCCCCCce
Q psy2936 157 KPSDYLNPY 165 (174)
Q Consensus 157 ~~~~~~~~~ 165 (174)
.|.|||||-
T Consensus 50 nP~dYLnp~ 58 (66)
T PF14035_consen 50 NPQDYLNPD 58 (66)
T ss_pred ChHHHcCcc
Confidence 689999984
No 131
>PTZ00487 ceramidase; Provisional
Probab=22.39 E-value=5.9e+02 Score=24.98 Aligned_cols=51 Identities=18% Similarity=0.180 Sum_probs=36.7
Q ss_pred eEEec-CCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhhhCC---CCCcEEEEEEeC
Q psy2936 47 NLVFG-GSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKTLGI---PKDRMYISYIDS 102 (174)
Q Consensus 47 ~m~fg-Gs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~LGI---p~dRiyI~f~d~ 102 (174)
.+.+. .....++||.+...+. + ..+..++.+.|.+++|| +.++|.|..+--
T Consensus 79 AfVl~d~~~~rvv~Vs~Dl~~i-~----~~v~~~V~~~L~~~~Gi~~y~~~NVllsATHT 133 (715)
T PTZ00487 79 AFVFADSPGNRAVYVSTDSCMI-F----QEVKIGVVPKLQEIFGPDLYTLDNVLLSGTHT 133 (715)
T ss_pred EEEEEeCCCCEEEEEEEcccCC-C----HHHHHHHHHHHHHHhCcCcCChhhEEEEeeec
Confidence 45553 2356888888877664 3 45556677777889998 999999988764
No 132
>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=22.39 E-value=63 Score=31.37 Aligned_cols=39 Identities=10% Similarity=0.146 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhhhCCCCCcEEEEEEeCCC--CCeeecCcee
Q psy2936 76 HSAVLFPHIEKTLGIPKDRMYISYIDSST--DVVGYNGTTF 114 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dRiyI~f~d~~~--~nwG~~G~T~ 114 (174)
.-..+.....++|||+.++|.|..-|.+. ..+|..|+..
T Consensus 473 ~~T~laQIaAe~LGi~~d~V~v~~~DT~~~p~~~gT~gSr~ 513 (758)
T TIGR02965 473 LNTKVAQVVAEEFQVDIDRVKITATDTDKVPNTSATAASSG 513 (758)
T ss_pred HHHHHHHHHHHHhCCCHHHEEEEecCccCCCCCCCCchHHH
Confidence 34557888999999999999999987643 3444444443
No 133
>COG1325 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=22.34 E-value=3.9e+02 Score=20.96 Aligned_cols=90 Identities=13% Similarity=0.176 Sum_probs=56.7
Q ss_pred CCe--EEEEeCCCCCCchhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCChHHHHHHHH
Q psy2936 1 MPV--FRIETNIPKEKIPANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLGTAENKKHSA 78 (174)
Q Consensus 1 MP~--i~i~TNv~~~~~~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~ 78 (174)
|++ +.+.+-+-+++.++..+..+..++.+.. ..-+.|....| ++| .|-.++++..=.+ ...+++-+
T Consensus 5 ~~~~~i~~rv~iHaTED~~kV~eAL~~~~p~~~---~~e~ev~~aeG---hyG---NpI~il~~~l~~~---~~~~~flk 72 (149)
T COG1325 5 MQSHYIEIRVIIHATEDEEKVLEALENFFPEAI---DVEIEVTEAEG---HYG---NPITILEVRLERS---REARKFLK 72 (149)
T ss_pred cccceEEEEEEEEccCCHHHHHHHHHHhcCccc---ccceEEEEeec---ccC---CeEEEEEEEecCc---HHHHHHHH
Confidence 444 6666666666678888888888887766 22233333332 333 4777777766443 44566666
Q ss_pred HHHHHHH--------hh--hCCCCC-cEEEEEEeC
Q psy2936 79 VLFPHIE--------KT--LGIPKD-RMYISYIDS 102 (174)
Q Consensus 79 aI~~~l~--------e~--LGIp~d-RiyI~f~d~ 102 (174)
.|++.+. ++ -.++.+ ..|+.|.-.
T Consensus 73 ~i~e~l~~ed~~~l~~~le~rvD~~g~lylRfDKQ 107 (149)
T COG1325 73 KLRELLGEEDREYLLETLEERVDENGVLYLRFDKQ 107 (149)
T ss_pred HHHHhcChHHHHHHHHhhHhccCCCceEEEEEchH
Confidence 6666665 32 358877 999999765
No 134
>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=22.34 E-value=29 Score=30.73 Aligned_cols=76 Identities=18% Similarity=0.293 Sum_probs=0.0
Q ss_pred CCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeecCC---hHHHHHHHHHHHHHHHhhhC--CCCCcEEEEEEeCCCCC
Q psy2936 32 GKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGKLG---TAENKKHSAVLFPHIEKTLG--IPKDRMYISYIDSSTDV 106 (174)
Q Consensus 32 gKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~~~---~e~n~~~s~aI~~~l~e~LG--Ip~dRiyI~f~d~~~~n 106 (174)
....+.+.+....|+.+.|-|-++|. .|+|+.+++ -|+-.+++..-.+.|...+- -+...+++.|.+..+.+
T Consensus 66 ~~~~s~~~i~~~~Gs~i~F~Gld~~~---kiKS~~~~~~~w~EEa~e~~~~~~~~l~~tir~~~~~~~i~~s~NP~~~~~ 142 (387)
T PF04466_consen 66 KINKSPIEIYKPNGSKIIFRGLDDPE---KIKSIKGIDIIWVEEAEEFSEEDFDQLIPTIRPKGPGSQIWLSFNPKSESH 142 (387)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEcCCCceEEccCCCEEEEeCCCChh---hcCCcccccEEEEechhhccHHHHHHHHHHhccCCCcEEEEEEECcCCCCc
Confidence 33344454556677888888888874 788876654 55656666666777777776 67788999999887778
Q ss_pred eeec
Q psy2936 107 VGYN 110 (174)
Q Consensus 107 wG~~ 110 (174)
|=+.
T Consensus 143 wv~~ 146 (387)
T PF04466_consen 143 WVYK 146 (387)
T ss_dssp ----
T ss_pred chHh
Confidence 7653
No 135
>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=22.33 E-value=3.2e+02 Score=19.95 Aligned_cols=53 Identities=13% Similarity=0.095 Sum_probs=37.5
Q ss_pred EEEeecCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCceec
Q psy2936 62 LMSIGKLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGTTFH 115 (174)
Q Consensus 62 I~sig~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~T~~ 115 (174)
...++++.- +++.+.++|.+.....+.-..-=+++.+.+++++.+=+|-+.-.
T Consensus 47 ~ifVN~R~V-~~~~l~~ai~~~y~~~~~~~~~P~~vL~l~ipp~~vDvNVhP~K 99 (123)
T cd03482 47 YFYVNGRMV-RDKLISHAVRQAYSDVLHGGRHPAYVLYLELDPAQVDVNVHPAK 99 (123)
T ss_pred EEEEcCcEE-CChHHHHHHHHHHHHhccCCCCcEEEEEEEcChHheeeccCCCc
Confidence 334455543 35778888888888766544444999999999998888876543
No 136
>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=22.28 E-value=3.9e+02 Score=20.94 Aligned_cols=45 Identities=27% Similarity=0.299 Sum_probs=37.3
Q ss_pred hhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCC-CceeEEE
Q psy2936 17 ANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSD-APAAIAS 61 (174)
Q Consensus 17 ~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~-~P~a~ve 61 (174)
..+..++-+.++++++-+.+.|.|....++.|-|-|.. .-+|+..
T Consensus 105 ~p~~~~m~~~ls~~L~~~~~~V~iKatT~E~lg~~Gr~egia~~av 150 (153)
T cd00554 105 SPYREAMRANLAELLGIPPSRVNIKATTTEGLGFTGRGEGIAAQAV 150 (153)
T ss_pred hHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCCCcCCCceEEEEE
Confidence 46889999999999999999999999999999887764 4454443
No 137
>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=22.17 E-value=1.3e+02 Score=20.95 Aligned_cols=21 Identities=14% Similarity=0.202 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHhhhCCCCCc
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDR 94 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dR 94 (174)
.++.+.|.+.|.+++||++.+
T Consensus 38 aeLNk~ly~~lv~~~~i~K~D 58 (75)
T PF10015_consen 38 AELNKKLYEKLVNKMKIDKLD 58 (75)
T ss_pred HHHHHHHHHHHHHHhCCCccc
Confidence 455677888999999999864
No 138
>PF15603 Imm45: Immunity protein 45
Probab=22.04 E-value=2.9e+02 Score=19.34 Aligned_cols=51 Identities=16% Similarity=0.215 Sum_probs=35.2
Q ss_pred ceEEEEEeCCe------eEEecCCCCce-eEEEEEEee---------cCChHHHHHHHHHHHHHHHh
Q psy2936 36 NYVAVIVVPDV------NLVFGGSDAPA-AIASLMSIG---------KLGTAENKKHSAVLFPHIEK 86 (174)
Q Consensus 36 ~~ImV~i~~~~------~m~fgGs~~P~-a~veI~sig---------~~~~e~n~~~s~aI~~~l~e 86 (174)
+++.+.+..|. .|.+++.+.+. +.+...++. .++..+..++..+|++.+.+
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 45666665553 45555556555 777777777 46788888888888888775
No 139
>PF12401 DUF3662: Protein of unknown function (DUF2662) ; InterPro: IPR022128 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00498 from PFAM. ; PDB: 2LC0_A.
Probab=21.79 E-value=83 Score=23.21 Aligned_cols=37 Identities=14% Similarity=0.227 Sum_probs=20.9
Q ss_pred eecccccCccchHHHHHHHHHhhhcc-eeeeeeeeeee
Q psy2936 113 TFHEIFGGPVLNKRAMESIVLEFKNV-LIKNQSTTTVA 149 (174)
Q Consensus 113 T~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 149 (174)
.|+..++.+.--.+.+.++.+||++. ..-+.+.+-||
T Consensus 15 ~Far~F~~~vqPvEIa~~L~remd~~a~~~~~~r~~aP 52 (116)
T PF12401_consen 15 AFARVFRSEVQPVEIAKALRREMDDQARVVSRGRTLAP 52 (116)
T ss_dssp HHHHHHTTSS-THHHHHHHHHHHHHT-B---TT--B--
T ss_pred HHHHhcCCCCcHHHHHHHHHHHHHhCCeecCCCCEEcC
Confidence 57777666644458999999999966 33343333333
No 140
>cd03330 Macro_2 Macro domain, Unknown family 2. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly ADP-ribose as a ligand. Previously identified as displaying an Appr-1"-p (ADP-ribose-1"-monophosphate) processing activity, the macro domain may play roles in distinct ADP-ribose pathways, such as the ADP-ribosylation of proteins, an important post-translational modification which occurs in DNA repair, transcription, chromatin biology, and long-term memory formation, among other processes. This family is composed of uncharacterized proteins containing a stand-alone macro domain.
Probab=21.72 E-value=3.2e+02 Score=19.84 Aligned_cols=33 Identities=18% Similarity=0.263 Sum_probs=19.3
Q ss_pred HHHHHHHHhhhcceeeeeeeeeeeeeeeccCCCCC
Q psy2936 126 RAMESIVLEFKNVLIKNQSTTTVAFSCGLLGKPSD 160 (174)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (174)
..++++....+..-+||++.. ++++|..|-|.+
T Consensus 90 ~~~~~~l~~a~~~~~~sIA~P--~igtG~~g~~~~ 122 (133)
T cd03330 90 KATRAALALADELGIESVAFP--AMGTGVGGLPKE 122 (133)
T ss_pred HHHHHHHHHHHHcCCCEEEEC--cccccCCCCCHH
Confidence 445555544443445554444 789999887743
No 141
>PRK02746 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=21.66 E-value=2.7e+02 Score=24.78 Aligned_cols=37 Identities=19% Similarity=0.301 Sum_probs=28.3
Q ss_pred cCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCC
Q psy2936 67 KLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDSSTD 105 (174)
Q Consensus 67 ~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~ 105 (174)
.++.+.-.+....+.+.|.+.+||...||-|. -++||
T Consensus 180 ~it~~~I~~~i~~~~~~l~~~~gi~~PrIaV~--GLNPH 216 (345)
T PRK02746 180 TLTPELITSKLDLLIDFLQRDFGIEKPRIAIA--GLNPH 216 (345)
T ss_pred HhCHHHHHHHHHHHHHHHHHHcCCCCCcEEEE--eeCCC
Confidence 46777777778888999999999999987655 44444
No 142
>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=21.58 E-value=2.2e+02 Score=22.93 Aligned_cols=30 Identities=20% Similarity=0.345 Sum_probs=22.6
Q ss_pred EEEeecCChHHHHHHHHHHHHHHHhhhCCC
Q psy2936 62 LMSIGKLGTAENKKHSAVLFPHIEKTLGIP 91 (174)
Q Consensus 62 I~sig~~~~e~n~~~s~aI~~~l~e~LGIp 91 (174)
+.-+++.+-++..++++.+-+.+.++|+||
T Consensus 91 f~Pl~~~t~eec~~~A~~~g~~i~~~l~vP 120 (178)
T PF07837_consen 91 FIPLSGVTMEECAELARELGERIGEELGVP 120 (178)
T ss_dssp EEEEES--HHHHHHHHHHHHHHHHHHHT--
T ss_pred eeeCCCCCHHHHHHHHHHHHHHHHHhhCCC
Confidence 334567889999999999999999999987
No 143
>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=21.41 E-value=86 Score=25.25 Aligned_cols=42 Identities=19% Similarity=0.313 Sum_probs=28.9
Q ss_pred ceeEEEEEEee---c--CChHHHHHHHHHHHHHHHhh------hCCCCCcEEE
Q psy2936 56 PAAIASLMSIG---K--LGTAENKKHSAVLFPHIEKT------LGIPKDRMYI 97 (174)
Q Consensus 56 P~a~veI~sig---~--~~~e~n~~~s~aI~~~l~e~------LGIp~dRiyI 97 (174)
.+.+|-++.-| + .+++.+......+.+++.++ .||+.+||++
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 35566666652 2 23566668899999999987 8999999876
No 144
>PF09932 DUF2164: Uncharacterized conserved protein (DUF2164); InterPro: IPR018680 This family of various hypothetical prokaryotic proteins has no known function.
Probab=21.29 E-value=1.4e+02 Score=20.53 Aligned_cols=25 Identities=12% Similarity=0.029 Sum_probs=22.0
Q ss_pred CChHHHHHHHHHHHHHHHhhhCCCC
Q psy2936 68 LGTAENKKHSAVLFPHIEKTLGIPK 92 (174)
Q Consensus 68 ~~~e~n~~~s~aI~~~l~e~LGIp~ 92 (174)
++++++..+...|..++.++++..-
T Consensus 3 l~ke~k~~li~~iq~yf~~E~d~ei 27 (76)
T PF09932_consen 3 LSKEEKAELIDKIQRYFAEELDEEI 27 (76)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCcH
Confidence 6789999999999999999988654
No 145
>PF05450 Nicastrin: Nicastrin; InterPro: IPR008710 Nicastrin and presenilin are two major components of the gamma-secretase complex, which executes the intramembrane proteolysis of type I integral membrane proteins such as the amyloid precursor protein (APP) and Notch. Nicastrin is synthesised in fibroblasts and neurons as an endoglycosidase-H-sensitive glycosylated precursor protein (immature nicastrin) and is then modified by complex glycosylation in the Golgi apparatus and by sialylation in the trans-Golgi network (mature nicastrin) [].; GO: 0016485 protein processing, 0016021 integral to membrane
Probab=21.04 E-value=1.7e+02 Score=24.29 Aligned_cols=31 Identities=13% Similarity=0.196 Sum_probs=22.1
Q ss_pred EEEEEEeCCCCCeeecCceecccccCccchHHHHHHHHHhhhcceee
Q psy2936 95 MYISYIDSSTDVVGYNGTTFHEIFGGPVLNKRAMESIVLEFKNVLIK 141 (174)
Q Consensus 95 iyI~f~d~~~~nwG~~G~T~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 141 (174)
=.|.|.=.+.|.|||-|+ +|.+.||+|....
T Consensus 51 knV~F~~F~GEs~dYiGS----------------~R~vyDm~~~~f~ 81 (234)
T PF05450_consen 51 KNVLFAFFNGESFDYIGS----------------SRFVYDMQNGNFP 81 (234)
T ss_pred CcEEEEEecCccccccch----------------HHHHHHHHcCcCc
Confidence 334444445699999998 6788888876554
No 146
>KOG3332|consensus
Probab=20.97 E-value=3.9e+02 Score=22.59 Aligned_cols=64 Identities=19% Similarity=0.240 Sum_probs=38.4
Q ss_pred CcceEEEEE-e-CCeeEEecCCC----Cc--eeEEEEEEee---cCChHHHHHHHHHHHHHHHhhhCCCCCcEEEEEEeC
Q psy2936 34 PENYVAVIV-V-PDVNLVFGGSD----AP--AAIASLMSIG---KLGTAENKKHSAVLFPHIEKTLGIPKDRMYISYIDS 102 (174)
Q Consensus 34 Pe~~ImV~i-~-~~~~m~fgGs~----~P--~a~veI~sig---~~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI~f~d~ 102 (174)
+++++...+ + +++.|+|+-+- .- -.++-.-|.| |.+...++++.++ ...||||.+++.+.-++-
T Consensus 36 ~~sriLLviAhpdDE~mFFsPtI~~L~~~~~~v~iLClSnGN~dg~G~iR~kEL~ra-----~~~lgi~~s~v~~l~~~~ 110 (247)
T KOG3332|consen 36 AESRILLVIAHPDDESMFFSPTILYLTSGACNVHILCLSNGNADGLGKIREKELHRA-----CAVLGIPLSNVVVLDTPF 110 (247)
T ss_pred ccceEEEEEeccCccccchhhHHHHHhcCCccEEEEEecCCCccccchHHHHHHHHH-----HHHHCCchhheEEecCCc
Confidence 455554444 3 45689999541 12 2334444444 4567777777666 345899999988765554
No 147
>PRK09970 xanthine dehydrogenase subunit XdhA; Provisional
Probab=20.95 E-value=87 Score=30.40 Aligned_cols=40 Identities=18% Similarity=0.223 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhhhCCCCCcEEEEEE-eC--CCCCeeecCceec
Q psy2936 76 HSAVLFPHIEKTLGIPKDRMYISYI-DS--STDVVGYNGTTFH 115 (174)
Q Consensus 76 ~s~aI~~~l~e~LGIp~dRiyI~f~-d~--~~~nwG~~G~T~~ 115 (174)
+...++....++||+|.++|.|... |. .+..+|..|+...
T Consensus 486 ~~T~~aQiaAe~LGi~~~~V~v~~~~dT~~~p~~~gt~aSr~t 528 (759)
T PRK09970 486 SDTVFSQMVAETVGIPVSDVRVISTQDTDVTPFDPGAYASRQS 528 (759)
T ss_pred HHHHHHHHHHHHhCCCHHhEEEEccCCCCCCCCCCCCchhhhH
Confidence 3455788899999999999999866 44 3444444444443
No 148
>PTZ00084 40S ribosomal protein S3; Provisional
Probab=20.74 E-value=3.1e+02 Score=22.71 Aligned_cols=30 Identities=13% Similarity=0.240 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHhhhCCCCCcEEEEEEeCCC
Q psy2936 75 KHSAVLFPHIEKTLGIPKDRMYISYIDSST 104 (174)
Q Consensus 75 ~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~ 104 (174)
+-.+.+.+.|++.++++..++.|.+.++..
T Consensus 64 ~~i~~l~~~L~k~~~~~~~~i~i~v~ev~~ 93 (220)
T PTZ00084 64 RRIRELTSLLQKRFGFPEGKVELFAERVEN 93 (220)
T ss_pred hHHHHHHHHHHHHhCCCCceEEEEEEEecC
Confidence 334667888889899888889999999843
No 149
>PRK07193 fliF flagellar MS-ring protein; Reviewed
Probab=20.65 E-value=5.5e+02 Score=24.22 Aligned_cols=79 Identities=10% Similarity=0.105 Sum_probs=53.9
Q ss_pred hhhHHHHHHHHHHHHhCCCcceEEEEEeCCeeEEecCCCCceeEEEEEEeec--CChHHHHHHHHHHHHHHHhhh-CCCC
Q psy2936 16 PANFGKETGALVAKTLGKPENYVAVIVVPDVNLVFGGSDAPAAIASLMSIGK--LGTAENKKHSAVLFPHIEKTL-GIPK 92 (174)
Q Consensus 16 ~~~f~~~ls~~vaevlgKPe~~ImV~i~~~~~m~fgGs~~P~a~veI~sig~--~~~e~n~~~s~aI~~~l~e~L-GIp~ 92 (174)
..++-.++++.+..+-+.-..+|.+.+-....+.......|.|-|-|+.-+| +++++- ++|..++..-- |.++
T Consensus 136 ~rALEgELaRTI~~l~~V~~ARVhLalPe~s~F~~~~~~~~sASV~l~l~~g~~Ls~~QV----~aI~~LVA~SVpgL~p 211 (552)
T PRK07193 136 RRSLEGELAQSIMALDAVESARVHLAIPKSSSFVRQDPELPSASVVLRLKPGQKLSPEQV----EAIVNLVAGSVPGLKP 211 (552)
T ss_pred HHHHHHHHHHHHHhcCCceeEEEEEEcCCCCcccccCCCCCCeEEEEecCCCCCCCHHHH----HHHHHHHHHhcCCCCc
Confidence 3567777888888887877777777775544443344468888888888765 455554 45666655544 7899
Q ss_pred CcEEEE
Q psy2936 93 DRMYIS 98 (174)
Q Consensus 93 dRiyI~ 98 (174)
++|.|.
T Consensus 212 enVtVv 217 (552)
T PRK07193 212 ANVSVV 217 (552)
T ss_pred cceEEE
Confidence 998776
No 150
>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=20.47 E-value=2.4e+02 Score=19.38 Aligned_cols=27 Identities=11% Similarity=0.143 Sum_probs=23.1
Q ss_pred HHHHHHHHHhhhCCCCCcEEEEEEeCC
Q psy2936 77 SAVLFPHIEKTLGIPKDRMYISYIDSS 103 (174)
Q Consensus 77 s~aI~~~l~e~LGIp~dRiyI~f~d~~ 103 (174)
.+.|.+.|++.++++.+++-|.+.+++
T Consensus 52 i~~L~~~L~k~~~~~~~~i~v~~~~v~ 78 (81)
T cd02413 52 IRELTSLVQKRFNFPEGSVELYAEKVA 78 (81)
T ss_pred HHHHHHHHHHHhCCCCCeEEEEEEEcc
Confidence 467888899999999999999888874
No 151
>PF04787 Pox_H7: Late protein H7; InterPro: IPR006872 This is a family of poxvirus late H7 proteins.
Probab=20.41 E-value=3.4e+02 Score=21.20 Aligned_cols=65 Identities=15% Similarity=0.139 Sum_probs=42.5
Q ss_pred HHHHHHHHHHhCCCcceEEEEEeCCe----eEEecCCCCceeEEEEEEeecCChHHHHHHHHHHHHHHHhh
Q psy2936 21 KETGALVAKTLGKPENYVAVIVVPDV----NLVFGGSDAPAAIASLMSIGKLGTAENKKHSAVLFPHIEKT 87 (174)
Q Consensus 21 ~~ls~~vaevlgKPe~~ImV~i~~~~----~m~fgGs~~P~a~veI~sig~~~~e~n~~~s~aI~~~l~e~ 87 (174)
.++..+.+.++|+-.....-++..+. .+.+ ++.--.-|+.... ..++|++..+++..|+..|...
T Consensus 20 ~DI~~l~~~L~~~~P~~tifsid~~g~f~iDF~Y-d~~~AS~YL~~~~-~~i~pde~~~~~~~IA~eLT~~ 88 (147)
T PF04787_consen 20 KDIMVLKRHLLNKHPNDTIFSIDEDGKFFIDFEY-DDCLASDYLNMKT-RPITPDEYKKYSSAIAKELTNY 88 (147)
T ss_pred HHHHHHHHHHhcCCCcceeeeEcCCCCEEEEeee-CCchHhhhhcCCC-ccCCHHHHHHHHHHHHHHHHHH
Confidence 35667788899876665555555433 3444 3344444555433 3478999999999999988763
No 152
>COG4324 Predicted aminopeptidase [General function prediction only]
Probab=20.31 E-value=1.4e+02 Score=26.10 Aligned_cols=35 Identities=23% Similarity=0.346 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecC
Q psy2936 77 SAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNG 111 (174)
Q Consensus 77 s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G 111 (174)
+.+|-.+-.++|++|.++.|=.|.|+.....-||=
T Consensus 87 A~aiR~fAseeL~LPDN~SYR~YadIgRp~vvwnV 121 (376)
T COG4324 87 ASAIRRFASEELALPDNSSYRSYADIGRPDVVWNV 121 (376)
T ss_pred HHHHHHHHHHhccCCCCcceeeeeccCCcceeeee
Confidence 46778889999999999999999999988888774
No 153
>PF14468 DUF4427: Protein of unknown function (DUF4427)
Probab=20.31 E-value=2.2e+02 Score=21.75 Aligned_cols=42 Identities=5% Similarity=0.053 Sum_probs=32.8
Q ss_pred ceeEEEEEEeec-CChHHHHHHHHHHHHHHHhhhCCCCCcEEE
Q psy2936 56 PAAIASLMSIGK-LGTAENKKHSAVLFPHIEKTLGIPKDRMYI 97 (174)
Q Consensus 56 P~a~veI~sig~-~~~e~n~~~s~aI~~~l~e~LGIp~dRiyI 97 (174)
--.+..|...+. .+..+++++++.+...|..++||...+.-|
T Consensus 65 GRYLl~l~~~~s~~plr~kE~~ak~vA~~L~~rF~vea~yfSV 107 (132)
T PF14468_consen 65 GRYLLDLDLFDSDWPLRKKEAMAKHVAGWLRHRFGVEAGYFSV 107 (132)
T ss_pred ceeeeecccccCCCchHHHHHHHHHHHHHHHHHhCcceeEEEe
Confidence 344556666665 677899999999999999999998876554
No 154
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional
Probab=20.28 E-value=1.6e+02 Score=26.18 Aligned_cols=37 Identities=27% Similarity=0.569 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhhCCCCCcEEEEEEeCCCCCeeecCc
Q psy2936 74 KKHSAVLFPHIEKTLGIPKDRMYISYIDSSTDVVGYNGT 112 (174)
Q Consensus 74 ~~~s~aI~~~l~e~LGIp~dRiyI~f~d~~~~nwG~~G~ 112 (174)
..+-.++.+.+++.||++.++|.|...-- +..|+-|+
T Consensus 323 ~~~~~~~~~~~~~~l~~~~~~v~~ka~t~--e~lg~~g~ 359 (378)
T PRK09382 323 GPHKQAMRENLAEILGIPKDRVSVKATTT--EKLGFVGR 359 (378)
T ss_pred hHHHHHHHHHHHHHhCCCcceEEEEEecC--CCCcCCcC
Confidence 44677889999999999999999999886 77887775
No 155
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=20.23 E-value=1.7e+02 Score=22.74 Aligned_cols=29 Identities=17% Similarity=0.413 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhhCCCCCcEEEEEEeCCCC
Q psy2936 77 SAVLFPHIEKTLGIPKDRMYISYIDSSTD 105 (174)
Q Consensus 77 s~aI~~~l~e~LGIp~dRiyI~f~d~~~~ 105 (174)
...+-+-+.++++|+++++||+=..+...
T Consensus 81 ~~~fi~~vA~~~~V~~~~v~VNst~l~dG 109 (149)
T PF11694_consen 81 MVHFIESVAKDLGVSKEEVYVNSTALTDG 109 (149)
T ss_pred HHHHHHHHHHHhCCChheEEEecccccCC
Confidence 34556778999999999999998776543
No 156
>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=20.22 E-value=80 Score=30.73 Aligned_cols=39 Identities=21% Similarity=0.286 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhhCCCCCcEEEEEEeCC--CCCeeecCceec
Q psy2936 77 SAVLFPHIEKTLGIPKDRMYISYIDSS--TDVVGYNGTTFH 115 (174)
Q Consensus 77 s~aI~~~l~e~LGIp~dRiyI~f~d~~--~~nwG~~G~T~~ 115 (174)
...+.....+.||||.|+|.|..-|-+ +..+|..|+...
T Consensus 502 ~T~~aQiaAe~LGip~e~V~v~~~DT~~~p~~~gt~~Sr~t 542 (770)
T TIGR02416 502 ETTYAQIIATELGIPAEDIMVEEGDTDTAPYGLGTYGSRST 542 (770)
T ss_pred hHHHHHHHHHHHCCCHHHEEEEecCCCCCCCCCCCchhHHH
Confidence 345788889999999999999998863 445555555443
No 157
>PF08584 Ribonuc_P_40: Ribonuclease P 40kDa (Rpp40) subunit; InterPro: IPR013893 The tRNA processing enzyme ribonuclease P (RNase P) consists of an RNA molecule and at least eight protein subunits. Subunits hpop1, Rpp21, Rpp29, Rpp30, Rpp38, and Rpp40 (this entry) are involved in extensive, but weak, protein-protein interactions in the holoenzyme complex [].
Probab=20.00 E-value=75 Score=26.96 Aligned_cols=20 Identities=55% Similarity=0.821 Sum_probs=16.7
Q ss_pred eeccCCCCCCCC----ceEEEeec
Q psy2936 152 CGLLGKPSDYLN----PYVVRISL 171 (174)
Q Consensus 152 ~~~~~~~~~~~~----~~~~~~~~ 171 (174)
+||-|||+.|-+ =|||+|.|
T Consensus 53 ~Gl~G~~~~~~~~~~~r~vV~idL 76 (284)
T PF08584_consen 53 LGLEGKPSRFGGRKHQRYVVEIDL 76 (284)
T ss_pred cCCCCcccCCCCccceEEEEEEeC
Confidence 699999999976 48888876
Done!