Query 039682
Match_columns 107
No_of_seqs 102 out of 1139
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 12:08:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039682.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039682hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0179 MhpD 2-keto-4-pentenoa 100.0 3.9E-34 8.4E-39 210.4 11.6 101 1-101 164-265 (266)
2 TIGR02303 HpaG-C-term 4-hydrox 100.0 3.3E-31 7.1E-36 193.2 11.6 100 1-100 144-244 (245)
3 PRK15203 4-hydroxyphenylacetat 100.0 1.8E-30 3.9E-35 201.7 12.2 98 1-101 109-206 (429)
4 TIGR02305 HpaG-N-term 4-hydrox 100.0 1.8E-29 4E-34 179.6 10.7 98 1-98 108-205 (205)
5 PRK10691 hypothetical protein; 100.0 6.8E-29 1.5E-33 178.4 11.9 97 1-98 121-218 (219)
6 KOG1535 Predicted fumarylaceto 100.0 2.6E-29 5.6E-34 176.6 8.9 100 1-100 117-216 (217)
7 PRK12764 hypothetical protein; 100.0 1.5E-28 3.2E-33 194.0 12.5 103 1-104 122-232 (500)
8 PRK15203 4-hydroxyphenylacetat 100.0 4.1E-28 9E-33 188.5 12.7 102 1-102 324-426 (429)
9 PF01557 FAA_hydrolase: Fumary 99.9 3.5E-28 7.6E-33 173.8 7.7 99 1-99 112-218 (218)
10 PRK11342 mhpD 2-keto-4-penteno 99.9 2.2E-21 4.8E-26 142.6 10.5 93 6-99 162-260 (262)
11 TIGR03220 catechol_dmpE 2-oxop 99.9 4.3E-21 9.3E-26 140.6 10.4 91 8-98 160-255 (255)
12 PLN02856 fumarylacetoacetase 99.8 6.6E-20 1.4E-24 142.0 10.2 94 1-96 259-382 (424)
13 TIGR01266 fum_ac_acetase fumar 99.8 1E-19 2.2E-24 140.8 10.0 93 1-95 251-373 (415)
14 TIGR02312 HpaH 2-oxo-hepta-3-e 99.8 1.1E-18 2.4E-23 128.8 10.7 91 7-98 170-266 (267)
15 TIGR03218 catechol_dmpH 4-oxal 99.7 2.6E-17 5.7E-22 121.2 10.7 93 6-98 166-263 (263)
16 COG3971 2-keto-4-pentenoate hy 99.5 1.5E-13 3.3E-18 100.3 8.7 92 8-100 166-263 (264)
17 COG3970 Fumarylacetoacetate (F 98.8 1.9E-08 4.2E-13 75.4 8.1 102 1-102 237-357 (379)
18 KOG2843 Fumarylacetoacetase [C 97.5 9.3E-05 2E-09 55.6 3.4 62 34-95 313-375 (420)
19 PF11010 DUF2848: Protein of u 97.0 0.0026 5.5E-08 45.2 6.0 81 9-90 96-183 (194)
20 PRK06488 sulfur carrier protei 90.0 0.73 1.6E-05 26.6 3.9 55 27-86 1-58 (65)
21 PRK05659 sulfur carrier protei 88.6 1.1 2.3E-05 25.8 3.9 55 27-86 1-59 (66)
22 PRK07696 sulfur carrier protei 88.4 1.2 2.5E-05 26.2 4.0 57 27-86 1-60 (67)
23 PRK07440 hypothetical protein; 88.1 1.8 3.9E-05 25.6 4.7 57 26-86 4-63 (70)
24 PRK06083 sulfur carrier protei 86.4 2.3 4.9E-05 26.3 4.6 62 21-86 13-77 (84)
25 PRK08053 sulfur carrier protei 86.3 2.1 4.5E-05 24.8 4.3 56 27-86 1-59 (66)
26 PRK06944 sulfur carrier protei 81.3 5.9 0.00013 22.5 4.7 52 27-86 1-58 (65)
27 COG3802 GguC Uncharacterized p 76.4 10 0.00022 28.6 5.7 93 6-101 216-323 (333)
28 PRK05863 sulfur carrier protei 72.5 5.4 0.00012 23.0 2.9 54 27-86 1-58 (65)
29 cd03701 IF2_IF5B_II IF2_IF5B_I 67.7 7.1 0.00015 24.4 2.8 20 57-76 23-42 (95)
30 cd03702 IF2_mtIF2_II This fami 64.1 8.1 0.00017 24.3 2.6 30 57-86 23-64 (95)
31 TIGR01683 thiS thiamine biosyn 60.8 19 0.00041 20.4 3.6 24 29-56 1-24 (64)
32 COG2104 ThiS Sulfur transfer p 60.2 28 0.0006 20.5 4.3 56 26-86 2-61 (68)
33 COG1566 EmrA Multidrug resista 60.2 12 0.00026 29.1 3.3 36 58-93 221-274 (352)
34 PF11347 DUF3148: Protein of u 60.1 11 0.00024 22.1 2.5 32 58-89 21-52 (63)
35 TIGR03170 flgA_cterm flagella 58.7 13 0.00028 23.7 2.9 48 42-90 31-78 (122)
36 PF13144 SAF_2: SAF-like 56.0 30 0.00064 23.9 4.6 40 58-98 120-159 (196)
37 PRK06033 hypothetical protein; 54.0 48 0.0011 20.2 5.0 28 59-93 26-53 (83)
38 PF01052 SpoA: Surface present 53.2 43 0.00094 19.5 4.4 30 60-96 28-57 (77)
39 KOG1379 Serine/threonine prote 51.7 8 0.00017 29.8 1.2 50 23-72 189-254 (330)
40 PF13799 DUF4183: Domain of un 47.9 9.6 0.00021 23.6 0.9 38 24-72 42-79 (84)
41 cd01617 DCX Ubiquitin-like dom 47.9 25 0.00054 21.1 2.8 49 26-74 2-54 (80)
42 cd00565 ThiS ThiaminS ubiquiti 46.4 54 0.0012 18.5 4.2 24 29-56 2-25 (65)
43 PRK08433 flagellar motor switc 46.0 81 0.0018 20.4 5.3 29 58-93 50-78 (111)
44 cd03703 aeIF5B_II aeIF5B_II: T 45.3 15 0.00032 23.9 1.5 19 57-75 23-41 (110)
45 PRK12618 flgA flagellar basal 44.8 18 0.00039 24.3 2.0 49 42-91 47-95 (141)
46 PRK11840 bifunctional sulfur c 44.4 40 0.00087 26.0 3.9 25 27-55 1-25 (326)
47 PLN02584 5'-methylthioadenosin 44.1 92 0.002 22.7 5.7 61 27-87 47-116 (249)
48 PF00386 C1q: C1q domain; Int 43.4 40 0.00087 21.5 3.4 49 23-90 59-107 (127)
49 PF05708 DUF830: Orthopoxvirus 42.6 13 0.00027 24.7 0.9 13 60-72 1-13 (158)
50 PRK07018 flgA flagellar basal 42.0 38 0.00083 24.4 3.4 40 58-98 157-196 (235)
51 PF00717 Peptidase_S24: Peptid 41.2 50 0.0011 18.4 3.3 32 58-92 8-39 (70)
52 PRK09570 rpoH DNA-directed RNA 40.3 17 0.00037 22.3 1.1 13 56-68 47-59 (79)
53 PRK15175 Vi polysaccharide exp 40.3 34 0.00075 26.5 3.1 39 25-71 198-236 (355)
54 PF04225 OapA: Opacity-associa 40.2 25 0.00054 21.5 1.9 18 77-94 42-59 (85)
55 PF01191 RNA_pol_Rpb5_C: RNA p 39.8 15 0.00033 22.2 0.9 12 56-67 44-55 (74)
56 TIGR00849 gutA PTS system, glu 39.6 81 0.0018 20.7 4.4 59 27-87 56-119 (121)
57 PRK06005 flgA flagellar basal 39.5 28 0.00062 23.8 2.3 48 43-91 67-114 (160)
58 PRK08364 sulfur carrier protei 38.8 79 0.0017 18.3 4.6 55 26-86 4-63 (70)
59 PRK10377 PTS system glucitol/s 37.8 88 0.0019 20.5 4.3 58 27-86 56-118 (120)
60 COG4379 Mu-like prophage tail 37.7 57 0.0012 25.6 3.8 63 26-97 7-71 (386)
61 PRK05886 yajC preprotein trans 37.4 54 0.0012 21.2 3.2 28 59-89 37-68 (109)
62 COG1868 FliM Flagellar motor s 36.8 82 0.0018 24.4 4.6 33 58-97 271-303 (332)
63 PF04014 Antitoxin-MazE: Antid 36.0 58 0.0013 17.2 2.8 18 78-95 21-38 (47)
64 COG0146 HyuB N-methylhydantoin 31.5 34 0.00073 28.4 1.9 42 32-73 48-94 (563)
65 PF12073 DUF3553: Protein of u 31.2 1E+02 0.0022 17.3 4.3 38 61-98 1-42 (52)
66 KOG1939 Oxoprolinase [Amino ac 31.2 1.8E+02 0.004 25.8 6.1 70 32-101 771-844 (1247)
67 PF00498 FHA: FHA domain; Int 30.8 33 0.0007 19.2 1.3 13 58-70 56-68 (68)
68 PF14908 DUF4496: Domain of un 30.7 63 0.0014 21.2 2.8 19 78-97 114-132 (140)
69 PRK08983 fliN flagellar motor 30.7 1.6E+02 0.0035 19.5 5.3 28 59-93 70-97 (127)
70 COG1261 FlgA Flagellar basal b 30.7 79 0.0017 23.0 3.5 54 43-98 128-181 (220)
71 cd06462 Peptidase_S24_S26 The 30.3 1.1E+02 0.0024 17.3 3.7 29 60-90 13-41 (84)
72 PF11064 DUF2865: Protein of u 30.1 26 0.00057 22.9 0.9 15 55-69 99-113 (116)
73 TIGR02084 leud 3-isopropylmala 29.6 83 0.0018 21.6 3.3 16 61-76 45-60 (156)
74 TIGR01718 Uridine-psphlse urid 29.5 2.2E+02 0.0047 20.6 5.7 26 61-86 77-103 (245)
75 KOG0025 Zn2+-binding dehydroge 28.8 66 0.0014 24.9 2.9 39 64-104 87-125 (354)
76 PRK11507 ribosome-associated p 28.6 39 0.00084 20.2 1.3 14 57-70 49-62 (70)
77 COG2080 CoxS Aerobic-type carb 28.4 2E+02 0.0044 19.8 5.6 13 25-37 2-14 (156)
78 PRK09974 putative regulator Pr 28.0 1.1E+02 0.0023 20.0 3.5 24 77-100 31-54 (111)
79 TIGR02087 LEUD_arch 3-isopropy 27.7 1E+02 0.0022 21.1 3.5 17 60-76 44-60 (154)
80 PF11604 CusF_Ec: Copper bindi 27.7 57 0.0012 19.0 2.0 23 77-99 42-64 (70)
81 PF14801 GCD14_N: tRNA methylt 27.6 46 0.00099 18.9 1.4 25 76-100 4-28 (54)
82 PRK14697 bifunctional 5'-methy 27.5 59 0.0013 23.3 2.4 28 60-87 66-94 (233)
83 PRK05698 fliN flagellar motor 27.4 2.1E+02 0.0046 19.7 5.3 28 59-93 98-125 (155)
84 COG0776 HimA Bacterial nucleoi 27.4 65 0.0014 20.3 2.3 21 78-100 37-57 (94)
85 PRK11479 hypothetical protein; 27.1 1E+02 0.0022 23.2 3.7 14 59-72 63-76 (274)
86 PF02538 Hydantoinase_B: Hydan 27.0 49 0.0011 26.9 2.1 43 31-73 46-91 (527)
87 cd02786 MopB_CT_3 The MopB_CT_ 26.3 1.6E+02 0.0034 18.2 4.0 10 58-67 42-51 (116)
88 PRK15450 signal transduction p 26.2 60 0.0013 20.0 1.9 23 46-68 25-47 (85)
89 cd01674 Homoaconitase_Swivel H 26.1 1.1E+02 0.0024 20.4 3.3 31 47-77 23-59 (129)
90 cd02790 MopB_CT_Formate-Dh_H F 26.1 1.6E+02 0.0035 17.9 4.1 20 78-98 49-68 (116)
91 TIGR02480 fliN flagellar motor 25.9 1.5E+02 0.0032 17.4 5.3 12 60-71 28-39 (77)
92 smart00207 TNF Tumour necrosis 25.8 78 0.0017 20.3 2.6 23 73-95 90-112 (125)
93 smart00675 DM11 Domains in hyp 25.2 53 0.0011 22.8 1.7 29 61-89 39-67 (164)
94 PF10262 Rdx: Rdx family; Int 25.2 1.5E+02 0.0032 17.3 3.5 32 24-55 42-73 (76)
95 PRK06804 flgA flagellar basal 25.1 61 0.0013 24.1 2.2 45 46-91 172-216 (261)
96 PF13510 Fer2_4: 2Fe-2S iron-s 24.7 1.1E+02 0.0024 18.3 2.9 18 25-42 2-19 (82)
97 cd00591 HU_IHF Integration hos 24.6 1E+02 0.0023 18.0 2.8 21 78-100 35-55 (87)
98 PF13533 Biotin_lipoyl_2: Biot 24.4 30 0.00065 18.7 0.3 14 56-69 19-32 (50)
99 PF03658 Ub-RnfH: RnfH family 24.3 53 0.0012 20.3 1.5 11 77-87 61-71 (84)
100 PRK06714 S-adenosylhomocystein 24.3 72 0.0016 23.1 2.4 26 61-86 67-93 (236)
101 TIGR01700 PNPH purine nucleosi 24.1 2.9E+02 0.0062 20.1 6.6 27 60-86 80-107 (249)
102 cd00992 PDZ_signaling PDZ doma 23.9 78 0.0017 17.9 2.1 14 77-91 43-56 (82)
103 TIGR01697 PNPH-PUNA-XAPA inosi 23.9 2.8E+02 0.0062 20.0 7.7 29 59-87 79-108 (248)
104 PRK14447 acylphosphatase; Prov 23.8 88 0.0019 19.4 2.4 11 79-89 40-50 (95)
105 COG3862 Uncharacterized protei 23.6 87 0.0019 20.4 2.4 63 6-68 28-98 (117)
106 PRK11178 uridine phosphorylase 23.5 3E+02 0.0064 20.0 6.1 55 28-87 52-109 (251)
107 PF14250 AbrB-like: AbrB-like 23.4 60 0.0013 19.5 1.5 12 78-89 53-64 (71)
108 PRK06789 flagellar motor switc 23.3 1.1E+02 0.0024 18.4 2.7 20 22-41 39-58 (74)
109 PF04571 Lipin_N: lipin, N-ter 23.2 82 0.0018 20.5 2.2 34 3-36 35-71 (110)
110 COG3086 RseC Positive regulato 23.1 55 0.0012 22.4 1.5 14 77-90 58-71 (150)
111 PF02563 Poly_export: Polysacc 23.0 73 0.0016 18.9 1.9 18 77-94 12-29 (82)
112 PF13275 S4_2: S4 domain; PDB: 23.0 39 0.00084 19.8 0.6 13 57-69 45-57 (65)
113 TIGR02219 phage_NlpC_fam putat 22.9 50 0.0011 21.7 1.2 12 60-71 76-87 (134)
114 PRK12617 flgA flagellar basal 22.9 70 0.0015 23.1 2.0 35 58-92 136-170 (214)
115 COG4754 Uncharacterized conser 22.8 90 0.002 21.5 2.4 40 31-70 25-69 (157)
116 TIGR01719 euk_UDPppase uridine 22.7 3.3E+02 0.0072 20.3 6.2 57 29-87 73-133 (287)
117 PRK12442 translation initiatio 22.7 1.4E+02 0.003 18.6 3.1 40 60-99 25-72 (87)
118 PF05382 Amidase_5: Bacterioph 22.7 2.2E+02 0.0047 19.3 4.3 30 59-88 74-111 (145)
119 cd02777 MopB_CT_DMSOR-like The 22.5 2E+02 0.0044 18.1 4.1 20 78-98 48-67 (127)
120 PF03829 PTSIIA_gutA: PTS syst 22.5 1.2E+02 0.0026 19.8 2.9 57 27-85 56-117 (117)
121 PF13403 Hint_2: Hint domain 22.1 1.7E+02 0.0036 19.6 3.7 27 61-87 3-30 (147)
122 TIGR00107 deoD purine-nucleosi 22.1 3E+02 0.0066 19.6 5.7 57 27-87 45-104 (232)
123 TIGR00300 conserved hypothetic 22.0 52 0.0011 26.2 1.3 60 16-76 93-155 (407)
124 cd02792 MopB_CT_Formate-Dh-Na- 22.0 2E+02 0.0043 17.8 3.9 18 57-74 45-62 (122)
125 KOG3209 WW domain-containing p 21.7 87 0.0019 27.2 2.6 33 58-91 673-705 (984)
126 PRK12795 fliM flagellar motor 21.6 2.3E+02 0.005 22.3 4.8 15 58-72 320-334 (388)
127 cd00986 PDZ_LON_protease PDZ d 21.5 57 0.0012 18.8 1.2 33 60-92 24-66 (79)
128 smart00537 DCX Domain in the D 21.5 1.6E+02 0.0036 17.9 3.3 40 23-62 4-47 (89)
129 PF14894 Lsm_C: Lsm C-terminal 21.4 87 0.0019 18.4 1.9 39 48-89 1-39 (64)
130 cd00991 PDZ_archaeal_metallopr 21.3 61 0.0013 18.9 1.3 35 58-92 25-69 (79)
131 PRK06666 fliM flagellar motor 21.3 3.1E+02 0.0067 20.7 5.4 31 58-95 276-306 (337)
132 cd04486 YhcR_OBF_like YhcR_OBF 21.3 1.1E+02 0.0024 18.2 2.4 21 64-87 34-54 (78)
133 PRK06026 5'-methylthioadenosin 21.3 1.1E+02 0.0025 22.0 2.9 25 62-87 60-84 (212)
134 TIGR00008 infA translation ini 21.2 1E+02 0.0022 18.3 2.2 30 61-90 24-57 (68)
135 TIGR01750 fabZ beta-hydroxyacy 21.1 2.1E+02 0.0045 18.3 3.9 24 76-99 96-125 (140)
136 PF08194 DIM: DIM protein; In 21.1 1.1E+02 0.0023 16.0 2.0 19 55-73 15-33 (36)
137 PRK08666 5'-methylthioadenosin 21.0 90 0.002 22.8 2.4 29 59-87 72-101 (261)
138 cd05829 Sortase_E Sortase E (S 21.0 2.6E+02 0.0056 18.4 4.9 38 62-99 48-94 (144)
139 PF14085 DUF4265: Domain of un 21.0 2.4E+02 0.0052 18.0 4.3 36 60-96 8-43 (117)
140 TIGR01730 RND_mfp RND family e 20.9 93 0.002 22.6 2.5 23 60-86 298-321 (322)
141 PRK09859 multidrug efflux syst 20.9 1E+02 0.0023 23.6 2.8 23 60-85 348-370 (385)
142 PF13550 Phage-tail_3: Putativ 20.4 1.6E+02 0.0035 19.1 3.4 24 76-100 138-161 (164)
143 TIGR03468 HpnG hopanoid-associ 20.2 86 0.0019 22.1 2.1 27 60-86 43-70 (212)
144 PF00877 NLPC_P60: NlpC/P60 fa 20.2 52 0.0011 20.2 0.8 14 58-71 49-62 (105)
145 PRK05585 yajC preprotein trans 20.2 2.5E+02 0.0054 17.9 4.7 30 58-90 50-83 (106)
146 cd02779 MopB_CT_Arsenite-Ox Th 20.2 2.3E+02 0.005 17.6 4.3 15 58-72 44-58 (115)
147 cd04088 EFG_mtEFG_II EFG_mtEFG 20.1 91 0.002 18.1 1.9 23 59-84 59-81 (83)
148 PRK05819 deoD purine nucleosid 20.1 3.4E+02 0.0073 19.4 6.3 56 28-87 49-107 (235)
149 PRK08916 flagellar motor switc 20.1 2.7E+02 0.0057 18.2 5.3 13 59-71 64-76 (116)
No 1
>COG0179 MhpD 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=100.00 E-value=3.9e-34 Score=210.43 Aligned_cols=101 Identities=47% Similarity=0.710 Sum_probs=96.6
Q ss_pred CCcCCCCcccCccc-cCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCC
Q 039682 1 AKGQDTFTPISSVL-PKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVK 79 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~ 79 (107)
+|+||++||+|||+ +.++..++.++++++++||+++|++++++|+|++++||+|+|+.++|+|||||+||||.|+++|+
T Consensus 164 aK~~d~~~Pigp~iv~~~e~~d~~~l~l~~~vNGe~~Q~g~t~~Mi~~i~~lI~~lS~~~tL~pGDvI~TGTP~Gvg~l~ 243 (266)
T COG0179 164 AKGFDTFAPVGPWIVTKDEISDPQNLPLSLRVNGEVRQRGNTSDMIFSIPELIAYLSRFMTLEPGDVILTGTPSGVGFLK 243 (266)
T ss_pred ccccCCCCCceeEEeccccCCCCccceEEEEECCEEEecCcHHHcccCHHHHHHHHhCCcccCCCCEEEeCCCCCcccCC
Confidence 79999999999997 56677788899999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEEECceeEEEEEEEec
Q 039682 80 AGQKTTAGIAGLLVVRFDNKKR 101 (107)
Q Consensus 80 ~Gd~v~~~i~g~G~l~~~v~~~ 101 (107)
+||+++++++|+|.++++|.+.
T Consensus 244 ~GD~v~~~iegiG~l~n~v~~~ 265 (266)
T COG0179 244 PGDVVEVEIEGIGELENTVVKE 265 (266)
T ss_pred CCCEEEEEecceeEEEEEEeeC
Confidence 9999999999999999999764
No 2
>TIGR02303 HpaG-C-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit. This model represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation. In E. coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related N-terminal domain (TIGR02305). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Probab=99.97 E-value=3.3e-31 Score=193.20 Aligned_cols=100 Identities=42% Similarity=0.598 Sum_probs=95.8
Q ss_pred CCcCCCCcccCcccc-CCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCC
Q 039682 1 AKGQDTFTPISSVLP-KSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVK 79 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i~-~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~ 79 (107)
+|+||+|+++|||+. ++++.|+.++.+++++||+.+|++++++|++++.+||+++|++++|+|||||+||||.++++++
T Consensus 144 aK~~D~~~plGp~i~t~~~~~d~~~l~i~l~vNGe~~q~g~t~~ml~~v~~Li~~ls~~~tL~pGDvIlTGTp~g~~~l~ 223 (245)
T TIGR02303 144 VKNRDTFTPIGPWIVDKEDVEDPMNLWLRTYVNGELTQEGNTSDMIFSVAELIEYLSEFMTLEPGDVILTGTPKGLSDVK 223 (245)
T ss_pred ccCCCCCEeeCCcCCCHHHcCCccccEEEEEECCEEEEecCHHHhccCHHHHHHHHhcCCCcCCCCEEEcCCCCCCeEcC
Confidence 699999999999974 6777789999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEEECceeEEEEEEEe
Q 039682 80 AGQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 80 ~Gd~v~~~i~g~G~l~~~v~~ 100 (107)
+||+++++|+|+|+++|+|..
T Consensus 224 ~GD~v~~~i~glG~l~n~v~~ 244 (245)
T TIGR02303 224 PGDVVRLEIEGVGALENPIVS 244 (245)
T ss_pred CCCEEEEEEcCceeEEEEEEe
Confidence 999999999999999999973
No 3
>PRK15203 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional
Probab=99.97 E-value=1.8e-30 Score=201.73 Aligned_cols=98 Identities=23% Similarity=0.338 Sum_probs=93.4
Q ss_pred CCcCCCCcccCccccCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCC
Q 039682 1 AKGQDTFTPISSVLPKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKA 80 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~ 80 (107)
+|+||+|||+|||+.. .++.++.+++++||+++|++++++|+|++.++|+|+|++++|+|||+|+||||.|++++++
T Consensus 109 ~K~~D~~~p~Gp~i~~---~~~~~l~i~~~vNGe~~Q~~~t~~Mi~~~~~lis~lS~~~tL~pGDvI~TGTP~g~~~l~~ 185 (429)
T PRK15203 109 AKCRDGFCPIGETVAL---SNVDNLTIYTEINGRPADHWNTADLQRNAAQLLSALSEFATLNPGDAILLGTPQARVEIQP 185 (429)
T ss_pred ccCCCCCcccCCeEEC---CCccceEEEEEECCEEEecCCHHHcCCCHHHHHHHHhCCCCcCCCCEEEcCCCCCceECCC
Confidence 6999999999999854 3578999999999999999999999999999999999999999999999999999999999
Q ss_pred CCEEEEEECceeEEEEEEEec
Q 039682 81 GQKTTAGIAGLLVVRFDNKKR 101 (107)
Q Consensus 81 Gd~v~~~i~g~G~l~~~v~~~ 101 (107)
||+++++++|+|+++|+|..+
T Consensus 186 GD~v~~~i~gig~l~n~v~~~ 206 (429)
T PRK15203 186 GDRVRVLAEGFPPLENPVVDE 206 (429)
T ss_pred CCEEEEEEeCeeEEEEEEEEc
Confidence 999999999999999999854
No 4
>TIGR02305 HpaG-N-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit. This model represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation. In E. coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related C-terminal domain (TIGR02303). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Probab=99.96 E-value=1.8e-29 Score=179.62 Aligned_cols=98 Identities=30% Similarity=0.451 Sum_probs=94.2
Q ss_pred CCcCCCCcccCccccCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCC
Q 039682 1 AKGQDTFTPISSVLPKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKA 80 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~ 80 (107)
+|+||+++++|||++.+++.|+.++.+++++||+.+|++++++|++++.++++|+|++++|+|||+|+||||++++++++
T Consensus 108 ~k~~dg~~~lGp~v~~~~~~d~~~~~~~l~vng~~~~~g~~~~~~~~~~~li~~ls~~~~L~aGdvI~TGT~~g~~~l~~ 187 (205)
T TIGR02305 108 AKCRDGFCPIGPEVPLSAIGNPDELTIYTYINGKPAQSNNTSNLVRSAAQLISELSEFMTLNPGDVLLLGTPEARVEVGP 187 (205)
T ss_pred hcccCCccccCCcccHHHcCCccccEEEEEECCEEEEeeCHHHhCcCHHHHHHHHhCCCCcCCCCEEEeCCCCCCeecCC
Confidence 59999999999998777777899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCEEEEEECceeEEEEEE
Q 039682 81 GQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 81 Gd~v~~~i~g~G~l~~~v 98 (107)
||+++++|+|+|+++|+|
T Consensus 188 Gd~v~~~i~glG~l~n~v 205 (205)
T TIGR02305 188 GDRVRVEAEGLGELENPV 205 (205)
T ss_pred CCEEEEEEcCceeEEEeC
Confidence 999999999999999975
No 5
>PRK10691 hypothetical protein; Provisional
Probab=99.96 E-value=6.8e-29 Score=178.45 Aligned_cols=97 Identities=43% Similarity=0.634 Sum_probs=91.4
Q ss_pred CCcCCCCcccCccccCCCC-CCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCC
Q 039682 1 AKGQDTFTPISSVLPKSAV-PDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVK 79 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i~~~~~-~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~ 79 (107)
+|+||+++++|||++.++. .|+.++++++++||+.+|++++++|++++.++|+|+|++++|+|||+|+||||.++++++
T Consensus 121 ~K~~D~~~~~gp~i~~~~~~~d~~~l~i~l~vNG~~~q~g~~~~mi~~~~~lia~ls~~~tL~aGDvI~TGTp~g~~~l~ 200 (219)
T PRK10691 121 AKAFDNSCPISGFIPVAEFTGDPQNTTLGLSVNGEVRQQGNTADMIHPIVPLIAYMSRFFTLRAGDVVLTGTPEGVGPLQ 200 (219)
T ss_pred cccCCCCcCcCCcEEchhccCCccccEEEEEECCEEEEecCHHHhccCHHHHHHHHhcCCccCCCCEEEcCCCCCCEECC
Confidence 6999999999999854444 588999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEEECceeEEEEEE
Q 039682 80 AGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 80 ~Gd~v~~~i~g~G~l~~~v 98 (107)
+||+++++|+|+ +++++|
T Consensus 201 ~GD~v~~~i~gl-~~~~~~ 218 (219)
T PRK10691 201 SGDELTVTFNGH-SLTTRV 218 (219)
T ss_pred CCCEEEEEEeCE-EEEEEe
Confidence 999999999999 888876
No 6
>KOG1535 consensus Predicted fumarylacetoacetate hydralase [General function prediction only]
Probab=99.96 E-value=2.6e-29 Score=176.65 Aligned_cols=100 Identities=56% Similarity=0.849 Sum_probs=97.2
Q ss_pred CCcCCCCcccCccccCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCC
Q 039682 1 AKGQDTFTPISSVLPKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKA 80 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~ 80 (107)
||+||+|+|+|++++.+.+.|+.++.+.+++||+.+|++++++|+|+++.+|+|+|++++|++||||+||||.|++++++
T Consensus 117 ~K~~Dtf~Pis~~vpk~~v~Dp~nl~L~l~VnG~~~Q~g~T~~mifkip~li~~is~~~tL~~GDvILTGTP~GVg~v~~ 196 (217)
T KOG1535|consen 117 GKGFDTFTPISAIVPKEKVPDPHNLWLWLRVNGETRQTGNTSLMIFKIPDLISRLSQIMTLEPGDVILTGTPEGVGEVKP 196 (217)
T ss_pred ccccCccCcccccccHHHCCCccceEEEEEEccEEEecCchhhheecHHHHHHHHhhheeecCCCEEEecCCCccccccC
Confidence 69999999999999888899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCEEEEEECceeEEEEEEEe
Q 039682 81 GQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 81 Gd~v~~~i~g~G~l~~~v~~ 100 (107)
||.+++++.+++.+.|.|.+
T Consensus 197 Gd~i~~ei~~l~~~~f~V~~ 216 (217)
T KOG1535|consen 197 GDVIQCELLELSDVCFKVEA 216 (217)
T ss_pred CCEEEeccccccceeEEEec
Confidence 99999999999999998875
No 7
>PRK12764 hypothetical protein; Provisional
Probab=99.96 E-value=1.5e-28 Score=193.95 Aligned_cols=103 Identities=32% Similarity=0.509 Sum_probs=97.5
Q ss_pred CCcCCCCcccCccc-cCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCC
Q 039682 1 AKGQDTFTPISSVL-PKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVK 79 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~ 79 (107)
+|+||+++++|||+ +.+++ |+.++++++++||+++|++++++|+|++.+||+++|++++|+|||||+||||.|+++++
T Consensus 122 ~K~~Dg~~plGp~iv~~~~~-d~~~l~i~~~vNGe~~Q~g~t~dmi~~v~~LI~~lS~~~tL~pGDvIlTGTp~g~~~l~ 200 (500)
T PRK12764 122 SKGGDGFTPIGPALISARGV-DPAQLRVRTWVNGELVQDDTTEDLLFPFAQLVADLSQLLTLEEGDVILTGTPAGSSVAA 200 (500)
T ss_pred ccccCccEecCCCccCcccc-CccceEEEEEECCEEEEeccHHHhcCCHHHHHHHHhcCCCcCCCCEEEeCCCCCCeecC
Confidence 69999999999996 55665 89999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEEECce-------eEEEEEEEeccCC
Q 039682 80 AGQKTTAGIAGL-------LVVRFDNKKRRRP 104 (107)
Q Consensus 80 ~Gd~v~~~i~g~-------G~l~~~v~~~~~~ 104 (107)
+||+|+++|+|+ |+|.|+|..+.+|
T Consensus 201 pGD~v~~~i~gi~~~~~~~G~L~n~v~~~~~~ 232 (500)
T PRK12764 201 PGDVVEVEVDAPADGAPSTGRLVTRVVEGTTP 232 (500)
T ss_pred CCCEEEEEEcCCccCCCCcceEEEEEEeCCCC
Confidence 999999999999 9999999877655
No 8
>PRK15203 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional
Probab=99.95 E-value=4.1e-28 Score=188.52 Aligned_cols=102 Identities=40% Similarity=0.663 Sum_probs=96.9
Q ss_pred CCcCCCCcccCccc-cCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCC
Q 039682 1 AKGQDTFTPISSVL-PKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVK 79 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~ 79 (107)
+|+||+++++|||+ +.+++.++.++.+++++||+.+|++++++|++++.++|+|+|++++|+|||+|+||||.|+++++
T Consensus 324 ~K~~d~~~plGp~~v~~d~~~d~~~l~i~l~vNG~~vq~g~t~~m~~~v~~li~~ls~~~tL~aGDvI~TGTp~g~~~l~ 403 (429)
T PRK15203 324 VKSRDGLTPILSTIVPKEAIPDPHNLTLRTFVNGELRQQGTTADLIFSVPFLIAYLSEFMTLNPGDMIATGTPKGLSDVV 403 (429)
T ss_pred eccCCCCcCCCCCEeChhhcCCccceEEEEEECCEEEEeeCHHHhccCHHHHHHHHhcCCCcCCCCEEEeCCCCCCeECC
Confidence 69999999999986 66767789999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEEECceeEEEEEEEecc
Q 039682 80 AGQKTTAGIAGLLVVRFDNKKRR 102 (107)
Q Consensus 80 ~Gd~v~~~i~g~G~l~~~v~~~~ 102 (107)
+||+++++|+|+|+++|+|..++
T Consensus 404 pGD~v~~~i~glG~l~n~v~~~~ 426 (429)
T PRK15203 404 PGDEVVVEVEGVGRLVNRIVSEE 426 (429)
T ss_pred CCCEEEEEEcCceEEEEEEEecC
Confidence 99999999999999999997543
No 9
>PF01557 FAA_hydrolase: Fumarylacetoacetate (FAA) hydrolase family Mutations in Swiss:P16930 cause inherited tyrosinemia type I.; InterPro: IPR002529 Fumarylacetoacetase (3.7.1.2 from EC; also known as fumarylacetoacetate hydrolase or FAH) catalyses the hydrolytic cleavage of a carbon-carbon bond in fumarylacetoacetate to yield fumarate and acetoacetate as the final step in phenylalanine and tyrosine degradation []. This is an essential metabolic function in humans, the lack of FAH causing type I tyrosinaemia, which is associated with liver and kidney abnormalities and neurological disorders [, ]. The enzyme mechanism involves a catalytic metal ion, a Glu/His catalytic dyad, and a charged oxyanion hole []. FAH folds into two domains: an N-terminal domain SH3-like beta-barrel, and a C-terminal with an unusual fold consisting of three layers of beta-sheet structures []. This entry represents the C-terminal domain of fumarylacetoacetase, as well as other domains that share a homologous sequence, including: 5-carboxymethyl-2-hydroxymuconate delta-isomerase (CHM isomerase; 5.3.3.10 from EC), which catalyses the conversion of 5-carboxymethyl-2-hydroxymuconate to 5-carboxy-2-oxohept-3-enedioate []. 5-oxopent-3-ene-1,2,5-tricarboxylate decarboxylase (OPET decarboxylase; 4.1.1.68 from EC), which catalyses the conversion of 5-oxopent-3-ene-1,2,5-tricarboxylate to 2-oxohept-3-enedioate and carbon dioxide. Bifunctional enzyme HpcE (OPET decarboxylase 4.1.1.68 from EC/HHDD isomerase 5.3.3.10 from EC), which is a duplication consisting of a tandem repeat of two FAH C-terminal-like domains. This enzyme is responsible for the degradation of 4-hydroxyphenylacetate, a product of tyrosine and phenylalanine metabolism also released by lignin catabolism []. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1SAW_B 3LZK_B 3S52_B 2WQT_Q 1SV6_C 2DFU_B 1WZO_D 3QDF_A 1GTT_B 1I7O_C ....
Probab=99.95 E-value=3.5e-28 Score=173.75 Aligned_cols=99 Identities=36% Similarity=0.532 Sum_probs=90.4
Q ss_pred CCcCCCCcccCccc-cCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCe---
Q 039682 1 AKGQDTFTPISSVL-PKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVG--- 76 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~--- 76 (107)
+|+||+++++||++ +++++.++.++++++++||+.+|++++++|+++|.++|+|+|++.+|+|||+|+||||+|+.
T Consensus 112 ~k~~~~~~~~Gp~~v~~~~~~~~~~~~~~l~vnG~~~~~~~~~~~~~~~~~ll~~ls~~~~L~aGdvI~TGt~~G~~~~~ 191 (218)
T PF01557_consen 112 DKSFDGSLVLGPWVVPPDELPDLRDLRLRLRVNGEVVQSGSTSDMLGDPAELLAWLSRGLTLRAGDVILTGTPTGVGARP 191 (218)
T ss_dssp HHSSTTCEEEEEEEEEHSSHSGTTSEEEEEEETTEEEEEEEGGGBSSSHHHHHHHHHTTS-B-TTEEEEEEESSTSEGSS
T ss_pred ccCcCcceeecccccccccccCcceEEEEEEECCEEEEeccchhHHhhHHHHHHHHhCCCCCCcceEEEcCCcCCCCccc
Confidence 48999999999997 77777778999999999999999999999999999999999999999999999999998754
Q ss_pred ---eCCCCCEEEEEE-CceeEEEEEEE
Q 039682 77 ---PVKAGQKTTAGI-AGLLVVRFDNK 99 (107)
Q Consensus 77 ---~l~~Gd~v~~~i-~g~G~l~~~v~ 99 (107)
++++||+|++++ +|+|+++++|+
T Consensus 192 ~~~~l~~Gd~v~~~~~~glG~l~~~v~ 218 (218)
T PF01557_consen 192 PPVPLQPGDRVEAEIDEGLGSLENTVA 218 (218)
T ss_dssp CCEEEBTT-EEEEEEETTTEEEEEEEE
T ss_pred ccccCCCCcEEEEEEECCEeEEEEEEC
Confidence 899999999999 99999999985
No 10
>PRK11342 mhpD 2-keto-4-pentenoate hydratase; Provisional
Probab=99.86 E-value=2.2e-21 Score=142.60 Aligned_cols=93 Identities=20% Similarity=0.166 Sum_probs=83.4
Q ss_pred CCcccCcccc-CCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHc-----CCccCCCCEEecCCCCCCeeCC
Q 039682 6 TFTPISSVLP-KSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISS-----IMTLFEGDVILTGSPQGVGPVK 79 (107)
Q Consensus 6 ~~~~~Gp~i~-~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~-----~~~L~~GdvI~TGt~~g~~~l~ 79 (107)
+..++|+.+. ++.+ |+.++.+++++||+.+|++++++|+++|.++|.|+++ +++|+|||+|+||||+++.+++
T Consensus 162 ~~~VlG~~~~~~~~~-d~~~~~~~l~vng~~~q~g~~~~~lg~p~~~l~~L~~~l~~~g~~L~aGdvV~TGt~~~~~~l~ 240 (262)
T PRK11342 162 GVYVIGGPAQRPAGL-DLKNCAMKMTRNNEEVSSGRGSECLGHPLNAAVWLARKMASLGEPLRAGDIILTGALGPMVAVN 240 (262)
T ss_pred ceEEECCCcCCcccC-ChhhCEEEEEECCEEEEEEcHHHhccCHHHHHHHHHHHHHHcCCCcCCCCEEEcCCCCCCeeCC
Confidence 3457888754 3433 7889999999999999999999999999999999975 5799999999999999999999
Q ss_pred CCCEEEEEECceeEEEEEEE
Q 039682 80 AGQKTTAGIAGLLVVRFDNK 99 (107)
Q Consensus 80 ~Gd~v~~~i~g~G~l~~~v~ 99 (107)
+||+++++|+|+|++++++.
T Consensus 241 ~Gd~v~~~i~glG~v~~~~~ 260 (262)
T PRK11342 241 AGDRFEAHIEGIGSVAATFS 260 (262)
T ss_pred CCCEEEEEECCCceEEEEEe
Confidence 99999999999999999885
No 11
>TIGR03220 catechol_dmpE 2-oxopent-4-enoate hydratase. Members of this protein family are 2-oxopent-4-enoate hydratase, which is also called 2-hydroxypent-2,4-dienoate hydratase. It is closely related to another gene found in the same operon, 4-oxalocrotonate decarboxylase, with which it interacts closely.
Probab=99.85 E-value=4.3e-21 Score=140.63 Aligned_cols=91 Identities=21% Similarity=0.213 Sum_probs=78.5
Q ss_pred cccCccccCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHHc-----CCccCCCCEEecCCCCCCeeCCCCC
Q 039682 8 TPISSVLPKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHISS-----IMTLFEGDVILTGSPQGVGPVKAGQ 82 (107)
Q Consensus 8 ~~~Gp~i~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~-----~~~L~~GdvI~TGt~~g~~~l~~Gd 82 (107)
.++|+.+....-.++..+.+++++||+.+|++++++|+++|.++|.|+++ +++|+|||+|+||||++++++++||
T Consensus 160 ~V~g~~~~~~~~~~l~~~~~~l~vnG~~~~~g~~~~~lg~p~~~l~~L~~~l~~~g~~L~aGdiV~TGt~~g~~~v~~Gd 239 (255)
T TIGR03220 160 FVLGDTRVDPRKLDLALCGMVLEKNGEIVSTGAGAAALGSPVNAVAWLANTLGRLGIPLKAGEVILSGSLAALVPVKAGD 239 (255)
T ss_pred EEECCCcCCccccChhhCceEEEECCEEEeecchhhccCCHHHHHHHHHHHHHHcCCCCCCCCEEECCCCCCCeeCCCCC
Confidence 45566543221225667778999999999999999999999999999985 8999999999999999999999999
Q ss_pred EEEEEECceeEEEEEE
Q 039682 83 KTTAGIAGLLVVRFDN 98 (107)
Q Consensus 83 ~v~~~i~g~G~l~~~v 98 (107)
+++++|+|+|++++++
T Consensus 240 ~v~~~~~glG~v~~~~ 255 (255)
T TIGR03220 240 NLRVSIGGIGSCSVRF 255 (255)
T ss_pred EEEEEEcCCceEEEeC
Confidence 9999999999998864
No 12
>PLN02856 fumarylacetoacetase
Probab=99.82 E-value=6.6e-20 Score=142.00 Aligned_cols=94 Identities=20% Similarity=0.251 Sum_probs=78.3
Q ss_pred CCcCCCCcccCccc-cCCCCC--------------------CCcceEEEEEE--------CCEEEEeeccchhccCHHHH
Q 039682 1 AKGQDTFTPISSVL-PKSAVP--------------------DPYNFELWLKV--------DREIRQQGSTKDMIFKIPYL 51 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~--------------------~~~~~~~~l~v--------nG~~~~~~~~~~m~~~~~~l 51 (107)
+|+||++ +|||+ +.+++. +..++.+++++ ||+++|++++++|+|++.++
T Consensus 259 gKsF~t~--igPwIVt~dal~p~r~~~~~~dp~~l~yl~~~~~~~~~i~l~v~v~~nG~~ng~~~q~~nt~~M~ws~~ql 336 (424)
T PLN02856 259 GKSFATT--ISPWIVTLDALEPFRCDAPAQDPPPLPYLAEKNRKSYDISLEVAIKPAGQSKASVVCRSNFKHLYWTLAQQ 336 (424)
T ss_pred ccCCCCC--CcCeEEcccccccccccccccCcccccccccccccceeEEEEEEEeeCCcccceeEEcCCHHHcCCCHHHH
Confidence 6999876 99997 556552 11245555555 56899999999999999999
Q ss_pred HHH-HHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEE
Q 039682 52 ISH-ISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRF 96 (107)
Q Consensus 52 i~~-ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~ 96 (107)
|+| +|++++|+|||+|+||||.|+.+++.|+.+|++++|...+++
T Consensus 337 Iah~~s~g~tL~pGDLi~TGTpsG~~~~~~G~llElt~~G~~p~~l 382 (424)
T PLN02856 337 LAHHTVNGCNLRPGDLLGSGTISGPEPGSLGCLLELTWAGSREVSL 382 (424)
T ss_pred HHHHHhCCeecCCCCEEEeCCCCCCccCCCCCEEEEEeCCccceEe
Confidence 996 589999999999999999999999999999999988776653
No 13
>TIGR01266 fum_ac_acetase fumarylacetoacetase. This enzyme catalyzes the final step in the breakdown of tyrosine or phenylalanine to fumarate and acetoacetate.
Probab=99.81 E-value=1e-19 Score=140.77 Aligned_cols=93 Identities=24% Similarity=0.292 Sum_probs=80.4
Q ss_pred CCcCCCCcccCccc-cCCCCCC---------C-------------cceEEEEEECCE------EEEeeccchhccCHHHH
Q 039682 1 AKGQDTFTPISSVL-PKSAVPD---------P-------------YNFELWLKVDRE------IRQQGSTKDMIFKIPYL 51 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~~---------~-------------~~~~~~l~vnG~------~~~~~~~~~m~~~~~~l 51 (107)
+|+||++ +|||+ +.+++.+ + .++.+++++||+ .+|++++++|+|++.++
T Consensus 251 ~KsF~ts--igPwIVT~daL~p~r~~~~~~dp~pl~yL~~~~~~~~~l~l~v~vnge~~~~~~~~q~~~~~~M~ws~~ql 328 (415)
T TIGR01266 251 AKSFGTT--ISPWVVPIDALEPFRVPNPKQDPKPLPYLCHDAPYTFDINLEVSLKGEGMSEPATICRSNFKHMYWTMLQQ 328 (415)
T ss_pred cccCCCC--CcCeEeccccccccccccccccccccccccccCCCcceeEEEEEEecCcCcccceEEcCCHHhcCcCHHHH
Confidence 6999997 99997 5665421 1 267888899987 79999999999999999
Q ss_pred HHHHH-cCCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEE
Q 039682 52 ISHIS-SIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVR 95 (107)
Q Consensus 52 i~~ls-~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~ 95 (107)
|+|+| ++++|+|||+|+||||.|+.+.+.|+.+++++.|...++
T Consensus 329 Iah~S~~g~tL~pGDLi~TGTpsG~~~~~~G~~lE~t~~g~~~v~ 373 (415)
T TIGR01266 329 LAHHSVNGCNLRPGDLLGSGTISGSEPGSFGSMLELSWKGKKPID 373 (415)
T ss_pred HHHHhcCCcccCCCCEEEeCCCCCCcccCCCcEEEEEeCCeeeee
Confidence 99999 799999999999999999999999999999998865543
No 14
>TIGR02312 HpaH 2-oxo-hepta-3-ene-1,7-dioic acid hydratase. This model represents the enzyme which hydrates the double bond of 2-oxo-hepta-3-ene-1,7-dioic acid to form 4-hydroxy-2-oxo-heptane-1,7-dioic acid in the catabolism of 4-hydroxyphenylacetic acid. The gene for this enzyme is generally found adjacent to other genes of this pathway in an apparent operon.
Probab=99.79 E-value=1.1e-18 Score=128.75 Aligned_cols=91 Identities=15% Similarity=0.053 Sum_probs=81.3
Q ss_pred CcccCccc-cCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHH-----cCCccCCCCEEecCCCCCCeeCCC
Q 039682 7 FTPISSVL-PKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHIS-----SIMTLFEGDVILTGSPQGVGPVKA 80 (107)
Q Consensus 7 ~~~~Gp~i-~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls-----~~~~L~~GdvI~TGt~~g~~~l~~ 80 (107)
..++|+.. .++. .|+.++.+++.+||+.+++|.+++|+++|...|.||+ ++.+|+|||+|+|||++++.++++
T Consensus 170 ~~v~G~~~~~~~~-~dl~~~~~~l~~nG~~~~~g~~~~~lg~P~~al~wL~~~l~~~G~~L~aGdiV~TGs~~~~~~v~~ 248 (267)
T TIGR02312 170 GIVLGGRPVRPDA-LDLRWVGAILYRNGVVEETGLAAGVLNHPANGVAWLANKLAPWGETLEAGQVVLAGSFTRPVAARS 248 (267)
T ss_pred EEEECCCCCCccc-cChhhcccEEEECCEEEEEechhhhcCCHHHHHHHHHHHHHHcCCCCCCCCEEECCCCCCceecCC
Confidence 35888864 3443 4788889999999999999999999999998888886 577999999999999999999999
Q ss_pred CCEEEEEECceeEEEEEE
Q 039682 81 GQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 81 Gd~v~~~i~g~G~l~~~v 98 (107)
||+++++|+|+|++++++
T Consensus 249 G~~~~~~~~glG~v~~~f 266 (267)
T TIGR02312 249 GDTFHADYGPLGTISVRF 266 (267)
T ss_pred CCEEEEEEcCCceEEEEE
Confidence 999999999999999876
No 15
>TIGR03218 catechol_dmpH 4-oxalocrotonate decarboxylase. Members of this protein family are 4-oxalocrotonate decarboxylase. Note that this protein, as characterized (indirectly) in Pseudomonas sp. strain CF600, was inactive except when coexpressed with DmpE, 2-oxopent-4-enoate hydratase, a homologous protein from the same operon. Both of these enzymes are active in the degradation of catechol, a common intermediate in the degradation of aromatic compounds such as benzoate, toluene, phenol, dimethylphenol (dmp), salicylate, etc.
Probab=99.74 E-value=2.6e-17 Score=121.19 Aligned_cols=93 Identities=13% Similarity=0.100 Sum_probs=82.8
Q ss_pred CCcccCccccCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHH-----cCCccCCCCEEecCCCCCCeeCCC
Q 039682 6 TFTPISSVLPKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHIS-----SIMTLFEGDVILTGSPQGVGPVKA 80 (107)
Q Consensus 6 ~~~~~Gp~i~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls-----~~~~L~~GdvI~TGt~~g~~~l~~ 80 (107)
+..++||.....+..|+.++.+++++||+.++++.+++.+++|...+.||. ++..|++||+|+|||++++.++++
T Consensus 166 ~~~vlG~~~~~~~~~dl~~~~~~l~~~g~~v~~g~g~~~lG~P~~al~wL~~~l~~~G~~L~aG~iV~tGs~t~~~~v~~ 245 (263)
T TIGR03218 166 ARFVTGGRAANVEDLDLRTLGVVMEKNGEVVAMGAGAAVLGHPAAAVAMLANHLAERGEEIPAGSFIMSGGITEAVAVAP 245 (263)
T ss_pred ceEEECCCCCCccccCHhhCcEEEEECCEEEEeecccccCCCHHHHHHHHHHHHHHcCCCCCCCCEEECCcCcCceecCC
Confidence 455889986544345889999999999999999999999999998888885 588999999999999999999999
Q ss_pred CCEEEEEECceeEEEEEE
Q 039682 81 GQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 81 Gd~v~~~i~g~G~l~~~v 98 (107)
|++++++|+|+|++++++
T Consensus 246 G~~~~~~~~glG~v~~~f 263 (263)
T TIGR03218 246 GDSVTVRYQGLGSVSMRF 263 (263)
T ss_pred CCEEEEEECCCceEEEeC
Confidence 999999999999998864
No 16
>COG3971 2-keto-4-pentenoate hydratase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.49 E-value=1.5e-13 Score=100.33 Aligned_cols=92 Identities=22% Similarity=0.199 Sum_probs=83.2
Q ss_pred cccCcc-ccCCCCCCCcceEEEEEECCEEEEeeccchhccCHHHHHHHHH-----cCCccCCCCEEecCCCCCCeeCCCC
Q 039682 8 TPISSV-LPKSAVPDPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHIS-----SIMTLFEGDVILTGSPQGVGPVKAG 81 (107)
Q Consensus 8 ~~~Gp~-i~~~~~~~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls-----~~~~L~~GdvI~TGt~~g~~~l~~G 81 (107)
.++|+- +.++.+ |+.....++++||+.+..+..+..+.+|..-+.|++ ++.+|++||||+||+.+++.+.++|
T Consensus 166 ~ViG~~~~~~~~l-d~~~~~~~l~rng~~~e~g~~aavLghP~~a~~wLAn~~a~~G~~Lk~G~IVl~Gs~t~~v~~~~g 244 (264)
T COG3971 166 FVIGGRAVKPDDL-DLRNVGATLYRNGVEEETGVGAAVLGHPAAALAWLANKLAAYGVPLKAGDIVLTGSFTGPVPARPG 244 (264)
T ss_pred eEECCCCCCchhh-hhhhccceeeecCEEEEeeechhhcCCcHHHHHHHHHHHHHcCCCcccCcEEecCccCccccCCCC
Confidence 477865 455554 889999999999999999999999999999999996 6899999999999999999999999
Q ss_pred CEEEEEECceeEEEEEEEe
Q 039682 82 QKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 82 d~v~~~i~g~G~l~~~v~~ 100 (107)
|+++++|.++|.+++++..
T Consensus 245 d~~h~~~~~lG~v~~~f~~ 263 (264)
T COG3971 245 DTFHADFGGLGAVSCVFVK 263 (264)
T ss_pred CEEEEEecCcCceEEeecC
Confidence 9999999999999998753
No 17
>COG3970 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]
Probab=98.83 E-value=1.9e-08 Score=75.43 Aligned_cols=102 Identities=14% Similarity=0.056 Sum_probs=80.5
Q ss_pred CCcCCCCcccCccc-cCCCCCCCcceE---EEEEECCE--EEEee--ccchhccCHHHHHHHHH-cCCccCCCCEEecCC
Q 039682 1 AKGQDTFTPISSVL-PKSAVPDPYNFE---LWLKVDRE--IRQQG--STKDMIFKIPYLISHIS-SIMTLFEGDVILTGS 71 (107)
Q Consensus 1 ~K~~d~~~~~Gp~i-~~~~~~~~~~~~---~~l~vnG~--~~~~~--~~~~m~~~~~~li~~ls-~~~~L~~GdvI~TGt 71 (107)
||-...+|++|||+ ..|+...+.+++ ++|.|.|+ ..-+| +.+.|..+|.+++.++. +......|-++++||
T Consensus 237 aKdnnasCaiGPfIrlfDe~f~~~dv~~a~vtLkv~gedgf~l~G~snm~~isR~p~~l~~Q~l~~~hqyPDG~~lflGT 316 (379)
T COG3970 237 AKDNNASCAIGPFIRLFDETFTIDDVKSAEVTLKVTGEDGFFLEGSSNMAEISRSPEELVIQALNRDHQYPDGFALFLGT 316 (379)
T ss_pred ccccCccccccceEEeecCCCChhhhhhceEEEEEEccCceEEeccccHHhhccCHHHHHHHHhccCCCCCCceeEEeee
Confidence 57778899999997 466555555444 99999887 34444 46789999999888665 788899999999999
Q ss_pred CCCCe---------e-CCCCCEEEEEECceeEEEEEEEecc
Q 039682 72 PQGVG---------P-VKAGQKTTAGIAGLLVVRFDNKKRR 102 (107)
Q Consensus 72 ~~g~~---------~-l~~Gd~v~~~i~g~G~l~~~v~~~~ 102 (107)
....+ + =+.||+||++...+|++.|.|+..+
T Consensus 317 mfaP~kDr~~~g~gfth~~gD~VeIStp~lG~Lin~V~~~d 357 (379)
T COG3970 317 MFAPGKDRGLKGLGFTHEVGDIVEISTPKLGTLINPVTTSD 357 (379)
T ss_pred eeccccccCCCCCCcccCCCCEEEEeccccceeeeeeeccC
Confidence 75333 1 3789999999999999999998754
No 18
>KOG2843 consensus Fumarylacetoacetase [Carbohydrate transport and metabolism]
Probab=97.52 E-value=9.3e-05 Score=55.63 Aligned_cols=62 Identities=16% Similarity=0.218 Sum_probs=49.5
Q ss_pred EEEEeeccchhccCHHHHHHHHH-cCCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEE
Q 039682 34 EIRQQGSTKDMIFKIPYLISHIS-SIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVR 95 (107)
Q Consensus 34 ~~~~~~~~~~m~~~~~~li~~ls-~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~ 95 (107)
..+++.+...|.|.+.+-++|.+ .++.|+|||++.+||..|..+=.-|..+|..+.|-.+++
T Consensus 313 a~icKsNFKhlYWT~lQQlaHHtVnGCNLRpGDLlaSGTiSGpep~~yGSmLELsWkGtK~~~ 375 (420)
T KOG2843|consen 313 ALICKSNFKHLYWTPLQQLAHHTVNGCNLRPGDLLASGTISGPEPDSYGSMLELSWKGTKTLE 375 (420)
T ss_pred ceeecccchhhhhhHHHHhhhcccccccCCccceeccccccCCCCcchhhhhhhhhcCceeee
Confidence 36788889999999999999887 899999999999999998887555555555555544443
No 19
>PF11010 DUF2848: Protein of unknown function (DUF2848); InterPro: IPR021269 This bacterial family of proteins has no known function.
Probab=97.01 E-value=0.0026 Score=45.25 Aligned_cols=81 Identities=17% Similarity=0.268 Sum_probs=62.5
Q ss_pred ccCcc-ccCCCC-CCCcceEEEEE--ECCE--EEEeeccchhccCHHHHHHHHH-cCCccCCCCEEecCCCCCCeeCCCC
Q 039682 9 PISSV-LPKSAV-PDPYNFELWLK--VDRE--IRQQGSTKDMIFKIPYLISHIS-SIMTLFEGDVILTGSPQGVGPVKAG 81 (107)
Q Consensus 9 ~~Gp~-i~~~~~-~~~~~~~~~l~--vnG~--~~~~~~~~~m~~~~~~li~~ls-~~~~L~~GdvI~TGt~~g~~~l~~G 81 (107)
|+++- +..+++ +.+..+.++.+ .||+ +.|+|+.+.| ..|.+|++.+. ....+.+|-++++||..-.+.++++
T Consensus 96 pva~~~W~~~dV~dhWD~l~Lrsw~~~dg~~~lYQeGtla~l-l~p~~ll~~~~~~~~~~~~g~~m~~GT~~~~g~~~~a 174 (194)
T PF11010_consen 96 PVAREAWRLDDVADHWDELELRSWITEDGERVLYQEGTLAAL-LPPADLLERLGEGRGDLPEGTAMFCGTVPAIGGIRPA 174 (194)
T ss_pred cchhhcCcHHHHHhhhhheeEEEEEeeCCCEEEEeecchhhc-CCHHHHHHhhhccCCCCCCCEEEEEeccccccCcccc
Confidence 55553 233332 24667777765 4554 8999999865 57999999998 6778999999999999888999999
Q ss_pred CEEEEEECc
Q 039682 82 QKTTAGIAG 90 (107)
Q Consensus 82 d~v~~~i~g 90 (107)
++.++++.+
T Consensus 175 ~~f~~eL~D 183 (194)
T PF11010_consen 175 DRFEMELED 183 (194)
T ss_pred ceEEEEEEc
Confidence 999999864
No 20
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=89.97 E-value=0.73 Score=26.60 Aligned_cols=55 Identities=11% Similarity=0.166 Sum_probs=30.6
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH---cCCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS---SIMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls---~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
|++++||+.++- ..+ ++.+|++++. +...+.--+-|..-+--.-.+++.||+|++
T Consensus 1 m~i~~Ng~~~~~---~~~--tl~~Ll~~l~~~~~~vavavN~~iv~~~~~~~~~L~dgD~Iei 58 (65)
T PRK06488 1 MKLFVNGETLQT---EAT--TLALLLAELDYEGNWLATAVNGELVHKEARAQFVLHEGDRIEI 58 (65)
T ss_pred CEEEECCeEEEc---CcC--cHHHHHHHcCCCCCeEEEEECCEEcCHHHcCccccCCCCEEEE
Confidence 478999998886 222 7888888773 111112111122211001235899999886
No 21
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=88.60 E-value=1.1 Score=25.79 Aligned_cols=55 Identities=11% Similarity=0.201 Sum_probs=30.1
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH---cCCccCC-CCEEecCCCCCCeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS---SIMTLFE-GDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls---~~~~L~~-GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
+++++||+.+.-... -++.+++..+. +...+.- |.+|- =.-..-..++.||+|++
T Consensus 1 m~i~vNG~~~~~~~~----~tl~~lL~~l~~~~~~vav~vNg~iv~-r~~~~~~~l~~gD~vei 59 (66)
T PRK05659 1 MNIQLNGEPRELPDG----ESVAALLAREGLAGRRVAVEVNGEIVP-RSQHASTALREGDVVEI 59 (66)
T ss_pred CEEEECCeEEEcCCC----CCHHHHHHhcCCCCCeEEEEECCeEeC-HHHcCcccCCCCCEEEE
Confidence 468999997754321 25777777663 1222211 22222 11113336999999986
No 22
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=88.37 E-value=1.2 Score=26.17 Aligned_cols=57 Identities=16% Similarity=0.224 Sum_probs=33.1
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH---cCCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS---SIMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls---~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
|++++||+.+.-... .-++.++++++. +...+.--.-|..-.--.-..++.||++++
T Consensus 1 m~I~vNG~~~~~~~~---~~tv~~lL~~l~~~~~~vav~vN~~iv~r~~w~~~~L~~gD~iEI 60 (67)
T PRK07696 1 MNLKINGNQIEVPES---VKTVAELLTHLELDNKIVVVERNKDILQKDDHTDTSVFDGDQIEI 60 (67)
T ss_pred CEEEECCEEEEcCCC---cccHHHHHHHcCCCCCeEEEEECCEEeCHHHcCceecCCCCEEEE
Confidence 468999997643221 134777777663 333344333344433333446899999986
No 23
>PRK07440 hypothetical protein; Provisional
Probab=88.08 E-value=1.8 Score=25.62 Aligned_cols=57 Identities=19% Similarity=0.243 Sum_probs=35.1
Q ss_pred EEEEEECCEEEEeeccchhccCHHHHHHHHH---cCCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 26 ELWLKVDREIRQQGSTKDMIFKIPYLISHIS---SIMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 26 ~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls---~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
.+.+++||+.+.-... -++.+|+..+. ++..+.--.-|..-+--.-..++.||+|++
T Consensus 4 ~m~i~vNG~~~~~~~~----~tl~~lL~~l~~~~~~vav~~N~~iv~r~~w~~~~L~~gD~IEI 63 (70)
T PRK07440 4 PITLQVNGETRTCSSG----TSLPDLLQQLGFNPRLVAVEYNGEILHRQFWEQTQVQPGDRLEI 63 (70)
T ss_pred ceEEEECCEEEEcCCC----CCHHHHHHHcCCCCCeEEEEECCEEeCHHHcCceecCCCCEEEE
Confidence 5899999997664321 34677777653 344444444444433223346999999986
No 24
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=86.37 E-value=2.3 Score=26.26 Aligned_cols=62 Identities=8% Similarity=0.058 Sum_probs=35.6
Q ss_pred CCcceEEEEEECCEEEEeeccchhccCHHHHHHHHH---cCCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 21 DPYNFELWLKVDREIRQQGSTKDMIFKIPYLISHIS---SIMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 21 ~~~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls---~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
......+.+++||+...-... -++.+||+++. +...+.--.-|..-.--.-..|+.||++++
T Consensus 13 ~~~~~~m~I~VNG~~~~~~~~----~tl~~LL~~l~~~~~~vAVevNg~iVpr~~w~~t~L~egD~IEI 77 (84)
T PRK06083 13 GAAMVLITISINDQSIQVDIS----SSLAQIIAQLSLPELGCVFAINNQVVPRSEWQSTVLSSGDAISL 77 (84)
T ss_pred CCCCceEEEEECCeEEEcCCC----CcHHHHHHHcCCCCceEEEEECCEEeCHHHcCcccCCCCCEEEE
Confidence 446678999999998775432 24778888763 122222111122211112335899999986
No 25
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=86.34 E-value=2.1 Score=24.81 Aligned_cols=56 Identities=11% Similarity=0.079 Sum_probs=31.7
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHHc---CCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHISS---IMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~---~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
|.+++||+.+.-... -++.+|+.++.. .+.+.--+-|..-.--.-..+++||+|++
T Consensus 1 m~i~vNg~~~~~~~~----~tl~~ll~~l~~~~~~vaVavN~~iv~r~~w~~~~L~~gD~Iei 59 (66)
T PRK08053 1 MQILFNDQPMQCAAG----QTVHELLEQLNQLQPGAALAINQQIIPREQWAQHIVQDGDQILL 59 (66)
T ss_pred CEEEECCeEEEcCCC----CCHHHHHHHcCCCCCcEEEEECCEEeChHHcCccccCCCCEEEE
Confidence 468899998875332 247788877642 23333333333322112225889998875
No 26
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=81.33 E-value=5.9 Score=22.49 Aligned_cols=52 Identities=6% Similarity=0.064 Sum_probs=28.2
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCE-EecCCCCC-----CeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDV-ILTGSPQG-----VGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~Gdv-I~TGt~~g-----~~~l~~Gd~v~~ 86 (107)
|++++||+.+.-... -++.++++++... ++=. -.=|.... -..++.||+|++
T Consensus 1 m~i~vNg~~~~~~~~----~tl~~ll~~l~~~----~~~~v~vN~~~v~~~~~~~~~L~~gD~vei 58 (65)
T PRK06944 1 MDIQLNQQTLSLPDG----ATVADALAAYGAR----PPFAVAVNGDFVARTQHAARALAAGDRLDL 58 (65)
T ss_pred CEEEECCEEEECCCC----CcHHHHHHhhCCC----CCeEEEECCEEcCchhcccccCCCCCEEEE
Confidence 468999998764332 2467777766421 1111 11121111 124899999886
No 27
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.42 E-value=10 Score=28.57 Aligned_cols=93 Identities=19% Similarity=0.166 Sum_probs=63.9
Q ss_pred CCcccCccccCCCCCCCcceE--EEEEECCEEEEeec----cchhccCHHHHHHHHHcC-CccCCCCE--EecCCCC---
Q 039682 6 TFTPISSVLPKSAVPDPYNFE--LWLKVDREIRQQGS----TKDMIFKIPYLISHISSI-MTLFEGDV--ILTGSPQ--- 73 (107)
Q Consensus 6 ~~~~~Gp~i~~~~~~~~~~~~--~~l~vnG~~~~~~~----~~~m~~~~~~li~~ls~~-~~L~~Gdv--I~TGt~~--- 73 (107)
..|++||-+..-++ |.+++ -++..+|++..+-. -++|..++..|=.|.=+| .-.+|||| -+-||.+
T Consensus 216 R~as~GPEl~vG~l--P~~vrG~SRI~Rdg~viwek~FlSGE~nMsHs~aNLEhhHFkY~lfrrpGDvHvh~FGtatlSf 293 (333)
T COG3802 216 RNASFGPELLVGAL--PEDVRGVSRILRDGEVIWEKPFLSGEANMSHSIANLEHHHFKYALFRRPGDVHVHFFGTATLSF 293 (333)
T ss_pred hccccCcceeeccC--chhhcCceeeecCCEEEEecccccCccchhhhhhhhhhhhhhhhhhcCCCceEEEEeccEEEee
Confidence 46889998643322 23333 55677999877754 258999998887766654 56689996 3556643
Q ss_pred --CCeeCCCCCEEEEEECceeE-EEEEEEec
Q 039682 74 --GVGPVKAGQKTTAGIAGLLV-VRFDNKKR 101 (107)
Q Consensus 74 --g~~~l~~Gd~v~~~i~g~G~-l~~~v~~~ 101 (107)
|+ .-++||..+++...+|. +.|++...
T Consensus 294 adGi-kte~GDvfEIea~~Fg~PlrN~la~~ 323 (333)
T COG3802 294 ADGI-KTEAGDVFEIEAAPFGLPLRNPLAIA 323 (333)
T ss_pred cccc-cCCCCCEEEEeccccCCcccCccccC
Confidence 33 47999999999988774 66666543
No 28
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=72.49 E-value=5.4 Score=23.01 Aligned_cols=54 Identities=9% Similarity=0.149 Sum_probs=29.6
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH---cCCccC-CCCEEecCCCCCCeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS---SIMTLF-EGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls---~~~~L~-~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
|++++||+.++-... .++.+++..+. +...+. -+.+|-=..+.- .++.||+|++
T Consensus 1 m~i~vNG~~~~~~~~----~tl~~ll~~l~~~~~~vav~~N~~iv~r~~~~~--~L~~gD~ieI 58 (65)
T PRK05863 1 MIVVVNEEQVEVDEQ----TTVAALLDSLGFPEKGIAVAVDWSVLPRSDWAT--KLRDGARLEV 58 (65)
T ss_pred CEEEECCEEEEcCCC----CcHHHHHHHcCCCCCcEEEEECCcCcChhHhhh--hcCCCCEEEE
Confidence 468999998875431 35777777653 111111 122222222322 3888898876
No 29
>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.
Probab=67.73 E-value=7.1 Score=24.36 Aligned_cols=20 Identities=40% Similarity=0.421 Sum_probs=16.7
Q ss_pred cCCccCCCCEEecCCCCCCe
Q 039682 57 SIMTLFEGDVILTGSPQGVG 76 (107)
Q Consensus 57 ~~~~L~~GdvI~TGt~~g~~ 76 (107)
+.-+|+.||.|.+|+..|-.
T Consensus 23 ~~GtL~~Gd~iv~G~~~GkV 42 (95)
T cd03701 23 QNGTLKKGDVIVAGGTYGKI 42 (95)
T ss_pred EcCeEecCCEEEECCccceE
Confidence 56799999999999987654
No 30
>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.
Probab=64.07 E-value=8.1 Score=24.27 Aligned_cols=30 Identities=23% Similarity=0.234 Sum_probs=23.5
Q ss_pred cCCccCCCCEEecCCCCCCe------------eCCCCCEEEE
Q 039682 57 SIMTLFEGDVILTGSPQGVG------------PVKAGQKTTA 86 (107)
Q Consensus 57 ~~~~L~~GdvI~TGt~~g~~------------~l~~Gd~v~~ 86 (107)
+.-+|+.||.|..|+..|-. .+.|++-|++
T Consensus 23 ~~GtL~~Gd~iv~G~~~gkVr~l~d~~g~~v~~a~Ps~~V~I 64 (95)
T cd03702 23 QNGTLKVGDVLVAGTTYGKVRAMFDENGKRVKEAGPSTPVEI 64 (95)
T ss_pred EcCeEeCCCEEEEcccccEEEEEECCCCCCCCEECCCCcEEE
Confidence 56789999999999976643 3678887776
No 31
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=60.76 E-value=19 Score=20.43 Aligned_cols=24 Identities=13% Similarity=0.256 Sum_probs=15.2
Q ss_pred EEECCEEEEeeccchhccCHHHHHHHHH
Q 039682 29 LKVDREIRQQGSTKDMIFKIPYLISHIS 56 (107)
Q Consensus 29 l~vnG~~~~~~~~~~m~~~~~~li~~ls 56 (107)
+++||+.+.-... .++.+++.++.
T Consensus 1 i~iNg~~~~~~~~----~tv~~ll~~l~ 24 (64)
T TIGR01683 1 ITVNGEPVEVEDG----LTLAALLESLG 24 (64)
T ss_pred CEECCeEEEcCCC----CcHHHHHHHcC
Confidence 3688887764332 24777777664
No 32
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=60.24 E-value=28 Score=20.53 Aligned_cols=56 Identities=7% Similarity=0.209 Sum_probs=34.2
Q ss_pred EEEEEECCEEEEeeccchhccCHHHHHHHHH----cCCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 26 ELWLKVDREIRQQGSTKDMIFKIPYLISHIS----SIMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 26 ~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls----~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
.|++.+||+.+..... ..+.+|++.+. ......-|++|--.-+.. ..++.||+|++
T Consensus 2 ~m~i~~ng~~~e~~~~----~tv~dLL~~l~~~~~~vav~vNg~iVpr~~~~~-~~l~~gD~iev 61 (68)
T COG2104 2 PMTIQLNGKEVEIAEG----TTVADLLAQLGLNPEGVAVAVNGEIVPRSQWAD-TILKEGDRIEV 61 (68)
T ss_pred cEEEEECCEEEEcCCC----CcHHHHHHHhCCCCceEEEEECCEEccchhhhh-ccccCCCEEEE
Confidence 5788999988775543 45777777774 233344555554222222 24788888876
No 33
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=60.21 E-value=12 Score=29.08 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=29.4
Q ss_pred CCccCCCCEEecCCCCCCe------------------eCCCCCEEEEEECceeE
Q 039682 58 IMTLFEGDVILTGSPQGVG------------------PVKAGQKTTAGIAGLLV 93 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~------------------~l~~Gd~v~~~i~g~G~ 93 (107)
...+++||.|..|+|--.. .+++|+.+++.+++.+.
T Consensus 221 ~~~v~~G~~V~~G~~l~alVp~~~~yV~AnFkETqL~~~r~Gq~a~I~~da~~~ 274 (352)
T COG1566 221 NLSVRVGQYVSAGTPLMALVPLDSFYVVANFKETQLARVRPGQPAEITLDAYPG 274 (352)
T ss_pred eecccCCCeecCCCceEEEecccceEEEeeeeeeecCcccCCCeEEEEEEcCCC
Confidence 3678999999999985322 28999999999998865
No 34
>PF11347 DUF3148: Protein of unknown function (DUF3148); InterPro: IPR021495 This family of proteins has no known function.
Probab=60.06 E-value=11 Score=22.08 Aligned_cols=32 Identities=13% Similarity=0.108 Sum_probs=28.1
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEEC
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIA 89 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~ 89 (107)
.-.|+|-|+|-.|-..-+...+|+|.+.+.|.
T Consensus 21 MPmLRp~dlv~~ge~G~i~~rrp~~~w~VRf~ 52 (63)
T PF11347_consen 21 MPMLRPPDLVKIGEVGRIVDRRPGDYWAVRFR 52 (63)
T ss_pred ccccCCcCccccCCcEEEEEecCCCEEEEEEe
Confidence 34689999999999988889999999999885
No 35
>TIGR03170 flgA_cterm flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666.
Probab=58.74 E-value=13 Score=23.73 Aligned_cols=48 Identities=15% Similarity=0.129 Sum_probs=35.0
Q ss_pred chhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECc
Q 039682 42 KDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAG 90 (107)
Q Consensus 42 ~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g 90 (107)
...+.++.+++-..++ ..|.+|++|..---.....++.||.|.+.+.+
T Consensus 31 ~~~~~~~~~viG~~a~-r~i~~G~~i~~~~l~~~~~V~~G~~V~i~~~~ 78 (122)
T TIGR03170 31 GGVLTDPDEVVGKVAK-RPLRAGQPLTANMLRPPWLVKRGDTVTVIARG 78 (122)
T ss_pred ccccCCHHHhcChhee-cccCCCCeeChHhcCCccEEcCCCEEEEEEec
Confidence 3445566676654444 38999999976666666779999999998864
No 36
>PF13144 SAF_2: SAF-like
Probab=56.00 E-value=30 Score=23.94 Aligned_cols=40 Identities=15% Similarity=0.032 Sum_probs=31.9
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEEEE
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~~v 98 (107)
-..+.+|++|...-......++.||.|.+.+.+ |.+.+..
T Consensus 120 ~r~i~~G~~i~~~~l~~~~~V~~G~~V~v~~~~-g~i~i~~ 159 (196)
T PF13144_consen 120 KRNIRAGQPITPSDLEPPPLVKRGDIVTVIARS-GGISIST 159 (196)
T ss_pred EEEcCCCCEeeecccccceecCCCCEEEEEEEe-CCEEEEE
Confidence 467899999999988888889999999998864 3444444
No 37
>PRK06033 hypothetical protein; Validated
Probab=54.04 E-value=48 Score=20.19 Aligned_cols=28 Identities=11% Similarity=0.051 Sum_probs=18.3
Q ss_pred CccCCCCEEecCCCCCCeeCCCCCEEEEEECceeE
Q 039682 59 MTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLV 93 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~ 93 (107)
..|++||+|....+ .++.+++.++|.-.
T Consensus 26 L~L~~GDVI~L~~~-------~~~~v~v~V~~~~~ 53 (83)
T PRK06033 26 LRMGRGAVIPLDAT-------EADEVWILANNHPI 53 (83)
T ss_pred hCCCCCCEEEeCCC-------CCCcEEEEECCEEE
Confidence 38999999998763 33445555555433
No 38
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=53.20 E-value=43 Score=19.48 Aligned_cols=30 Identities=30% Similarity=0.354 Sum_probs=17.0
Q ss_pred ccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEE
Q 039682 60 TLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRF 96 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~ 96 (107)
.|++||+|....+ ..+.+++.++|.-.+.-
T Consensus 28 ~L~~Gdvi~l~~~-------~~~~v~l~v~g~~~~~g 57 (77)
T PF01052_consen 28 NLKVGDVIPLDKP-------ADEPVELRVNGQPIFRG 57 (77)
T ss_dssp C--TT-EEEECCE-------SSTEEEEEETTEEEEEE
T ss_pred cCCCCCEEEeCCC-------CCCCEEEEECCEEEEEE
Confidence 8999999998885 34455555555443333
No 39
>KOG1379 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=51.74 E-value=8 Score=29.77 Aligned_cols=50 Identities=20% Similarity=0.356 Sum_probs=35.3
Q ss_pred cceEEEEEECCEEEEeeccchhccCHHHHHHH--------HH--------cCCccCCCCEEecCCC
Q 039682 23 YNFELWLKVDREIRQQGSTKDMIFKIPYLISH--------IS--------SIMTLFEGDVILTGSP 72 (107)
Q Consensus 23 ~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~--------ls--------~~~~L~~GdvI~TGt~ 72 (107)
-+--+-+-.||++++...-+.--|+.+.-|+- ++ -.+.|++||||+.+|-
T Consensus 189 GDSGF~VvR~G~vv~~S~~Q~H~FN~PyQLs~~p~~~~~~~~d~p~~ad~~~~~v~~GDvIilATD 254 (330)
T KOG1379|consen 189 GDSGFLVVREGKVVFRSPEQQHYFNTPYQLSSPPEGYSSYISDVPDSADVTSFDVQKGDVIILATD 254 (330)
T ss_pred cCcceEEEECCEEEEcCchheeccCCceeeccCCccccccccCCccccceEEEeccCCCEEEEecc
Confidence 34446677899999998877666665544331 22 2578999999999985
No 40
>PF13799 DUF4183: Domain of unknown function (DUF4183)
Probab=47.91 E-value=9.6 Score=23.61 Aligned_cols=38 Identities=32% Similarity=0.435 Sum_probs=20.4
Q ss_pred ceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCC
Q 039682 24 NFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSP 72 (107)
Q Consensus 24 ~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~ 72 (107)
+--..|+||| +.|+++.-... ..-.+|..+|.+..|||
T Consensus 42 ~sY~NLyING-vLQ~~~~ytvt----------~~~Lti~~~d~~~~GtP 79 (84)
T PF13799_consen 42 NSYYNLYING-VLQPGSLYTVT----------TGSLTINTGDPILAGTP 79 (84)
T ss_pred ceEEEEEEEE-EecCCcceEEe----------cceEEEcCCCCCCCCCc
Confidence 3446789999 55655543221 12234555555555554
No 41
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=47.87 E-value=25 Score=21.08 Aligned_cols=49 Identities=12% Similarity=0.100 Sum_probs=34.7
Q ss_pred EEEEEECCEEEEeec----cchhccCHHHHHHHHHcCCccCCCCEEecCCCCC
Q 039682 26 ELWLKVDREIRQQGS----TKDMIFKIPYLISHISSIMTLFEGDVILTGSPQG 74 (107)
Q Consensus 26 ~~~l~vnG~~~~~~~----~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g 74 (107)
.+.++.||.....+. ......+++.++.++++-+.|.+|-|=--=|+.|
T Consensus 2 ~I~~~rNGD~~~~g~~~~i~~~~~~sfd~lL~~lt~~l~l~~~~Vr~lyt~~g 54 (80)
T cd01617 2 RVVVYRNGDPFFKGVRLLVNRRRFKSFDALLDDLTEKVQLDPGAVRKLYTLDG 54 (80)
T ss_pred EEEEEECCCCCCCCEEEEEChhhhCCHHHHHHHHHHHhCCCCCcEEEEEcCCC
Confidence 467888887666554 2345679999999999988888665544444444
No 42
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=46.45 E-value=54 Score=18.51 Aligned_cols=24 Identities=17% Similarity=0.286 Sum_probs=15.3
Q ss_pred EEECCEEEEeeccchhccCHHHHHHHHH
Q 039682 29 LKVDREIRQQGSTKDMIFKIPYLISHIS 56 (107)
Q Consensus 29 l~vnG~~~~~~~~~~m~~~~~~li~~ls 56 (107)
+++||+...-... -++.+++.++.
T Consensus 2 i~iNg~~~~~~~~----~tv~~ll~~l~ 25 (65)
T cd00565 2 ITVNGEPREVEEG----ATLAELLEELG 25 (65)
T ss_pred EEECCeEEEcCCC----CCHHHHHHHcC
Confidence 5788887764332 24677777764
No 43
>PRK08433 flagellar motor switch protein; Validated
Probab=45.99 E-value=81 Score=20.44 Aligned_cols=29 Identities=31% Similarity=0.481 Sum_probs=19.0
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeE
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLV 93 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~ 93 (107)
...|++||+|..-.+ .++.+.+.++|.-.
T Consensus 50 lL~Lq~GDVI~Ld~~-------~~e~v~v~V~g~~~ 78 (111)
T PRK08433 50 ILKFEKGSVIDLEKP-------AGESVELYINGRII 78 (111)
T ss_pred HhCCCCCCEEEeCCC-------CCCCEEEEECCEEE
Confidence 348999999998663 34455555555433
No 44
>cd03703 aeIF5B_II aeIF5B_II: This family represents the domain II of archeal and eukaryotic aeIF5B. aeIF5B is a homologue of prokaryotic Initiation Factor 2 (IF2). Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of joining of 60S subunits. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains of EF1A, eEF1A and aeIF2gamma.
Probab=45.34 E-value=15 Score=23.87 Aligned_cols=19 Identities=37% Similarity=0.289 Sum_probs=16.1
Q ss_pred cCCccCCCCEEecCCCCCC
Q 039682 57 SIMTLFEGDVILTGSPQGV 75 (107)
Q Consensus 57 ~~~~L~~GdvI~TGt~~g~ 75 (107)
..-+|+.||.|..|+..|+
T Consensus 23 ~~GtL~~GD~Iv~g~~~Gp 41 (110)
T cd03703 23 YDGTLREGDTIVVCGLNGP 41 (110)
T ss_pred ECCeEecCCEEEEccCCCC
Confidence 4568999999999998874
No 45
>PRK12618 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=44.81 E-value=18 Score=24.30 Aligned_cols=49 Identities=14% Similarity=0.017 Sum_probs=37.8
Q ss_pred chhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECce
Q 039682 42 KDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGL 91 (107)
Q Consensus 42 ~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~ 91 (107)
...+.++.+++=..+ -.+|.+|+.|..---..+..++.||.|++.+.+=
T Consensus 47 ~g~~td~~~vvG~~~-rR~l~aGq~i~~~~L~~p~lV~rG~~V~i~~~~g 95 (141)
T PRK12618 47 PGALTDPAQAIGQEA-RVTLYAGRPIRAADLGPPAIVDRNQLVPLAYRLG 95 (141)
T ss_pred ccccCCHHHhCCcEE-EeecCCCCeeCHHHcCCccEEeCCCEEEEEEecC
Confidence 456677777775544 5689999999888877777799999999888653
No 46
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=44.36 E-value=40 Score=26.02 Aligned_cols=25 Identities=20% Similarity=0.405 Sum_probs=16.1
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHH
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHI 55 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~l 55 (107)
|++++||+.++-... -++.++|..+
T Consensus 1 M~I~VNGk~~el~e~----~TL~dLL~~L 25 (326)
T PRK11840 1 MRIRLNGEPRQVPAG----LTIAALLAEL 25 (326)
T ss_pred CEEEECCEEEecCCC----CcHHHHHHHc
Confidence 468899997654322 2467777765
No 47
>PLN02584 5'-methylthioadenosine nucleosidase
Probab=44.08 E-value=92 Score=22.72 Aligned_cols=61 Identities=15% Similarity=0.069 Sum_probs=36.1
Q ss_pred EEEEECCEEEEeeccc-h----h--ccCHHHHHHHHHcCCccCCCCEEecCCCCCCee--CCCCCEEEEE
Q 039682 27 LWLKVDREIRQQGSTK-D----M--IFKIPYLISHISSIMTLFEGDVILTGSPQGVGP--VKAGQKTTAG 87 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~-~----m--~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~--l~~Gd~v~~~ 87 (107)
.+-++||+.+--..++ + + ++.+.-.+.-..--..+.+.-||.+||+.+..+ ++.||.|-++
T Consensus 47 ~~G~~~g~~V~v~~sG~~~~~~i~~IGkvnAA~~~~~li~~~~~~~II~~G~aG~l~~~~l~vGDvVia~ 116 (249)
T PLN02584 47 YSGTHKGLRVHVVCPGKDKALGVDSVGTVPASLVTYAAIQALKPDLIINAGTAGGFKAKGAAIGDVFLAT 116 (249)
T ss_pred EEEEECCEEEEEEecCCccccccCccCHHHHHHHHHHHHHhcCCCEEEEEecccCcCcCCCCcCCEEEEC
Confidence 3446777755333332 1 1 344333332211123566889999999999763 8999988654
No 48
>PF00386 C1q: C1q domain; InterPro: IPR001073 This entry represents the C-terminal domain of C1q. C1q is a subunit of the C1 enzyme complex that activates the serum complement system. C1q comprises 6 A, 6 B and 6 C chains. These share the same topology, each possessing a small, globular N-terminal domain, a collagen-like Gly/Pro-rich central region, and a conserved C-terminal region, the C1q domain []. The C1q protein is produced in collagen-producing cells and shows sequence and structural similarity to collagens VIII and X [, ]. This domain is also found in multimerin and EMILIN proteins.; PDB: 1O91_C 2JG8_D 2JG9_A 2WNV_A 2WNU_A 1PK6_A 4DOU_A 1C3H_C 1C28_C 2OII_A ....
Probab=43.39 E-value=40 Score=21.46 Aligned_cols=49 Identities=8% Similarity=-0.069 Sum_probs=28.8
Q ss_pred cceEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECc
Q 039682 23 YNFELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAG 90 (107)
Q Consensus 23 ~~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g 90 (107)
..+.+++.+||..+.......--.. --+.+...+..|+.||+|.+++..
T Consensus 59 ~~~~~~L~~N~~~~~~~~~~~~~~~-------------------~~~~s~s~vl~L~~GD~V~v~~~~ 107 (127)
T PF00386_consen 59 SSVWVELMKNGNPVASTYASNSSGN-------------------YDSASNSAVLQLNKGDTVWVRLDS 107 (127)
T ss_dssp EEEEEEEEETTEEEEEEEECSBTTB-------------------EEEEEEEEEEEE-TT-EEEEEEEE
T ss_pred chhHHhhhhhccceeeEeecCCCCc-------------------cceEEEEEEEEeCCCCEEEEEEec
Confidence 4667789999987765543322211 122333356679999999888864
No 49
>PF05708 DUF830: Orthopoxvirus protein of unknown function (DUF830); PDB: 2IF6_B 3KW0_C.
Probab=42.60 E-value=13 Score=24.67 Aligned_cols=13 Identities=46% Similarity=0.644 Sum_probs=7.0
Q ss_pred ccCCCCEEecCCC
Q 039682 60 TLFEGDVILTGSP 72 (107)
Q Consensus 60 ~L~~GdvI~TGt~ 72 (107)
.|++||||++-..
T Consensus 1 ~l~~GDIil~~~~ 13 (158)
T PF05708_consen 1 KLQTGDIILTRGK 13 (158)
T ss_dssp ---TT-EEEEEE-
T ss_pred CCCCeeEEEEECC
Confidence 3899999999654
No 50
>PRK07018 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=41.99 E-value=38 Score=24.45 Aligned_cols=40 Identities=15% Similarity=-0.011 Sum_probs=30.7
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEEEE
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~~v 98 (107)
-..+.+|++|..---.....++.||.|.+.+.+ |.+++..
T Consensus 157 ~R~I~aG~~I~~~~L~~~~~V~~G~~V~i~~~~-g~~~i~~ 196 (235)
T PRK07018 157 KRRIAPGQPIRLNMLRQAWVVCKGQTVSIIARG-DGFSVKT 196 (235)
T ss_pred EeecCCCCccCHHHccCccEeCCCCEEEEEEec-CCEEEEE
Confidence 367889999977777777789999999998876 4445544
No 51
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=41.21 E-value=50 Score=18.41 Aligned_cols=32 Identities=25% Similarity=0.321 Sum_probs=22.8
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECcee
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLL 92 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G 92 (107)
.-++++||+|+.=.-. .++.||.|-+...+-.
T Consensus 8 ~P~i~~Gd~v~v~~~~---~~~~gdivv~~~~~~~ 39 (70)
T PF00717_consen 8 EPTIKDGDIVLVDPSS---EPKDGDIVVVKIDGDE 39 (70)
T ss_dssp GGTSSTTEEEEEEETS------TTSEEEEEETTEE
T ss_pred ccCeeCCCEEEEEEcC---CCccCeEEEEEECCce
Confidence 4578899999876433 6899999999998875
No 52
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=40.30 E-value=17 Score=22.26 Aligned_cols=13 Identities=31% Similarity=0.291 Sum_probs=10.1
Q ss_pred HcCCccCCCCEEe
Q 039682 56 SSIMTLFEGDVIL 68 (107)
Q Consensus 56 s~~~~L~~GdvI~ 68 (107)
++++.+++||||=
T Consensus 47 ~r~~g~k~GdVvk 59 (79)
T PRK09570 47 VKAIGAKPGDVIK 59 (79)
T ss_pred hhhcCCCCCCEEE
Confidence 4678888888874
No 53
>PRK15175 Vi polysaccharide export protein VexA; Provisional
Probab=40.25 E-value=34 Score=26.55 Aligned_cols=39 Identities=10% Similarity=0.042 Sum_probs=26.5
Q ss_pred eEEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCC
Q 039682 25 FELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGS 71 (107)
Q Consensus 25 ~~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt 71 (107)
..++++.+|+.. ..++.+++.+-+....|++||+|.-..
T Consensus 198 ~~V~l~R~~~~~--------~i~l~dL~~~~~~ni~L~~GDvI~V~~ 236 (355)
T PRK15175 198 MEVHVTRQQHYF--------TARLSDIYQYPGLDIALQPDDRITLRQ 236 (355)
T ss_pred cEEEEEECCEEE--------EEEHHHHhhCCcCCcEeCCCCEEEEcc
Confidence 346777777543 333556665556789999999997654
No 54
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=40.16 E-value=25 Score=21.49 Aligned_cols=18 Identities=17% Similarity=0.052 Sum_probs=9.2
Q ss_pred eCCCCCEEEEEECceeEE
Q 039682 77 PVKAGQKTTAGIAGLLVV 94 (107)
Q Consensus 77 ~l~~Gd~v~~~i~g~G~l 94 (107)
.++||++++..++.-|.+
T Consensus 42 ~L~pGq~l~f~~d~~g~L 59 (85)
T PF04225_consen 42 RLKPGQTLEFQLDEDGQL 59 (85)
T ss_dssp G--TT-EEEEEE-TTS-E
T ss_pred hCCCCCEEEEEECCCCCE
Confidence 578888888888755543
No 55
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=39.76 E-value=15 Score=22.16 Aligned_cols=12 Identities=25% Similarity=0.409 Sum_probs=7.9
Q ss_pred HcCCccCCCCEE
Q 039682 56 SSIMTLFEGDVI 67 (107)
Q Consensus 56 s~~~~L~~GdvI 67 (107)
++++.+++||||
T Consensus 44 ~r~~g~k~GdVv 55 (74)
T PF01191_consen 44 ARYLGAKPGDVV 55 (74)
T ss_dssp HHHTT--TTSEE
T ss_pred hhhcCCCCCCEE
Confidence 467888999987
No 56
>TIGR00849 gutA PTS system, glucitol/sorbitol-specific IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria.The system in E.Coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.
Probab=39.59 E-value=81 Score=20.75 Aligned_cols=59 Identities=20% Similarity=0.170 Sum_probs=41.2
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH-----cCCccCCCCEEecCCCCCCeeCCCCCEEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS-----SIMTLFEGDVILTGSPQGVGPVKAGQKTTAG 87 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls-----~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~ 87 (107)
-++.+|++...-...+++..+=.+-|-|++ .-..-.||.+.+.|.+ +..++.|+.+++.
T Consensus 56 d~l~i~~~~Y~ItaVG~~a~~NL~~LGHiTi~F~g~~~~~lpG~I~v~~~~--~p~i~~G~~I~i~ 119 (121)
T TIGR00849 56 QVFMIGGIAYPVTAVGDVAEKNLRSLGHITVRFDGSNVAEFPGTVHVEGKE--PPKIKPGSKFSIV 119 (121)
T ss_pred CEEEECCEEEEEEEEhHHHHHHHHhcCCEEEEECCCCCcccCCEEEEcCCC--CCcCCCCCEEEEE
Confidence 457777877766666666666555566665 1233589999999875 5568999999864
No 57
>PRK06005 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=39.49 E-value=28 Score=23.84 Aligned_cols=48 Identities=15% Similarity=0.190 Sum_probs=36.9
Q ss_pred hhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECce
Q 039682 43 DMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGL 91 (107)
Q Consensus 43 ~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~ 91 (107)
+.+.++.+++=..+ -..|.+|+.|...--.....++.||.|.+.+++=
T Consensus 67 ~~itd~~~viG~~a-rR~l~aGqpI~~~~L~~p~~V~rG~~V~i~~~~~ 114 (160)
T PRK06005 67 QYVLSIDQVVGKVA-KRTLLPGRPIPVSALREPSLVTRGSPVKLVFSAG 114 (160)
T ss_pred cccCCHHHhcCceE-EeecCCCCeeCHHHcCCCcEEeCCCEEEEEEecC
Confidence 44556666665543 4689999999998887787899999999988753
No 58
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=38.79 E-value=79 Score=18.25 Aligned_cols=55 Identities=18% Similarity=0.181 Sum_probs=28.8
Q ss_pred EEEEEECCEEEE-eeccchhccCHHHHHHHHH---cCCc-cCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 26 ELWLKVDREIRQ-QGSTKDMIFKIPYLISHIS---SIMT-LFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 26 ~~~l~vnG~~~~-~~~~~~m~~~~~~li~~ls---~~~~-L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
.+++.+||+... +-.... --++.++++++. +... ..-|.++- .-..+++||+|++
T Consensus 4 mm~v~vng~~~~~~~~~~~-~~tv~~ll~~l~~~~~~v~v~vNg~iv~-----~~~~l~~gD~Vei 63 (70)
T PRK08364 4 MIRVKVIGRGIEKEIEWRK-GMKVADILRAVGFNTESAIAKVNGKVAL-----EDDPVKDGDYVEV 63 (70)
T ss_pred EEEEEEeccccceEEEcCC-CCcHHHHHHHcCCCCccEEEEECCEECC-----CCcCcCCCCEEEE
Confidence 378899998211 000111 135778887774 1211 22344441 2235899999875
No 59
>PRK10377 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional
Probab=37.80 E-value=88 Score=20.53 Aligned_cols=58 Identities=12% Similarity=0.107 Sum_probs=39.5
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH-----cCCccCCCCEEecCCCCCCeeCCCCCEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS-----SIMTLFEGDVILTGSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls-----~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~ 86 (107)
-++.+|++...-...+++..+=.+-|-|++ .-..-.||.+.+.|.+ +..++.|+++++
T Consensus 56 d~l~i~~~~Y~ItaVG~~a~~NL~~LGHiTi~F~g~~~~~lpG~I~v~~~~--~p~i~~G~~I~i 118 (120)
T PRK10377 56 LQFELGQHRYPVTAVGSVAEDNLRELGHVTLRFDGLNEAEFPGTVHVAGPV--PDDIAPGSVLKF 118 (120)
T ss_pred CEEEECCEEEEEEEEhHHHHHHHHhcCCEEEEECCCCCcccCCEEEEcCCC--CCcCCCCCEEEE
Confidence 456777776666666666665555555665 1233579999999875 556899999875
No 60
>COG4379 Mu-like prophage tail protein gpP [General function prediction only]
Probab=37.72 E-value=57 Score=25.55 Aligned_cols=63 Identities=21% Similarity=0.144 Sum_probs=34.9
Q ss_pred EEEEEECCEEEEeeccchhccCHHHHHHHHHcCCccCCCCEEecCCCC--CCeeCCCCCEEEEEECceeEEEEE
Q 039682 26 ELWLKVDREIRQQGSTKDMIFKIPYLISHISSIMTLFEGDVILTGSPQ--GVGPVKAGQKTTAGIAGLLVVRFD 97 (107)
Q Consensus 26 ~~~l~vnG~~~~~~~~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~--g~~~l~~Gd~v~~~i~g~G~l~~~ 97 (107)
.++|++||+....=. ..++..-+.+++-.+.|.-|+. |. ....+++||.+++.++|---++=.
T Consensus 7 tvtL~vgGk~~sgW~----~~~i~rsle~~a~sFdl~i~~r-----P~~~~p~~vraGd~~evkiggqtVltG~ 71 (386)
T COG4379 7 TVTLYVGGKIHSGWE----RYDIDRSLEIPADSFDLGIGRR-----PEDAIPDLVRAGDSCEVKIGGQTVLTGY 71 (386)
T ss_pred eEEEEECCEEecCeE----EEeeeehhhcCCCceeEEeecC-----cccccchhhcCCCceEEEECCeeEEEEe
Confidence 599999998654322 2334444445543333333222 22 223477888888888875444333
No 61
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=37.36 E-value=54 Score=21.25 Aligned_cols=28 Identities=29% Similarity=0.347 Sum_probs=19.7
Q ss_pred CccCCCCEEecCCCCCCe----eCCCCCEEEEEEC
Q 039682 59 MTLFEGDVILTGSPQGVG----PVKAGQKTTAGIA 89 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~----~l~~Gd~v~~~i~ 89 (107)
-.|++||-|+|.. |.+ .+. .+.+.+++.
T Consensus 37 ~~Lk~GD~VvT~g--Gi~G~V~~I~-d~~v~leia 68 (109)
T PRK05886 37 ESLQPGDRVHTTS--GLQATIVGIT-DDTVDLEIA 68 (109)
T ss_pred HhcCCCCEEEECC--CeEEEEEEEe-CCEEEEEEC
Confidence 5899999999876 333 344 367777775
No 62
>COG1868 FliM Flagellar motor switch protein [Cell motility and secretion]
Probab=36.84 E-value=82 Score=24.36 Aligned_cols=33 Identities=30% Similarity=0.385 Sum_probs=23.2
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEEE
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRFD 97 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~~ 97 (107)
...|++||||-...+ +.|++++.++|.-.+.+.
T Consensus 271 il~L~vGDVI~l~~~-------~~d~v~v~v~g~~~f~c~ 303 (332)
T COG1868 271 ILRLEVGDVIPLEKP-------ADDRVTVSVGGKPKFLCQ 303 (332)
T ss_pred HhCCCCCcEEECCCC-------CCceEEEEECCEEEEEEe
Confidence 578999999999885 456666666665444433
No 63
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=35.95 E-value=58 Score=17.22 Aligned_cols=18 Identities=17% Similarity=0.243 Sum_probs=14.3
Q ss_pred CCCCCEEEEEECceeEEE
Q 039682 78 VKAGQKTTAGIAGLLVVR 95 (107)
Q Consensus 78 l~~Gd~v~~~i~g~G~l~ 95 (107)
+++||.+++..++=|.+-
T Consensus 21 l~~Gd~v~i~~~~~g~i~ 38 (47)
T PF04014_consen 21 LKPGDEVEIEVEGDGKIV 38 (47)
T ss_dssp SSTTTEEEEEEETTSEEE
T ss_pred CCCCCEEEEEEeCCCEEE
Confidence 789999999998776443
No 64
>COG0146 HyuB N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=31.52 E-value=34 Score=28.39 Aligned_cols=42 Identities=21% Similarity=0.283 Sum_probs=28.3
Q ss_pred CCEEEEeec-----cchhccCHHHHHHHHHcCCccCCCCEEecCCCC
Q 039682 32 DREIRQQGS-----TKDMIFKIPYLISHISSIMTLFEGDVILTGSPQ 73 (107)
Q Consensus 32 nG~~~~~~~-----~~~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~ 73 (107)
+|.++..+. ++-|-..+.+++.+......|+||||+++=-|-
T Consensus 48 ~G~lVA~a~hipVHlGsM~~~vk~~i~~~~~~~~l~pGDV~~~NdPy 94 (563)
T COG0146 48 EGNLVAQAPHIPVHLGSMSVSVKAMIRNNKENPDLEPGDVFITNDPY 94 (563)
T ss_pred CCCeeccCCCCeEEecccHHHHHHHHHhhccCCCCCCCCEEEecCcc
Confidence 566666554 345555555666555446699999999998773
No 65
>PF12073 DUF3553: Protein of unknown function (DUF3553); InterPro: IPR021938 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 60 amino acids in length. This protein has two conserved sequence motifs: GQVQS and TVNF.
Probab=31.19 E-value=1e+02 Score=17.33 Aligned_cols=38 Identities=18% Similarity=0.215 Sum_probs=25.1
Q ss_pred cCCCCEEecCCCC--CCee--CCCCCEEEEEECceeEEEEEE
Q 039682 61 LFEGDVILTGSPQ--GVGP--VKAGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 61 L~~GdvI~TGt~~--g~~~--l~~Gd~v~~~i~g~G~l~~~v 98 (107)
|+|||+|.=-.-+ |.+. -..|++|++.|+.-|...+.-
T Consensus 1 l~pG~~VrHP~~pdWG~GqVqS~i~~rvTVnF~~aGK~vI~~ 42 (52)
T PF12073_consen 1 LEPGMLVRHPDHPDWGIGQVQSNIGGRVTVNFEHAGKKVIDG 42 (52)
T ss_pred CCCCCEEeCCCCCCCcceEEEEecCCeEEEeeccCCeEEEec
Confidence 5677777644322 3333 367899999999888765543
No 66
>KOG1939 consensus Oxoprolinase [Amino acid transport and metabolism]
Probab=31.17 E-value=1.8e+02 Score=25.81 Aligned_cols=70 Identities=16% Similarity=0.004 Sum_probs=46.5
Q ss_pred CCEEEEeec-cchhccCHHHHHHHHH--cCCccCCCCEEecCCCCCC-eeCCCCCEEEEEECceeEEEEEEEec
Q 039682 32 DREIRQQGS-TKDMIFKIPYLISHIS--SIMTLFEGDVILTGSPQGV-GPVKAGQKTTAGIAGLLVVRFDNKKR 101 (107)
Q Consensus 32 nG~~~~~~~-~~~m~~~~~~li~~ls--~~~~L~~GdvI~TGt~~g~-~~l~~Gd~v~~~i~g~G~l~~~v~~~ 101 (107)
+|-++..+. .--++++....|.|-. ++.+|++|||++|--|..- ..|..=..|+=.|++-+.+-|.|..+
T Consensus 771 dGgLVANAPHvPvhLGsMqt~V~~Q~k~~~~kLk~GDVlltNHP~aGG~HLPDiTvITPvF~~~~~~vF~vAsR 844 (1247)
T KOG1939|consen 771 DGGLVANAPHVPVHLGSMQTTVKWQLKHWGEKLKPGDVLLTNHPSAGGSHLPDITVITPVFDKGHEPVFFVASR 844 (1247)
T ss_pred CCCeeccCCCCceeecchHHHHHHHHHHhccCCCCCcEEEecCCCCCCccCCCceEEeeeecCCCcEEEEEecc
Confidence 455555443 3455666777777766 4689999999999998522 23555556666777666777777643
No 67
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=30.84 E-value=33 Score=19.17 Aligned_cols=13 Identities=38% Similarity=0.593 Sum_probs=6.5
Q ss_pred CCccCCCCEEecC
Q 039682 58 IMTLFEGDVILTG 70 (107)
Q Consensus 58 ~~~L~~GdvI~TG 70 (107)
.+.|+.||+|.-|
T Consensus 56 ~~~L~~gd~i~~G 68 (68)
T PF00498_consen 56 PVPLKDGDIIRFG 68 (68)
T ss_dssp EEEE-TTEEEEET
T ss_pred EEECCCCCEEEcC
Confidence 4556666665443
No 68
>PF14908 DUF4496: Domain of unknown function (DUF4496)
Probab=30.74 E-value=63 Score=21.17 Aligned_cols=19 Identities=21% Similarity=0.426 Sum_probs=17.0
Q ss_pred CCCCCEEEEEECceeEEEEE
Q 039682 78 VKAGQKTTAGIAGLLVVRFD 97 (107)
Q Consensus 78 l~~Gd~v~~~i~g~G~l~~~ 97 (107)
++.|..|+++| |+|.+.+.
T Consensus 114 l~~~~~v~i~f-gvG~L~~~ 132 (140)
T PF14908_consen 114 LRNGQNVEIDF-GVGVLSIR 132 (140)
T ss_pred HhCCCeEEEEE-eEEEEEEE
Confidence 77899999999 99998875
No 69
>PRK08983 fliN flagellar motor switch protein; Validated
Probab=30.68 E-value=1.6e+02 Score=19.46 Aligned_cols=28 Identities=25% Similarity=0.401 Sum_probs=18.3
Q ss_pred CccCCCCEEecCCCCCCeeCCCCCEEEEEECceeE
Q 039682 59 MTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLV 93 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~ 93 (107)
..|++||||....+ ..+.+.+.++|.-.
T Consensus 70 L~L~~GDVI~Ld~~-------~ddpv~v~Vng~~~ 97 (127)
T PRK08983 70 LQLNQGSVVELDRV-------AGEPLDVMVNGTLI 97 (127)
T ss_pred hCCCCCCEEEeCCC-------CCCCEEEEECCEEE
Confidence 48999999998663 34445555555433
No 70
>COG1261 FlgA Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=30.67 E-value=79 Score=23.01 Aligned_cols=54 Identities=22% Similarity=0.228 Sum_probs=40.3
Q ss_pred hhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEEEE
Q 039682 43 DMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 43 ~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~~v 98 (107)
++..++.+++-.+|+ .+|.||++|..=.-.-.--++.|+.|.+-+++= .++++.
T Consensus 128 ~~~~d~~~vvg~vsk-r~l~pg~~i~~~~lr~~~lV~rg~~V~~v~~~g-gi~i~~ 181 (220)
T COG1261 128 GYVLDPDEVVGKVSK-RTLLPGQPILASMLRQAWLVKRGQIVTVVAEGG-GISITA 181 (220)
T ss_pred cccCCHHHHhcHHhh-hccCCCCEecHHHhccceeEecCCEEEEEEeCC-CEEEEE
Confidence 566788999888875 478999999877766666789999998887653 344433
No 71
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=30.28 E-value=1.1e+02 Score=17.30 Aligned_cols=29 Identities=24% Similarity=0.384 Sum_probs=22.6
Q ss_pred ccCCCCEEecCCCCCCeeCCCCCEEEEEECc
Q 039682 60 TLFEGDVILTGSPQGVGPVKAGQKTTAGIAG 90 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g 90 (107)
+++.||+|+.-+..- .++.||.+-+..++
T Consensus 13 ~i~~gd~v~i~~~~~--~~~~G~iv~~~~~~ 41 (84)
T cd06462 13 TIPDGDLVLVDKSSY--EPKRGDIVVFRLPG 41 (84)
T ss_pred cccCCCEEEEEecCC--CCcCCEEEEEEcCC
Confidence 488999998776322 47899999888887
No 72
>PF11064 DUF2865: Protein of unknown function (DUF2865); InterPro: IPR021293 This bacterial family of proteins has no known function.
Probab=30.07 E-value=26 Score=22.92 Aligned_cols=15 Identities=40% Similarity=0.490 Sum_probs=11.8
Q ss_pred HHcCCccCCCCEEec
Q 039682 55 ISSIMTLFEGDVILT 69 (107)
Q Consensus 55 ls~~~~L~~GdvI~T 69 (107)
+....+|++||||.|
T Consensus 99 ~~~~~t~~~GDivvt 113 (116)
T PF11064_consen 99 ADSDPTLRKGDIVVT 113 (116)
T ss_pred cccccccccCCEecC
Confidence 345679999999987
No 73
>TIGR02084 leud 3-isopropylmalate dehydratase, small subunit. Several pairs of archaeal proteins resemble the leuC and leuD pair in length and sequence but even more closely resemble the respective domains of homoaconitase, and their identity is uncertain. The members of the seed for this model are those sequences which are gene clustered with other genes involved in leucine biosynthesis and include some archaea.
Probab=29.61 E-value=83 Score=21.57 Aligned_cols=16 Identities=44% Similarity=0.821 Sum_probs=12.3
Q ss_pred cCCCCEEecCCCCCCe
Q 039682 61 LFEGDVILTGSPQGVG 76 (107)
Q Consensus 61 L~~GdvI~TGt~~g~~ 76 (107)
+++||||..|-=.|++
T Consensus 45 ~~~g~iiVaG~NFG~G 60 (156)
T TIGR02084 45 VKEGDIIVAGENFGCG 60 (156)
T ss_pred cCCCCEEEccCcccCC
Confidence 5788888888876666
No 74
>TIGR01718 Uridine-psphlse uridine phosphorylase. Sequences from Clostridium, Streptomyces, Treponema, Halobacterium and Pyrobaculum were included above trusted on the basis of sequence homology and a PAM-based neighbor-joining tree. A clade including second sequences from Halobacterium and Vibrio was somewhat more distantly related and may represent a slightly different substrate specificity - these were placed below the noise cutoff. More distantly related is a clade of archaeal sequences which as related to the DeoD family of inosine phosphorylases (TIGR00107) as they are to these uridine phosphorylases. This clade includes a characterized protein from Sulfolobus solfataricus which has been mis-named as a methylthioadenosine phosphorylase, but which acts on inosine and guanosine - it is unclear whether uridine has been evaluated as a substrate.
Probab=29.50 E-value=2.2e+02 Score=20.56 Aligned_cols=26 Identities=19% Similarity=0.330 Sum_probs=21.3
Q ss_pred cCCCCEEecCCCCCCee-CCCCCEEEE
Q 039682 61 LFEGDVILTGSPQGVGP-VKAGQKTTA 86 (107)
Q Consensus 61 L~~GdvI~TGt~~g~~~-l~~Gd~v~~ 86 (107)
+.+--+|.+||+.+..+ +++||.|-.
T Consensus 77 ~g~~~iIr~GtaG~l~~~~~~GDiVI~ 103 (245)
T TIGR01718 77 LGARTFIRVGTTGAIQPHINVGDVLIT 103 (245)
T ss_pred hCCCEEEEeeccccCCCCCCCCCEEEe
Confidence 46778999999998864 899998754
No 75
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=28.78 E-value=66 Score=24.93 Aligned_cols=39 Identities=26% Similarity=0.212 Sum_probs=30.5
Q ss_pred CCEEecCCCCCCeeCCCCCEEEEEECceeEEEEEEEeccCC
Q 039682 64 GDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRFDNKKRRRP 104 (107)
Q Consensus 64 GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~~v~~~~~~ 104 (107)
|.||..|+ .+.-+++||+|-..-.++|+.+......++.
T Consensus 87 ~eVv~vGs--~vkgfk~Gd~VIp~~a~lGtW~t~~v~~e~~ 125 (354)
T KOG0025|consen 87 GEVVAVGS--NVKGFKPGDWVIPLSANLGTWRTEAVFSESD 125 (354)
T ss_pred EEEEEecC--CcCccCCCCeEeecCCCCccceeeEeecccc
Confidence 67888887 4444899999988888999998887765543
No 76
>PRK11507 ribosome-associated protein; Provisional
Probab=28.62 E-value=39 Score=20.21 Aligned_cols=14 Identities=7% Similarity=0.159 Sum_probs=11.0
Q ss_pred cCCccCCCCEEecC
Q 039682 57 SIMTLFEGDVILTG 70 (107)
Q Consensus 57 ~~~~L~~GdvI~TG 70 (107)
|+..|++||+|.-.
T Consensus 49 RgkKl~~GD~V~~~ 62 (70)
T PRK11507 49 KRCKIVAGQTVSFA 62 (70)
T ss_pred cCCCCCCCCEEEEC
Confidence 67889999998654
No 77
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=28.42 E-value=2e+02 Score=19.83 Aligned_cols=13 Identities=23% Similarity=0.253 Sum_probs=11.2
Q ss_pred eEEEEEECCEEEE
Q 039682 25 FELWLKVDREIRQ 37 (107)
Q Consensus 25 ~~~~l~vnG~~~~ 37 (107)
..+++++||+.++
T Consensus 2 ~~i~ltvNG~~~~ 14 (156)
T COG2080 2 MPITLTVNGEPVE 14 (156)
T ss_pred CcEEEEECCeEEE
Confidence 4689999999887
No 78
>PRK09974 putative regulator PrlF; Provisional
Probab=28.01 E-value=1.1e+02 Score=19.96 Aligned_cols=24 Identities=13% Similarity=-0.190 Sum_probs=17.8
Q ss_pred eCCCCCEEEEEECceeEEEEEEEe
Q 039682 77 PVKAGQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 77 ~l~~Gd~v~~~i~g~G~l~~~v~~ 100 (107)
-+++||+|+..+..=|.+.+.-..
T Consensus 31 gl~~GdkI~f~i~~dG~V~i~~~~ 54 (111)
T PRK09974 31 KLKKRDSIHYEILPGGQVFICRLG 54 (111)
T ss_pred CCCCCCEEEEEEeCCCEEEEEECC
Confidence 389999999988776766665443
No 79
>TIGR02087 LEUD_arch 3-isopropylmalate dehydratase, small subunit. This subfamily is most closely related to the 3-isopropylmalate dehydratase, small subunits which form TIGR00171. This subfamily includes the members of TIGR02084 which are gene clustered with other genes of leucine biosynthesis. The rest of the subfamily includes mainly archaeal species which exhibit two hits to this model. In these cases it is possible that one or the other of the hits does not have a 3-isopropylmalate dehydratase activity but rather one of the other related aconitase-like activities.
Probab=27.72 E-value=1e+02 Score=21.09 Aligned_cols=17 Identities=41% Similarity=0.700 Sum_probs=12.2
Q ss_pred ccCCCCEEecCCCCCCe
Q 039682 60 TLFEGDVILTGSPQGVG 76 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~ 76 (107)
..++||||.+|.=.|.+
T Consensus 44 ~~~~g~iiVaG~NFG~G 60 (154)
T TIGR02087 44 KVRPGDVIVAGKNFGCG 60 (154)
T ss_pred cCCCCcEEEcCCcccCC
Confidence 46678888888776666
No 80
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=27.69 E-value=57 Score=19.04 Aligned_cols=23 Identities=13% Similarity=-0.018 Sum_probs=14.2
Q ss_pred eCCCCCEEEEEECceeEEEEEEE
Q 039682 77 PVKAGQKTTAGIAGLLVVRFDNK 99 (107)
Q Consensus 77 ~l~~Gd~v~~~i~g~G~l~~~v~ 99 (107)
.+++||+|++++...+.-+..|.
T Consensus 42 ~l~~Gd~V~F~~~~~~~~~~~I~ 64 (70)
T PF11604_consen 42 GLKPGDKVRFTFERTDDGSYVIT 64 (70)
T ss_dssp S-STT-EEEEEEEEETTCEEEEE
T ss_pred cCCCCCEEEEEEEECCCCcEEEE
Confidence 48999999999876544434443
No 81
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=27.55 E-value=46 Score=18.93 Aligned_cols=25 Identities=16% Similarity=0.146 Sum_probs=11.4
Q ss_pred eeCCCCCEEEEEECceeEEEEEEEe
Q 039682 76 GPVKAGQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 76 ~~l~~Gd~v~~~i~g~G~l~~~v~~ 100 (107)
+|+++||+|+++=..=-..++.+..
T Consensus 4 Gpf~~GdrVQlTD~Kgr~~Ti~L~~ 28 (54)
T PF14801_consen 4 GPFRAGDRVQLTDPKGRKHTITLEP 28 (54)
T ss_dssp -S--TT-EEEEEETT--EEEEE--T
T ss_pred CCCCCCCEEEEccCCCCeeeEEECC
Confidence 5789999999876544344444443
No 82
>PRK14697 bifunctional 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase/phosphatase; Provisional
Probab=27.53 E-value=59 Score=23.34 Aligned_cols=28 Identities=29% Similarity=0.395 Sum_probs=23.0
Q ss_pred ccCCCCEEecCCCCCCee-CCCCCEEEEE
Q 039682 60 TLFEGDVILTGSPQGVGP-VKAGQKTTAG 87 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~-l~~Gd~v~~~ 87 (107)
.++|--||.+|++.+..+ ++.||.|-.+
T Consensus 66 ~f~~~~II~~G~AG~l~~~l~iGDvVi~~ 94 (233)
T PRK14697 66 KFDVDAIINTGVAGGLHPDVKVGDIVIST 94 (233)
T ss_pred hcCCCEEEEEecccCCCCCCCcCCEEEEC
Confidence 457899999999988864 8999988664
No 83
>PRK05698 fliN flagellar motor switch protein; Validated
Probab=27.39 E-value=2.1e+02 Score=19.68 Aligned_cols=28 Identities=29% Similarity=0.398 Sum_probs=18.8
Q ss_pred CccCCCCEEecCCCCCCeeCCCCCEEEEEECceeE
Q 039682 59 MTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLV 93 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~ 93 (107)
..|++||||.... ..++.+.+.++|.-.
T Consensus 98 L~L~~GDVI~Ldk-------~~~epv~V~VnG~~~ 125 (155)
T PRK05698 98 LQLNQGSVIELDR-------LAGEPLDVLVNGTLI 125 (155)
T ss_pred hCCCCCCEEEeCC-------CCCCCEEEEECCEEE
Confidence 4899999999865 344455566655433
No 84
>COG0776 HimA Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]
Probab=27.38 E-value=65 Score=20.27 Aligned_cols=21 Identities=10% Similarity=0.347 Sum_probs=16.8
Q ss_pred CCCCCEEEEEECceeEEEEEEEe
Q 039682 78 VKAGQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 78 l~~Gd~v~~~i~g~G~l~~~v~~ 100 (107)
|..|++|+ +.|+|++++.-+.
T Consensus 37 L~~G~~V~--l~gFG~F~v~~R~ 57 (94)
T COG0776 37 LAKGERVE--LRGFGTFEVRERA 57 (94)
T ss_pred HHcCCeEE--EeeeeeeEeeccC
Confidence 77888875 5899998888765
No 85
>PRK11479 hypothetical protein; Provisional
Probab=27.08 E-value=1e+02 Score=23.19 Aligned_cols=14 Identities=29% Similarity=0.418 Sum_probs=11.2
Q ss_pred CccCCCCEEecCCC
Q 039682 59 MTLFEGDVILTGSP 72 (107)
Q Consensus 59 ~~L~~GdvI~TGt~ 72 (107)
-.|+|||+|++.|.
T Consensus 63 ~~LqpGDLVFfst~ 76 (274)
T PRK11479 63 PDLKPGDLLFSSSL 76 (274)
T ss_pred hhCCCCCEEEEecC
Confidence 37999999997543
No 86
>PF02538 Hydantoinase_B: Hydantoinase B/oxoprolinase; InterPro: IPR003692 An appreciable fraction of the sulphur present in mammals occurs in the form of glutathione. The synthesis of glutathione and its utilization take place by the reactions of the gamma-glutamyl cycle, which include those catalysed by gamma-glutamylcysteine and glutathione synthetases, gamma-glutamyl transpeptidase, cysteinylglycinase, gamma-glutamyl cyclotransferease, and 5-oxoprolinase []. This family includes N-methylhydantoinase B which converts hydantoin to N-carbamyl-amino acids, and 5-oxoprolinase 3.5.2.9 from EC which catalyses the formation of L-glutamate from 5-oxo-L-proline. These enzymes are part of the oxoprolinase family and are related to hydantoinase_A.; GO: 0003824 catalytic activity
Probab=27.02 E-value=49 Score=26.92 Aligned_cols=43 Identities=21% Similarity=0.306 Sum_probs=26.3
Q ss_pred ECCEEEEeeccc-hhccCHHHHHHHHHcC--CccCCCCEEecCCCC
Q 039682 31 VDREIRQQGSTK-DMIFKIPYLISHISSI--MTLFEGDVILTGSPQ 73 (107)
Q Consensus 31 vnG~~~~~~~~~-~m~~~~~~li~~ls~~--~~L~~GdvI~TGt~~ 73 (107)
-+|+.+..+..- -.+......|.++.++ ..|++|||+++==|-
T Consensus 46 ~~G~~va~~~~ip~h~~~~~~~v~~~~~~~~~~i~~GDv~i~NDPy 91 (527)
T PF02538_consen 46 ADGRLVAQSEGIPVHVGSMPFAVKAILEYFEDGIRPGDVFITNDPY 91 (527)
T ss_pred CCCCeEEcCCCCcEEEechHHHHHHHHHhccCCCCCCCEEEEcCcc
Confidence 477777665422 1233444555544432 399999999998773
No 87
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=26.30 E-value=1.6e+02 Score=18.18 Aligned_cols=10 Identities=20% Similarity=0.527 Sum_probs=4.8
Q ss_pred CCccCCCCEE
Q 039682 58 IMTLFEGDVI 67 (107)
Q Consensus 58 ~~~L~~GdvI 67 (107)
...|+.||.|
T Consensus 42 ~lgi~~Gd~V 51 (116)
T cd02786 42 ARGIADGDLV 51 (116)
T ss_pred HcCCCCCCEE
Confidence 3445555544
No 88
>PRK15450 signal transduction protein PmrD; Provisional
Probab=26.21 E-value=60 Score=20.04 Aligned_cols=23 Identities=22% Similarity=0.193 Sum_probs=18.3
Q ss_pred cCHHHHHHHHHcCCccCCCCEEe
Q 039682 46 FKIPYLISHISSIMTLFEGDVIL 68 (107)
Q Consensus 46 ~~~~~li~~ls~~~~L~~GdvI~ 68 (107)
+...++|+.+-....|++||++.
T Consensus 25 ggaLkMIAEv~s~~~l~~gDlLs 47 (85)
T PRK15450 25 GGALKMIAEVKSDFALKVGDLLS 47 (85)
T ss_pred CchHHHHHHHhhccccCcccccc
Confidence 44567888887789999999975
No 89
>cd01674 Homoaconitase_Swivel Homoaconitase swivel domain. This family includes homoaconitase and other uncharacterized proteins of the Aconitase family. Homoaconitase is part of an unusual lysine biosynthesis pathway found only in filamentous fungi, in which lysine is synthesized via the alpha-aminoadipate pathway. In this pathway, homoaconitase catalyzes the conversion of cis-homoaconitic acid into homoisocitric acid. The reaction mechanism is believed to be similar to that of other aconitases. This is the swivel domain, which is believed to undergo swivelling conformational change in the enzyme mechanism.
Probab=26.14 E-value=1.1e+02 Score=20.45 Aligned_cols=31 Identities=16% Similarity=0.228 Sum_probs=23.0
Q ss_pred CHHHHHHHHHcC------CccCCCCEEecCCCCCCee
Q 039682 47 KIPYLISHISSI------MTLFEGDVILTGSPQGVGP 77 (107)
Q Consensus 47 ~~~~li~~ls~~------~~L~~GdvI~TGt~~g~~~ 77 (107)
+++++-.|+-++ -.+++||||.+|--.|++.
T Consensus 23 ~~e~la~~~~e~~dp~f~~~v~~gdilVaG~nFG~GS 59 (129)
T cd01674 23 TPEKMAEVCMENYDSEFSTKTKQGDILVSGFNFGTGS 59 (129)
T ss_pred CHHHHHHhhcccCCchhhhcCCCCCEEEeCCccCCCC
Confidence 566666666432 4588999999999888773
No 90
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=26.08 E-value=1.6e+02 Score=17.95 Aligned_cols=20 Identities=15% Similarity=0.154 Sum_probs=8.5
Q ss_pred CCCCCEEEEEECceeEEEEEE
Q 039682 78 VKAGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 78 l~~Gd~v~~~i~g~G~l~~~v 98 (107)
++.||.|+++-+ .|++.+++
T Consensus 49 i~~Gd~V~v~~~-~G~~~~~v 68 (116)
T cd02790 49 IEDGEKVRVSSR-RGSVEVRA 68 (116)
T ss_pred CCCCCEEEEEcC-CEEEEEEE
Confidence 444555544432 24444433
No 91
>TIGR02480 fliN flagellar motor switch protein FliN. Proteins that consist largely of the domain described by this model can be designated flagellar motor switch protein FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside the scope of this family, are associated with type III secretion and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.
Probab=25.86 E-value=1.5e+02 Score=17.43 Aligned_cols=12 Identities=42% Similarity=0.365 Sum_probs=10.7
Q ss_pred ccCCCCEEecCC
Q 039682 60 TLFEGDVILTGS 71 (107)
Q Consensus 60 ~L~~GdvI~TGt 71 (107)
.|++||+|....
T Consensus 28 ~L~~Gdvi~L~~ 39 (77)
T TIGR02480 28 KLGEGSVIELDK 39 (77)
T ss_pred cCCCCCEEEcCC
Confidence 899999999875
No 92
>smart00207 TNF Tumour necrosis factor family. Family of cytokines that form homotrimeric or heterotrimeric complexes. TNF mediates mature T-cell receptor-induced apoptosis through the p75 TNF receptor.
Probab=25.81 E-value=78 Score=20.35 Aligned_cols=23 Identities=22% Similarity=0.413 Sum_probs=17.9
Q ss_pred CCCeeCCCCCEEEEEECceeEEE
Q 039682 73 QGVGPVKAGQKTTAGIAGLLVVR 95 (107)
Q Consensus 73 ~g~~~l~~Gd~v~~~i~g~G~l~ 95 (107)
.|+..|++||++.+.+.....++
T Consensus 90 ggvf~L~~gD~L~v~v~~~~~v~ 112 (125)
T smart00207 90 GGLFPLTAGDRLSVNVTEPSLVD 112 (125)
T ss_pred eeEEEecCCCEEEEEeCCCceEe
Confidence 46778999999999888765443
No 93
>smart00675 DM11 Domains in hypothetical proteins in Drosophila including 2 in CG15241 and CG9329.
Probab=25.20 E-value=53 Score=22.76 Aligned_cols=29 Identities=10% Similarity=0.187 Sum_probs=24.1
Q ss_pred cCCCCEEecCCCCCCeeCCCCCEEEEEEC
Q 039682 61 LFEGDVILTGSPQGVGPVKAGQKTTAGIA 89 (107)
Q Consensus 61 L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~ 89 (107)
...+-|-++|..+-.-.++|+|+|++.+.
T Consensus 39 ~d~~~i~vsGn~t~~wdi~P~DrI~~~~~ 67 (164)
T smart00675 39 MDPDGLHISGNITVIWDVQPTDRISARVS 67 (164)
T ss_pred EcCCeEEEeeeEEEEEecCCCCeEEEEEE
Confidence 36677889999888778999999998774
No 94
>PF10262 Rdx: Rdx family; InterPro: IPR011893 This entry represents the Rdx family of selenoproteins, which includes mammalian selenoproteins SelW, SelV, SelT and SelH, bacterial SelW-like proteins and cysteine-containing proteins of unknown function in all three domains of life. Mammalian Rdx12 and its fish selenoprotein orthologues are also members of this family []. These proteins possess a thioredoxin-like fold and a conserved CXXC or CxxU (U is selenocysteine) motif near the N terminus, suggesting a redox function. Rdx proteins can use catalytic cysteine (or selenocysteine) to form transient mixed disulphides with substrate proteins. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins. Selenoprotein W (SelW) plays an important role in protection of neurons from oxidative stress during neuronal development [], []. Selenoprotein T (SelT) is conserved from plants to humans. SelT is localized to the endoplasmic reticulum through a hydrophobic domain. The protein binds to UDP-glucose:glycoprotein glucosyltransferase (UGTR), the endoplasmic reticulum (ER)-resident protein, which is known to be involved in the quality control of protein folding [, ]. The function of SelT is unknown, although it may have a role in PACAP signaling during PC12 cell differentiation [, ]. Selenoprotein H (SelH) protects neurons against UVB-induced damage by inhibiting apoptotic cell death pathways, by preventing mitochondrial depolarization, and by promoting cell survival pathways [].; GO: 0008430 selenium binding, 0045454 cell redox homeostasis; PDB: 2OJL_B 2FA8_A 2P0G_C 2NPB_A 3DEX_C 2OKA_A 2OBK_G.
Probab=25.19 E-value=1.5e+02 Score=17.33 Aligned_cols=32 Identities=9% Similarity=-0.037 Sum_probs=20.9
Q ss_pred ceEEEEEECCEEEEeeccchhccCHHHHHHHH
Q 039682 24 NFELWLKVDREIRQQGSTKDMIFKIPYLISHI 55 (107)
Q Consensus 24 ~~~~~l~vnG~~~~~~~~~~m~~~~~~li~~l 55 (107)
.-.+++++||+++.+--...-.-++.+++..+
T Consensus 42 ~G~FEV~v~g~lI~SK~~~g~fP~~~~i~~~I 73 (76)
T PF10262_consen 42 TGAFEVTVNGELIFSKLESGRFPDPDEIVQLI 73 (76)
T ss_dssp TT-EEEEETTEEEEEHHHHTSSS-HHHHHHHH
T ss_pred CCEEEEEEccEEEEEehhcCCCCCHHHHHHHH
Confidence 34588999999988766555555666666544
No 95
>PRK06804 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=25.11 E-value=61 Score=24.09 Aligned_cols=45 Identities=11% Similarity=-0.096 Sum_probs=32.1
Q ss_pred cCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEECce
Q 039682 46 FKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGL 91 (107)
Q Consensus 46 ~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~ 91 (107)
.++.+++-+. --.+|.+|++|..---..+..++.||.|.+.+++=
T Consensus 172 td~~~viG~~-~rR~l~aGq~I~~~~L~~p~lV~rG~~V~Iva~~g 216 (261)
T PRK06804 172 TDPDEAIGLT-IKRRIRQLQAVIPSQLEQPVLVERGQHVLMIAAQD 216 (261)
T ss_pred CCHHHhcCce-EEeecCCCCeECHHHcCCCcEEecCCEEEEEEecC
Confidence 3344443322 24678899999888877777899999999988643
No 96
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=24.69 E-value=1.1e+02 Score=18.26 Aligned_cols=18 Identities=6% Similarity=-0.027 Sum_probs=12.9
Q ss_pred eEEEEEECCEEEEeeccc
Q 039682 25 FELWLKVDREIRQQGSTK 42 (107)
Q Consensus 25 ~~~~l~vnG~~~~~~~~~ 42 (107)
-.++++|||+.+.-....
T Consensus 2 ~~v~i~idG~~v~~~~G~ 19 (82)
T PF13510_consen 2 KMVTITIDGKPVEVPPGE 19 (82)
T ss_dssp EEEEEEETTEEEEEEET-
T ss_pred CEEEEEECCEEEEEcCCC
Confidence 368999999987655433
No 97
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=24.56 E-value=1e+02 Score=18.04 Aligned_cols=21 Identities=10% Similarity=0.311 Sum_probs=16.5
Q ss_pred CCCCCEEEEEECceeEEEEEEEe
Q 039682 78 VKAGQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 78 l~~Gd~v~~~i~g~G~l~~~v~~ 100 (107)
|..|. ++.+.|+|++.+..+.
T Consensus 35 L~~g~--~V~l~~~G~F~~~~~~ 55 (87)
T cd00591 35 LAKGE--KVELPGFGTFEVRERA 55 (87)
T ss_pred HhCCC--eEEEeCCEEEEEEEEC
Confidence 66777 4577899999998875
No 98
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=24.45 E-value=30 Score=18.75 Aligned_cols=14 Identities=29% Similarity=0.382 Sum_probs=9.0
Q ss_pred HcCCccCCCCEEec
Q 039682 56 SSIMTLFEGDVILT 69 (107)
Q Consensus 56 s~~~~L~~GdvI~T 69 (107)
..+...++||+|++
T Consensus 19 ~~G~~VkkGd~L~~ 32 (50)
T PF13533_consen 19 KEGQQVKKGDVLLV 32 (50)
T ss_pred cCCCEEcCCCEEEE
Confidence 35666777777764
No 99
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=24.35 E-value=53 Score=20.27 Aligned_cols=11 Identities=9% Similarity=0.235 Sum_probs=6.6
Q ss_pred eCCCCCEEEEE
Q 039682 77 PVKAGQKTTAG 87 (107)
Q Consensus 77 ~l~~Gd~v~~~ 87 (107)
.|+.|||||+.
T Consensus 61 ~L~~GDRVEIY 71 (84)
T PF03658_consen 61 VLRDGDRVEIY 71 (84)
T ss_dssp B--TT-EEEEE
T ss_pred cCCCCCEEEEe
Confidence 58999999975
No 100
>PRK06714 S-adenosylhomocysteine nucleosidase; Validated
Probab=24.33 E-value=72 Score=23.07 Aligned_cols=26 Identities=23% Similarity=0.342 Sum_probs=21.6
Q ss_pred cCCCCEEecCCCCCCee-CCCCCEEEE
Q 039682 61 LFEGDVILTGSPQGVGP-VKAGQKTTA 86 (107)
Q Consensus 61 L~~GdvI~TGt~~g~~~-l~~Gd~v~~ 86 (107)
+.|.-||.+|++.+..+ ++.||.|-.
T Consensus 67 f~~~~IIn~G~aG~l~~~l~iGDvVi~ 93 (236)
T PRK06714 67 FQPDELFMTGICGSLSNKVKNGHIVVA 93 (236)
T ss_pred CCCCEEEEEEcccCCCCCCCCCCEEEE
Confidence 46788999999988774 889998876
No 101
>TIGR01700 PNPH purine nucleoside phosphorylase I, inosine and guanosine-specific. Several metazoan enzymes (PNPH) are well characterized including the human and bovine enzymes which have been crystallized.
Probab=24.05 E-value=2.9e+02 Score=20.07 Aligned_cols=27 Identities=22% Similarity=0.354 Sum_probs=21.1
Q ss_pred ccCCCCEEecCCCCCCee-CCCCCEEEE
Q 039682 60 TLFEGDVILTGSPQGVGP-VKAGQKTTA 86 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~-l~~Gd~v~~ 86 (107)
.+.+-.||.||+..+..+ +++||.|-.
T Consensus 80 ~~gv~~II~~gsaGsl~~~l~~GDiVi~ 107 (249)
T TIGR01700 80 LLGVETLVVTNAAGGINPEFKVGDLMLI 107 (249)
T ss_pred HcCCCEEEEecccccCCCCCCCCCEEEE
Confidence 456667999999988876 889997754
No 102
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=23.93 E-value=78 Score=17.91 Aligned_cols=14 Identities=14% Similarity=0.520 Sum_probs=7.0
Q ss_pred eCCCCCEEEEEECce
Q 039682 77 PVKAGQKTTAGIAGL 91 (107)
Q Consensus 77 ~l~~Gd~v~~~i~g~ 91 (107)
.+++||.+ +.++|.
T Consensus 43 gl~~GD~I-~~ing~ 56 (82)
T cd00992 43 GLRVGDRI-LEVNGV 56 (82)
T ss_pred CCCCCCEE-EEECCE
Confidence 35555544 355543
No 103
>TIGR01697 PNPH-PUNA-XAPA inosine guanosine and xanthosine phosphorylase family. Sequences from Clostridium and Thermotoga fall between these last two clades and are uncharacterized with respect to substrate range and operon.
Probab=23.91 E-value=2.8e+02 Score=19.98 Aligned_cols=29 Identities=21% Similarity=0.253 Sum_probs=23.5
Q ss_pred CccCCCCEEecCCCCCCee-CCCCCEEEEE
Q 039682 59 MTLFEGDVILTGSPQGVGP-VKAGQKTTAG 87 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~~-l~~Gd~v~~~ 87 (107)
..+.+-.+|.+||+.+..+ +++||.|-.+
T Consensus 79 ~~~Gv~~II~~GsaGsl~~~l~~GDiVI~~ 108 (248)
T TIGR01697 79 KLLGVEILVVTNAAGGLNPDFKPGDLMIIK 108 (248)
T ss_pred HHcCCCEEEEecccccCCCCCCCCCEEEEh
Confidence 3678889999999988876 8999987553
No 104
>PRK14447 acylphosphatase; Provisional
Probab=23.76 E-value=88 Score=19.38 Aligned_cols=11 Identities=18% Similarity=0.299 Sum_probs=4.8
Q ss_pred CCCCEEEEEEC
Q 039682 79 KAGQKTTAGIA 89 (107)
Q Consensus 79 ~~Gd~v~~~i~ 89 (107)
..|++|++.++
T Consensus 40 ~dG~~Vei~~q 50 (95)
T PRK14447 40 SDGRTVEAVLE 50 (95)
T ss_pred CCCCEEEEEEE
Confidence 34434444443
No 105
>COG3862 Uncharacterized protein with conserved CXXC pairs [Function unknown]
Probab=23.58 E-value=87 Score=20.39 Aligned_cols=63 Identities=22% Similarity=0.244 Sum_probs=34.9
Q ss_pred CCcccCccccCCCCCCCcceEE-EEEE-CCEEEE-eeccchhc--cCHHHHHHHHHc---CCccCCCCEEe
Q 039682 6 TFTPISSVLPKSAVPDPYNFEL-WLKV-DREIRQ-QGSTKDMI--FKIPYLISHISS---IMTLFEGDVIL 68 (107)
Q Consensus 6 ~~~~~Gp~i~~~~~~~~~~~~~-~l~v-nG~~~~-~~~~~~m~--~~~~~li~~ls~---~~~L~~GdvI~ 68 (107)
+.||=|.....+++-++...-. .+++ ||+..- .=-+..++ --+.++...+++ ..+.+.||+|.
T Consensus 28 n~CPRG~ey~~~Ei~~pkrvvts~VrV~ng~~~~vpVKT~kPIpKel~~elmk~l~~l~v~aPVK~GDvV~ 98 (117)
T COG3862 28 NRCPRGVEYGKEEITSPKRVVTSTVRVKNGELPVVPVKTEKPIPKELIPELMKELSRLKVGAPVKIGDVVI 98 (117)
T ss_pred CcCCchhhhhHhhhcCcceEEEEEEEEcCCccceeecccCCCCCHHHhHHHHHHHHhheecCCeeeccEEe
Confidence 4566666655566656554433 3344 665322 22233222 224566666664 68899999987
No 106
>PRK11178 uridine phosphorylase; Provisional
Probab=23.54 E-value=3e+02 Score=20.03 Aligned_cols=55 Identities=13% Similarity=0.079 Sum_probs=33.2
Q ss_pred EEEECCEEEEeeccchhccCHH--HHHHHHHcCCccCCCCEEecCCCCCCe-eCCCCCEEEEE
Q 039682 28 WLKVDREIRQQGSTKDMIFKIP--YLISHISSIMTLFEGDVILTGSPQGVG-PVKAGQKTTAG 87 (107)
Q Consensus 28 ~l~vnG~~~~~~~~~~m~~~~~--~li~~ls~~~~L~~GdvI~TGt~~g~~-~l~~Gd~v~~~ 87 (107)
+.+++|+.+.-..++ ++.+. -.++++. .+.+--+|.+||+.+.. .++.||.|-.+
T Consensus 52 ~G~~~g~~v~v~~~G--iG~~~Aa~~~~eLi---~~g~~~iI~~GtaG~l~~~l~~GDvVI~~ 109 (251)
T PRK11178 52 RAELDGKPVIVCSTG--IGGPSTSIAVEELA---QLGVRTFLRIGTTGAIQPHINVGDVLVTT 109 (251)
T ss_pred EEEEcCEEEEEEecC--CCHHHHHHHHHHHH---HcCCCEEEEEeccccCCCCCCCCCEEEec
Confidence 346788754433322 22222 1223333 24688999999998886 48999987553
No 107
>PF14250 AbrB-like: AbrB-like transcriptional regulator
Probab=23.39 E-value=60 Score=19.49 Aligned_cols=12 Identities=17% Similarity=0.365 Sum_probs=7.5
Q ss_pred CCCCCEEEEEEC
Q 039682 78 VKAGQKTTAGIA 89 (107)
Q Consensus 78 l~~Gd~v~~~i~ 89 (107)
|+|||..++.+.
T Consensus 53 L~PGdEFeI~Lg 64 (71)
T PF14250_consen 53 LKPGDEFEIKLG 64 (71)
T ss_pred CCCCCEEEEEeC
Confidence 566666666654
No 108
>PRK06789 flagellar motor switch protein; Validated
Probab=23.25 E-value=1.1e+02 Score=18.40 Aligned_cols=20 Identities=15% Similarity=0.124 Sum_probs=16.4
Q ss_pred CcceEEEEEECCEEEEeecc
Q 039682 22 PYNFELWLKVDREIRQQGST 41 (107)
Q Consensus 22 ~~~~~~~l~vnG~~~~~~~~ 41 (107)
.....+.+++||+.+.+|..
T Consensus 39 ~~~epvdI~vNg~lia~GEv 58 (74)
T PRK06789 39 STKNTVRLMLENEEIGTGKI 58 (74)
T ss_pred cCCCCEEEEECCEEEeEEeE
Confidence 45677999999999998863
No 109
>PF04571 Lipin_N: lipin, N-terminal conserved region; InterPro: IPR007651 Mutations in the lipin gene lead to fatty liver dystrophy in mice. The protein has been shown to be phosphorylated by the TOR Ser/Thr protein kinases in response to insulin stimulation. This entry represents a conserved domain found at the N terminus of the member proteins [, ].
Probab=23.24 E-value=82 Score=20.52 Aligned_cols=34 Identities=12% Similarity=-0.003 Sum_probs=22.6
Q ss_pred cCCCCcccCcc-ccCCCCC--CCcceEEEEEECCEEE
Q 039682 3 GQDTFTPISSV-LPKSAVP--DPYNFELWLKVDREIR 36 (107)
Q Consensus 3 ~~d~~~~~Gp~-i~~~~~~--~~~~~~~~l~vnG~~~ 36 (107)
--||+.-..|| ++.-.+. ...+-.+++.|||+.+
T Consensus 35 q~DGs~~sSPFhVRFGk~~vl~~~ek~V~I~VNG~~~ 71 (110)
T PF04571_consen 35 QPDGSLKSSPFHVRFGKLGVLRPREKVVDIEVNGKPV 71 (110)
T ss_pred cCCCCEecCccEEEEcceeeecccCcEEEEEECCEEc
Confidence 34788888888 4443222 3456678899999875
No 110
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=23.09 E-value=55 Score=22.45 Aligned_cols=14 Identities=43% Similarity=0.760 Sum_probs=11.4
Q ss_pred eCCCCCEEEEEECc
Q 039682 77 PVKAGQKTTAGIAG 90 (107)
Q Consensus 77 ~l~~Gd~v~~~i~g 90 (107)
++++||.|++.|+.
T Consensus 58 pL~~Gq~VeiGi~E 71 (150)
T COG3086 58 PLEPGQKVELGIEE 71 (150)
T ss_pred cCCCCCEEEEccCc
Confidence 58999999988763
No 111
>PF02563 Poly_export: Polysaccharide biosynthesis/export protein; InterPro: IPR003715 The extracellular polysaccharide colanic acid (CA) is produced by species of the family Enterobacteriaceae. In Escherichia coli (strain K12) the CA cluster comprises 19 genes. The wzx gene encodes a protein with multiple transmembrane segments that may function in export of the CA repeat unit from the cytoplasm into the periplasm in a process analogous to O-unit export. The CA gene clusters may be involved in the export of polysaccharide from the cell [].; GO: 0015159 polysaccharide transmembrane transporter activity, 0015774 polysaccharide transport, 0016020 membrane; PDB: 2W8I_E 2W8H_E 2J58_D.
Probab=23.04 E-value=73 Score=18.91 Aligned_cols=18 Identities=11% Similarity=0.156 Sum_probs=9.5
Q ss_pred eCCCCCEEEEEECceeEE
Q 039682 77 PVKAGQKTTAGIAGLLVV 94 (107)
Q Consensus 77 ~l~~Gd~v~~~i~g~G~l 94 (107)
.+.|||++++.+-+.-.+
T Consensus 12 ~l~pGD~l~i~v~~~~~l 29 (82)
T PF02563_consen 12 RLGPGDVLRISVFGWPEL 29 (82)
T ss_dssp ---TT-EEEEEETT-HHH
T ss_pred EECCCCEEEEEEecCCCc
Confidence 478888888888665443
No 112
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=22.99 E-value=39 Score=19.82 Aligned_cols=13 Identities=31% Similarity=0.225 Sum_probs=7.1
Q ss_pred cCCccCCCCEEec
Q 039682 57 SIMTLFEGDVILT 69 (107)
Q Consensus 57 ~~~~L~~GdvI~T 69 (107)
|+..|++||+|..
T Consensus 45 rg~Kl~~GD~V~~ 57 (65)
T PF13275_consen 45 RGKKLRPGDVVEI 57 (65)
T ss_dssp SS----SSEEEEE
T ss_pred cCCcCCCCCEEEE
Confidence 6788899998865
No 113
>TIGR02219 phage_NlpC_fam putative phage cell wall peptidase, NlpC/P60 family. Members of this family show sequence similarity to members of the NlpC/P60 family described by Pfam model pfam00877 and by Anantharaman and Aravind (PubMed:12620121). The NlpC/P60 family includes a number of characterized bacterial cell wall hydrolases. Members of this related family are all found in prophage regions of bacterial genomes.
Probab=22.87 E-value=50 Score=21.66 Aligned_cols=12 Identities=25% Similarity=0.254 Sum_probs=10.0
Q ss_pred ccCCCCEEecCC
Q 039682 60 TLFEGDVILTGS 71 (107)
Q Consensus 60 ~L~~GdvI~TGt 71 (107)
.|+|||+|+..+
T Consensus 76 ~~qpGDlvff~~ 87 (134)
T TIGR02219 76 AAQPGDVLVFRW 87 (134)
T ss_pred cCCCCCEEEEee
Confidence 689999999753
No 114
>PRK12617 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=22.86 E-value=70 Score=23.05 Aligned_cols=35 Identities=11% Similarity=-0.033 Sum_probs=27.5
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECcee
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLL 92 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G 92 (107)
-.+|.+|+.|..---.....++.||.|.+...+=|
T Consensus 136 ~r~l~aGq~i~~~~L~~p~lV~rG~~V~I~a~~~g 170 (214)
T PRK12617 136 RRILPAGSLLSANDLVSQRLVRRGDTVPLVSRNGG 170 (214)
T ss_pred eeecCCCCeeCHHHcCCcceEcCCCEEEEEEecCC
Confidence 35788888888777666667999999999887543
No 115
>COG4754 Uncharacterized conserved protein [Function unknown]
Probab=22.81 E-value=90 Score=21.52 Aligned_cols=40 Identities=28% Similarity=0.305 Sum_probs=24.2
Q ss_pred ECCEEEEeeccchhccCHHHHH---HHHH--cCCccCCCCEEecC
Q 039682 31 VDREIRQQGSTKDMIFKIPYLI---SHIS--SIMTLFEGDVILTG 70 (107)
Q Consensus 31 vnG~~~~~~~~~~m~~~~~~li---~~ls--~~~~L~~GdvI~TG 70 (107)
+||+.=-..--..|-.++.+|. .-+| ...+++-||+|+|-
T Consensus 25 fnGraDl~~L~~e~~vdidDL~piv~ta~~Lglv~~e~GDiilT~ 69 (157)
T COG4754 25 FNGRADLPYLEKEMEVDIDDLMPIVETASLLGLVTAESGDIILTD 69 (157)
T ss_pred hCCcccchhHHHHhCCChhhHHHHHHHHHhcCceeccCCCEEEeh
Confidence 5665433333345555555544 3333 68999999999973
No 116
>TIGR01719 euk_UDPppase uridine phosphorylase. This model represents a clade of mainly eucaryotic uridine phosphorylases. Genes from human and mouse have been characterized. This enzyme is a member of the PHP/UDP subfamily (pfam01048) and is closely related to the bacterial uridine (TIGR01718) and inosine (TIGR00107) phosphorylase equivalogs. In addition to the eukaryotes, a gene from Mycobacterium leprae is included in this equivalog and may have resulted from lateral gene transfer.
Probab=22.74 E-value=3.3e+02 Score=20.31 Aligned_cols=57 Identities=14% Similarity=0.054 Sum_probs=33.6
Q ss_pred EEECCEEEEeeccc----hhccCHHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEE
Q 039682 29 LKVDREIRQQGSTK----DMIFKIPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAG 87 (107)
Q Consensus 29 l~vnG~~~~~~~~~----~m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~ 87 (107)
-+.+|..+--.+++ ++.--..+|+. +..++...+--+|-+||+.+. .++.||.|-.+
T Consensus 73 g~ykg~~V~v~stGIG~psaaI~~~ELi~-~~~~~~~~~~~IIRiGtaG~l-~i~iGDvVIat 133 (287)
T TIGR01719 73 AMYKVGPVLCVSHGMGIPSISIMLHELIK-LLYYARCKNPTFIRIGTSGGI-GVPPGTVVVSS 133 (287)
T ss_pred EEEccEEEEEEecCCCcchHHHHHHHHHH-hhhhcCCCCceEEEEeccccC-CCCCCCEEEEc
Confidence 35677765444433 12222223332 222445555579999999999 79999987543
No 117
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=22.74 E-value=1.4e+02 Score=18.64 Aligned_cols=40 Identities=20% Similarity=0.162 Sum_probs=25.5
Q ss_pred ccCCCCEEecCCCCCC----eeCCCCCEEEEEEC----ceeEEEEEEE
Q 039682 60 TLFEGDVILTGSPQGV----GPVKAGQKTTAGIA----GLLVVRFDNK 99 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~----~~l~~Gd~v~~~i~----g~G~l~~~v~ 99 (107)
.|.-|..|+.=.+.-+ .++.+||+|.+++. .-|.+..+.+
T Consensus 25 ~LenG~~vla~isGKmR~~rIrIl~GD~V~VE~spYDltkGRIiyR~~ 72 (87)
T PRK12442 25 TLENGVEVGAYASGRMRKHRIRILAGDRVTLELSPYDLTKGRINFRHK 72 (87)
T ss_pred EeCCCCEEEEEeccceeeeeEEecCCCEEEEEECcccCCceeEEEEec
Confidence 4556666665444332 35899999999987 3455555554
No 118
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=22.71 E-value=2.2e+02 Score=19.29 Aligned_cols=30 Identities=17% Similarity=0.202 Sum_probs=19.5
Q ss_pred CccCCCCEEecCCCC---CC-----eeCCCCCEEEEEE
Q 039682 59 MTLFEGDVILTGSPQ---GV-----GPVKAGQKTTAGI 88 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~---g~-----~~l~~Gd~v~~~i 88 (107)
..+++|||++.|... |. .++...+.|.+..
T Consensus 74 ~~~q~GDI~I~g~~g~S~G~~GHtgif~~~~~iIhc~y 111 (145)
T PF05382_consen 74 WNLQRGDIFIWGRRGNSAGAGGHTGIFMDNDTIIHCNY 111 (145)
T ss_pred ccccCCCEEEEcCCCCCCCCCCeEEEEeCCCcEEEecC
Confidence 589999999998862 11 1355555555554
No 119
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=22.52 E-value=2e+02 Score=18.13 Aligned_cols=20 Identities=15% Similarity=-0.029 Sum_probs=8.8
Q ss_pred CCCCCEEEEEECceeEEEEEE
Q 039682 78 VKAGQKTTAGIAGLLVVRFDN 98 (107)
Q Consensus 78 l~~Gd~v~~~i~g~G~l~~~v 98 (107)
++.||+|+++ ..-|++...+
T Consensus 48 i~~Gd~V~v~-s~~g~i~~~v 67 (127)
T cd02777 48 IKDGDIVRVF-NDRGAVLAGA 67 (127)
T ss_pred CCCCCEEEEE-cCCeEEEEEE
Confidence 4455555444 2334444443
No 120
>PF03829 PTSIIA_gutA: PTS system glucitol/sorbitol-specific IIA component; InterPro: IPR004716 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. This family consists only of glucitol-specific transporters, and occur both in Gram-negative and Gram-positive bacteria. The system in Escherichia coli consists of a IIA protein, and a IIBC protein. This family is specific for the IIA component.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2F9H_A.
Probab=22.51 E-value=1.2e+02 Score=19.79 Aligned_cols=57 Identities=14% Similarity=0.114 Sum_probs=32.3
Q ss_pred EEEEECCEEEEeeccchhccCHHHHHHHHH-----cCCccCCCCEEecCCCCCCeeCCCCCEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPYLISHIS-----SIMTLFEGDVILTGSPQGVGPVKAGQKTT 85 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~li~~ls-----~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~ 85 (107)
=++.+|++...-.-.+++...=.+-+-|++ ....-.||+|-+.|.. +..++.|+.++
T Consensus 56 d~l~i~~~~y~ItaVG~~an~NL~~LGH~Tl~F~g~~~~~lpG~I~l~~~~--~p~i~~G~~I~ 117 (117)
T PF03829_consen 56 DTLIIGGQEYTITAVGSVANQNLRELGHITLVFDGAEEAELPGTIYLEGKE--PPEIKVGSTIQ 117 (117)
T ss_dssp -EEEETTEEEEEEEE-TTHHHHHHHHS-EEEE-S-SGGGS-TTEEEEES-S-------TT-EE-
T ss_pred CEEEECCeEEEEEEEhHHHHHHHHhcCcEEEEECCCCCCCcCCEEEECCCC--CCcCCCCCEeC
Confidence 357788887776666666665555666765 2357789999999964 55688888764
No 121
>PF13403 Hint_2: Hint domain
Probab=22.14 E-value=1.7e+02 Score=19.59 Aligned_cols=27 Identities=22% Similarity=0.415 Sum_probs=16.6
Q ss_pred cCCCCEEecCC-CCCCeeCCCCCEEEEE
Q 039682 61 LFEGDVILTGS-PQGVGPVKAGQKTTAG 87 (107)
Q Consensus 61 L~~GdvI~TGt-~~g~~~l~~Gd~v~~~ 87 (107)
|-+|..|.|-. +..+..|++||+|.-.
T Consensus 3 f~~GT~I~T~~G~~~Ve~L~~GD~V~T~ 30 (147)
T PF13403_consen 3 FTAGTLIETPDGPRPVEDLRPGDRVLTR 30 (147)
T ss_pred cCCCCEEecCCcCeEeeccCCCCEEEec
Confidence 45677777655 2234457888887644
No 122
>TIGR00107 deoD purine-nucleoside phosphorylase, family 1 (deoD). Purine nucleoside phosphorylase (also called inosine phosphorylase) is a purine salvage enzyme. Purine nucleosides, such as guanosine, inosine, or xanthosine, plus orthophosphate, can be converted to their respective purine bases (guanine, hypoxanthine, or xanthine) plus ribose-1-phosphate. This family of purine nucleoside phosphorylase is restricted to the bacteria.
Probab=22.08 E-value=3e+02 Score=19.62 Aligned_cols=57 Identities=12% Similarity=-0.056 Sum_probs=35.2
Q ss_pred EEEEECCEEEEeeccchhccCHHH--HHHHHHcCCccCCCCEEecCCCCCCee-CCCCCEEEEE
Q 039682 27 LWLKVDREIRQQGSTKDMIFKIPY--LISHISSIMTLFEGDVILTGSPQGVGP-VKAGQKTTAG 87 (107)
Q Consensus 27 ~~l~vnG~~~~~~~~~~m~~~~~~--li~~ls~~~~L~~GdvI~TGt~~g~~~-l~~Gd~v~~~ 87 (107)
.+-++||..+.-.+++ ++.+.- +++++-. .+.+--+|..||+.+..+ ++.||-|-.+
T Consensus 45 ~~G~~~g~~v~v~~~G--~G~~~aai~~~eli~--~~~~~~iI~~Gt~G~l~~~~~~GdvvI~~ 104 (232)
T TIGR00107 45 FTGTYKGKKISVMGHG--MGIPSISIYVYELIK--FYEVKTIIRIGSCGAIRPDVKLRDVIIAM 104 (232)
T ss_pred EEEEECCEEEEEEeCC--CCHhHHHHHHHHHHH--HcCCCEEEEEeccccCCCCCCCCCEEEEC
Confidence 4456788765554433 333331 2223321 256779999999988875 7899987654
No 123
>TIGR00300 conserved hypothetical protein TIGR00300. All members of the family come from genome projects. A partial length search brings in two plant lysine-ketoglutarate reductase/saccharopine dehydrogenase bifunctional enzymes hitting the N-terminal region of the family.
Probab=22.04 E-value=52 Score=26.16 Aligned_cols=60 Identities=13% Similarity=0.197 Sum_probs=35.9
Q ss_pred CCCCCCCcceEEEEEECCEEEEeeccc--h-hccCHHHHHHHHHcCCccCCCCEEecCCCCCCe
Q 039682 16 KSAVPDPYNFELWLKVDREIRQQGSTK--D-MIFKIPYLISHISSIMTLFEGDVILTGSPQGVG 76 (107)
Q Consensus 16 ~~~~~~~~~~~~~l~vnG~~~~~~~~~--~-m~~~~~~li~~ls~~~~L~~GdvI~TGt~~g~~ 76 (107)
|+.+-.-.+.+-.+++||+++.--+.. . ...++..=-+++-....|++||.|..|. .|+.
T Consensus 93 P~~Fy~TTn~Pt~v~i~G~Wv~v~~~~MDc~iVv~~~~~~~~~~~~r~lk~GD~VVvG~-eGI~ 155 (407)
T TIGR00300 93 PDDFYVTTNHPTFVRVGGEWVEVEGQRMDAAIVVTPNPPRARCKPIREIKKGDRVVVGV-EGIR 155 (407)
T ss_pred CCCceeccCCceEEEECCEEEeccCcccceEEEEecCCCeEEEEEccccCCCCEEEECC-ceeE
Confidence 333334467788899999987654432 1 1111111112334578899999999998 5654
No 124
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.96 E-value=2e+02 Score=17.79 Aligned_cols=18 Identities=28% Similarity=0.549 Sum_probs=9.8
Q ss_pred cCCccCCCCEEecCCCCC
Q 039682 57 SIMTLFEGDVILTGSPQG 74 (107)
Q Consensus 57 ~~~~L~~GdvI~TGt~~g 74 (107)
+...|+.||.|.-=++.|
T Consensus 45 ~~lgi~~Gd~V~v~s~~G 62 (122)
T cd02792 45 AERGIKNGDMVWVSSPRG 62 (122)
T ss_pred HHcCCCCCCEEEEEcCCc
Confidence 345666666665544444
No 125
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=21.70 E-value=87 Score=27.18 Aligned_cols=33 Identities=18% Similarity=0.441 Sum_probs=27.1
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECce
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGL 91 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~ 91 (107)
+..+.-|.||..|+..--+.|++||.+ +.|+|+
T Consensus 673 ~qpi~iG~Iv~lGaAe~DGRL~~gDEl-v~iDG~ 705 (984)
T KOG3209|consen 673 GQPIYIGAIVPLGAAEEDGRLREGDEL-VCIDGI 705 (984)
T ss_pred CCeeEEeeeeecccccccCcccCCCeE-EEecCe
Confidence 456677888888888888899999998 578876
No 126
>PRK12795 fliM flagellar motor switch protein FliM; Reviewed
Probab=21.61 E-value=2.3e+02 Score=22.31 Aligned_cols=15 Identities=20% Similarity=0.470 Sum_probs=12.5
Q ss_pred CCccCCCCEEecCCC
Q 039682 58 IMTLFEGDVILTGSP 72 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~ 72 (107)
-..|++||||....+
T Consensus 320 lL~LkvGDVI~Ld~~ 334 (388)
T PRK12795 320 VLNLKVGDTLMLDAR 334 (388)
T ss_pred HhCCCCCCEEEeCCC
Confidence 578999999988763
No 127
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=21.53 E-value=57 Score=18.76 Aligned_cols=33 Identities=18% Similarity=0.158 Sum_probs=20.9
Q ss_pred ccCCCCEEecCCCCCCe----------eCCCCCEEEEEECcee
Q 039682 60 TLFEGDVILTGSPQGVG----------PVKAGQKTTAGIAGLL 92 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~----------~l~~Gd~v~~~i~g~G 92 (107)
.|++||+|+.=--..+. ...+|+.+++.+..-|
T Consensus 24 gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~~~~~v~l~v~r~g 66 (79)
T cd00986 24 KLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLKVKREE 66 (79)
T ss_pred CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence 49999999863221111 1467888888875433
No 128
>smart00537 DCX Domain in the Doublecortin (DCX) gene product. Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.
Probab=21.50 E-value=1.6e+02 Score=17.86 Aligned_cols=40 Identities=8% Similarity=0.088 Sum_probs=29.4
Q ss_pred cceEEEEEECCEEEEeec----cchhccCHHHHHHHHHcCCccC
Q 039682 23 YNFELWLKVDREIRQQGS----TKDMIFKIPYLISHISSIMTLF 62 (107)
Q Consensus 23 ~~~~~~l~vnG~~~~~~~----~~~m~~~~~~li~~ls~~~~L~ 62 (107)
....+.++.||.....+. ......+++.++..+++...|+
T Consensus 4 k~k~i~~~rNGD~~~~g~~~~v~~~~~~s~d~lL~~lt~~v~l~ 47 (89)
T smart00537 4 KPKRIRFYRNGDRFFKGVRLVVNRKRFKSFEALLQDLTEVVKLD 47 (89)
T ss_pred cceEEEEEeCCCCCCCCEEEEEChhhcCCHHHHHHHHhhhcccC
Confidence 456789999998766553 2356888999999999854443
No 129
>PF14894 Lsm_C: Lsm C-terminal; PDB: 1M5Q_1.
Probab=21.35 E-value=87 Score=18.41 Aligned_cols=39 Identities=13% Similarity=0.066 Sum_probs=22.3
Q ss_pred HHHHHHHHHcCCccCCCCEEecCCCCCCeeCCCCCEEEEEEC
Q 039682 48 IPYLISHISSIMTLFEGDVILTGSPQGVGPVKAGQKTTAGIA 89 (107)
Q Consensus 48 ~~~li~~ls~~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~ 89 (107)
+.++..++.+.+.|.||+|-.-= .+.-+.-.|+|+++=.
T Consensus 1 ~~eFa~~~~r~l~l~p~~VK~~e---ea~vV~V~drirVse~ 39 (64)
T PF14894_consen 1 PREFAEYLERELNLFPGMVKVYE---EANVVVVMDRIRVSEN 39 (64)
T ss_dssp HHHHHHHHHH---HSTTTEEEET---TTTEEEETTTEEEETT
T ss_pred ChHHHHHHHHhcccCccceEEec---cCCEEEEeeeEEEecc
Confidence 35667788888999999986532 2223455666666533
No 130
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=21.34 E-value=61 Score=18.85 Aligned_cols=35 Identities=31% Similarity=0.455 Sum_probs=20.4
Q ss_pred CCccCCCCEEec--CCCCC----C----eeCCCCCEEEEEECcee
Q 039682 58 IMTLFEGDVILT--GSPQG----V----GPVKAGQKTTAGIAGLL 92 (107)
Q Consensus 58 ~~~L~~GdvI~T--Gt~~g----~----~~l~~Gd~v~~~i~g~G 92 (107)
...|++||+|+. |.+.. + ....+|+.+.+.+..-|
T Consensus 25 ~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~v~r~g 69 (79)
T cd00991 25 NAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLPST 69 (79)
T ss_pred hcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEEEEECC
Confidence 347999999985 22110 0 01346787777775444
No 131
>PRK06666 fliM flagellar motor switch protein FliM; Validated
Probab=21.33 E-value=3.1e+02 Score=20.66 Aligned_cols=31 Identities=29% Similarity=0.284 Sum_probs=20.5
Q ss_pred CCccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEE
Q 039682 58 IMTLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVR 95 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~ 95 (107)
-..|++||||-...+ +++.+.+.++|.-.+.
T Consensus 276 ll~L~vGDVI~L~~~-------~~~~v~v~v~~~~~f~ 306 (337)
T PRK06666 276 ILNLKVGDVIPLEKP-------ADDPLIVYVDGKPKFL 306 (337)
T ss_pred HhCCCCCCEEEeCCC-------CCCcEEEEECCEEEEE
Confidence 578999999988774 3445555555544433
No 132
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=21.31 E-value=1.1e+02 Score=18.18 Aligned_cols=21 Identities=29% Similarity=0.336 Sum_probs=13.9
Q ss_pred CCEEecCCCCCCeeCCCCCEEEEE
Q 039682 64 GDVILTGSPQGVGPVKAGQKTTAG 87 (107)
Q Consensus 64 GdvI~TGt~~g~~~l~~Gd~v~~~ 87 (107)
|-.|.++. ...+++||+|+++
T Consensus 34 gifV~~~~---~~~~~~Gd~V~vt 54 (78)
T cd04486 34 GIFVYTGS---GADVAVGDLVRVT 54 (78)
T ss_pred eEEEecCC---CCCCCCCCEEEEE
Confidence 45555554 3457889988874
No 133
>PRK06026 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated
Probab=21.27 E-value=1.1e+02 Score=21.96 Aligned_cols=25 Identities=12% Similarity=0.122 Sum_probs=20.7
Q ss_pred CCCCEEecCCCCCCeeCCCCCEEEEE
Q 039682 62 FEGDVILTGSPQGVGPVKAGQKTTAG 87 (107)
Q Consensus 62 ~~GdvI~TGt~~g~~~l~~Gd~v~~~ 87 (107)
+|--||.+|+..+. .++.||.|..+
T Consensus 60 ~pd~IIn~GvAGg~-~l~igDvViat 84 (212)
T PRK06026 60 LPDLVVSLGSAGSA-KLEQTEVYQVS 84 (212)
T ss_pred CCCEEEEecccCCC-CCccCCEEEEe
Confidence 47889999999884 69999988765
No 134
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=21.24 E-value=1e+02 Score=18.27 Aligned_cols=30 Identities=17% Similarity=0.181 Sum_probs=17.9
Q ss_pred cCCCCEEecCCCCC----CeeCCCCCEEEEEECc
Q 039682 61 LFEGDVILTGSPQG----VGPVKAGQKTTAGIAG 90 (107)
Q Consensus 61 L~~GdvI~TGt~~g----~~~l~~Gd~v~~~i~g 90 (107)
|.-|..++.=.+.- -.++.+||+|.+++.-
T Consensus 24 l~ng~~vla~i~GKmr~~rI~I~~GD~V~Ve~sp 57 (68)
T TIGR00008 24 LENGHEVLAHISGKIRMHYIRILPGDKVKVELSP 57 (68)
T ss_pred ECCCCEEEEEecCcchhccEEECCCCEEEEEECc
Confidence 33455554333322 3468899999888864
No 135
>TIGR01750 fabZ beta-hydroxyacyl-[acyl carrier protein] dehydratase FabZ. This enzyme, FabZ, shows overlapping substrate specificity with FabA with regard to chain length in fatty acid biosynthesis. FabZ works preferentially on shorter chains and is often designated (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase, although its actual specificity is broader. Unlike FabA, FabZ does not function as an isomerase and cannot initiate unsaturated fatty acid biosynthesis. However, only FabZ can act during the elongation of unsaturated fatty acid chains.
Probab=21.10 E-value=2.1e+02 Score=18.31 Aligned_cols=24 Identities=13% Similarity=0.113 Sum_probs=17.3
Q ss_pred eeCCCCCEEEEEEC------ceeEEEEEEE
Q 039682 76 GPVKAGQKTTAGIA------GLLVVRFDNK 99 (107)
Q Consensus 76 ~~l~~Gd~v~~~i~------g~G~l~~~v~ 99 (107)
.++.|||++++.+. ++..++..+.
T Consensus 96 ~~v~pGd~l~i~~~i~~~~~~~~~~~~~~~ 125 (140)
T TIGR01750 96 RPVVPGDQLILHAEFLKKRRKIGKFKGEAT 125 (140)
T ss_pred CccCCCCEEEEEEEEEEccCCEEEEEEEEE
Confidence 36899999988775 5666666654
No 136
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=21.07 E-value=1.1e+02 Score=15.97 Aligned_cols=19 Identities=21% Similarity=0.408 Sum_probs=13.7
Q ss_pred HHcCCccCCCCEEecCCCC
Q 039682 55 ISSIMTLFEGDVILTGSPQ 73 (107)
Q Consensus 55 ls~~~~L~~GdvI~TGt~~ 73 (107)
+..-..+.||.||.=|-+-
T Consensus 15 l~~a~~~~pG~ViING~C~ 33 (36)
T PF08194_consen 15 LAAAVPATPGNVIINGKCI 33 (36)
T ss_pred HHhcccCCCCeEEECceee
Confidence 4445567799999988753
No 137
>PRK08666 5'-methylthioadenosine phosphorylase; Validated
Probab=21.04 E-value=90 Score=22.80 Aligned_cols=29 Identities=17% Similarity=0.209 Sum_probs=23.5
Q ss_pred CccCCCCEEecCCCCCCee-CCCCCEEEEE
Q 039682 59 MTLFEGDVILTGSPQGVGP-VKAGQKTTAG 87 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~~-l~~Gd~v~~~ 87 (107)
..+..-.||.||+..++.+ +++||.|-.+
T Consensus 72 ~~~Gv~~II~tgsaGsl~~~l~~GDiVi~~ 101 (261)
T PRK08666 72 KELGVERILATSAVGSLNPNMKPGDFVILD 101 (261)
T ss_pred HHCCCCEEEEeccccccCCCCCCCCEEeeh
Confidence 3577889999999998876 8999987653
No 138
>cd05829 Sortase_E Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The function of Sortase E is unknown. In two different sortase families, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one sortase and it is thought that the different sortases anchor different surface protein classes. The sortase domain is a modified beta-barrel flanked by two (SrtA) or three (SrtB) short alpha-helices.
Probab=21.03 E-value=2.6e+02 Score=18.45 Aligned_cols=38 Identities=21% Similarity=0.302 Sum_probs=24.6
Q ss_pred CCCCEEecCCCCCC---------eeCCCCCEEEEEECceeEEEEEEE
Q 039682 62 FEGDVILTGSPQGV---------GPVKAGQKTTAGIAGLLVVRFDNK 99 (107)
Q Consensus 62 ~~GdvI~TGt~~g~---------~~l~~Gd~v~~~i~g~G~l~~~v~ 99 (107)
++|.++++|--... ..|++||.|.++-.+-.....+|.
T Consensus 48 ~~Gn~viaGH~~~~g~~~~F~~L~~l~~GD~I~v~~~~g~~~~Y~V~ 94 (144)
T cd05829 48 EKGTAVLAGHVDSRGGPAVFFRLGDLRKGDKVEVTRADGQTATFRVD 94 (144)
T ss_pred CCCCEEEEEecCCCCCChhhcchhcCCCCCEEEEEECCCCEEEEEEe
Confidence 46788888764332 248999999888854334555554
No 139
>PF14085 DUF4265: Domain of unknown function (DUF4265)
Probab=20.98 E-value=2.4e+02 Score=18.04 Aligned_cols=36 Identities=17% Similarity=0.005 Sum_probs=25.7
Q ss_pred ccCCCCEEecCCCCCCeeCCCCCEEEEEECceeEEEE
Q 039682 60 TLFEGDVILTGSPQGVGPVKAGQKTTAGIAGLLVVRF 96 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~l~~Gd~v~~~i~g~G~l~~ 96 (107)
.|.+|..-+--+|.-+.-+..||.|+++.+. |.+.+
T Consensus 8 ~l~~~~y~l~n~Pf~a~glA~gDvV~~~~~~-g~~~~ 43 (117)
T PF14085_consen 8 RLGDDTYRLDNIPFFAYGLALGDVVRAEPDD-GELWF 43 (117)
T ss_pred EcCCCEEEEEecccccCCCCCCCEEEEEeCC-CeEEE
Confidence 3445556677777777778999999998886 54433
No 140
>TIGR01730 RND_mfp RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane.
Probab=20.93 E-value=93 Score=22.58 Aligned_cols=23 Identities=35% Similarity=0.485 Sum_probs=13.4
Q ss_pred ccCCCCEEec-CCCCCCeeCCCCCEEEE
Q 039682 60 TLFEGDVILT-GSPQGVGPVKAGQKTTA 86 (107)
Q Consensus 60 ~L~~GdvI~T-Gt~~g~~~l~~Gd~v~~ 86 (107)
.|.+||.|.+ |+ ..++.|++|++
T Consensus 298 gL~~Gd~Vv~~~~----~~l~~g~~V~~ 321 (322)
T TIGR01730 298 GLKAGDQIVTAGV----VKLRDGAKVKV 321 (322)
T ss_pred CCCCCCEEEEeCh----hhCCCCCeeee
Confidence 4667775444 33 25677777653
No 141
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=20.85 E-value=1e+02 Score=23.60 Aligned_cols=23 Identities=26% Similarity=0.534 Sum_probs=11.4
Q ss_pred ccCCCCEEecCCCCCCeeCCCCCEEE
Q 039682 60 TLFEGDVILTGSPQGVGPVKAGQKTT 85 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~l~~Gd~v~ 85 (107)
.|.+||.|.+- |...+++|+.|+
T Consensus 348 GL~~Gd~VV~~---g~~~l~~G~~V~ 370 (385)
T PRK09859 348 GLQAGDRVIVS---GLQRIRPGIKAR 370 (385)
T ss_pred CCCCCCEEEEc---ChhcCCCcCEee
Confidence 45566633332 123566666664
No 142
>PF13550 Phage-tail_3: Putative phage tail protein
Probab=20.38 E-value=1.6e+02 Score=19.06 Aligned_cols=24 Identities=13% Similarity=0.032 Sum_probs=16.3
Q ss_pred eeCCCCCEEEEEECceeEEEEEEEe
Q 039682 76 GPVKAGQKTTAGIAGLLVVRFDNKK 100 (107)
Q Consensus 76 ~~l~~Gd~v~~~i~g~G~l~~~v~~ 100 (107)
..++|||.|++..+ .....++|..
T Consensus 138 ~~l~pGDvi~l~~~-~~~~~~RI~~ 161 (164)
T PF13550_consen 138 LALEPGDVIALSDD-GRDMRFRITE 161 (164)
T ss_pred ccCCCCCEEEEEeC-CCceEEEEEE
Confidence 45888888888877 4455555543
No 143
>TIGR03468 HpnG hopanoid-associated phosphorylase. The sequences in this family are members of the pfam01048 family of phosphorylases typically acting on nucleotide-sugar substrates. The genes of the family modeled here are generally in the same locus with genes involved in the biosynthesis and elaboration of hopene, the cyclization product of the polyisoprenoid squalene. This gene is adjacent to the genes PhnA-E and squalene-hopene cyclase (which would be HpnF) in Zymomonas mobilis and their association with hopene biosynthesis has been noted in the literature. Extending the gene symbol sequence, we suggest the symbol HpnG for the product of this gene. Hopanoids are known to be components of the plasma membrane and to have polar sugar head groups in Z. mobilis and other species.
Probab=20.22 E-value=86 Score=22.12 Aligned_cols=27 Identities=11% Similarity=0.274 Sum_probs=22.1
Q ss_pred ccCCCCEEecCCCCCCee-CCCCCEEEE
Q 039682 60 TLFEGDVILTGSPQGVGP-VKAGQKTTA 86 (107)
Q Consensus 60 ~L~~GdvI~TGt~~g~~~-l~~Gd~v~~ 86 (107)
.+.+--+|.+|++.+..+ +++||.|-.
T Consensus 43 ~~~~~~vI~~G~aG~l~~~l~~Gdvvi~ 70 (212)
T TIGR03468 43 AAGAAGLVSFGTAGALDPALQPGDLVVP 70 (212)
T ss_pred HcCCCEEEEEEecccCCCCCCCCCEEee
Confidence 567888999999988865 899998764
No 144
>PF00877 NLPC_P60: NlpC/P60 family; InterPro: IPR000064 The Escherichia coli NLPC/Listeria P60 domain occurs at the C terminus of a number of different bacterial and viral proteins. The viral proteins are either described as tail assembly proteins or Gp19. In bacteria, the proteins are variously described as being putative tail component of prophage, invasin, invasion associated protein, putative lipoprotein, cell wall hydrolase, or putative endopeptidase. The E. coli NLPC/Listeria P60 domain is contained within the boundaries of the cysteine peptidase domain that defines the MEROPS peptidase family C40 (clan C-). A type example being dipeptidyl-peptidase VI from Bacillus sphaericus and gamma-glutamyl-diamino acid-endopeptidase precursor from Lactococcus lactis 3.4.19.11 from EC. This group also contains proteins classified as non-peptidase homologues in that they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases in the C40 family. ; PDB: 3PVQ_B 3GT2_A 3NPF_B 2K1G_A 3I86_A 3S0Q_A 2XIV_A 3PBC_A 3NE0_A 3M1U_B ....
Probab=20.22 E-value=52 Score=20.17 Aligned_cols=14 Identities=36% Similarity=0.468 Sum_probs=11.7
Q ss_pred CCccCCCCEEecCC
Q 039682 58 IMTLFEGDVILTGS 71 (107)
Q Consensus 58 ~~~L~~GdvI~TGt 71 (107)
...++|||+|+...
T Consensus 49 ~~~~~pGDlif~~~ 62 (105)
T PF00877_consen 49 ISELQPGDLIFFKG 62 (105)
T ss_dssp GGG-TTTEEEEEEG
T ss_pred hhcCCcccEEEEeC
Confidence 56899999999988
No 145
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=20.18 E-value=2.5e+02 Score=17.89 Aligned_cols=30 Identities=20% Similarity=0.320 Sum_probs=21.2
Q ss_pred CCccCCCCEEecCCCCCCe----eCCCCCEEEEEECc
Q 039682 58 IMTLFEGDVILTGSPQGVG----PVKAGQKTTAGIAG 90 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~~g~~----~l~~Gd~v~~~i~g 90 (107)
.-.|++||-|+|.. |.+ .+. ++.+.+++..
T Consensus 50 ~~~Lk~Gd~VvT~g--Gi~G~Vv~i~-~~~v~lei~~ 83 (106)
T PRK05585 50 LSSLAKGDEVVTNG--GIIGKVTKVS-EDFVIIELND 83 (106)
T ss_pred HHhcCCCCEEEECC--CeEEEEEEEe-CCEEEEEECC
Confidence 46899999998866 333 343 4788888853
No 146
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=20.16 E-value=2.3e+02 Score=17.55 Aligned_cols=15 Identities=20% Similarity=0.129 Sum_probs=7.0
Q ss_pred CCccCCCCEEecCCC
Q 039682 58 IMTLFEGDVILTGSP 72 (107)
Q Consensus 58 ~~~L~~GdvI~TGt~ 72 (107)
...|+.||.|.-=++
T Consensus 44 ~lgi~~Gd~V~v~s~ 58 (115)
T cd02779 44 REGLKNGDLVEVYND 58 (115)
T ss_pred HcCCCCCCEEEEEeC
Confidence 444555555443333
No 147
>cd04088 EFG_mtEFG_II EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more compl
Probab=20.15 E-value=91 Score=18.14 Aligned_cols=23 Identities=17% Similarity=0.192 Sum_probs=14.4
Q ss_pred CccCCCCEEecCCCCCCeeCCCCCEE
Q 039682 59 MTLFEGDVILTGSPQGVGPVKAGQKT 84 (107)
Q Consensus 59 ~~L~~GdvI~TGt~~g~~~l~~Gd~v 84 (107)
-.+.||||+.- .|+..+..||.+
T Consensus 59 ~~~~aGdI~~i---~g~~~~~~Gdtl 81 (83)
T cd04088 59 EEAGAGDIGAV---AGLKDTATGDTL 81 (83)
T ss_pred CEeCCCCEEEE---ECCCCCccCCEe
Confidence 56778888775 233346677765
No 148
>PRK05819 deoD purine nucleoside phosphorylase; Reviewed
Probab=20.10 E-value=3.4e+02 Score=19.39 Aligned_cols=56 Identities=13% Similarity=-0.091 Sum_probs=34.3
Q ss_pred EEEECCEEEEeeccchhccCHH--HHHHHHHcCCccCCCCEEecCCCCCCee-CCCCCEEEEE
Q 039682 28 WLKVDREIRQQGSTKDMIFKIP--YLISHISSIMTLFEGDVILTGSPQGVGP-VKAGQKTTAG 87 (107)
Q Consensus 28 ~l~vnG~~~~~~~~~~m~~~~~--~li~~ls~~~~L~~GdvI~TGt~~g~~~-l~~Gd~v~~~ 87 (107)
+-.++|+.+.-..++ ++.+. -.+.++-. .+.+--||.+||+.+..+ ++.||.|-.+
T Consensus 49 ~G~~~g~~v~v~~tG--iG~~~aai~~~eLi~--~~~~~~iI~~GtaG~l~~~l~iGDvVI~~ 107 (235)
T PRK05819 49 TGTYKGKRVSVMGTG--MGIPSISIYANELIT--DYGVKKLIRVGSCGALQEDVKVRDVVIAM 107 (235)
T ss_pred EEEECCEEEEEEecC--CChhHHHHHHHHHHH--hcCCcEEEEEecccCCCCCCCCCCEEEEc
Confidence 346778755444332 22222 22333332 256779999999988864 8999988665
No 149
>PRK08916 flagellar motor switch protein; Reviewed
Probab=20.10 E-value=2.7e+02 Score=18.20 Aligned_cols=13 Identities=23% Similarity=0.266 Sum_probs=11.2
Q ss_pred CccCCCCEEecCC
Q 039682 59 MTLFEGDVILTGS 71 (107)
Q Consensus 59 ~~L~~GdvI~TGt 71 (107)
..|++||||....
T Consensus 64 L~L~~GDVI~Ld~ 76 (116)
T PRK08916 64 LKLGPGSVLELDR 76 (116)
T ss_pred hcCCCCCEEEcCC
Confidence 3899999999875
Done!