Query 046781
Match_columns 142
No_of_seqs 128 out of 668
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 04:26:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046781.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046781hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00332 Glyco_hydro_17: Glyco 100.0 3.7E-42 7.9E-47 289.1 10.4 115 28-142 1-115 (310)
2 COG5309 Exo-beta-1,3-glucanase 97.2 0.0019 4.1E-08 54.8 8.4 108 26-140 44-163 (305)
3 PF03198 Glyco_hydro_72: Gluca 94.3 0.19 4E-06 43.3 7.2 104 28-138 30-165 (314)
4 PF00925 GTP_cyclohydro2: GTP 92.9 0.095 2.1E-06 40.7 2.9 41 42-82 128-168 (169)
5 PRK00393 ribA GTP cyclohydrola 89.5 0.5 1.1E-05 37.6 3.9 36 46-81 134-169 (197)
6 TIGR00505 ribA GTP cyclohydrol 89.5 0.5 1.1E-05 37.4 3.8 36 46-81 131-166 (191)
7 smart00481 POLIIIAc DNA polyme 88.6 1.2 2.6E-05 28.7 4.6 41 41-81 16-61 (67)
8 cd00641 GTP_cyclohydro2 GTP cy 87.2 0.86 1.9E-05 36.0 3.8 37 46-82 133-169 (193)
9 PRK12485 bifunctional 3,4-dihy 83.9 1.4 2.9E-05 38.8 3.8 33 45-78 330-362 (369)
10 PRK09314 bifunctional 3,4-dihy 83.5 1.4 3.1E-05 38.3 3.7 36 43-78 298-334 (339)
11 PRK14019 bifunctional 3,4-dihy 82.1 1.8 3.9E-05 37.9 3.8 37 45-82 327-363 (367)
12 PF02836 Glyco_hydro_2_C: Glyc 80.4 4.8 0.0001 33.0 5.7 94 28-122 18-132 (298)
13 PRK09311 bifunctional 3,4-dihy 80.0 2.7 5.8E-05 37.2 4.3 38 45-82 338-375 (402)
14 PRK09318 bifunctional 3,4-dihy 79.1 2.8 6.2E-05 37.0 4.1 38 45-82 319-356 (387)
15 PRK09319 bifunctional 3,4-dihy 79.0 2.7 5.9E-05 38.9 4.1 38 45-82 342-379 (555)
16 PRK08815 GTP cyclohydrolase; P 78.8 2.9 6.3E-05 36.8 4.1 38 45-82 304-341 (375)
17 PLN02831 Bifunctional GTP cycl 78.4 3.1 6.8E-05 37.5 4.2 38 45-82 372-409 (450)
18 PRK10150 beta-D-glucuronidase; 78.1 26 0.00055 32.0 10.1 80 45-124 318-420 (604)
19 PF13721 SecD-TM1: SecD export 78.0 6.9 0.00015 28.1 5.2 67 22-105 28-94 (101)
20 PRK07198 hypothetical protein; 77.6 1.9 4E-05 38.6 2.5 46 44-89 336-384 (418)
21 COG0807 RibA GTP cyclohydrolas 77.3 4 8.6E-05 32.9 4.2 41 45-85 132-172 (193)
22 PF00150 Cellulase: Cellulase 77.3 6.1 0.00013 31.0 5.2 85 41-125 22-134 (281)
23 PF13756 Stimulus_sens_1: Stim 77.1 1.6 3.6E-05 31.7 1.8 28 41-68 2-32 (112)
24 cd04743 NPD_PKS 2-Nitropropane 73.0 17 0.00037 31.3 7.2 79 26-122 56-134 (320)
25 PRK10629 EnvZ/OmpR regulon mod 68.6 17 0.00036 27.3 5.5 38 23-60 33-70 (127)
26 TIGR00559 pdxJ pyridoxine 5'-p 65.9 9 0.00019 31.9 3.9 36 40-76 110-146 (237)
27 cd00003 PNPsynthase Pyridoxine 64.9 9.7 0.00021 31.7 3.9 37 40-77 110-147 (234)
28 PRK05265 pyridoxine 5'-phospha 61.7 12 0.00026 31.2 3.9 36 40-76 113-149 (239)
29 PF07745 Glyco_hydro_53: Glyco 61.6 13 0.00028 32.2 4.2 84 42-125 26-138 (332)
30 PF03740 PdxJ: Pyridoxal phosp 58.2 12 0.00027 31.1 3.4 37 40-77 111-148 (239)
31 COG1433 Uncharacterized conser 55.1 32 0.00069 25.7 4.9 46 37-82 47-94 (121)
32 TIGR03632 bact_S11 30S ribosom 54.4 25 0.00053 25.5 4.1 38 42-79 49-91 (108)
33 PRK03562 glutathione-regulated 53.7 16 0.00035 33.8 3.7 50 26-82 402-451 (621)
34 TIGR03628 arch_S11P archaeal r 53.0 20 0.00043 26.6 3.5 38 42-79 52-102 (114)
35 PF06722 DUF1205: Protein of u 51.7 14 0.00031 26.3 2.4 28 64-91 64-91 (97)
36 PRK05718 keto-hydroxyglutarate 51.4 63 0.0014 26.0 6.4 53 41-102 117-175 (212)
37 cd01424 MGS_CPS_II Methylglyox 51.4 36 0.00079 23.7 4.5 47 38-84 28-77 (110)
38 PF13344 Hydrolase_6: Haloacid 51.3 28 0.00061 24.4 3.9 61 36-103 12-77 (101)
39 PF06480 FtsH_ext: FtsH Extrac 51.1 9.2 0.0002 25.7 1.3 23 41-63 31-53 (110)
40 PF02579 Nitro_FeMo-Co: Dinitr 50.9 34 0.00074 22.6 4.1 47 41-88 41-87 (94)
41 PF00135 COesterase: Carboxyle 49.3 7.9 0.00017 33.3 0.9 18 92-109 188-205 (535)
42 PRK03659 glutathione-regulated 49.3 20 0.00043 32.9 3.5 46 30-82 406-451 (601)
43 smart00851 MGS MGS-like domain 47.0 34 0.00074 23.1 3.7 41 43-83 20-64 (90)
44 PRK14338 (dimethylallyl)adenos 45.9 60 0.0013 28.8 6.0 89 28-120 207-316 (459)
45 COG0854 PdxJ Pyridoxal phospha 45.3 31 0.00068 28.8 3.8 39 38-77 109-148 (243)
46 COG3831 Uncharacterized conser 44.5 22 0.00047 25.3 2.4 32 25-70 24-55 (85)
47 cd00851 MTH1175 This uncharact 44.4 55 0.0012 22.0 4.4 45 42-87 52-96 (103)
48 PF08800 VirE_N: VirE N-termin 44.4 24 0.00051 26.3 2.7 55 37-100 39-96 (136)
49 PF06574 FAD_syn: FAD syntheta 43.5 57 0.0012 24.9 4.8 52 65-124 66-118 (157)
50 PRK09607 rps11p 30S ribosomal 42.9 39 0.00084 25.7 3.7 38 42-79 59-109 (132)
51 cd00532 MGS-like MGS-like doma 42.2 62 0.0013 22.9 4.6 43 42-84 31-78 (112)
52 PRK09989 hypothetical protein; 42.1 52 0.0011 26.2 4.6 51 28-79 4-58 (258)
53 PF02811 PHP: PHP domain; Int 41.8 43 0.00094 24.2 3.8 43 40-82 16-63 (175)
54 CHL00041 rps11 ribosomal prote 41.3 52 0.0011 24.2 4.1 37 43-79 63-104 (116)
55 PRK14328 (dimethylallyl)adenos 40.6 57 0.0012 28.6 4.9 92 28-120 199-308 (439)
56 cd01422 MGS Methylglyoxal synt 40.2 47 0.001 23.9 3.7 43 41-83 32-79 (115)
57 TIGR02631 xylA_Arthro xylose i 39.8 71 0.0015 27.9 5.4 44 40-83 32-90 (382)
58 PTZ00090 40S ribosomal protein 39.6 47 0.001 27.6 4.0 38 43-80 170-211 (233)
59 PRK05309 30S ribosomal protein 39.5 56 0.0012 24.5 4.1 37 42-78 66-107 (128)
60 PTZ00129 40S ribosomal protein 38.9 54 0.0012 25.5 4.0 39 42-80 78-129 (149)
61 TIGR02026 BchE magnesium-proto 37.5 1E+02 0.0022 27.6 6.1 72 28-99 270-365 (497)
62 cd03412 CbiK_N Anaerobic cobal 37.2 50 0.0011 24.1 3.5 47 36-82 52-108 (127)
63 PRK09004 FMN-binding protein M 37.2 1.7E+02 0.0036 21.7 6.4 87 27-121 3-93 (146)
64 PRK11660 putative transporter; 37.1 70 0.0015 29.1 5.1 43 56-103 524-566 (568)
65 TIGR03151 enACPred_II putative 36.5 1.9E+02 0.0042 24.3 7.4 54 27-83 64-118 (307)
66 PF02254 TrkA_N: TrkA-N domain 34.0 75 0.0016 21.7 3.8 39 43-82 11-49 (116)
67 PRK07135 dnaE DNA polymerase I 33.5 70 0.0015 31.7 4.7 44 39-82 18-66 (973)
68 PF02142 MGS: MGS-like domain 33.0 84 0.0018 21.4 3.9 47 41-87 18-73 (95)
69 TIGR03234 OH-pyruv-isom hydrox 32.9 84 0.0018 24.8 4.4 51 28-79 3-57 (254)
70 PF00107 ADH_zinc_N: Zinc-bind 32.4 67 0.0014 22.2 3.4 38 46-83 27-67 (130)
71 cd03012 TlpA_like_DipZ_like Tl 32.1 1.1E+02 0.0025 21.3 4.6 53 25-78 57-109 (126)
72 PF00411 Ribosomal_S11: Riboso 31.8 59 0.0013 23.4 3.1 36 43-78 50-90 (110)
73 cd01445 TST_Repeats Thiosulfat 31.4 62 0.0013 23.8 3.2 26 38-63 76-104 (138)
74 PRK12677 xylose isomerase; Pro 30.4 1.2E+02 0.0026 26.5 5.2 43 41-83 32-89 (384)
75 PLN02232 ubiquinone biosynthes 30.3 43 0.00093 25.0 2.2 25 38-62 124-148 (160)
76 PRK05723 flavodoxin; Provision 30.3 2.4E+02 0.0052 21.2 7.2 91 27-122 2-96 (151)
77 PRK09437 bcp thioredoxin-depen 30.1 1E+02 0.0022 22.3 4.1 43 24-73 64-106 (154)
78 cd06844 STAS Sulphate Transpor 29.7 77 0.0017 21.5 3.3 33 44-77 62-94 (100)
79 PF00670 AdoHcyase_NAD: S-aden 29.7 43 0.00093 26.2 2.2 39 26-71 25-64 (162)
80 PF08443 RimK: RimK-like ATP-g 29.2 52 0.0011 25.2 2.5 22 103-124 79-103 (190)
81 PF08002 DUF1697: Protein of u 29.0 52 0.0011 24.6 2.4 30 29-60 10-39 (137)
82 cd00562 NifX_NifB This CD repr 28.9 1.4E+02 0.003 19.9 4.4 46 42-87 50-95 (102)
83 cd00218 GlcAT-I Beta1,3-glucur 28.8 97 0.0021 25.6 4.2 49 43-106 45-93 (223)
84 PRK01222 N-(5'-phosphoribosyl) 28.1 1.2E+02 0.0026 24.1 4.6 48 25-78 55-104 (210)
85 TIGR01182 eda Entner-Doudoroff 28.1 2.6E+02 0.0056 22.4 6.5 66 41-124 110-181 (204)
86 PF13592 HTH_33: Winged helix- 28.0 79 0.0017 20.0 2.9 36 28-71 18-57 (60)
87 COG0117 RibD Pyrimidine deamin 27.9 61 0.0013 25.2 2.7 43 46-88 88-136 (146)
88 PRK10669 putative cation:proto 27.7 78 0.0017 28.5 3.8 48 30-84 423-470 (558)
89 PF05336 DUF718: Domain of unk 27.7 30 0.00064 24.8 0.9 52 41-100 24-78 (106)
90 PF11501 Nsp1: Non structural 27.0 21 0.00045 26.4 -0.0 14 26-39 79-92 (115)
91 PRK00311 panB 3-methyl-2-oxobu 27.0 55 0.0012 27.4 2.5 36 43-78 97-134 (264)
92 cd01525 RHOD_Kc Member of the 26.8 1.3E+02 0.0028 20.0 4.0 29 30-61 69-97 (105)
93 TIGR02625 YiiL_rotase L-rhamno 26.6 60 0.0013 23.4 2.3 51 42-99 24-75 (102)
94 COG5014 Predicted Fe-S oxidore 26.5 72 0.0016 26.1 3.0 26 39-64 73-102 (228)
95 PRK14327 (dimethylallyl)adenos 26.5 1.7E+02 0.0037 26.7 5.7 89 27-119 263-372 (509)
96 PF15643 Tox-PL-2: Papain fold 26.4 98 0.0021 22.6 3.4 60 42-101 25-96 (100)
97 PRK00124 hypothetical protein; 26.1 56 0.0012 25.3 2.2 18 90-107 51-68 (151)
98 PRK13586 1-(5-phosphoribosyl)- 26.0 3.3E+02 0.0071 22.0 6.8 40 40-79 30-78 (232)
99 PRK09532 DNA polymerase III su 25.5 1.2E+02 0.0026 29.6 4.8 43 39-81 18-65 (874)
100 PRK14336 (dimethylallyl)adenos 25.1 4.1E+02 0.0088 23.2 7.7 88 28-119 176-284 (418)
101 TIGR00640 acid_CoA_mut_C methy 25.1 1.8E+02 0.004 21.5 4.8 47 41-87 41-99 (132)
102 TIGR03239 GarL 2-dehydro-3-deo 24.9 1.4E+02 0.0031 24.4 4.6 54 31-87 13-75 (249)
103 cd07038 TPP_PYR_PDC_IPDC_like 24.8 1.4E+02 0.0031 22.4 4.2 37 44-80 2-41 (162)
104 PF03720 UDPG_MGDP_dh_C: UDP-g 24.7 57 0.0012 22.8 1.9 42 28-70 3-46 (106)
105 TIGR00594 polc DNA-directed DN 24.5 1.3E+02 0.0028 30.0 4.8 44 39-82 16-64 (1022)
106 TIGR01579 MiaB-like-C MiaB-lik 24.5 1.1E+02 0.0023 26.5 3.9 89 28-120 190-299 (414)
107 PRK14334 (dimethylallyl)adenos 24.3 1.9E+02 0.0042 25.4 5.5 84 32-119 197-297 (440)
108 cd01448 TST_Repeat_1 Thiosulfa 24.0 1.3E+02 0.0028 20.8 3.7 25 39-63 61-88 (122)
109 PF08003 Methyltransf_9: Prote 24.0 86 0.0019 27.3 3.2 38 32-69 236-275 (315)
110 COG0613 Predicted metal-depend 23.7 1.3E+02 0.0027 24.8 4.0 34 36-69 13-48 (258)
111 PRK10258 biotin biosynthesis p 23.4 1.3E+02 0.0028 23.7 3.9 42 36-77 162-208 (251)
112 PF08491 SE: Squalene epoxidas 23.4 55 0.0012 27.8 1.8 56 53-110 44-99 (276)
113 PF06180 CbiK: Cobalt chelatas 23.1 1.9E+02 0.0042 24.1 5.0 64 33-102 177-256 (262)
114 PRK12702 mannosyl-3-phosphogly 23.1 2.4E+02 0.0052 24.3 5.7 74 46-121 140-235 (302)
115 TIGR02544 III_secr_YscJ type I 22.9 1.9E+02 0.0041 22.9 4.8 46 31-76 18-77 (193)
116 PRK05672 dnaE2 error-prone DNA 22.7 1.4E+02 0.003 29.8 4.7 44 38-81 19-67 (1046)
117 PF13727 CoA_binding_3: CoA-bi 22.6 1.2E+02 0.0027 21.7 3.4 39 41-79 129-173 (175)
118 COG2897 SseA Rhodanese-related 22.6 97 0.0021 26.3 3.2 42 37-78 70-122 (285)
119 PRK15412 thiol:disulfide inter 22.6 1.8E+02 0.0039 22.1 4.5 11 109-119 151-161 (185)
120 COG4669 EscJ Type III secretor 22.5 94 0.002 26.1 3.0 60 37-114 26-87 (246)
121 cd00642 GTP_cyclohydro1 GTP cy 22.5 94 0.002 24.8 2.9 71 41-124 29-99 (185)
122 PRK03092 ribose-phosphate pyro 22.3 1.4E+02 0.0031 25.2 4.2 43 30-72 78-125 (304)
123 cd07998 WGR_DNA_ligase WGR dom 22.3 49 0.0011 23.0 1.1 15 25-39 27-41 (77)
124 PRK09997 hydroxypyruvate isome 22.2 1.8E+02 0.0039 23.0 4.6 54 30-84 6-64 (258)
125 TIGR03599 YloV DAK2 domain fus 22.2 1.5E+02 0.0032 27.3 4.5 48 43-90 324-376 (530)
126 COG4032 Predicted thiamine-pyr 22.1 44 0.00096 26.4 1.0 30 61-90 5-34 (172)
127 cd02966 TlpA_like_family TlpA- 22.0 2.2E+02 0.0048 18.1 4.7 36 41-76 64-99 (116)
128 cd01423 MGS_CPS_I_III Methylgl 21.7 2.2E+02 0.0048 19.9 4.5 42 43-84 33-81 (116)
129 PRK01372 ddl D-alanine--D-alan 21.7 1.9E+02 0.004 23.4 4.6 53 27-80 6-62 (304)
130 PRK02261 methylaspartate mutas 21.6 1.7E+02 0.0036 21.8 4.0 34 26-60 56-89 (137)
131 PLN02424 ketopantoate hydroxym 21.6 1.2E+02 0.0026 26.5 3.6 49 41-89 111-168 (332)
132 COG4287 PqaA PhoPQ-activated p 21.5 85 0.0018 28.6 2.7 43 58-100 144-195 (507)
133 cd04730 NPD_like 2-Nitropropan 21.5 2.6E+02 0.0057 21.6 5.3 52 32-83 58-111 (236)
134 PF12689 Acid_PPase: Acid Phos 21.5 51 0.0011 25.7 1.2 43 53-102 40-82 (169)
135 cd07035 TPP_PYR_POX_like Pyrim 21.5 1.9E+02 0.0042 20.9 4.3 36 45-80 3-40 (155)
136 TIGR00385 dsbE periplasmic pro 21.4 2.9E+02 0.0063 20.6 5.4 46 25-76 93-139 (173)
137 PF03102 NeuB: NeuB family; I 21.1 1.8E+02 0.0039 24.0 4.4 65 28-100 68-135 (241)
138 PRK05660 HemN family oxidoredu 20.9 2.4E+02 0.0053 24.2 5.4 56 43-98 107-185 (378)
139 COG2272 PnbA Carboxylesterase 20.8 36 0.00079 31.2 0.3 19 92-110 160-178 (491)
140 PF12558 DUF3744: ATP-binding 20.8 1.3E+02 0.0028 20.2 2.9 53 47-106 3-57 (74)
141 KOG0078 GTP-binding protein SE 20.4 1.6E+02 0.0035 24.1 3.9 94 12-124 29-129 (207)
142 TIGR03569 NeuB_NnaB N-acetylne 20.3 3.5E+02 0.0076 23.3 6.2 57 43-103 99-158 (329)
143 PRK09525 lacZ beta-D-galactosi 20.3 3E+02 0.0066 27.4 6.4 80 44-123 375-464 (1027)
144 cd06557 KPHMT-like Ketopantoat 20.3 1.1E+02 0.0023 25.5 2.9 34 45-78 96-131 (254)
145 PF10151 DUF2359: Uncharacteri 20.2 54 0.0012 29.8 1.2 57 30-110 281-337 (469)
146 PF02776 TPP_enzyme_N: Thiamin 20.2 1.4E+02 0.0031 22.3 3.4 44 43-87 5-51 (172)
147 COG0635 HemN Coproporphyrinoge 20.2 2.2E+02 0.0047 25.2 5.0 64 43-106 137-223 (416)
148 PF01081 Aldolase: KDPG and KH 20.1 2.4E+02 0.0052 22.5 4.8 66 41-124 110-181 (196)
No 1
>PF00332 Glyco_hydro_17: Glycosyl hydrolases family 17; InterPro: IPR000490 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 17 GH17 from CAZY comprises enzymes with several known activities; endo-1,3-beta-glucosidase (3.2.1.39 from EC); lichenase (3.2.1.73 from EC); exo-1,3-glucanase (3.2.1.58 from EC). Currently these enzymes have only been found in plants and in fungi. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1AQ0_B 1GHR_A 1GHS_B 2CYG_A 3UR8_A 3UR7_B 3EM5_C 3F55_D.
Probab=100.00 E-value=3.7e-42 Score=289.11 Aligned_cols=115 Identities=45% Similarity=0.728 Sum_probs=97.1
Q ss_pred cceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCC
Q 046781 28 IGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPY 107 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py 107 (142)
|||||||+|||||+|++||+|||+++|++|||||+||++||||+||||+|+++|||++|+++++++.+|..||++||.||
T Consensus 1 iGvnyG~~~~nlp~p~~vv~l~ks~~i~~vri~d~~~~iL~a~a~S~i~v~v~vpN~~l~~la~~~~~A~~Wv~~nv~~~ 80 (310)
T PF00332_consen 1 IGVNYGRVGNNLPSPCKVVSLLKSNGITKVRIYDADPSILRAFAGSGIEVMVGVPNEDLASLASSQSAAGSWVRTNVLPY 80 (310)
T ss_dssp EEEEE---SSS---HHHHHHHHHHTT--EEEESS--HHHHHHHTTS--EEEEEE-GGGHHHHHHHHHHHHHHHHHHTCTC
T ss_pred CeEeccCccCCCCCHHHHHHHHHhcccccEEeecCcHHHHHHHhcCCceeeeccChHHHHHhccCHHHHhhhhhhccccc
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeEEEEeeccccCCCccchhhHHHHHHHhhC
Q 046781 108 LKDVVFSLIAVGNQVIPREFCQYVLPVMQILNNIL 142 (142)
Q Consensus 108 ~p~t~I~~I~VGNEv~~~~~~~~llPAM~Ni~~AL 142 (142)
+|+++|++|+||||++++....+|||||+|+|+||
T Consensus 81 ~~~~~i~~i~VGnEv~~~~~~~~lvpAm~ni~~aL 115 (310)
T PF00332_consen 81 LPAVNIRYIAVGNEVLTGTDNAYLVPAMQNIHNAL 115 (310)
T ss_dssp TTTSEEEEEEEEES-TCCSGGGGHHHHHHHHHHHH
T ss_pred CcccceeeeecccccccCccceeeccHHHHHHHHH
Confidence 99999999999999998654448999999999986
No 2
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=97.23 E-value=0.0019 Score=54.81 Aligned_cols=108 Identities=20% Similarity=0.326 Sum_probs=75.3
Q ss_pred CccceeecCCCCC--CCChHHHHH---HHHhCCCCeEEeeCCC----HHHHhhhcCCCceEEecc-CCCChhhhhcCHHH
Q 046781 26 NDIGFCYGKLEND--LPSATDVIN---PYKKYSIGKIRLFDPN----DAALNALRGSQIDVTLGV-RNEDLPNLAASQDA 95 (142)
Q Consensus 26 ~~iGVnyG~~g~n--LPsp~~vv~---llks~~i~~vRlyd~d----p~vL~Ala~sgI~v~v~v-pN~~l~~la~s~~~ 95 (142)
...|+|||..-++ -+|.+++.. +|++..+ .+|+|..| ..++.|...+|+++.+|+ |-+++.. +.
T Consensus 44 g~~~f~l~~~n~dGtCKSa~~~~sDLe~l~~~t~-~IR~Y~sDCn~le~v~pAa~~~g~kv~lGiw~tdd~~~---~~-- 117 (305)
T COG5309 44 GFLAFTLGPYNDDGTCKSADQVASDLELLASYTH-SIRTYGSDCNTLENVLPAAEASGFKVFLGIWPTDDIHD---AV-- 117 (305)
T ss_pred cccceeccccCCCCCCcCHHHHHhHHHHhccCCc-eEEEeeccchhhhhhHHHHHhcCceEEEEEeeccchhh---hH--
Confidence 4579999998777 589999865 6777766 99999755 467788889999999998 3334332 11
Q ss_pred HHHHHHhcCcCCCCCceeEEEEeeccccCCCc--cchhhHHHHHHHh
Q 046781 96 ANSWFATNMEPYLKDVVFSLIAVGNQVIPREF--CQYVLPVMQILNN 140 (142)
Q Consensus 96 A~~WV~~nV~py~p~t~I~~I~VGNEv~~~~~--~~~llPAM~Ni~~ 140 (142)
+.=....+.||..--.++.|.||||.+-++. +.+|.-=+..+..
T Consensus 118 -~~til~ay~~~~~~d~v~~v~VGnEal~r~~~tasql~~~I~~vrs 163 (305)
T COG5309 118 -EKTILSAYLPYNGWDDVTTVTVGNEALNRNDLTASQLIEYIDDVRS 163 (305)
T ss_pred -HHHHHHHHhccCCCCceEEEEechhhhhcCCCCHHHHHHHHHHHHH
Confidence 1123345677776667899999999997432 3445444444443
No 3
>PF03198 Glyco_hydro_72: Glucanosyltransferase; InterPro: IPR004886 This family is a group of yeast glycolipid proteins anchored to the membrane. It includes Candida albicans (Yeast) pH-regulated protein, which is required for apical growth and plays a role in morphogenesis and Saccharomyces cerevisiae glycolipid anchored surface protein.; PDB: 2W61_A 2W62_A 2W63_A.
Probab=94.29 E-value=0.19 Score=43.33 Aligned_cols=104 Identities=19% Similarity=0.269 Sum_probs=52.5
Q ss_pred cceeecCCCC-------CCCChHHHH----HHHHhCCCCeEEeeCCCH-----HHHhhhcCCCceEEeccCCC--Chhhh
Q 046781 28 IGFCYGKLEN-------DLPSATDVI----NPYKKYSIGKIRLFDPND-----AALNALRGSQIDVTLGVRNE--DLPNL 89 (142)
Q Consensus 28 iGVnyG~~g~-------nLPsp~~vv----~llks~~i~~vRlyd~dp-----~vL~Ala~sgI~v~v~vpN~--~l~~l 89 (142)
.||.|=..++ |.-+-.+.- .++|++|+.-+|+|.-|| +-.++|+..||=|++++... .|.+-
T Consensus 30 kGVaYQp~~~~~~~~~~DPLad~~~C~rDi~~l~~LgiNtIRVY~vdp~~nHd~CM~~~~~aGIYvi~Dl~~p~~sI~r~ 109 (314)
T PF03198_consen 30 KGVAYQPGGSSEPSNYIDPLADPEACKRDIPLLKELGINTIRVYSVDPSKNHDECMSAFADAGIYVILDLNTPNGSINRS 109 (314)
T ss_dssp EEEE----------SS--GGG-HHHHHHHHHHHHHHT-SEEEES---TTS--HHHHHHHHHTT-EEEEES-BTTBS--TT
T ss_pred eeEEcccCCCCCCccCcCcccCHHHHHHhHHHHHHcCCCEEEEEEeCCCCCHHHHHHHHHhCCCEEEEecCCCCccccCC
Confidence 6898865555 322222333 489999999999996554 57899999999999887543 34332
Q ss_pred hcCHHHHHHHHH----------hcCcCCCCCceeEEEEeeccccCC----CccchhhHHHHHH
Q 046781 90 AASQDAANSWFA----------TNMEPYLKDVVFSLIAVGNQVIPR----EFCQYVLPVMQIL 138 (142)
Q Consensus 90 a~s~~~A~~WV~----------~nV~py~p~t~I~~I~VGNEv~~~----~~~~~llPAM~Ni 138 (142)
. | +..|=. +.... || +.-...+||||... ..++++=.+.|.+
T Consensus 110 ~--P--~~sw~~~l~~~~~~vid~fa~-Y~--N~LgFf~GNEVin~~~~t~aap~vKAavRD~ 165 (314)
T PF03198_consen 110 D--P--APSWNTDLLDRYFAVIDAFAK-YD--NTLGFFAGNEVINDASNTNAAPYVKAAVRDM 165 (314)
T ss_dssp S----------HHHHHHHHHHHHHHTT--T--TEEEEEEEESSS-STT-GGGHHHHHHHHHHH
T ss_pred C--C--cCCCCHHHHHHHHHHHHHhcc-CC--ceEEEEecceeecCCCCcccHHHHHHHHHHH
Confidence 2 2 234421 11222 35 44578889999963 2245554455544
No 4
>PF00925 GTP_cyclohydro2: GTP cyclohydrolase II; InterPro: IPR000926 GTP cyclohydrolase II catalyses the first committed step in the biosynthesis of riboflavin. The enzyme converts GTP and water to formate, 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)- pyrimidine and pyrophosphate, and requires magnesium as a cofactor. It is sometimes found as a bifunctional enzyme with 3,4-dihydroxy-2-butanone 4-phosphate synthase (DHBP_synthase) IPR000422 from INTERPRO. ; GO: 0003935 GTP cyclohydrolase II activity, 0009231 riboflavin biosynthetic process; PDB: 2BZ0_B 2BZ1_A.
Probab=92.94 E-value=0.095 Score=40.68 Aligned_cols=41 Identities=22% Similarity=0.206 Sum_probs=30.0
Q ss_pred hHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 42 ATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
-.--+|.||..||++||+...+|.-+.+|.|-||+|.=.+|
T Consensus 128 ygigaqIL~dLGV~~~rLLtnnp~k~~~L~g~gleV~~~vp 168 (169)
T PF00925_consen 128 YGIGAQILRDLGVKKMRLLTNNPRKYVALEGFGLEVVERVP 168 (169)
T ss_dssp THHHHHHHHHTT--SEEEE-S-HHHHHHHHHTT--EEEEE-
T ss_pred HHHHHHHHHHcCCCEEEECCCChhHHHHHhcCCCEEEEEec
Confidence 34568999999999999999999999999999999976555
No 5
>PRK00393 ribA GTP cyclohydrolase II; Reviewed
Probab=89.47 E-value=0.5 Score=37.60 Aligned_cols=36 Identities=25% Similarity=0.369 Sum_probs=32.7
Q ss_pred HHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEecc
Q 046781 46 INPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGV 81 (142)
Q Consensus 46 v~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~v 81 (142)
+|.||..||++||+...+|.-..+|.|-||+|.=-+
T Consensus 134 AQIL~dLGV~~mrLLtn~~~k~~~L~g~GleV~~~~ 169 (197)
T PRK00393 134 ADMLKALGVKKVRLLTNNPKKVEALTEAGINIVERV 169 (197)
T ss_pred HHHHHHcCCCEEEECCCCHHHHHHHHhCCCEEEEEe
Confidence 899999999999999999988999999999997333
No 6
>TIGR00505 ribA GTP cyclohydrolase II. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal. The function of archaeal members of the family has not been demonstrated and is assigned tentatively.
Probab=89.46 E-value=0.5 Score=37.37 Aligned_cols=36 Identities=19% Similarity=0.361 Sum_probs=32.6
Q ss_pred HHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEecc
Q 046781 46 INPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGV 81 (142)
Q Consensus 46 v~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~v 81 (142)
+|.|+..||++||+...+|.-..+|.|-||+|+=-+
T Consensus 131 AQIL~dLGV~~~rLLtn~~~k~~~L~g~gleVv~~~ 166 (191)
T TIGR00505 131 ADILEDLGVKKVRLLTNNPKKIEILKKAGINIVERV 166 (191)
T ss_pred HHHHHHcCCCEEEECCCCHHHHHHHHhCCCEEEEEe
Confidence 899999999999999999988999999999997333
No 7
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=88.57 E-value=1.2 Score=28.67 Aligned_cols=41 Identities=17% Similarity=0.275 Sum_probs=35.0
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCceEEecc
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQIDVTLGV 81 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI~v~v~v 81 (142)
+|++.++..+.+|++.+-+-|.+ ++..+..+..||+++.|+
T Consensus 16 ~~~~~~~~a~~~g~~~v~iTDh~~~~~~~~~~~~~~~~gi~~i~G~ 61 (67)
T smart00481 16 SPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGL 61 (67)
T ss_pred CHHHHHHHHHHcCCCEEEEeeCCcccCHHHHHHHHHHcCCeEEEEE
Confidence 68999999999999999999988 666777777788887775
No 8
>cd00641 GTP_cyclohydro2 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the precursor molecule for the synthesis of the coenzymes flavin mononucleotide (FMN) and flavin adenine dinucleotide (FAD) which are essential to cell metabolism. The enzyme is present in plants and numerous pathogenic bacteria, especially gram negative organisms, who are dependent on endogenous synthesis of the vitamin because they lack an appropriate uptake system. For animals and humans, which lack this biosynthetic pathway, riboflavin is the essential vitamin B2. GTP cyclohydrolase II requires magnesium ions for activity and has a bound catalytic zinc. The functionally active form is thought to be a homodimer. A paralogous protein is encoded in the genome of Streptomyces coelicolor, which converts GTP to 2-amino-5-fo
Probab=87.16 E-value=0.86 Score=36.01 Aligned_cols=37 Identities=27% Similarity=0.393 Sum_probs=33.1
Q ss_pred HHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 46 INPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 46 v~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
+|.|+..||.+||+...+|.-..+|.|-|++|+=-+|
T Consensus 133 AQIL~dLGv~~mrLLs~~~~k~~~L~gfglevv~~~~ 169 (193)
T cd00641 133 AQILRDLGIKSVRLLTNNPDKIDALEGYGIEVVERVP 169 (193)
T ss_pred HHHHHHcCCCeEEECCCCHHHHHHHHhCCCEEEEEec
Confidence 8999999999999998888889999999999974443
No 9
>PRK12485 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional
Probab=83.87 E-value=1.4 Score=38.76 Aligned_cols=33 Identities=18% Similarity=0.311 Sum_probs=31.1
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEE
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVT 78 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~ 78 (142)
.+|+||..||++|||. .+|+=..+|.+-||+|.
T Consensus 330 gAqILr~LGV~kirLL-nNP~K~~~L~~~GIeV~ 362 (369)
T PRK12485 330 GAQILQDLGVGKLRHL-GPPLKYAGLTGYDLEVV 362 (369)
T ss_pred HHHHHHHcCCCEEEEC-CCchhhhhhhhCCcEEE
Confidence 6899999999999999 68999999999999996
No 10
>PRK09314 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=83.54 E-value=1.4 Score=38.31 Aligned_cols=36 Identities=19% Similarity=0.241 Sum_probs=32.6
Q ss_pred HHHHHHHHhCCCCeEEeeCCC-HHHHhhhcCCCceEE
Q 046781 43 TDVINPYKKYSIGKIRLFDPN-DAALNALRGSQIDVT 78 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd~d-p~vL~Ala~sgI~v~ 78 (142)
.-..|+||..||++|||...+ |+-..+|.+.||+|+
T Consensus 298 gigaqIL~dLGi~~irLlTnn~p~K~~~L~~~GieV~ 334 (339)
T PRK09314 298 GIGAQILKYLGIKDIKLLSSSEDKEYVGLSGFGLNIV 334 (339)
T ss_pred hHHHHHHHHCCCCEEEECCCCChhhhhhHhhCCcEEE
Confidence 445899999999999999998 988999999999986
No 11
>PRK14019 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional
Probab=82.06 E-value=1.8 Score=37.89 Aligned_cols=37 Identities=22% Similarity=0.330 Sum_probs=33.1
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
.+|+||..||++|||.. +|+=..+|.+-||+|+=-+|
T Consensus 327 gaqIL~~Lgv~~irLlT-np~K~~~L~~~Gi~V~~~~~ 363 (367)
T PRK14019 327 GAQILRDLGVGKMRLLS-SPRKFPSMSGFGLEVTGYVP 363 (367)
T ss_pred HHHHHHHcCCCeEEECC-CcHHHHhhhhCCcEEEEEec
Confidence 38999999999999998 89999999999999974443
No 12
>PF02836 Glyco_hydro_2_C: Glycosyl hydrolases family 2, TIM barrel domain; InterPro: IPR006103 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 2 GH2 from CAZY comprises enzymes with several known activities; beta-galactosidase (3.2.1.23 from EC); beta-mannosidase (3.2.1.25 from EC); beta-glucuronidase (3.2.1.31 from EC). These enzymes contain a conserved glutamic acid residue which has been shown [], in Escherichia coli lacZ (P00722 from SWISSPROT), to be the general acid/base catalyst in the active site of the enzyme. Beta-galactosidase from E. coli has a TIM-barrel-like core surrounded by four other largely beta domains [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3CMG_A 3FN9_C 1YQ2_A 3K4D_B 3LPG_B 3LPF_A 3K4A_B 3K46_B 3GM8_A 3DEC_A ....
Probab=80.35 E-value=4.8 Score=33.04 Aligned_cols=94 Identities=14% Similarity=0.078 Sum_probs=55.4
Q ss_pred cceeecC----CCCCCCChHHH---HHHHHhCCCCeEEee--CCCHHHHhhhcCCCceEEeccCCCCh---h------hh
Q 046781 28 IGFCYGK----LENDLPSATDV---INPYKKYSIGKIRLF--DPNDAALNALRGSQIDVTLGVRNEDL---P------NL 89 (142)
Q Consensus 28 iGVnyG~----~g~nLPsp~~v---v~llks~~i~~vRly--d~dp~vL~Ala~sgI~v~v~vpN~~l---~------~l 89 (142)
-|||+.. .|.- ++.++. ++++|+.|+..+|+. -++|+.+..+-.-||=|+...|..-. . ..
T Consensus 18 ~Gv~~h~~~~~~g~a-~~~~~~~~d~~l~k~~G~N~iR~~h~p~~~~~~~~cD~~GilV~~e~~~~~~~~~~~~~~~~~~ 96 (298)
T PF02836_consen 18 RGVNRHQDYPGLGRA-MPDEAMERDLELMKEMGFNAIRTHHYPPSPRFYDLCDELGILVWQEIPLEGHGSWQDFGNCNYD 96 (298)
T ss_dssp EEEEE-S-BTTTBT----HHHHHHHHHHHHHTT-SEEEETTS--SHHHHHHHHHHT-EEEEE-S-BSCTSSSSTSCTSCT
T ss_pred EEEeeCcCccccccc-CCHHHHHHHHHHHHhcCcceEEcccccCcHHHHHHHhhcCCEEEEeccccccCccccCCccccC
Confidence 5888764 3433 333433 457999999999985 56789999999999999988887221 1 11
Q ss_pred hcCH---HHHHHHHHhcCcCCCCCceeEEEEeeccc
Q 046781 90 AASQ---DAANSWFATNMEPYLKDVVFSLIAVGNQV 122 (142)
Q Consensus 90 a~s~---~~A~~WV~~nV~py~p~t~I~~I~VGNEv 122 (142)
+.++ ..+.+-+++.|..+...-.|-.=.+|||.
T Consensus 97 ~~~~~~~~~~~~~~~~~v~~~~NHPSIi~W~~gNE~ 132 (298)
T PF02836_consen 97 ADDPEFRENAEQELREMVRRDRNHPSIIMWSLGNES 132 (298)
T ss_dssp TTSGGHHHHHHHHHHHHHHHHTT-TTEEEEEEEESS
T ss_pred CCCHHHHHHHHHHHHHHHHcCcCcCchheeecCccC
Confidence 2233 33345566777776644444556779998
No 13
>PRK09311 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=80.04 E-value=2.7 Score=37.23 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=34.0
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
.+|.||..||++|||...+|+=..+|.+-||+|.=.+|
T Consensus 338 gaqIL~~LGv~~irLLTnnp~K~~~L~~~GieV~~~v~ 375 (402)
T PRK09311 338 GAQILVDLGVRSMRLLTNNPRKIAGLQGYGLHVTERVP 375 (402)
T ss_pred HHHHHHHcCCCEEEECCCCHHHHHHHhhCCCEEEEEec
Confidence 48999999999999999999999999999999974443
No 14
>PRK09318 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=79.07 E-value=2.8 Score=37.01 Aligned_cols=38 Identities=29% Similarity=0.307 Sum_probs=34.5
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
.+|.||..||++|||...+|+=..+|.+.||+|.=.+|
T Consensus 319 gAqIL~dLGV~~irLLTNnp~K~~~L~~~GieV~~~vp 356 (387)
T PRK09318 319 AFQILKALGIEKVRLLTNNPRKTKALEKYGIEVVETVP 356 (387)
T ss_pred HHHHHHHcCCCEEEECCCCHHHHHHHHhCCCEEEEEec
Confidence 48999999999999999999999999999999985554
No 15
>PRK09319 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional
Probab=79.00 E-value=2.7 Score=38.85 Aligned_cols=38 Identities=21% Similarity=0.274 Sum_probs=34.6
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
.+|.|+..||++|||..-+|+=+.+|.+-||+|+=.+|
T Consensus 342 gAQIL~dLGI~kIrLLTNNP~Ki~~L~~~GIeVv~rvp 379 (555)
T PRK09319 342 GAQILNDLGIKRLRLITNNPRKIAGLGGYGLEVVDRVP 379 (555)
T ss_pred HHHHHHHcCCCEEEECCCCHHHHHHHHhCCCEEEEEec
Confidence 48999999999999999999999999999999985554
No 16
>PRK08815 GTP cyclohydrolase; Provisional
Probab=78.82 E-value=2.9 Score=36.77 Aligned_cols=38 Identities=24% Similarity=0.400 Sum_probs=34.1
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
-+|.||..||++||+...+|+=..+|.+-||+|.=-+|
T Consensus 304 gAQIL~dLGV~kirLLTnnp~K~~~L~g~gieVv~~vp 341 (375)
T PRK08815 304 AVAMLRGLGITRVRLLTNNPTKAERLRAAGIEVEDRIR 341 (375)
T ss_pred HHHHHHHcCCCeEEECCCCHHHHHHHHhCCCEEEEEec
Confidence 38999999999999999999999999999999975454
No 17
>PLN02831 Bifunctional GTP cyclohydrolase II/ 3,4-dihydroxy-2-butanone-4-phosphate synthase
Probab=78.39 E-value=3.1 Score=37.45 Aligned_cols=38 Identities=21% Similarity=0.275 Sum_probs=34.3
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
-+|.||..||++|||...+|+=..+|.+-||+|.=.+|
T Consensus 372 gAqIL~dLGI~~irLLTNNp~K~~~L~~~GieVve~vp 409 (450)
T PLN02831 372 GAQILRDLGVRTMRLMTNNPAKYTGLKGYGLAVVGRVP 409 (450)
T ss_pred HHHHHHHcCCCEEEECCCCHHHHHHHhhCCCEEEEEec
Confidence 48999999999999999999999999999999974444
No 18
>PRK10150 beta-D-glucuronidase; Provisional
Probab=78.08 E-value=26 Score=31.98 Aligned_cols=80 Identities=11% Similarity=0.017 Sum_probs=53.9
Q ss_pred HHHHHHhCCCCeEEe--eCCCHHHHhhhcCCCceEEeccCCCCh------------------hhhhcCHHHH---HHHHH
Q 046781 45 VINPYKKYSIGKIRL--FDPNDAALNALRGSQIDVTLGVRNEDL------------------PNLAASQDAA---NSWFA 101 (142)
Q Consensus 45 vv~llks~~i~~vRl--yd~dp~vL~Ala~sgI~v~v~vpN~~l------------------~~la~s~~~A---~~WV~ 101 (142)
-++++|+.|+..||+ |=.+++.+.++-.-||=|+-.+|.... ...+.++... .+-++
T Consensus 318 d~~l~K~~G~N~vR~sh~p~~~~~~~~cD~~GllV~~E~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 397 (604)
T PRK10150 318 DHNLMKWIGANSFRTSHYPYSEEMLDLADRHGIVVIDETPAVGLNLSFGAGLEAGNKPKETYSEEAVNGETQQAHLQAIR 397 (604)
T ss_pred HHHHHHHCCCCEEEeccCCCCHHHHHHHHhcCcEEEEecccccccccccccccccccccccccccccchhHHHHHHHHHH
Confidence 367899999999998 334889999999999999887764211 0011112222 23356
Q ss_pred hcCcCCCCCceeEEEEeeccccC
Q 046781 102 TNMEPYLKDVVFSLIAVGNQVIP 124 (142)
Q Consensus 102 ~nV~py~p~t~I~~I~VGNEv~~ 124 (142)
+.|..+...-.|-.=.+|||.-.
T Consensus 398 ~mv~r~~NHPSIi~Ws~gNE~~~ 420 (604)
T PRK10150 398 ELIARDKNHPSVVMWSIANEPAS 420 (604)
T ss_pred HHHHhccCCceEEEEeeccCCCc
Confidence 67777765556667788999753
No 19
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=78.05 E-value=6.9 Score=28.08 Aligned_cols=67 Identities=13% Similarity=0.150 Sum_probs=46.0
Q ss_pred cCCCCccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHH
Q 046781 22 ASNSNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFA 101 (142)
Q Consensus 22 ~~~~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~ 101 (142)
....+.|-|.-.+.|.++|..+++-+.|++.||+.-++.. .+.++.+...-++ .+-.|.+.++
T Consensus 28 yge~pAvqIs~~~~~~~~~~~~~v~~~L~~~~I~~k~i~~---------~~~~llirf~~~~--------~Ql~Ak~~L~ 90 (101)
T PF13721_consen 28 YGEDPAVQISASSAGVQLPDAFQVEQALKAAGIAVKSIEQ---------EGDSLLIRFDSTD--------QQLKAKDVLS 90 (101)
T ss_pred cCCCCcEEEecCCCCccCChHHHHHHHHHHCCCCcceEEe---------eCCEEEEEECCHH--------HHHHHHHHHH
Confidence 4456778889888888999999999999999998766642 2234444333332 4556677776
Q ss_pred hcCc
Q 046781 102 TNME 105 (142)
Q Consensus 102 ~nV~ 105 (142)
+.+-
T Consensus 91 ~~L~ 94 (101)
T PF13721_consen 91 KALG 94 (101)
T ss_pred HHcC
Confidence 6554
No 20
>PRK07198 hypothetical protein; Validated
Probab=77.65 E-value=1.9 Score=38.60 Aligned_cols=46 Identities=26% Similarity=0.307 Sum_probs=37.3
Q ss_pred HHHHHHHhCCCCeE-EeeCCCHHHHhhhcCCCceEEecc--CCCChhhh
Q 046781 44 DVINPYKKYSIGKI-RLFDPNDAALNALRGSQIDVTLGV--RNEDLPNL 89 (142)
Q Consensus 44 ~vv~llks~~i~~v-Rlyd~dp~vL~Ala~sgI~v~v~v--pN~~l~~l 89 (142)
--.|.|+.+||++| |+...+|.-..+|.|.||+|+=-+ |.+.+|.=
T Consensus 336 lGAQILrdLGV~Km~RLLTNnp~K~~gL~GfGLEVVErVpl~~~~~p~d 384 (418)
T PRK07198 336 LMPDVLHWLGIRRIHRLVSMSNMKYDAITGSGIEVGERVPIPDELIPAD 384 (418)
T ss_pred HHHHHHHHhCCChhhhhcCCCHHHHHHHHhCCCEEEEEeccCcCCCccc
Confidence 35789999999999 999999999999999999997444 44444433
No 21
>COG0807 RibA GTP cyclohydrolase II [Coenzyme metabolism]
Probab=77.34 E-value=4 Score=32.94 Aligned_cols=41 Identities=29% Similarity=0.237 Sum_probs=36.7
Q ss_pred HHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCC
Q 046781 45 VINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNED 85 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~ 85 (142)
-+|+||..||+++|+-..+|.-..++.+-||+|.=.+|...
T Consensus 132 gAqIL~dLGI~~irLLtnnp~K~~~l~~~Gi~vverv~~~~ 172 (193)
T COG0807 132 GAQILKDLGIKKIRLLTNNPRKIYGLEGFGINVVERVPLIV 172 (193)
T ss_pred HHHHHHHcCCcEEEEecCChHHHHHHHhCCceEEEEeecCC
Confidence 47899999999999999999999999999999988887543
No 22
>PF00150 Cellulase: Cellulase (glycosyl hydrolase family 5); InterPro: IPR001547 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 5 GH5 from CAZY comprises enzymes with several known activities; endoglucanase (3.2.1.4 from EC); beta-mannanase (3.2.1.78 from EC); exo-1,3-glucanase (3.2.1.58 from EC); endo-1,6-glucanase (3.2.1.75 from EC); xylanase (3.2.1.8 from EC); endoglycoceramidase (3.2.1.123 from EC). The microbial degradation of cellulose and xylans requires several types of enzymes. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family A [] or as the glycosyl hydrolases family 5 []. One of the conserved regions in this family contains a conserved glutamic acid residue which is potentially involved [] in the catalytic mechanism.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 3NDY_A 3NDZ_B 1LF1_A 1TVP_B 1TVN_A 3AYR_A 3AYS_A 1QI0_A 1W3K_A 1OCQ_A ....
Probab=77.29 E-value=6.1 Score=31.03 Aligned_cols=85 Identities=16% Similarity=0.200 Sum_probs=54.8
Q ss_pred ChHHHHHHHHhCCCCeEEeeC-------CCH-------------HHHhhhcCCCceEEeccCCC-Ch---hhhhcCHHHH
Q 046781 41 SATDVINPYKKYSIGKIRLFD-------PND-------------AALNALRGSQIDVTLGVRNE-DL---PNLAASQDAA 96 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd-------~dp-------------~vL~Ala~sgI~v~v~vpN~-~l---~~la~s~~~A 96 (142)
..++..+.+|+.|+..|||.- ++| +++++++.-||.|++++-+. .. ..........
T Consensus 22 ~~~~~~~~~~~~G~n~VRi~v~~~~~~~~~~~~~~~~~~~~~ld~~v~~a~~~gi~vild~h~~~~w~~~~~~~~~~~~~ 101 (281)
T PF00150_consen 22 ITEADFDQLKALGFNTVRIPVGWEAYQEPNPGYNYDETYLARLDRIVDAAQAYGIYVILDLHNAPGWANGGDGYGNNDTA 101 (281)
T ss_dssp SHHHHHHHHHHTTESEEEEEEESTSTSTTSTTTSBTHHHHHHHHHHHHHHHHTT-EEEEEEEESTTCSSSTSTTTTHHHH
T ss_pred CHHHHHHHHHHCCCCEEEeCCCHHHhcCCCCCccccHHHHHHHHHHHHHHHhCCCeEEEEeccCccccccccccccchhh
Confidence 778999999999999999972 222 36778888999999988764 00 1111233334
Q ss_pred HHHHHh---cCcCCC-CCceeEEEEeeccccCC
Q 046781 97 NSWFAT---NMEPYL-KDVVFSLIAVGNQVIPR 125 (142)
Q Consensus 97 ~~WV~~---nV~py~-p~t~I~~I~VGNEv~~~ 125 (142)
.+|.++ .+...| ..-.|-++=+.||+...
T Consensus 102 ~~~~~~~~~~la~~y~~~~~v~~~el~NEP~~~ 134 (281)
T PF00150_consen 102 QAWFKSFWRALAKRYKDNPPVVGWELWNEPNGG 134 (281)
T ss_dssp HHHHHHHHHHHHHHHTTTTTTEEEESSSSGCST
T ss_pred HHHHHhhhhhhccccCCCCcEEEEEecCCcccc
Confidence 444433 233333 33346689999999873
No 23
>PF13756 Stimulus_sens_1: Stimulus-sensing domain
Probab=77.14 E-value=1.6 Score=31.72 Aligned_cols=28 Identities=18% Similarity=0.341 Sum_probs=23.0
Q ss_pred ChHHHHHHHHhCCC---CeEEeeCCCHHHHh
Q 046781 41 SATDVINPYKKYSI---GKIRLFDPNDAALN 68 (142)
Q Consensus 41 sp~~vv~llks~~i---~~vRlyd~dp~vL~ 68 (142)
.|+++..+|+.+.. ++.||||+|...+-
T Consensus 2 ~pe~a~plLrrL~~Pt~~RARlyd~dG~Ll~ 32 (112)
T PF13756_consen 2 NPERARPLLRRLISPTRTRARLYDPDGNLLA 32 (112)
T ss_pred CHHHHHHHHHHhCCCCCceEEEECCCCCEEe
Confidence 47889999998865 89999999887653
No 24
>cd04743 NPD_PKS 2-Nitropropane dioxygenase (NPD)-like domain, associated with polyketide synthases (PKS). NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDPs are members of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=72.96 E-value=17 Score=31.34 Aligned_cols=79 Identities=11% Similarity=0.034 Sum_probs=58.1
Q ss_pred CccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCc
Q 046781 26 NDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNME 105 (142)
Q Consensus 26 ~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~ 105 (142)
..+|||.-...++ |..++.++.+.+.+++-|-+..-+|+..+.|...||.++..|| |...|..+.+.
T Consensus 56 kPfGVnl~~~~~~-~~~~~~l~vi~e~~v~~V~~~~G~P~~~~~lk~~Gi~v~~~v~---------s~~~A~~a~~~--- 122 (320)
T cd04743 56 KPWGVGILGFVDT-ELRAAQLAVVRAIKPTFALIAGGRPDQARALEAIGISTYLHVP---------SPGLLKQFLEN--- 122 (320)
T ss_pred CCeEEEEeccCCC-cchHHHHHHHHhcCCcEEEEcCCChHHHHHHHHCCCEEEEEeC---------CHHHHHHHHHc---
Confidence 4578988433333 3456778888889999888887777778999999999999888 66777777663
Q ss_pred CCCCCceeEEEEeeccc
Q 046781 106 PYLKDVVFSLIAVGNQV 122 (142)
Q Consensus 106 py~p~t~I~~I~VGNEv 122 (142)
+++. -|+-|.|-
T Consensus 123 ----GaD~-vVaqG~EA 134 (320)
T cd04743 123 ----GARK-FIFEGREC 134 (320)
T ss_pred ----CCCE-EEEecCcC
Confidence 3443 47778884
No 25
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=68.58 E-value=17 Score=27.31 Aligned_cols=38 Identities=11% Similarity=0.044 Sum_probs=29.0
Q ss_pred CCCCccceeecCCCCCCCChHHHHHHHHhCCCCeEEee
Q 046781 23 SNSNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLF 60 (142)
Q Consensus 23 ~~~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRly 60 (142)
.....+-|.-.+.|..+|...+|-+.|+++||.--++.
T Consensus 33 gedpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~ 70 (127)
T PRK10629 33 QQESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSIT 70 (127)
T ss_pred CCCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEE
Confidence 34566777766667677999999999999999765553
No 26
>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.
Probab=65.89 E-value=9 Score=31.92 Aligned_cols=36 Identities=17% Similarity=0.375 Sum_probs=30.3
Q ss_pred CChHHHHHHHHhCCCCeEEee-CCCHHHHhhhcCCCce
Q 046781 40 PSATDVINPYKKYSIGKIRLF-DPNDAALNALRGSQID 76 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRly-d~dp~vL~Ala~sgI~ 76 (142)
-.-.++++-||+.|| +|-|| |||++-+++-+..|-+
T Consensus 110 ~~l~~~i~~l~~~gI-~VSLFiDP~~~qi~~A~~~GAd 146 (237)
T TIGR00559 110 DKLCELVKRFHAAGI-EVSLFIDADKDQISAAAEVGAD 146 (237)
T ss_pred HHHHHHHHHHHHCCC-EEEEEeCCCHHHHHHHHHhCcC
Confidence 345788999999999 88899 9999999998877654
No 27
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=64.87 E-value=9.7 Score=31.67 Aligned_cols=37 Identities=24% Similarity=0.431 Sum_probs=30.9
Q ss_pred CChHHHHHHHHhCCCCeEEee-CCCHHHHhhhcCCCceE
Q 046781 40 PSATDVINPYKKYSIGKIRLF-DPNDAALNALRGSQIDV 77 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRly-d~dp~vL~Ala~sgI~v 77 (142)
-.-.++++-||+.|| +|-|| |||++.+++-+..|-+.
T Consensus 110 ~~l~~~i~~l~~~gI-~VSLFiDPd~~qi~~A~~~GAd~ 147 (234)
T cd00003 110 EKLKPIIERLKDAGI-RVSLFIDPDPEQIEAAKEVGADR 147 (234)
T ss_pred HHHHHHHHHHHHCCC-EEEEEeCCCHHHHHHHHHhCcCE
Confidence 345788999999999 69999 99999999988777543
No 28
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=61.75 E-value=12 Score=31.24 Aligned_cols=36 Identities=25% Similarity=0.390 Sum_probs=29.7
Q ss_pred CChHHHHHHHHhCCCCeEEee-CCCHHHHhhhcCCCce
Q 046781 40 PSATDVINPYKKYSIGKIRLF-DPNDAALNALRGSQID 76 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRly-d~dp~vL~Ala~sgI~ 76 (142)
-.-.++++-||+.|| +|-|| |||++-+++-+..|-+
T Consensus 113 ~~l~~~i~~L~~~gI-rVSLFidP~~~qi~~A~~~GAd 149 (239)
T PRK05265 113 DKLKPAIARLKDAGI-RVSLFIDPDPEQIEAAAEVGAD 149 (239)
T ss_pred HHHHHHHHHHHHCCC-EEEEEeCCCHHHHHHHHHhCcC
Confidence 345778999999999 88888 9999999988776644
No 29
>PF07745 Glyco_hydro_53: Glycosyl hydrolase family 53; InterPro: IPR011683 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain is found in family 53 of the glycosyl hydrolase classification []. These enzymes are endo-1,4- beta-galactanases (3.2.1.89 from EC). The structure of this domain is known [] and has a TIM barrel fold.; GO: 0015926 glucosidase activity; PDB: 1HJQ_A 1HJS_A 1HJU_B 1FHL_A 1FOB_A 2GFT_A 1UR4_B 1UR0_A 1R8L_B 2CCR_A ....
Probab=61.59 E-value=13 Score=32.18 Aligned_cols=84 Identities=18% Similarity=0.326 Sum_probs=43.2
Q ss_pred hHHHHHHHHhCCCCeEEe--e-CCCH----------HHHhhhcCCCceEEeccC--------CCC-hhh------hhcCH
Q 046781 42 ATDVINPYKKYSIGKIRL--F-DPND----------AALNALRGSQIDVTLGVR--------NED-LPN------LAASQ 93 (142)
Q Consensus 42 p~~vv~llks~~i~~vRl--y-d~dp----------~vL~Ala~sgI~v~v~vp--------N~~-l~~------la~s~ 93 (142)
..++.++||++|+..||| | ||.. +..+--+.-|.+|+++.= ..| +|. +++=.
T Consensus 26 ~~d~~~ilk~~G~N~vRlRvwv~P~~~g~~~~~~~~~~akrak~~Gm~vlldfHYSD~WaDPg~Q~~P~aW~~~~~~~l~ 105 (332)
T PF07745_consen 26 EKDLFQILKDHGVNAVRLRVWVNPYDGGYNDLEDVIALAKRAKAAGMKVLLDFHYSDFWADPGKQNKPAAWANLSFDQLA 105 (332)
T ss_dssp B--HHHHHHHTT--EEEEEE-SS-TTTTTTSHHHHHHHHHHHHHTT-EEEEEE-SSSS--BTTB-B--TTCTSSSHHHHH
T ss_pred CCCHHHHHHhcCCCeEEEEeccCCcccccCCHHHHHHHHHHHHHCCCeEEEeecccCCCCCCCCCCCCccCCCCCHHHHH
Confidence 478999999999976555 4 5444 233334568999999742 222 221 11111
Q ss_pred HHHHHHHHhcCcCCC-CCceeEEEEeeccccCC
Q 046781 94 DAANSWFATNMEPYL-KDVVFSLIAVGNQVIPR 125 (142)
Q Consensus 94 ~~A~~WV~~nV~py~-p~t~I~~I~VGNEv~~~ 125 (142)
.+..++.++-+..+- -++....|.||||+-.+
T Consensus 106 ~~v~~yT~~vl~~l~~~G~~pd~VQVGNEin~G 138 (332)
T PF07745_consen 106 KAVYDYTKDVLQALKAAGVTPDMVQVGNEINNG 138 (332)
T ss_dssp HHHHHHHHHHHHHHHHTT--ESEEEESSSGGGE
T ss_pred HHHHHHHHHHHHHHHHCCCCccEEEeCcccccc
Confidence 333445544444432 46888999999998763
No 30
>PF03740 PdxJ: Pyridoxal phosphate biosynthesis protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm; PDB: 3F4N_B 3O6D_A 3O6C_A 1M5W_G 1IXQ_D 1IXP_B 1IXN_A 1HO4_C 1HO1_A 1IXO_D ....
Probab=58.18 E-value=12 Score=31.13 Aligned_cols=37 Identities=27% Similarity=0.418 Sum_probs=27.4
Q ss_pred CChHHHHHHHHhCCCCeEEee-CCCHHHHhhhcCCCceE
Q 046781 40 PSATDVINPYKKYSIGKIRLF-DPNDAALNALRGSQIDV 77 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRly-d~dp~vL~Ala~sgI~v 77 (142)
..-.++++-||+.|| +|-+| |||++-+++-+..|-+.
T Consensus 111 ~~l~~~i~~L~~~gI-rvSLFiDP~~~qi~~A~~~Gad~ 148 (239)
T PF03740_consen 111 DRLKPVIKRLKDAGI-RVSLFIDPDPEQIEAAKELGADR 148 (239)
T ss_dssp HHHHHHHHHHHHTT--EEEEEE-S-HHHHHHHHHTT-SE
T ss_pred HHHHHHHHHHHhCCC-EEEEEeCCCHHHHHHHHHcCCCE
Confidence 445788999999999 88888 99999999888777653
No 31
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=55.07 E-value=32 Score=25.69 Aligned_cols=46 Identities=13% Similarity=0.105 Sum_probs=40.4
Q ss_pred CCCCCh--HHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 37 NDLPSA--TDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 37 ~nLPsp--~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
.+.+.. ..+.++++++|++-+=...--|..++.|+.-||+|..+-+
T Consensus 47 ~~~~~g~G~~~a~~l~~~gvdvvi~~~iG~~a~~~l~~~GIkv~~~~~ 94 (121)
T COG1433 47 ASAEKGAGIRIAELLVDEGVDVVIASNIGPNAYNALKAAGIKVYVAPG 94 (121)
T ss_pred ccccCcchHHHHHHHHHcCCCEEEECccCHHHHHHHHHcCcEEEecCC
Confidence 345554 4689999999999999999999999999999999999977
No 32
>TIGR03632 bact_S11 30S ribosomal protein S11. This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.
Probab=54.39 E-value=25 Score=25.49 Aligned_cols=38 Identities=24% Similarity=0.505 Sum_probs=29.3
Q ss_pred hHHHHHHHHhCCCCeEEeeC--C---CHHHHhhhcCCCceEEe
Q 046781 42 ATDVINPYKKYSIGKIRLFD--P---NDAALNALRGSQIDVTL 79 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd--~---dp~vL~Ala~sgI~v~v 79 (142)
.+++.+.++++|++.++++- + ...+|++|+.+|+.+.-
T Consensus 49 a~~~~~~~~~~gi~~v~v~~kG~G~gr~~~ir~l~~~glkI~~ 91 (108)
T TIGR03632 49 AEDAAKKAKEFGMKTVDVYVKGPGAGRESAIRALQAAGLEVTS 91 (108)
T ss_pred HHHHHHHHHHcCCcEEEEEEECCCCcHHHHHHHHHHCCCEEEE
Confidence 34566788899999999883 3 44789999999988643
No 33
>PRK03562 glutathione-regulated potassium-efflux system protein KefC; Provisional
Probab=53.68 E-value=16 Score=33.75 Aligned_cols=50 Identities=16% Similarity=0.171 Sum_probs=39.0
Q ss_pred CccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 26 NDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 26 ~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
..|=+.||+.| ..+++.|+++|++ +.+-|.|++..+.++.-|.+++.|=+
T Consensus 402 ~vII~G~Gr~G------~~va~~L~~~g~~-vvvID~d~~~v~~~~~~g~~v~~GDa 451 (621)
T PRK03562 402 RVIIAGFGRFG------QIVGRLLLSSGVK-MTVLDHDPDHIETLRKFGMKVFYGDA 451 (621)
T ss_pred cEEEEecChHH------HHHHHHHHhCCCC-EEEEECCHHHHHHHHhcCCeEEEEeC
Confidence 33446788888 5688999999985 56669999999988888888877644
No 34
>TIGR03628 arch_S11P archaeal ribosomal protein S11P. This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.
Probab=53.04 E-value=20 Score=26.58 Aligned_cols=38 Identities=21% Similarity=0.240 Sum_probs=30.2
Q ss_pred hHHHHHHHHhCCCCeEEeeC----------CC---HHHHhhhcCCCceEEe
Q 046781 42 ATDVINPYKKYSIGKIRLFD----------PN---DAALNALRGSQIDVTL 79 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd----------~d---p~vL~Ala~sgI~v~v 79 (142)
.+++.+..+++||+.++++= +- ...|++|+.+|+++..
T Consensus 52 a~~~~~~~~~~Gi~~v~v~ikG~gg~~~~~~G~Gr~~air~l~~~glkI~~ 102 (114)
T TIGR03628 52 AGRAAEKAKERGITGLHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGR 102 (114)
T ss_pred HHHHHHHHHHcCCcEEEEEEEecCCCCCCCCCCcHHHHHHHHHHCCCEEEE
Confidence 46788889999999988873 33 3789999999999754
No 35
>PF06722 DUF1205: Protein of unknown function (DUF1205); InterPro: IPR010610 This entry represents a conserved region of unknown function within bacterial glycosyl transferases. Many proteins containing this domain are members of the glycosyl transferase family 28 IPR004276 from INTERPRO.; PDB: 3OTH_A 3OTG_A 3OTI_A 3D0R_A 3D0Q_B 2P6P_A 3UYK_A 3UYL_B 3TSA_B 2YJN_A.
Probab=51.72 E-value=14 Score=26.28 Aligned_cols=28 Identities=21% Similarity=0.364 Sum_probs=25.0
Q ss_pred HHHHhhhcCCCceEEeccCCCChhhhhc
Q 046781 64 DAALNALRGSQIDVTLGVRNEDLPNLAA 91 (142)
Q Consensus 64 p~vL~Ala~sgI~v~v~vpN~~l~~la~ 91 (142)
.++++|+++-+.||+++++.++...+..
T Consensus 64 ~~ll~ala~ldvEvV~a~~~~~~~~lg~ 91 (97)
T PF06722_consen 64 RRLLEALAGLDVEVVVALPAAQRAELGE 91 (97)
T ss_dssp HHHHHHHHTSSSEEEEEETTCCCGGCCS
T ss_pred HHHHHHHhhCCcEEEEECCHHHHHhhCC
Confidence 5899999999999999999999887753
No 36
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=51.36 E-value=63 Score=26.04 Aligned_cols=53 Identities=13% Similarity=0.198 Sum_probs=37.4
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC----HHHHhhhcC--CCceEEeccCCCChhhhhcCHHHHHHHHHh
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN----DAALNALRG--SQIDVTLGVRNEDLPNLAASQDAANSWFAT 102 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d----p~vL~Ala~--sgI~v~v~vpN~~l~~la~s~~~A~~WV~~ 102 (142)
.|+| +.-..+.|.+-+|+|+++ ++-++++++ .+++++.+=. -+.....+|++.
T Consensus 117 TptE-i~~a~~~Ga~~vKlFPa~~~gg~~~lk~l~~p~p~~~~~ptGG--------V~~~ni~~~l~a 175 (212)
T PRK05718 117 TPSE-LMLGMELGLRTFKFFPAEASGGVKMLKALAGPFPDVRFCPTGG--------ISPANYRDYLAL 175 (212)
T ss_pred CHHH-HHHHHHCCCCEEEEccchhccCHHHHHHHhccCCCCeEEEeCC--------CCHHHHHHHHhC
Confidence 5788 445677899999999876 688898886 3566654322 245677778873
No 37
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=51.35 E-value=36 Score=23.74 Aligned_cols=47 Identities=6% Similarity=0.178 Sum_probs=33.8
Q ss_pred CCCChHHHHHHHHhCCCCe--EE-eeCCCHHHHhhhcCCCceEEeccCCC
Q 046781 38 DLPSATDVINPYKKYSIGK--IR-LFDPNDAALNALRGSQIDVTLGVRNE 84 (142)
Q Consensus 38 nLPsp~~vv~llks~~i~~--vR-lyd~dp~vL~Ala~sgI~v~v~vpN~ 84 (142)
++=..+...+.++++|++- |+ +.+.+++++..++.-.+++++.+|++
T Consensus 28 ~l~aT~gT~~~l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~~ 77 (110)
T cd01424 28 KLVATEGTAKYLQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPSG 77 (110)
T ss_pred EEEEchHHHHHHHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCCC
Confidence 3333455677888888863 22 22567899999999999999998863
No 38
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=51.25 E-value=28 Score=24.36 Aligned_cols=61 Identities=16% Similarity=0.275 Sum_probs=42.7
Q ss_pred CCC-CCChHHHHHHHHhCCCCeEEeeCCC----HHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhc
Q 046781 36 END-LPSATDVINPYKKYSIGKIRLFDPN----DAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATN 103 (142)
Q Consensus 36 g~n-LPsp~~vv~llks~~i~~vRlyd~d----p~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~n 103 (142)
|+. +|...+.++.+++.|++-+=+-+.. .+..+-|+.-|+++ .. ..+-.+...+..|++++
T Consensus 12 g~~~ipga~e~l~~L~~~g~~~~~lTNns~~s~~~~~~~L~~~Gi~~----~~---~~i~ts~~~~~~~l~~~ 77 (101)
T PF13344_consen 12 GNEPIPGAVEALDALRERGKPVVFLTNNSSRSREEYAKKLKKLGIPV----DE---DEIITSGMAAAEYLKEH 77 (101)
T ss_dssp TTEE-TTHHHHHHHHHHTTSEEEEEES-SSS-HHHHHHHHHHTTTT------G---GGEEEHHHHHHHHHHHH
T ss_pred CCCcCcCHHHHHHHHHHcCCCEEEEeCCCCCCHHHHHHHHHhcCcCC----Cc---CEEEChHHHHHHHHHhc
Confidence 444 7999999999999986555554432 47778888888885 22 34446778889999986
No 39
>PF06480 FtsH_ext: FtsH Extracellular; InterPro: IPR011546 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found in the FtsH family of proteins that include FtsH a membrane-bound ATP-dependent protease universally conserved in prokaryotes []. The FtsH peptidases, which belong to MEROPS peptidase family M41 (clan MA(E)), efficiently degrade proteins that have a low thermodynamic stability - e.g. they lack robust unfoldase activity. This feature may be key and implies that this could be a criterion for degrading a protein. In Oenococcus oeni (Leuconostoc oenos) FtsH is involved in protection against environmental stress [], and shows increased expression under heat or osmotic stress. These two lines of evidence suggest that it is a fundamental prokaryotic self-protection mechanism that checks if proteins are correctly folded. The precise function of this N-terminal region is unclear. ; GO: 0004222 metalloendopeptidase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0016021 integral to membrane; PDB: 2LNA_A.
Probab=51.07 E-value=9.2 Score=25.72 Aligned_cols=23 Identities=13% Similarity=0.226 Sum_probs=17.9
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN 63 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d 63 (142)
+=++.++.+++..|++|.+.+-.
T Consensus 31 ~YS~F~~~l~~g~V~~V~i~~~~ 53 (110)
T PF06480_consen 31 SYSEFLQMLEKGNVKKVVIQNDK 53 (110)
T ss_dssp -HHHHHHTGGGT-EEEEEEETTT
T ss_pred CHHHHHHHHHcCCEEEEEEECCE
Confidence 34889999999999999998533
No 40
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=50.94 E-value=34 Score=22.65 Aligned_cols=47 Identities=15% Similarity=0.190 Sum_probs=40.1
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhh
Q 046781 41 SATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPN 88 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~ 88 (142)
.+.+.++++...+++-+=.-.--+...+.|...||+++.+ +..++..
T Consensus 41 ~~~~~~~~l~~~~v~~li~~~iG~~~~~~L~~~gI~v~~~-~~~~i~~ 87 (94)
T PF02579_consen 41 GGDKIAKFLAEEGVDVLICGGIGEGAFRALKEAGIKVYQG-AGGDIEE 87 (94)
T ss_dssp HSTHHHHHHHHTTESEEEESCSCHHHHHHHHHTTSEEEES-TSSBHHH
T ss_pred cchhHHHHHHHcCCCEEEEeCCCHHHHHHHHHCCCEEEEc-CCCCHHH
Confidence 3567889999999999888889999999999999999999 6566554
No 41
>PF00135 COesterase: Carboxylesterase family The prints entry is specific to acetylcholinesterase; InterPro: IPR002018 Higher eukaryotes have many distinct esterases. Among the different types are those which act on carboxylic esters (3.1.1 from EC). Carboxyl-esterases have been classified into three categories (A, B and C) on the basis of differential patterns of inhibition by organophosphates. The sequence of a number of type-B carboxylesterases indicates [, , ] that the majority are evolutionary related. As is the case for lipases and serine proteases, the catalytic apparatus of esterases involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.; PDB: 3B3Q_A 1CLE_B 1GQS_A 2VJD_A 1HBJ_A 2C5G_A 1U65_A 2WG1_A 1FSS_A 3M3D_A ....
Probab=49.28 E-value=7.9 Score=33.30 Aligned_cols=18 Identities=22% Similarity=0.399 Sum_probs=16.4
Q ss_pred CHHHHHHHHHhcCcCCCC
Q 046781 92 SQDAANSWFATNMEPYLK 109 (142)
Q Consensus 92 s~~~A~~WV~~nV~py~p 109 (142)
|+..|.+|||+||..|=.
T Consensus 188 Dq~~AL~WV~~nI~~FGG 205 (535)
T PF00135_consen 188 DQRLALKWVQDNIAAFGG 205 (535)
T ss_dssp HHHHHHHHHHHHGGGGTE
T ss_pred hhHHHHHHHHhhhhhccc
Confidence 899999999999999953
No 42
>PRK03659 glutathione-regulated potassium-efflux system protein KefB; Provisional
Probab=49.26 E-value=20 Score=32.95 Aligned_cols=46 Identities=15% Similarity=0.215 Sum_probs=36.8
Q ss_pred eeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 30 FCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 30 VnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
+-||+.| ..+++.++++|++ +-+-|.||+..+.++.-|.+++.|=+
T Consensus 406 ~G~Gr~G------~~va~~L~~~g~~-vvvID~d~~~v~~~~~~g~~v~~GDa 451 (601)
T PRK03659 406 VGFGRFG------QVIGRLLMANKMR-ITVLERDISAVNLMRKYGYKVYYGDA 451 (601)
T ss_pred ecCchHH------HHHHHHHHhCCCC-EEEEECCHHHHHHHHhCCCeEEEeeC
Confidence 5577777 6788999999986 55669999999999888888877744
No 43
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=47.05 E-value=34 Score=23.10 Aligned_cols=41 Identities=10% Similarity=0.143 Sum_probs=32.9
Q ss_pred HHHHHHHHhCCCC----eEEeeCCCHHHHhhhcCCCceEEeccCC
Q 046781 43 TDVINPYKKYSIG----KIRLFDPNDAALNALRGSQIDVTLGVRN 83 (142)
Q Consensus 43 ~~vv~llks~~i~----~vRlyd~dp~vL~Ala~sgI~v~v~vpN 83 (142)
+...++|+++|++ .-|+++-.|.++..++.-.|++++..|+
T Consensus 20 ~gTa~~L~~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~ 64 (90)
T smart00851 20 GGTAKFLREAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLY 64 (90)
T ss_pred cHHHHHHHHCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCC
Confidence 3457889999985 2346676788999999999999999886
No 44
>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=45.92 E-value=60 Score=28.77 Aligned_cols=89 Identities=18% Similarity=0.297 Sum_probs=47.5
Q ss_pred cceeecCCCCCCCChHHHHHHHHh----CCCCeEEeeCCC-----HHHHhhhcCCC---ceEEecc--CCC-ChhhhhcC
Q 046781 28 IGFCYGKLENDLPSATDVINPYKK----YSIGKIRLFDPN-----DAALNALRGSQ---IDVTLGV--RNE-DLPNLAAS 92 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks----~~i~~vRlyd~d-----p~vL~Ala~sg---I~v~v~v--pN~-~l~~la~s 92 (142)
.|.+.+..|.++|...+..+|++. .++.++|+...+ ++.++.++..+ -.+.+++ .++ .+..+...
T Consensus 207 ~g~~~~~yG~d~~~~~~l~~Ll~~l~~~~gi~~ir~~~~~p~~i~~ell~~l~~~~~~~~~v~lglQSgsd~vLk~m~R~ 286 (459)
T PRK14338 207 LGQIVDSYGHDLPGRPDLADLLEAVHEIPGLERLRFLTSHPAWMTDRLIHAVARLPKCCPHINLPVQAGDDEVLKRMRRG 286 (459)
T ss_pred eeecCCCcccccCChHHHHHHHHHHHhcCCcceEEEEecChhhcCHHHHHHHhcccccccceecCcccCCHHHHHhccCC
Confidence 454444455566654555666544 366788876544 47888887643 1233333 333 35555422
Q ss_pred --HH---HHHHHHHhcCcCCCCCceeE-EEEeec
Q 046781 93 --QD---AANSWFATNMEPYLKDVVFS-LIAVGN 120 (142)
Q Consensus 93 --~~---~A~~WV~~nV~py~p~t~I~-~I~VGN 120 (142)
.+ .+-.++++ ..|+..|. ++.+|-
T Consensus 287 ~t~e~~~~~i~~lr~----~~pgi~i~~d~IvG~ 316 (459)
T PRK14338 287 YTVARYRELIARIRE----AIPDVSLTTDIIVGH 316 (459)
T ss_pred CCHHHHHHHHHHHHH----hCCCCEEEEEEEEEC
Confidence 22 23334443 34666664 577883
No 45
>COG0854 PdxJ Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]
Probab=45.31 E-value=31 Score=28.84 Aligned_cols=39 Identities=23% Similarity=0.382 Sum_probs=32.3
Q ss_pred CCCChHHHHHHHHhCCCCeEEee-CCCHHHHhhhcCCCceE
Q 046781 38 DLPSATDVINPYKKYSIGKIRLF-DPNDAALNALRGSQIDV 77 (142)
Q Consensus 38 nLPsp~~vv~llks~~i~~vRly-d~dp~vL~Ala~sgI~v 77 (142)
....-.++++-||.-|| +|-|| |||++-+++-+-+|-+.
T Consensus 109 ~~~~l~~~v~~L~~~Gi-rVSLFiD~d~~qi~aa~~~gA~~ 148 (243)
T COG0854 109 QLDKLRDAVRRLKNAGI-RVSLFIDPDPEQIEAAAEVGAPR 148 (243)
T ss_pred hhhhHHHHHHHHHhCCC-eEEEEeCCCHHHHHHHHHhCCCE
Confidence 35566889999999988 58888 99999999999887655
No 46
>COG3831 Uncharacterized conserved protein [Function unknown]
Probab=44.48 E-value=22 Score=25.29 Aligned_cols=32 Identities=19% Similarity=0.354 Sum_probs=23.2
Q ss_pred CCccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhh
Q 046781 25 SNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNAL 70 (142)
Q Consensus 25 ~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Al 70 (142)
...+=+|||+.|.+ |-++++-||-..+...++
T Consensus 24 g~~L~~~wGRiG~~--------------Gq~~~k~F~~~~~a~~~~ 55 (85)
T COG3831 24 GAELTRNWGRIGTK--------------GQSQIKSFDDSADAEKAA 55 (85)
T ss_pred cceeEEeecccccC--------------cceeeeeCCCHHHHHHHH
Confidence 45577999999987 677788887655555543
No 47
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=44.44 E-value=55 Score=22.00 Aligned_cols=45 Identities=18% Similarity=0.150 Sum_probs=37.2
Q ss_pred hHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChh
Q 046781 42 ATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLP 87 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~ 87 (142)
+.++++++++.+++-+=.=.--+..++.|...||++..+.. .++.
T Consensus 52 ~~~~~~~l~~~~v~~vi~~~iG~~~~~~l~~~gI~v~~~~~-~~i~ 96 (103)
T cd00851 52 GGKAAEFLADEGVDVVIVGGIGPRALNKLRNAGIKVYKGAE-GTVE 96 (103)
T ss_pred chHHHHHHHHcCCCEEEeCCCCcCHHHHHHHCCCEEEEcCC-CCHH
Confidence 47889999999998877777788999999999999998776 4444
No 48
>PF08800 VirE_N: VirE N-terminal domain; InterPro: IPR014907 This domain is associated with the N terminus of Virulence E proteins. The function of the domain is unknown.
Probab=44.43 E-value=24 Score=26.33 Aligned_cols=55 Identities=13% Similarity=0.181 Sum_probs=38.6
Q ss_pred CCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhh---cCCCceEEeccCCCChhhhhcCHHHHHHHH
Q 046781 37 NDLPSATDVINPYKKYSIGKIRLFDPNDAALNAL---RGSQIDVTLGVRNEDLPNLAASQDAANSWF 100 (142)
Q Consensus 37 ~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Al---a~sgI~v~v~vpN~~l~~la~s~~~A~~WV 100 (142)
|+++ ++++.++.+.. -.||.++-+| +|.|+.++|-+.+++-..+..+...++.|-
T Consensus 39 D~l~-~ee~~~~r~~l--------~~~p~t~~~f~SpSG~GvKi~v~~~~~~~~~lp~~~~~~~~~h 96 (136)
T PF08800_consen 39 DHLD-PEEAEELRQLL--------FEDPYTLAAFVSPSGRGVKIIVPFDYPDGSRLPQDEEEAELFH 96 (136)
T ss_pred CCCC-HHHHHHHHHHH--------hcCCcEEEEEEcCCCCeEEEEEEecCCCCccccchhHHHHHHH
Confidence 6777 78887777654 2344444444 478999999998887666666777777774
No 49
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=43.49 E-value=57 Score=24.85 Aligned_cols=52 Identities=17% Similarity=0.284 Sum_probs=32.5
Q ss_pred HHHhhhcCCCceEEeccC-CCChhhhhcCHHHHHHHHHhcCcCCCCCceeEEEEeeccccC
Q 046781 65 AALNALRGSQIDVTLGVR-NEDLPNLAASQDAANSWFATNMEPYLKDVVFSLIAVGNQVIP 124 (142)
Q Consensus 65 ~vL~Ala~sgI~v~v~vp-N~~l~~la~s~~~A~~WV~~nV~py~p~t~I~~I~VGNEv~~ 124 (142)
+-++-|+..|++-++-+| ++++..+ .+++.+++-+... .+++.|+||.+---
T Consensus 66 ek~~~l~~~Gvd~~~~~~F~~~~~~l-----s~~~Fi~~iL~~~---l~~~~ivvG~DfrF 118 (157)
T PF06574_consen 66 EKLELLESLGVDYVIVIPFTEEFANL-----SPEDFIEKILKEK---LNVKHIVVGEDFRF 118 (157)
T ss_dssp HHHHHHHHTTESEEEEE-CCCHHCCS------HHHHHHHHCCCH---CTEEEEEEETT-EE
T ss_pred HHHHHHHHcCCCEEEEecchHHHHcC-----CHHHHHHHHHHhc---CCccEEEEccCccC
Confidence 445567777887777776 3345544 3567777655533 47899999977543
No 50
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=42.92 E-value=39 Score=25.72 Aligned_cols=38 Identities=21% Similarity=0.241 Sum_probs=30.2
Q ss_pred hHHHHHHHHhCCCCeEEeeC----------CCH---HHHhhhcCCCceEEe
Q 046781 42 ATDVINPYKKYSIGKIRLFD----------PND---AALNALRGSQIDVTL 79 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd----------~dp---~vL~Ala~sgI~v~v 79 (142)
.+++.+..++.||+.|+++= +.| ..|++|+.+|+++..
T Consensus 59 ae~~~~~~~~~Gi~~v~v~vkG~Ggn~~~~~G~Gr~~airal~~~glkI~~ 109 (132)
T PRK09607 59 AEKAAEDAKEKGITGVHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGR 109 (132)
T ss_pred HHHHHHHHHHcCCcEEEEEEEecCCCCCcCCCCcHHHHHHHHHHCCCEEEE
Confidence 46788889999999988873 333 689999999999754
No 51
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=42.24 E-value=62 Score=22.86 Aligned_cols=43 Identities=12% Similarity=0.120 Sum_probs=33.8
Q ss_pred hHHHHHHHHhCCCCeEEee---C-CCHHHHhhhcC-CCceEEeccCCC
Q 046781 42 ATDVINPYKKYSIGKIRLF---D-PNDAALNALRG-SQIDVTLGVRNE 84 (142)
Q Consensus 42 p~~vv~llks~~i~~vRly---d-~dp~vL~Ala~-sgI~v~v~vpN~ 84 (142)
-+...++|+++|+.--++. + -+|++...+++ -.|++++.+|+.
T Consensus 31 T~gTa~~L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~ 78 (112)
T cd00532 31 TGGTSRVLADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDP 78 (112)
T ss_pred CcHHHHHHHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCC
Confidence 3567888999998654443 3 47899999999 999999999963
No 52
>PRK09989 hypothetical protein; Provisional
Probab=42.11 E-value=52 Score=26.18 Aligned_cols=51 Identities=8% Similarity=0.184 Sum_probs=40.7
Q ss_pred cceeecCCCCCCCChHHHHHHHHhCCCCeEEe---eCCCH-HHHhhhcCCCceEEe
Q 046781 28 IGFCYGKLENDLPSATDVINPYKKYSIGKIRL---FDPND-AALNALRGSQIDVTL 79 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks~~i~~vRl---yd~dp-~vL~Ala~sgI~v~v 79 (142)
..+|..++-.++ |-.+.++.+++.|++.|.+ ++-++ ++.+.++..|+++..
T Consensus 4 ~~~~~~~~~~~~-~l~~~l~~~~~~Gfd~VEl~~~~~~~~~~~~~~l~~~Gl~v~~ 58 (258)
T PRK09989 4 FAANLSMMFTEV-PFIERFAAARKAGFDAVEFLFPYDYSTLQIQKQLEQNHLTLAL 58 (258)
T ss_pred eeeehhhhhcCC-CHHHHHHHHHHcCCCEEEECCcccCCHHHHHHHHHHcCCcEEE
Confidence 467888888887 4578899999999999998 33443 566678899999986
No 53
>PF02811 PHP: PHP domain; InterPro: IPR004013 The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain. This family is often associated with an N-terminal region IPR003141 from INTERPRO.; GO: 0003824 catalytic activity; PDB: 2WJE_A 3QY8_A 2WJD_A 2WJF_A 1PB0_B 1M68_A 1M65_A 3E38_B 2W9M_A 3E0F_A ....
Probab=41.81 E-value=43 Score=24.19 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=35.7
Q ss_pred CChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCceEEeccC
Q 046781 40 PSATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI~v~v~vp 82 (142)
.++++.++..++.|++.+-|-|-+ ++..+.....||++++|+-
T Consensus 16 ~~~~e~v~~A~~~Gl~~i~iTDH~~~~~~~~~~~~~~~~~i~vi~G~E 63 (175)
T PF02811_consen 16 DSPEEYVEQAKEKGLDAIAITDHNNFAGYPDFYKEAKKKGIKVIPGVE 63 (175)
T ss_dssp SSHHHHHHHHHHTTESEEEEEEETTTTTHHHHHHHHHHTTSEEEEEEE
T ss_pred CCHHHHHHHHHHcCCCEEEEcCCcccccchHHHHHHHhcCCceEEeEe
Confidence 389999999999999999999864 4566666668888888875
No 54
>CHL00041 rps11 ribosomal protein S11
Probab=41.30 E-value=52 Score=24.16 Aligned_cols=37 Identities=19% Similarity=0.283 Sum_probs=28.3
Q ss_pred HHHHHHHHhCCCCeEEeeC-----CCHHHHhhhcCCCceEEe
Q 046781 43 TDVINPYKKYSIGKIRLFD-----PNDAALNALRGSQIDVTL 79 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd-----~dp~vL~Ala~sgI~v~v 79 (142)
+++.+..++.|++.++++- -...++++|+..|+++..
T Consensus 63 ~~~~~~~~~~gi~~v~I~ikG~G~Gr~~~ir~l~~~glkI~~ 104 (116)
T CHL00041 63 ENAIRTVIDQGMKRAEVMIKGPGLGRDTALRAIRRSGLKLSS 104 (116)
T ss_pred HHHHHHHHHcCCcEEEEEEECCCCcHHHHHHHHHHCCCEEEE
Confidence 4566778889999998883 334789999999988743
No 55
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=40.57 E-value=57 Score=28.63 Aligned_cols=92 Identities=17% Similarity=0.337 Sum_probs=47.1
Q ss_pred cceeecCCCCCCCChHHHHHHHHh----CCCCeEEeeC-----CCHHHHhhhcCCC-c--eEEeccC--CCC-hhhhhcC
Q 046781 28 IGFCYGKLENDLPSATDVINPYKK----YSIGKIRLFD-----PNDAALNALRGSQ-I--DVTLGVR--NED-LPNLAAS 92 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks----~~i~~vRlyd-----~dp~vL~Ala~sg-I--~v~v~vp--N~~-l~~la~s 92 (142)
+|.+.+..|.+++...+..+|++. .++.++|+.- -+++++++++..+ + .+.+++- +++ |..+...
T Consensus 199 ~~~~~~~yg~d~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~P~~i~~ell~~l~~~~~~~~~l~iglQSgsd~vLk~M~R~ 278 (439)
T PRK14328 199 LGQNVNSYGKDLEEKIDFADLLRRVNEIDGLERIRFMTSHPKDLSDDLIEAIADCDKVCEHIHLPVQSGSNRILKKMNRH 278 (439)
T ss_pred eccccCcCCcCCCCCcCHHHHHHHHHhcCCCcEEEEecCChhhcCHHHHHHHHhCCCcCceeeeCCCcCCHHHHHhCCCC
Confidence 455555555555543345566543 3567888764 2568999998765 1 3444432 333 4444332
Q ss_pred HHHHHHHHHh--cCcCCCCCceeE-EEEeec
Q 046781 93 QDAANSWFAT--NMEPYLKDVVFS-LIAVGN 120 (142)
Q Consensus 93 ~~~A~~WV~~--nV~py~p~t~I~-~I~VGN 120 (142)
. ..+.+.+. .+....|+..|. .+.+|-
T Consensus 279 ~-~~~~~~~~i~~lr~~~~~i~i~~d~IvG~ 308 (439)
T PRK14328 279 Y-TREYYLELVEKIKSNIPDVAITTDIIVGF 308 (439)
T ss_pred C-CHHHHHHHHHHHHHhCCCCEEEEEEEEEC
Confidence 1 11222211 122234666553 788894
No 56
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=40.20 E-value=47 Score=23.94 Aligned_cols=43 Identities=7% Similarity=0.098 Sum_probs=34.9
Q ss_pred ChHHHHHHHHh-CCCC--eEEe--eCCCHHHHhhhcCCCceEEeccCC
Q 046781 41 SATDVINPYKK-YSIG--KIRL--FDPNDAALNALRGSQIDVTLGVRN 83 (142)
Q Consensus 41 sp~~vv~llks-~~i~--~vRl--yd~dp~vL~Ala~sgI~v~v~vpN 83 (142)
..+...+.|++ +|+. +||+ .+-+|+++..+.+-.|++++..|+
T Consensus 32 AT~gTa~~L~~~~Gi~v~~vk~~~~~g~~~i~~~i~~g~i~~VInt~~ 79 (115)
T cd01422 32 ATGTTGLLIQEATGLTVNRMKSGPLGGDQQIGALIAEGEIDAVIFFRD 79 (115)
T ss_pred EechHHHHHHHhhCCcEEEEecCCCCchhHHHHHHHcCceeEEEEcCC
Confidence 34567788888 8874 4555 677899999999999999999997
No 57
>TIGR02631 xylA_Arthro xylose isomerase, Arthrobacter type. This model describes a D-xylose isomerase that is also active as a D-glucose isomerase. It is tetrameric and dependent on a divalent cation Mg2+, Co2+ or Mn2+ as characterized in Arthrobacter. Members of this family differ substantially from the D-xylose isomerases of family TIGR02630.
Probab=39.77 E-value=71 Score=27.90 Aligned_cols=44 Identities=11% Similarity=0.172 Sum_probs=36.0
Q ss_pred CChHHHHHHHHhCCCCeEEeeCCC---------------HHHHhhhcCCCceEEeccCC
Q 046781 40 PSATDVINPYKKYSIGKIRLFDPN---------------DAALNALRGSQIDVTLGVRN 83 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRlyd~d---------------p~vL~Ala~sgI~v~v~vpN 83 (142)
.++.+.++.+++.|++.|-+++.| .++-++++.+|+++..-.+|
T Consensus 32 ~~~~e~i~~la~~GfdgVE~~~~dl~P~~~~~~e~~~~~~~lk~~L~~~GL~v~~v~~n 90 (382)
T TIGR02631 32 LDPVEAVHKLAELGAYGVTFHDDDLIPFGAPPQERDQIVRRFKKALDETGLKVPMVTTN 90 (382)
T ss_pred cCHHHHHHHHHHhCCCEEEecccccCCCCCChhHHHHHHHHHHHHHHHhCCeEEEeecc
Confidence 378899999999999999998543 25678899999998776665
No 58
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=39.56 E-value=47 Score=27.65 Aligned_cols=38 Identities=13% Similarity=0.169 Sum_probs=30.8
Q ss_pred HHHHHHHHhCCCCeEEee----CCCHHHHhhhcCCCceEEec
Q 046781 43 TDVINPYKKYSIGKIRLF----DPNDAALNALRGSQIDVTLG 80 (142)
Q Consensus 43 ~~vv~llks~~i~~vRly----d~dp~vL~Ala~sgI~v~v~ 80 (142)
+.+++-.++.|+.+++++ .....+|+||..+|++|..=
T Consensus 170 e~aakka~~~GIk~V~V~vKGpGgREtALRaL~~~GLkIt~I 211 (233)
T PTZ00090 170 ENIAKKCRRLGIFAVDIKFRRIMRVETVLQAFYANGLQVTQI 211 (233)
T ss_pred HHHHHHHHHcCCeEEEEEEeCCChHHHHHHHHHHCCCEEEEE
Confidence 456677888999999988 34668999999999998654
No 59
>PRK05309 30S ribosomal protein S11; Validated
Probab=39.55 E-value=56 Score=24.46 Aligned_cols=37 Identities=27% Similarity=0.495 Sum_probs=28.7
Q ss_pred hHHHHHHHHhCCCCeEEeeC--C---CHHHHhhhcCCCceEE
Q 046781 42 ATDVINPYKKYSIGKIRLFD--P---NDAALNALRGSQIDVT 78 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd--~---dp~vL~Ala~sgI~v~ 78 (142)
.+++.+.+++.|++.++++- + ...+|++|..+|+.+.
T Consensus 66 a~~~~~~~~~~gi~~v~v~ikG~G~Gr~~air~L~~~glkI~ 107 (128)
T PRK05309 66 AEDAAKKAKEHGMKTVEVFVKGPGSGRESAIRALQAAGLEVT 107 (128)
T ss_pred HHHHHHHHHHcCCcEEEEEEECCCCcHHHHHHHHHHCCCEEE
Confidence 35566788899999999983 2 3478999999998864
No 60
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=38.92 E-value=54 Score=25.51 Aligned_cols=39 Identities=28% Similarity=0.309 Sum_probs=30.8
Q ss_pred hHHHHHHHHhCCCCeEEeeC------------CCH-HHHhhhcCCCceEEec
Q 046781 42 ATDVINPYKKYSIGKIRLFD------------PND-AALNALRGSQIDVTLG 80 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd------------~dp-~vL~Ala~sgI~v~v~ 80 (142)
++++++..++.||+.++++= +-. ..|++|+.+|+++..-
T Consensus 78 a~~~a~k~~~~Gi~~v~V~vr~~gg~~~kg~GpGr~~airaL~~~glkI~~I 129 (149)
T PTZ00129 78 AQDVAARCKELGINALHIKLRATGGVRTKTPGPGAQAALRALARAGLKIGRI 129 (149)
T ss_pred HHHHHHHHHHcCCeEEEEEEEecCCCCCCCCCCCHHHHHHHHHHCCCEEEEE
Confidence 45678888999999988876 322 6899999999998643
No 61
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=37.53 E-value=1e+02 Score=27.56 Aligned_cols=72 Identities=22% Similarity=0.377 Sum_probs=46.5
Q ss_pred cceeecCC--CCCCCChHHHHHHHHhCCCCeEEe--eCCCHHHHh----------------hhcCCCc----eEEeccCC
Q 046781 28 IGFCYGKL--ENDLPSATDVINPYKKYSIGKIRL--FDPNDAALN----------------ALRGSQI----DVTLGVRN 83 (142)
Q Consensus 28 iGVnyG~~--g~nLPsp~~vv~llks~~i~~vRl--yd~dp~vL~----------------Ala~sgI----~v~v~vpN 83 (142)
+++.|+.. .+++-.-++..+++++.|+.++-+ =..++++|+ .++..|| .+++|.|+
T Consensus 270 l~i~w~~~~r~~~i~~d~ell~~l~~aG~~~v~iGiES~~~~~L~~~~K~~t~~~~~~ai~~l~~~Gi~~~~~~I~G~P~ 349 (497)
T TIGR02026 270 ISVTWGINTRVTDIVRDADILHLYRRAGLVHISLGTEAAAQATLDHFRKGTTTSTNKEAIRLLRQHNILSEAQFITGFEN 349 (497)
T ss_pred CCeEEEEecccccccCCHHHHHHHHHhCCcEEEEccccCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCcEEEEEEEECCC
Confidence 45655432 455543467888999888887655 244444443 3444566 56889999
Q ss_pred CChhhhhcCHHHHHHH
Q 046781 84 EDLPNLAASQDAANSW 99 (142)
Q Consensus 84 ~~l~~la~s~~~A~~W 99 (142)
|...++......+.+|
T Consensus 350 et~e~~~~t~~~~~~l 365 (497)
T TIGR02026 350 ETDETFEETYRQLLDW 365 (497)
T ss_pred CCHHHHHHHHHHHHHc
Confidence 9888887777666654
No 62
>cd03412 CbiK_N Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=37.22 E-value=50 Score=24.14 Aligned_cols=47 Identities=6% Similarity=0.135 Sum_probs=37.0
Q ss_pred CCCCCChHHHHHHHHhCCCCeEEee----------CCCHHHHhhhcCCCceEEeccC
Q 046781 36 ENDLPSATDVINPYKKYSIGKIRLF----------DPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 36 g~nLPsp~~vv~llks~~i~~vRly----------d~dp~vL~Ala~sgI~v~v~vp 82 (142)
|-+-|++++..+-+...|+++|-+- +-=++.+..+++...++.++-|
T Consensus 52 ~~~~p~~~eaL~~l~~~G~~~V~V~Pl~l~~G~e~~di~~~v~~~~~~~~~i~~g~p 108 (127)
T cd03412 52 GIEVDTPEEALAKLAADGYTEVIVQSLHIIPGEEYEKLKREVDAFKKGFKKIKLGRP 108 (127)
T ss_pred CCCCCCHHHHHHHHHHCCCCEEEEEeCeeECcHHHHHHHHHHHHHhCCCceEEEccC
Confidence 4668999999999999999998753 3335667777777888888877
No 63
>PRK09004 FMN-binding protein MioC; Provisional
Probab=37.20 E-value=1.7e+02 Score=21.74 Aligned_cols=87 Identities=18% Similarity=0.207 Sum_probs=46.9
Q ss_pred ccceeecCCCCC-CCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCC---ChhhhhcCHHHHHHHHHh
Q 046781 27 DIGFCYGKLEND-LPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNE---DLPNLAASQDAANSWFAT 102 (142)
Q Consensus 27 ~iGVnyG~~g~n-LPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~---~l~~la~s~~~A~~WV~~ 102 (142)
.|.|-||...-| -==++++.+.+++.|++ ++++|.+. +..+.... -+++.++.. +.|. +-..=-+|+++
T Consensus 3 ~i~I~ygS~tGnae~~A~~l~~~~~~~g~~-~~~~~~~~--~~~l~~~~-~li~~~sT~G~Ge~p~---~~~~f~~~L~~ 75 (146)
T PRK09004 3 DITLISGSTLGGAEYVADHLAEKLEEAGFS-TETLHGPL--LDDLSASG-LWLIVTSTHGAGDLPD---NLQPFFEELQE 75 (146)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHcCCc-eEEeccCC--HHHhccCC-eEEEEECCCCCCCCCh---hHHHHHHHHHh
Confidence 478999987444 23345555666777764 56666442 34555544 344555443 5553 22222456666
Q ss_pred cCcCCCCCceeEEEEeecc
Q 046781 103 NMEPYLKDVVFSLIAVGNQ 121 (142)
Q Consensus 103 nV~py~p~t~I~~I~VGNE 121 (142)
. .+.+++.++.-.-.||.
T Consensus 76 ~-~~~l~g~~~aVfGlGds 93 (146)
T PRK09004 76 Q-KPDLSQVRFAAIGIGSS 93 (146)
T ss_pred c-CCCCCCCEEEEEeecCC
Confidence 4 34456666555555554
No 64
>PRK11660 putative transporter; Provisional
Probab=37.11 E-value=70 Score=29.11 Aligned_cols=43 Identities=14% Similarity=0.074 Sum_probs=22.6
Q ss_pred eEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhc
Q 046781 56 KIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATN 103 (142)
Q Consensus 56 ~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~n 103 (142)
++.+.+.+|++.+-|+.+|+.=.. ....+-.+.+.|.+|.++|
T Consensus 524 ~l~l~~l~~~v~~~l~~~gl~~~~-----~~~~if~~~~~Al~~~~~~ 566 (568)
T PRK11660 524 ELRICNLQFQPLRTLARAGIQPIP-----GRLAFYPTLREALADLLRN 566 (568)
T ss_pred EEEEecCChHHHHHHHHCCChhhc-----CcccccCCHHHHHHHHHhh
Confidence 455555556666666555542111 1123344667777777766
No 65
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=36.48 E-value=1.9e+02 Score=24.28 Aligned_cols=54 Identities=13% Similarity=0.095 Sum_probs=39.7
Q ss_pred ccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCH-HHHhhhcCCCceEEeccCC
Q 046781 27 DIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPND-AALNALRGSQIDVTLGVRN 83 (142)
Q Consensus 27 ~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp-~vL~Ala~sgI~v~v~vpN 83 (142)
.+|||.... -|..++.++++.+.+++-|-+...+| +.++.++..|+.++..+++
T Consensus 64 pfgvn~~~~---~~~~~~~~~~~~~~~v~~v~~~~g~p~~~i~~lk~~g~~v~~~v~s 118 (307)
T TIGR03151 64 PFGVNIMLL---SPFVDELVDLVIEEKVPVVTTGAGNPGKYIPRLKENGVKVIPVVAS 118 (307)
T ss_pred CcEEeeecC---CCCHHHHHHHHHhCCCCEEEEcCCCcHHHHHHHHHcCCEEEEEcCC
Confidence 468887543 25667888888888888876654344 4889999999999977764
No 66
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=33.95 E-value=75 Score=21.70 Aligned_cols=39 Identities=15% Similarity=0.279 Sum_probs=31.0
Q ss_pred HHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccC
Q 046781 43 TDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vp 82 (142)
.++++.|++.+ .++.+.|.|++..+.++..|++++.|=+
T Consensus 11 ~~i~~~L~~~~-~~vvvid~d~~~~~~~~~~~~~~i~gd~ 49 (116)
T PF02254_consen 11 REIAEQLKEGG-IDVVVIDRDPERVEELREEGVEVIYGDA 49 (116)
T ss_dssp HHHHHHHHHTT-SEEEEEESSHHHHHHHHHTTSEEEES-T
T ss_pred HHHHHHHHhCC-CEEEEEECCcHHHHHHHhcccccccccc
Confidence 67788888844 7788899999999998888888877754
No 67
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=33.54 E-value=70 Score=31.71 Aligned_cols=44 Identities=16% Similarity=0.179 Sum_probs=37.4
Q ss_pred CCChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCceEEeccC
Q 046781 39 LPSATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 39 LPsp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI~v~v~vp 82 (142)
.-+|++.++..|++|++.+-|.|.| ++..++....||+.++|+-
T Consensus 18 ~~~~~elv~~Ak~~G~~avAITDh~~l~G~~~f~~~a~~~gIkpIiG~E 66 (973)
T PRK07135 18 TIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLD 66 (973)
T ss_pred CCCHHHHHHHHHHcCCCEEEEecCCcHHhHHHHHHHHHHcCCeEEEeEE
Confidence 4478999999999999999999988 5777777888998887753
No 68
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=33.00 E-value=84 Score=21.45 Aligned_cols=47 Identities=9% Similarity=0.138 Sum_probs=31.9
Q ss_pred ChHHHHHHHHhCCCCeEEee----CC-CHH----HHhhhcCCCceEEeccCCCChh
Q 046781 41 SATDVINPYKKYSIGKIRLF----DP-NDA----ALNALRGSQIDVTLGVRNEDLP 87 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRly----d~-dp~----vL~Ala~sgI~v~v~vpN~~l~ 87 (142)
.-+...++|+++||.-.++. ++ .++ ++..++...|+++|-.|...=.
T Consensus 18 AT~gTa~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~ 73 (95)
T PF02142_consen 18 ATEGTAKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSD 73 (95)
T ss_dssp EEHHHHHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHH
T ss_pred EChHHHHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCcc
Confidence 34567899999999855443 34 345 9999999999999999975433
No 69
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=32.89 E-value=84 Score=24.76 Aligned_cols=51 Identities=12% Similarity=0.125 Sum_probs=38.0
Q ss_pred cceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCC---CH-HHHhhhcCCCceEEe
Q 046781 28 IGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDP---ND-AALNALRGSQIDVTL 79 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~---dp-~vL~Ala~sgI~v~v 79 (142)
..+|+...-.++ |-++.++.+++.|++.|-++.+ +. ++.+.+...|+++..
T Consensus 3 ~~~~~~~~~~~~-~l~e~~~~~~e~G~~~vEl~~~~~~~~~~l~~~l~~~gl~v~~ 57 (254)
T TIGR03234 3 FAANLSMLFTEL-PFLERFAAAAQAGFTGVEYLFPYDWDAEALKARLAAAGLEQVL 57 (254)
T ss_pred eeEehhHhhcCC-CHHHHHHHHHHcCCCEEEecCCccCCHHHHHHHHHHcCCeEEE
Confidence 456766555555 5789999999999999999753 33 466677799999864
No 70
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=32.41 E-value=67 Score=22.18 Aligned_cols=38 Identities=13% Similarity=0.260 Sum_probs=22.3
Q ss_pred HHHHHhCCCCeEEeeCCC--HHHHhhhc-CCCceEEeccCC
Q 046781 46 INPYKKYSIGKIRLFDPN--DAALNALR-GSQIDVTLGVRN 83 (142)
Q Consensus 46 v~llks~~i~~vRlyd~d--p~vL~Ala-~sgI~v~v~vpN 83 (142)
.+++|+.|.+.+=-++.+ .+.++.+. +.|+++++....
T Consensus 27 ~~~~~~~Ga~~~~~~~~~~~~~~i~~~~~~~~~d~vid~~g 67 (130)
T PF00107_consen 27 LELAKELGADHVIDYSDDDFVEQIRELTGGRGVDVVIDCVG 67 (130)
T ss_dssp HHHHHHTTESEEEETTTSSHHHHHHHHTTTSSEEEEEESSS
T ss_pred HHHHHhhcccccccccccccccccccccccccceEEEEecC
Confidence 567788887777544332 23444443 347777776654
No 71
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=32.13 E-value=1.1e+02 Score=21.32 Aligned_cols=53 Identities=15% Similarity=0.003 Sum_probs=34.2
Q ss_pred CCccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEE
Q 046781 25 SNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVT 78 (142)
Q Consensus 25 ~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~ 78 (142)
...|||+-... +.--+++++.+.+++++++.--+.|++.++.++|.-++++-.
T Consensus 57 ~~vi~i~~~~~-~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~v~~~P~~ 109 (126)
T cd03012 57 LVVIGVHSPEF-AFERDLANVKSAVLRYGITYPVANDNDYATWRAYGNQYWPAL 109 (126)
T ss_pred eEEEEeccCcc-ccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhCCCcCCeE
Confidence 45566654211 112367788888888888777777888888887765555433
No 72
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....
Probab=31.82 E-value=59 Score=23.44 Aligned_cols=36 Identities=28% Similarity=0.444 Sum_probs=27.0
Q ss_pred HHHHHHHHhCCCCeEEee----CCCH-HHHhhhcCCCceEE
Q 046781 43 TDVINPYKKYSIGKIRLF----DPND-AALNALRGSQIDVT 78 (142)
Q Consensus 43 ~~vv~llks~~i~~vRly----d~dp-~vL~Ala~sgI~v~ 78 (142)
+.+.+.+++.|++.++++ .+-. .++++|..+|+.+.
T Consensus 50 ~~~~~~~~~~gi~~v~v~ikG~g~gr~~~lk~l~~~gl~I~ 90 (110)
T PF00411_consen 50 EKIAKKAKELGIKTVRVKIKGFGPGREAALKALKKSGLKIV 90 (110)
T ss_dssp HHHHHHHHCTTEEEEEEEEESSSTTHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHcCCeEEEEEEcCCCccHHHHHHHHHhcCCEEE
Confidence 455567788999998887 2333 78999998898864
No 73
>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain. Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.
Probab=31.36 E-value=62 Score=23.83 Aligned_cols=26 Identities=15% Similarity=0.195 Sum_probs=21.9
Q ss_pred CCCChHHHHHHHHhCCCC---eEEeeCCC
Q 046781 38 DLPSATDVINPYKKYSIG---KIRLFDPN 63 (142)
Q Consensus 38 nLPsp~~vv~llks~~i~---~vRlyd~d 63 (142)
-+|++++..+++++.||+ +|=+||.+
T Consensus 76 ~~p~~~~~~~~~~~~GI~~~~~vVvY~~~ 104 (138)
T cd01445 76 MEPSEAEFAAMFEAKGIDLDKHLIATDGD 104 (138)
T ss_pred CCCCHHHHHHHHHHcCCCCCCeEEEECCC
Confidence 478888999999999984 78899864
No 74
>PRK12677 xylose isomerase; Provisional
Probab=30.44 E-value=1.2e+02 Score=26.54 Aligned_cols=43 Identities=12% Similarity=0.174 Sum_probs=34.9
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC---------------HHHHhhhcCCCceEEeccCC
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN---------------DAALNALRGSQIDVTLGVRN 83 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d---------------p~vL~Ala~sgI~v~v~vpN 83 (142)
++.+.++.+++.|++.|.+.+.+ .++.++++.+|+++..-.+|
T Consensus 32 ~~~E~v~~~a~~Gf~gVElh~~~l~p~~~~~~~~~~~~~~lk~~l~~~GL~v~~v~~n 89 (384)
T PRK12677 32 DPVEAVHKLAELGAYGVTFHDDDLVPFGATDAERDRIIKRFKKALDETGLVVPMVTTN 89 (384)
T ss_pred CHHHHHHHHHHhCCCEEEecccccCCCCCChhhhHHHHHHHHHHHHHcCCeeEEEecC
Confidence 68999999999999999998531 25677788999998865555
No 75
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=30.30 E-value=43 Score=25.04 Aligned_cols=25 Identities=0% Similarity=-0.043 Sum_probs=21.9
Q ss_pred CCCChHHHHHHHHhCCCCeEEeeCC
Q 046781 38 DLPSATDVINPYKKYSIGKIRLFDP 62 (142)
Q Consensus 38 nLPsp~~vv~llks~~i~~vRlyd~ 62 (142)
+.|+++++.+++++.|++.++.+.-
T Consensus 124 ~f~~~~el~~ll~~aGF~~~~~~~~ 148 (160)
T PLN02232 124 GYLTGEELETLALEAGFSSACHYEI 148 (160)
T ss_pred HCcCHHHHHHHHHHcCCCcceEEEC
Confidence 5789999999999999999887653
No 76
>PRK05723 flavodoxin; Provisional
Probab=30.30 E-value=2.4e+02 Score=21.21 Aligned_cols=91 Identities=12% Similarity=0.074 Sum_probs=48.4
Q ss_pred ccceeecCC-CCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCC---CChhhhhcCHHHHHHHHHh
Q 046781 27 DIGFCYGKL-ENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRN---EDLPNLAASQDAANSWFAT 102 (142)
Q Consensus 27 ~iGVnyG~~-g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN---~~l~~la~s~~~A~~WV~~ 102 (142)
.|+|-||.. |+.-==++++.+.+++.|.+-.-+.+.+..-+..+... .|++.++. .++| .+-..=-+|+++
T Consensus 2 ~i~I~ygS~tG~ae~~A~~la~~l~~~g~~~~~~~~~~~~~~~~~~~~--~li~~~sT~G~Ge~P---d~~~~f~~~L~~ 76 (151)
T PRK05723 2 KVAILSGSVYGTAEEVARHAESLLKAAGFEAWHNPRASLQDLQAFAPE--ALLAVTSTTGMGELP---DNLMPLYSAIRD 76 (151)
T ss_pred eEEEEEEcCchHHHHHHHHHHHHHHHCCCceeecCcCCHhHHHhCCCC--eEEEEECCCCCCCCc---hhHHHHHHHHHh
Confidence 478999977 43322234444556666665433344455445544322 23444443 2444 233333457776
Q ss_pred cCcCCCCCceeEEEEeeccc
Q 046781 103 NMEPYLKDVVFSLIAVGNQV 122 (142)
Q Consensus 103 nV~py~p~t~I~~I~VGNEv 122 (142)
.-.+.+++.++--+..||.-
T Consensus 77 ~~~~~l~~~~~aVfGLGDs~ 96 (151)
T PRK05723 77 QLPAAWRGLPGAVIALGDSS 96 (151)
T ss_pred cCccCCCCCEEEEEeEeCCc
Confidence 53236777777777777663
No 77
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=30.08 E-value=1e+02 Score=22.30 Aligned_cols=43 Identities=9% Similarity=-0.024 Sum_probs=33.2
Q ss_pred CCCccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCC
Q 046781 24 NSNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGS 73 (142)
Q Consensus 24 ~~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~s 73 (142)
....|||+.+ +++++.+..++++++---+.|++.++.+++.-.
T Consensus 64 ~v~vi~Is~d-------~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~ 106 (154)
T PRK09437 64 GVVVLGISTD-------KPEKLSRFAEKELLNFTLLSDEDHQVAEQFGVW 106 (154)
T ss_pred CCEEEEEcCC-------CHHHHHHHHHHhCCCCeEEECCCchHHHHhCCC
Confidence 4667888753 468888889999988777888888888887543
No 78
>cd06844 STAS Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain is found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors, like anti-anti-sigma factors and "stressosome" components. The sigma factor regulators are involved in protein-protein interaction which is regulated by phosphorylation.
Probab=29.68 E-value=77 Score=21.48 Aligned_cols=33 Identities=18% Similarity=0.098 Sum_probs=24.4
Q ss_pred HHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceE
Q 046781 44 DVINPYKKYSIGKIRLFDPNDAALNALRGSQIDV 77 (142)
Q Consensus 44 ~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v 77 (142)
+..+-+++.| .++.+..+++++.+.|+.+|+.-
T Consensus 62 ~l~~~~~~~g-~~l~l~~~~~~v~~~l~~~gl~~ 94 (100)
T cd06844 62 ERSRLAEAVG-GQFVLTGISPAVRITLTESGLDK 94 (100)
T ss_pred HHHHHHHHcC-CEEEEECCCHHHHHHHHHhCchh
Confidence 3444455555 67888899999999999888753
No 79
>PF00670 AdoHcyase_NAD: S-adenosyl-L-homocysteine hydrolase, NAD binding domain; InterPro: IPR015878 S-adenosyl-L-homocysteine hydrolase (3.3.1.1 from EC) (AdoHcyase) is an enzyme of the activated methyl cycle, responsible for the reversible hydration of S-adenosyl-L-homocysteine into adenosine and homocysteine. AdoHcyase is an ubiquitous enzyme which binds and requires NAD+ as a cofactor. AdoHcyase is a highly conserved protein [] of about 430 to 470 amino acids. This entry represents the glycine-rich region in the central part of AdoHcyase, which is thought to be involved in NAD-binding.; GO: 0004013 adenosylhomocysteinase activity; PDB: 2ZJ1_C 3DHY_B 2ZIZ_C 2ZJ0_D 3CE6_B 3GLQ_B 3D64_A 3G1U_C 1A7A_A 3NJ4_C ....
Probab=29.66 E-value=43 Score=26.23 Aligned_cols=39 Identities=15% Similarity=0.285 Sum_probs=27.8
Q ss_pred CccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCH-HHHhhhc
Q 046781 26 NDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPND-AALNALR 71 (142)
Q Consensus 26 ~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp-~vL~Ala 71 (142)
..+=+-||..| +-+++.+|..| .+|.++|.|| ..|+|..
T Consensus 25 ~vvV~GYG~vG------~g~A~~lr~~G-a~V~V~e~DPi~alqA~~ 64 (162)
T PF00670_consen 25 RVVVIGYGKVG------KGIARALRGLG-ARVTVTEIDPIRALQAAM 64 (162)
T ss_dssp EEEEE--SHHH------HHHHHHHHHTT--EEEEE-SSHHHHHHHHH
T ss_pred EEEEeCCCccc------HHHHHHHhhCC-CEEEEEECChHHHHHhhh
Confidence 33446789888 77899999998 7999999999 6677654
No 80
>PF08443 RimK: RimK-like ATP-grasp domain; InterPro: IPR013651 This ATP-grasp domain is found in the ribosomal S6 modification enzyme RimK []. It has an unusual nucleotide-binding fold referred to as palmate, or ATP-grasp fold. This domain is found in a number of enzymes of known structure as well as in urea amidolyase, tubulin-tyrosine ligase, and three enzymes of purine biosynthesis.; PDB: 1UC8_B 1UC9_A.
Probab=29.17 E-value=52 Score=25.20 Aligned_cols=22 Identities=9% Similarity=0.324 Sum_probs=14.3
Q ss_pred cCcCCCCCc---eeEEEEeeccccC
Q 046781 103 NMEPYLKDV---VFSLIAVGNQVIP 124 (142)
Q Consensus 103 nV~py~p~t---~I~~I~VGNEv~~ 124 (142)
-+++|+|.. .+|..++|+|++.
T Consensus 79 ~~Q~fI~~~~g~d~Rv~Vig~~vv~ 103 (190)
T PF08443_consen 79 LVQEFIPKDGGRDLRVYVIGGKVVG 103 (190)
T ss_dssp EEEE----SS---EEEEEETTEEEE
T ss_pred eEeccccCCCCcEEEEEEECCEEEE
Confidence 358899865 5999999999985
No 81
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=28.95 E-value=52 Score=24.58 Aligned_cols=30 Identities=10% Similarity=0.296 Sum_probs=21.7
Q ss_pred ceeecCCCCCCCChHHHHHHHHhCCCCeEEee
Q 046781 29 GFCYGKLENDLPSATDVINPYKKYSIGKIRLF 60 (142)
Q Consensus 29 GVnyG~~g~nLPsp~~vv~llks~~i~~vRly 60 (142)
|||=| |.|..+.++.-+++.+.|.+.||-|
T Consensus 10 GINVG--G~nki~MaeLr~~l~~~Gf~~V~Ty 39 (137)
T PF08002_consen 10 GINVG--GKNKIKMAELREALEDLGFTNVRTY 39 (137)
T ss_dssp S-SBT--TBS---HHHHHHHHHHCT-EEEEEE
T ss_pred ceecC--CCCcccHHHHHHHHHHcCCCCceEE
Confidence 67764 5677778999999999999999988
No 82
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=28.95 E-value=1.4e+02 Score=19.87 Aligned_cols=46 Identities=7% Similarity=-0.056 Sum_probs=37.6
Q ss_pred hHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChh
Q 046781 42 ATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLP 87 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~ 87 (142)
....++++...+++-+=--.--+..++.|+..||+++.+.++..+.
T Consensus 50 ~~~~~~~l~~~~v~~vi~~~iG~~a~~~l~~~gI~v~~~~~~~~v~ 95 (102)
T cd00562 50 GKLAARLLALEGCDAVLVGGIGGPAAAKLEAAGIKPIKAAEGGTIE 95 (102)
T ss_pred chHHHHHHHHCCCcEEEEcccCccHHHHHHHcCCEEEEcCCCCcHH
Confidence 3567888889999988777888899999999999999887754443
No 83
>cd00218 GlcAT-I Beta1,3-glucuronyltransferase I (GlcAT-I) is involved in the initial steps of proteoglycan synthesis. Beta1,3-glucuronyltransferase I (GlcAT-I) domain; GlcAT-I is a Key enzyme involved in the initial steps of proteoglycan synthesis. GlcAT-I catalyzes the transfer of a glucuronic acid moiety from the uridine diphosphate-glucuronic acid (UDP-GlcUA) to the common linkage region of trisaccharide Gal-beta-(1-3)-Gal-beta-(1-4)-Xyl of proteoglycans. The enzyme has two subdomains that bind the donor and acceptor substrate separately. The active site is located at the cleft between both subdomains in which the trisaccharide molecule is oriented perpendicular to the UDP. This family has been classified as Glycosyltransferase family 43 (GT-43).
Probab=28.81 E-value=97 Score=25.56 Aligned_cols=49 Identities=10% Similarity=0.071 Sum_probs=32.3
Q ss_pred HHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCcC
Q 046781 43 TDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNMEP 106 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~p 106 (142)
.+|.++|++.|+...-|--+.|. -|+..-+.-......|.+|+++|+.+
T Consensus 45 ~~va~lL~~sgl~y~HL~~~~~~---------------~~~~~~~rg~~qRn~AL~~ir~~~~~ 93 (223)
T cd00218 45 PLVAELLRRSGLMYTHLNAKTPS---------------DPTWLKPRGVEQRNLALRWIREHLSA 93 (223)
T ss_pred HHHHHHHHHcCCceEEeccCCCC---------------CcccCCcccHHHHHHHHHHHHhcccc
Confidence 56778888888877777654443 12222333344678999999999863
No 84
>PRK01222 N-(5'-phosphoribosyl)anthranilate isomerase; Provisional
Probab=28.14 E-value=1.2e+02 Score=24.07 Aligned_cols=48 Identities=13% Similarity=0.169 Sum_probs=34.9
Q ss_pred CCccceeecCCCCCCCChHHHHHHHHhCCCCeEEee-CCCHHHHhhhcC-CCceEE
Q 046781 25 SNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLF-DPNDAALNALRG-SQIDVT 78 (142)
Q Consensus 25 ~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRly-d~dp~vL~Ala~-sgI~v~ 78 (142)
...|||-.. ++++++.++++..+++-|.|. +-+++-+++++. .+++++
T Consensus 55 i~~VgVf~~------~~~~~i~~~~~~~~~d~vQLHg~e~~~~~~~l~~~~~~~ii 104 (210)
T PRK01222 55 VKVVGVFVN------ASDEEIDEIVETVPLDLLQLHGDETPEFCRQLKRRYGLPVI 104 (210)
T ss_pred CCEEEEEeC------CCHHHHHHHHHhcCCCEEEECCCCCHHHHHHHHhhcCCcEE
Confidence 345666543 378999999999999999998 456777778775 356665
No 85
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=28.05 E-value=2.6e+02 Score=22.45 Aligned_cols=66 Identities=17% Similarity=0.280 Sum_probs=45.5
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC----HHHHhhhcC--CCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCCCCCceeE
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN----DAALNALRG--SQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPYLKDVVFS 114 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d----p~vL~Ala~--sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py~p~t~I~ 114 (142)
.|+|+.+.+ +.|.+-+|+|=++ |+-++++++ .+++++-+=. -+.+...+|++. --.
T Consensus 110 TptEi~~A~-~~Ga~~vKlFPA~~~GG~~yikal~~plp~i~~~ptGG--------V~~~N~~~~l~a---------Ga~ 171 (204)
T TIGR01182 110 TPSEIMLAL-ELGITALKLFPAEVSGGVKMLKALAGPFPQVRFCPTGG--------INLANVRDYLAA---------PNV 171 (204)
T ss_pred CHHHHHHHH-HCCCCEEEECCchhcCCHHHHHHHhccCCCCcEEecCC--------CCHHHHHHHHhC---------CCE
Confidence 688877766 4689999999666 888999986 5555553211 255777788873 224
Q ss_pred EEEeeccccC
Q 046781 115 LIAVGNQVIP 124 (142)
Q Consensus 115 ~I~VGNEv~~ 124 (142)
.+.+|+..+.
T Consensus 172 ~vg~Gs~L~~ 181 (204)
T TIGR01182 172 ACGGGSWLVP 181 (204)
T ss_pred EEEEChhhcC
Confidence 6777877765
No 86
>PF13592 HTH_33: Winged helix-turn helix
Probab=27.99 E-value=79 Score=20.04 Aligned_cols=36 Identities=19% Similarity=0.301 Sum_probs=26.6
Q ss_pred cceeecCCCCCCCChHHHHHHHHhCCCCeEE----eeCCCHHHHhhhc
Q 046781 28 IGFCYGKLENDLPSATDVINPYKKYSIGKIR----LFDPNDAALNALR 71 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks~~i~~vR----lyd~dp~vL~Ala 71 (142)
.||+| +++.+-.||+..|++..| -...||+.-++|.
T Consensus 18 fgv~y--------s~~~v~~lL~r~G~s~~kp~~~~~k~d~~~q~~f~ 57 (60)
T PF13592_consen 18 FGVKY--------SPSGVYRLLKRLGFSYQKPRPRPPKADEEAQEAFK 57 (60)
T ss_pred HCCEE--------cHHHHHHHHHHcCCccccCCCCcccCCHHHHHHHH
Confidence 56666 779999999999996543 4567777777664
No 87
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=27.89 E-value=61 Score=25.18 Aligned_cols=43 Identities=26% Similarity=0.468 Sum_probs=31.5
Q ss_pred HHHHHhCCCCeEEee--CCCHHH----HhhhcCCCceEEeccCCCChhh
Q 046781 46 INPYKKYSIGKIRLF--DPNDAA----LNALRGSQIDVTLGVRNEDLPN 88 (142)
Q Consensus 46 v~llks~~i~~vRly--d~dp~v----L~Ala~sgI~v~v~vpN~~l~~ 88 (142)
++++-..||.+|=+= ||||.+ +.-|+..||+|.+++..++...
T Consensus 88 ~~ali~agi~rVvva~~DPnp~Vag~G~~~L~~aGi~V~~gil~~e~~~ 136 (146)
T COG0117 88 ADALIKAGVARVVVAMLDPNPLVAGGGLARLRAAGIEVEVGILEEEAEK 136 (146)
T ss_pred HHHHHHhCCCEEEEEecCCCccccCchHHHHHHcCCeEEEehhHHHHHH
Confidence 456667789997655 777644 5667789999999998766544
No 88
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=27.74 E-value=78 Score=28.51 Aligned_cols=48 Identities=17% Similarity=0.275 Sum_probs=35.8
Q ss_pred eeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCC
Q 046781 30 FCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNE 84 (142)
Q Consensus 30 VnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~ 84 (142)
+-||+.| .++++.+++.|++ +-+-|.|++..+.++.-|.+++.|=+.+
T Consensus 423 ~G~G~~G------~~la~~L~~~g~~-vvvId~d~~~~~~~~~~g~~~i~GD~~~ 470 (558)
T PRK10669 423 VGYGRVG------SLLGEKLLAAGIP-LVVIETSRTRVDELRERGIRAVLGNAAN 470 (558)
T ss_pred ECCChHH------HHHHHHHHHCCCC-EEEEECCHHHHHHHHHCCCeEEEcCCCC
Confidence 4456655 5688899998875 5566999998888888888887775543
No 89
>PF05336 DUF718: Domain of unknown function (DUF718); InterPro: IPR008000 Mutarotases are enzymes which interconvert the alpha and beta stereoisomers of monosaccharides, enhancing the rate of their metabolism. Proteins in this entry are homologues of the rhamnose mutarotase YiiL (P32156 from SWISSPROT) from Escherichia coli, and are often encoded in rhamnose utilisation operons. YiiL is an enzyme which interconverts the alpha and beta stereoisomers of the pyranose form of L-rhamnose []. It is not required for growth on rhamnose, but allows cells to utilise this carbon source more efficiently [].The structure of YiiL is distinct from other mutarotases, forming an asymmetric dimmer stabilised by an intermolecular beta-sheet, hydrophobic interactions and a salt bridge [].; GO: 0016857 racemase and epimerase activity, acting on carbohydrates and derivatives, 0019299 rhamnose metabolic process, 0005737 cytoplasm; PDB: 2QLX_A 2QLW_B 1X8D_B.
Probab=27.66 E-value=30 Score=24.77 Aligned_cols=52 Identities=17% Similarity=0.271 Sum_probs=34.3
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceE-EeccC--CCChhhhhcCHHHHHHHH
Q 046781 41 SATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDV-TLGVR--NEDLPNLAASQDAANSWF 100 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v-~v~vp--N~~l~~la~s~~~A~~WV 100 (142)
-+.+|.+.+|..||....||-... +|.=+ .+.+. ..+...++.++...+-|=
T Consensus 24 vWPEv~~~l~~~Gi~~ysIf~~g~--------~~~LF~~~E~~~~~~~~~~l~~~p~~~~W~~ 78 (106)
T PF05336_consen 24 VWPEVLAALREAGIRNYSIFRDGD--------TGRLFMYMETDDFDADMAALAADPVVQRWWA 78 (106)
T ss_dssp --HHHHHHHHHCTEEEEEEEEETT--------TTEEEEEEEECT-CHHHHHGGGSHHHHHHHH
T ss_pred cCHHHHHHHHHCCCeEEEEEEeCC--------CCEEEEEEEecChhhHHHHccCChHHHHHHH
Confidence 467899999999999999994322 12211 22222 356778888888887763
No 90
>PF11501 Nsp1: Non structural protein Nsp1; InterPro: IPR021590 Nsp1 is the N-terminal cleavage product from the viral replicase that mediates RNA replication and processing []. The specific function of the protein is unknown however the structure has been determined. The protein has a novel alpha/beta fold formed by a 6 stranded beta barrel with an alpha helix covering one end of the barrel and another helix alongside the barrel []. Nsp1 could be involved in the degradation of mRNA. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity, 0016788 hydrolase activity, acting on ester bonds, 0016817 hydrolase activity, acting on acid anhydrides; PDB: 2HSX_A 2GDT_A.
Probab=27.01 E-value=21 Score=26.35 Aligned_cols=14 Identities=29% Similarity=0.465 Sum_probs=8.8
Q ss_pred CccceeecCCCCCC
Q 046781 26 NDIGFCYGKLENDL 39 (142)
Q Consensus 26 ~~iGVnyG~~g~nL 39 (142)
..=||+|||.|..+
T Consensus 79 e~~GvqYGR~G~~l 92 (115)
T PF11501_consen 79 ERDGVQYGRSGTAL 92 (115)
T ss_dssp ESS-TTTTSSSS--
T ss_pred hhcCccccccccee
Confidence 34599999998764
No 91
>PRK00311 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed
Probab=26.96 E-value=55 Score=27.39 Aligned_cols=36 Identities=14% Similarity=0.096 Sum_probs=31.1
Q ss_pred HHHHHHHHhCCCCeEEeeCCC--HHHHhhhcCCCceEE
Q 046781 43 TDVINPYKKYSIGKIRLFDPN--DAALNALRGSQIDVT 78 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd~d--p~vL~Ala~sgI~v~ 78 (142)
..+++++|+.|...|+|=|.+ .+.++++...||+|+
T Consensus 97 ~~a~r~~~~aGa~aVkiEdg~~~~~~I~al~~agIpV~ 134 (264)
T PRK00311 97 RNAGRLMKEAGAHAVKLEGGEEVAETIKRLVERGIPVM 134 (264)
T ss_pred HHHHHHHHHhCCeEEEEcCcHHHHHHHHHHHHCCCCEe
Confidence 447889999999999999873 378999999999997
No 92
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=26.84 E-value=1.3e+02 Score=20.04 Aligned_cols=29 Identities=10% Similarity=0.101 Sum_probs=16.1
Q ss_pred eeecCCCCCCCChHHHHHHHHhCCCCeEEeeC
Q 046781 30 FCYGKLENDLPSATDVINPYKKYSIGKIRLFD 61 (142)
Q Consensus 30 VnyG~~g~nLPsp~~vv~llks~~i~~vRlyd 61 (142)
|.|+..|.. ....+..|+..|.++|++.+
T Consensus 69 v~~c~~g~~---s~~~a~~L~~~G~~~v~~l~ 97 (105)
T cd01525 69 VIVSHSHKH---AALFAAFLVKCGVPRVCILD 97 (105)
T ss_pred EEEeCCCcc---HHHHHHHHHHcCCCCEEEEe
Confidence 455554442 34555566666666666554
No 93
>TIGR02625 YiiL_rotase L-rhamnose 1-epimerase. Members of this protein family are rhamnose mutarotase from Escherichia coli, previously designated YiiL as an uncharacterized protein, and close homologs also associated with rhamnose dissimilation operons in other bacterial genomes. Mutarotase is a term for an epimerase that changes optical activity. This enzyme was shown experimentally to interconvert alpha and beta stereoisomers of the pyranose form of L-rhamnose. The crystal structure of this small (104 amino acid) protein shows a locally asymmetric dimer with active site residues of His, Tyr, and Trp.
Probab=26.58 E-value=60 Score=23.38 Aligned_cols=51 Identities=14% Similarity=0.081 Sum_probs=31.2
Q ss_pred hHHHHHHHHhCCCCeEEeeCC-CHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHH
Q 046781 42 ATDVINPYKKYSIGKIRLFDP-NDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSW 99 (142)
Q Consensus 42 p~~vv~llks~~i~~vRlyd~-dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~W 99 (142)
..++.+.||+.||....||-. +...|=+ ++-.-.+.+...+|.++...+-|
T Consensus 24 WPEv~~~L~~~Gi~~ysIfl~~~~~~LF~-------~~E~~d~~~~~~~a~~~~~~~W~ 75 (102)
T TIGR02625 24 WPELKEVLKSHGAHNYSIFLDKQRNLLFA-------YVEIEDEERWNAIAETDICQKWW 75 (102)
T ss_pred CHHHHHHHHHCCCeEEEEEEECCCCeEEE-------EEEECchhcHHHhhCCHHHHHHH
Confidence 368999999999999999932 2222211 11112344577788776664433
No 94
>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=26.51 E-value=72 Score=26.13 Aligned_cols=26 Identities=19% Similarity=0.229 Sum_probs=22.8
Q ss_pred CCChHHHHHHH----HhCCCCeEEeeCCCH
Q 046781 39 LPSATDVINPY----KKYSIGKIRLFDPND 64 (142)
Q Consensus 39 LPsp~~vv~ll----ks~~i~~vRlyd~dp 64 (142)
--+|.+|++-| |+.|.+.|||-..+|
T Consensus 73 f~~P~eVaeRL~ei~K~~g~d~vRiSG~EP 102 (228)
T COG5014 73 FLSPEEVAERLLEISKKRGCDLVRISGAEP 102 (228)
T ss_pred ccCHHHHHHHHHHHHHhcCCcEEEeeCCCc
Confidence 44799999988 999999999988776
No 95
>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=26.45 E-value=1.7e+02 Score=26.68 Aligned_cols=89 Identities=18% Similarity=0.260 Sum_probs=51.5
Q ss_pred ccceeecCCCCCCCC----hHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCc---eEEeccCC--CC-hhhhhc
Q 046781 27 DIGFCYGKLENDLPS----ATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQI---DVTLGVRN--ED-LPNLAA 91 (142)
Q Consensus 27 ~iGVnyG~~g~nLPs----p~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI---~v~v~vpN--~~-l~~la~ 91 (142)
.+|-|.+..|.++-. -.+..+.++..++.++|+...+ ++.|++++.+|- .+.+++-. +. |..+..
T Consensus 263 L~g~n~~~yg~d~~~~~~~l~~Ll~~I~~~~i~~ir~~s~~P~~i~deli~~m~~~g~~~~~l~lgvQSgsd~vLk~M~R 342 (509)
T PRK14327 263 LLGQNVNAYGKDFEDIEYGLGDLMDEIRKIDIPRVRFTTSHPRDFDDHLIEVLAKGGNLVEHIHLPVQSGSTEVLKIMAR 342 (509)
T ss_pred EEeeccccCcccccccchHHHHHHHHHHhCCCceEEEeecCcccCCHHHHHHHHhcCCccceEEeccCCCCHHHHHhcCC
Confidence 466676666655432 2345555555678889976444 479999998772 45555543 33 444443
Q ss_pred CHH-----HHHHHHHhcCcCCCCCceeE-EEEee
Q 046781 92 SQD-----AANSWFATNMEPYLKDVVFS-LIAVG 119 (142)
Q Consensus 92 s~~-----~A~~WV~~nV~py~p~t~I~-~I~VG 119 (142)
... .+-.++++ ..|+..++ .+.||
T Consensus 343 ~~t~e~~~~~v~~lr~----~~p~i~i~tdiIvG 372 (509)
T PRK14327 343 KYTRESYLELVRKIKE----AIPNVALTTDIIVG 372 (509)
T ss_pred CCCHHHHHHHHHHHHH----hCCCcEEeeeEEEe
Confidence 221 22344444 35777664 58889
No 96
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=26.40 E-value=98 Score=22.64 Aligned_cols=60 Identities=18% Similarity=0.238 Sum_probs=35.3
Q ss_pred hHHHHHHHHhCCC--CeEEeeC-------CCHHHH---hhhcCCCceEEeccCCCChhhhhcCHHHHHHHHH
Q 046781 42 ATDVINPYKKYSI--GKIRLFD-------PNDAAL---NALRGSQIDVTLGVRNEDLPNLAASQDAANSWFA 101 (142)
Q Consensus 42 p~~vv~llks~~i--~~vRlyd-------~dp~vL---~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~ 101 (142)
++.+.+.|++.|| +.+||+. --++.+ ++-..-|...-|.|.+--...+...--.-++|++
T Consensus 25 A~Al~~~L~~~gI~Gk~i~l~T~~~~~~~I~sd~~~~~~sIt~NG~H~gI~V~~~VFDNl~p~G~~r~dWl~ 96 (100)
T PF15643_consen 25 ASALKQFLKQAGIPGKIIRLYTGYHEGPFIYSDRLGPQESITTNGRHYGIEVGEIVFDNLHPEGMSREDWLR 96 (100)
T ss_pred HHHHHHHHHHCCCCceEEEEEecCCCCceehhhhhcCCcceeeCCEEEEEEEeeEEecccCcccCCHHHHHH
Confidence 6788899999999 5688886 223444 4444455555555554334444333334455554
No 97
>PRK00124 hypothetical protein; Validated
Probab=26.05 E-value=56 Score=25.34 Aligned_cols=18 Identities=28% Similarity=0.088 Sum_probs=15.2
Q ss_pred hcCHHHHHHHHHhcCcCC
Q 046781 90 AASQDAANSWFATNMEPY 107 (142)
Q Consensus 90 a~s~~~A~~WV~~nV~py 107 (142)
.+...+|+.|+-+++.+-
T Consensus 51 ~~g~D~AD~~Iv~~~~~g 68 (151)
T PRK00124 51 DAGFDAADNEIVQLAEKG 68 (151)
T ss_pred CCCCChHHHHHHHhCCCC
Confidence 357889999999999885
No 98
>PRK13586 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=26.00 E-value=3.3e+02 Score=22.00 Aligned_cols=40 Identities=5% Similarity=0.072 Sum_probs=30.5
Q ss_pred CChHHHHHHHHhCCCCeEEeeCCCH--------HHHhhhcC-CCceEEe
Q 046781 40 PSATDVINPYKKYSIGKIRLFDPND--------AALNALRG-SQIDVTL 79 (142)
Q Consensus 40 Psp~~vv~llks~~i~~vRlyd~dp--------~vL~Ala~-sgI~v~v 79 (142)
..|-++++.|++.|.+.+-+.|-|. ++++.++. .-.++.+
T Consensus 30 ~dP~~~a~~~~~~ga~~lhivDLd~a~~~~~n~~~i~~i~~~~~~~v~v 78 (232)
T PRK13586 30 GNPIEIASKLYNEGYTRIHVVDLDAAEGVGNNEMYIKEISKIGFDWIQV 78 (232)
T ss_pred CCHHHHHHHHHHCCCCEEEEEECCCcCCCcchHHHHHHHHhhCCCCEEE
Confidence 3799999999999999999998664 67777765 3235555
No 99
>PRK09532 DNA polymerase III subunit alpha; Reviewed
Probab=25.49 E-value=1.2e+02 Score=29.61 Aligned_cols=43 Identities=16% Similarity=0.181 Sum_probs=37.1
Q ss_pred CCChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCceEEecc
Q 046781 39 LPSATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQIDVTLGV 81 (142)
Q Consensus 39 LPsp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI~v~v~v 81 (142)
.-+|++.++..++.|++.+-|.|.+ .+..++.+..||..++|+
T Consensus 18 ~~~~~elv~~A~~~G~~aiAiTDh~~~~g~~~f~~~~~~~gik~I~G~ 65 (874)
T PRK09532 18 ASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGN 65 (874)
T ss_pred cCCHHHHHHHHHHCCCCEEEEecCCChhhHHHHHHHHHHcCCeEEEEE
Confidence 3478999999999999999999988 466777788999999886
No 100
>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=25.13 E-value=4.1e+02 Score=23.24 Aligned_cols=88 Identities=17% Similarity=0.289 Sum_probs=47.4
Q ss_pred cceeecCCCCCCCChHHHHHHHHh----CCCCeEEeeC--C---CHHHHhhhcCCC---ceEEeccCC--CC-hhhhhc-
Q 046781 28 IGFCYGKLENDLPSATDVINPYKK----YSIGKIRLFD--P---NDAALNALRGSQ---IDVTLGVRN--ED-LPNLAA- 91 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks----~~i~~vRlyd--~---dp~vL~Ala~sg---I~v~v~vpN--~~-l~~la~- 91 (142)
+|.|.+..|.+++...+..+|++. .++.++|+.. | +++.++.++..+ -.+.+++-. ++ |..+-.
T Consensus 176 ~~~~~~~yg~d~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~i~~ell~~l~~~~~~~~~l~lglQSgsd~vLk~M~R~ 255 (418)
T PRK14336 176 LGQNVDSYGHDLPEKPCLADLLSALHDIPGLLRIRFLTSHPKDISQKLIDAMAHLPKVCRSLSLPVQAGDDTILAAMRRG 255 (418)
T ss_pred EecCccccccCCCCcccHHHHHHHHHhcCCccEEEEeccChhhcCHHHHHHHHhcCccCCceecCCCcCCHHHHHHhCCC
Confidence 466655555555443445555543 3456888764 3 467888888643 344455543 22 444422
Q ss_pred ----CHHHHHHHHHhcCcCCCCCceeE-EEEee
Q 046781 92 ----SQDAANSWFATNMEPYLKDVVFS-LIAVG 119 (142)
Q Consensus 92 ----s~~~A~~WV~~nV~py~p~t~I~-~I~VG 119 (142)
+...+-.++++. .|+..+. .+.||
T Consensus 256 ~~~~~~~~~i~~lr~~----~pgi~i~~d~IvG 284 (418)
T PRK14336 256 YTNQQYRELVERLKTA----MPDISLQTDLIVG 284 (418)
T ss_pred CCHHHHHHHHHHHHhh----CCCCEEEEEEEEE
Confidence 222333444443 4666654 68888
No 101
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=25.05 E-value=1.8e+02 Score=21.46 Aligned_cols=47 Identities=13% Similarity=0.163 Sum_probs=28.7
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC-------HHHHhhhcCC---CceEEec--cCCCChh
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN-------DAALNALRGS---QIDVTLG--VRNEDLP 87 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d-------p~vL~Ala~s---gI~v~v~--vpN~~l~ 87 (142)
||+++++-.++.+.+-+=|-..+ ++++++|+.- .+.+++| .|+++..
T Consensus 41 s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~~~~~~ 99 (132)
T TIGR00640 41 TPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIPPQDFD 99 (132)
T ss_pred CHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCChHhHH
Confidence 56777777777777766665333 3455556543 4667777 6655443
No 102
>TIGR03239 GarL 2-dehydro-3-deoxyglucarate aldolase. In E. coli this enzyme (GarL, ) 2-dehydro-3-deoxyglucarate aldolase acts in the catabolism of several sugars including D-galactarate, D-glucarate and L-idarate. In fact, 5-dehydro-4-deoxy-D-glucarate aldolase is a synonym for this enzyme as it is unclear in the literature whether the enzyme acts on only one of these or, as seems likely, has no preference. (Despite the apparent large difference in substrate stucture indicated by their names, 2-DH-3DO- and 5-DH-4DO-glucarate differ only by the chirality of most central hydroxyl-bearing carbon and is alternately named 2-DH-3DO-galactarate.) The reported product of D-galactarate dehydratase (4.2.1.42) is the 5DH-4DO-glucarate isomer and this enzyme is found proximal to the aldolase in many genomes (GenProp0714) where no epimerase is known. Similarly, the product of D-glucarate dehydratase (4.2.1.40) is again the 5-DH-4DO isomer, so the provenance of the 2-DH-3DO-glucarate isomer for which
Probab=24.89 E-value=1.4e+02 Score=24.38 Aligned_cols=54 Identities=17% Similarity=0.049 Sum_probs=40.0
Q ss_pred eecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCH---------HHHhhhcCCCceEEeccCCCChh
Q 046781 31 CYGKLENDLPSATDVINPYKKYSIGKIRLFDPND---------AALNALRGSQIDVTLGVRNEDLP 87 (142)
Q Consensus 31 nyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp---------~vL~Ala~sgI~v~v~vpN~~l~ 87 (142)
.||. -..+|+| .+++++...|++-|=| |.+| +.++|.+..|+..+|-||..+-.
T Consensus 13 ~~G~-~~~~~sp-~~~e~~a~~G~D~v~i-D~EHg~~~~~~~~~~~~a~~~~g~~~~VRvp~~~~~ 75 (249)
T TIGR03239 13 LIGC-WSALGNP-ITTEVLGLAGFDWLLL-DGEHAPNDVLTFIPQLMALKGSASAPVVRPPWNEPV 75 (249)
T ss_pred eEEE-EEcCCCc-HHHHHHHhcCCCEEEE-ecccCCCCHHHHHHHHHHHhhcCCCcEEECCCCCHH
Confidence 4554 3368886 6788888899888876 5433 56778888999999999877644
No 103
>cd07038 TPP_PYR_PDC_IPDC_like Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites, for many
Probab=24.80 E-value=1.4e+02 Score=22.42 Aligned_cols=37 Identities=14% Similarity=0.120 Sum_probs=23.1
Q ss_pred HHHHHHHhCCCCeEEee--CCCHHHHhhhc-CCCceEEec
Q 046781 44 DVINPYKKYSIGKIRLF--DPNDAALNALR-GSQIDVTLG 80 (142)
Q Consensus 44 ~vv~llks~~i~~vRly--d~dp~vL~Ala-~sgI~v~v~ 80 (142)
.+++.|++.||++|=-. +....++.++. +.+|+.+..
T Consensus 2 ~l~~~L~~~Gi~~vFg~pG~~~~~l~~al~~~~~i~~i~~ 41 (162)
T cd07038 2 YLLERLKQLGVKHVFGVPGDYNLPLLDAIEENPGLRWVGN 41 (162)
T ss_pred HHHHHHHHcCCCEEEEeCCccHHHHHHHHhhcCCceEEee
Confidence 35677777777766555 44456777774 346776544
No 104
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=24.66 E-value=57 Score=22.80 Aligned_cols=42 Identities=17% Similarity=0.373 Sum_probs=24.7
Q ss_pred cceeecCCCCCC--CChHHHHHHHHhCCCCeEEeeCCCHHHHhhh
Q 046781 28 IGFCYGKLENDL--PSATDVINPYKKYSIGKIRLFDPNDAALNAL 70 (142)
Q Consensus 28 iGVnyG~~g~nL--Psp~~vv~llks~~i~~vRlyd~dp~vL~Al 70 (142)
.|+.|=-.-+++ .+.-++++.|++.|+. |++|||--.--...
T Consensus 3 lGlafK~n~~D~R~Sp~~~l~~~L~~~g~~-V~~~DP~v~~~~~~ 46 (106)
T PF03720_consen 3 LGLAFKPNTDDIRESPALELIEELKERGAE-VSVYDPYVDEEEIK 46 (106)
T ss_dssp E-SSSSTTSS--TT-HHHHHHHHHHHTT-E-EEEE-TTSHHHHHH
T ss_pred EEEEECCCCcccccCHHHHHHHHHHHCCCE-EEEECCccChHHHH
Confidence 456664444443 4456788899999985 99999876544443
No 105
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.55 E-value=1.3e+02 Score=29.97 Aligned_cols=44 Identities=14% Similarity=0.184 Sum_probs=36.6
Q ss_pred CCChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCceEEeccC
Q 046781 39 LPSATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQIDVTLGVR 82 (142)
Q Consensus 39 LPsp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI~v~v~vp 82 (142)
.-++++.++..|++|.+.+-|.|.+ .+..++.+..||++++|+-
T Consensus 16 ~~~~~elv~~A~~~G~~alAiTDH~~l~g~~~f~~~~~~~gIkpI~G~E 64 (1022)
T TIGR00594 16 AAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCE 64 (1022)
T ss_pred cCCHHHHHHHHHHCCCCEEEEecCCCchhHHHHHHHHHHcCCeEEEEEE
Confidence 4478999999999999999999987 4566777788999988754
No 106
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.
Probab=24.46 E-value=1.1e+02 Score=26.54 Aligned_cols=89 Identities=21% Similarity=0.284 Sum_probs=48.5
Q ss_pred cceeecCCCCCCCChHHHHHHHHh----CCCCeEEee-----CCCHHHHhhhcCCC---ceEEeccCC--CC-hhhhhc-
Q 046781 28 IGFCYGKLENDLPSATDVINPYKK----YSIGKIRLF-----DPNDAALNALRGSQ---IDVTLGVRN--ED-LPNLAA- 91 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks----~~i~~vRly-----d~dp~vL~Ala~sg---I~v~v~vpN--~~-l~~la~- 91 (142)
+|.|.+..|++++...+..+|++. .++.++|+- +-+++.|++++..| ..+.+++.. ++ |..+..
T Consensus 190 ~~~~~~~y~~d~~~~~~l~~Ll~~l~~~~~~~~ir~~~~~p~~~~~ell~~m~~~~~~~~~l~lglESgs~~vLk~m~R~ 269 (414)
T TIGR01579 190 TGVNLGSYGDDLKNGTSLAKLLEQILQIPGIKRIRLSSIDPEDIDEELLEAIASEKRLCPHLHLSLQSGSDRVLKRMRRK 269 (414)
T ss_pred eeEccchhccCCCCCCcHHHHHHHHhcCCCCcEEEEeCCChhhCCHHHHHHHHhcCccCCCeEECCCcCChHHHHhcCCC
Confidence 456666666665444455566543 256678875 24678899998665 245555543 22 444432
Q ss_pred ----CHHHHHHHHHhcCcCCCCCceeE-EEEeec
Q 046781 92 ----SQDAANSWFATNMEPYLKDVVFS-LIAVGN 120 (142)
Q Consensus 92 ----s~~~A~~WV~~nV~py~p~t~I~-~I~VGN 120 (142)
....+-+++++. .|+..+. ++.+|-
T Consensus 270 ~~~~~~~~~v~~l~~~----~~gi~i~~~~IvG~ 299 (414)
T TIGR01579 270 YTRDDFLKLVNKLRSV----RPDYAFGTDIIVGF 299 (414)
T ss_pred CCHHHHHHHHHHHHHh----CCCCeeeeeEEEEC
Confidence 223444555542 2333333 577883
No 107
>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=24.30 E-value=1.9e+02 Score=25.35 Aligned_cols=84 Identities=21% Similarity=0.286 Sum_probs=48.3
Q ss_pred ecCCCCCCCChHHHHHHHHhCCCCeEEeeC-----CCHHHHhhhcCCC---ceEEeccCC--CC-hhhhhcC-----HHH
Q 046781 32 YGKLENDLPSATDVINPYKKYSIGKIRLFD-----PNDAALNALRGSQ---IDVTLGVRN--ED-LPNLAAS-----QDA 95 (142)
Q Consensus 32 yG~~g~nLPsp~~vv~llks~~i~~vRlyd-----~dp~vL~Ala~sg---I~v~v~vpN--~~-l~~la~s-----~~~ 95 (142)
||.--.+.|...+..++++..++.++|+.. -+++.+++|+..| -.+.+++-. ++ |..+-.. ...
T Consensus 197 yG~d~~~~~~~~~Ll~~l~~~~i~~ir~~~~~p~~i~~ell~~l~~~~~g~~~l~igvQSgs~~vLk~m~R~~~~~~~~~ 276 (440)
T PRK14334 197 YGVDQPGFPSFAELLRLVGASGIPRVKFTTSHPMNFTDDVIAAMAETPAVCEYIHLPVQSGSDRVLRRMAREYRREKYLE 276 (440)
T ss_pred cccCCCCcCCHHHHHHHHHhcCCcEEEEccCCcccCCHHHHHHHHhcCcCCCeEEeccccCCHHHHHHhCCCCCHHHHHH
Confidence 654222346777888888777888888843 3578999998765 245555543 22 3333322 223
Q ss_pred HHHHHHhcCcCCCCCcee-EEEEee
Q 046781 96 ANSWFATNMEPYLKDVVF-SLIAVG 119 (142)
Q Consensus 96 A~~WV~~nV~py~p~t~I-~~I~VG 119 (142)
+-.++++. .|+..+ ..+.+|
T Consensus 277 ~v~~lr~~----~~~i~i~~d~IvG 297 (440)
T PRK14334 277 RIAEIREA----LPDVVLSTDIIVG 297 (440)
T ss_pred HHHHHHHh----CCCcEEEEeEEEE
Confidence 44455544 344443 357778
No 108
>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.
Probab=24.04 E-value=1.3e+02 Score=20.76 Aligned_cols=25 Identities=20% Similarity=0.409 Sum_probs=14.3
Q ss_pred CCChHHHHHHHHhCCC---CeEEeeCCC
Q 046781 39 LPSATDVINPYKKYSI---GKIRLFDPN 63 (142)
Q Consensus 39 LPsp~~vv~llks~~i---~~vRlyd~d 63 (142)
+|++++.-+++++.++ +.|=+|+..
T Consensus 61 ~~~~~~~~~~~~~~~~~~~~~vv~~c~~ 88 (122)
T cd01448 61 LPSPEEFAELLGSLGISNDDTVVVYDDG 88 (122)
T ss_pred CCCHHHHHHHHHHcCCCCCCEEEEECCC
Confidence 5666666666666554 345555543
No 109
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=24.01 E-value=86 Score=27.25 Aligned_cols=38 Identities=21% Similarity=0.387 Sum_probs=31.3
Q ss_pred ecCCCCC--CCChHHHHHHHHhCCCCeEEeeCCCHHHHhh
Q 046781 32 YGKLEND--LPSATDVINPYKKYSIGKIRLFDPNDAALNA 69 (142)
Q Consensus 32 yG~~g~n--LPsp~~vv~llks~~i~~vRlyd~dp~vL~A 69 (142)
|..+.|. +||.+.....+++.|++.||+.|..+..+.=
T Consensus 236 Ya~m~nv~FiPs~~~L~~wl~r~gF~~v~~v~~~~Tt~~E 275 (315)
T PF08003_consen 236 YAKMRNVWFIPSVAALKNWLERAGFKDVRCVDVSPTTIEE 275 (315)
T ss_pred ccCCCceEEeCCHHHHHHHHHHcCCceEEEecCccCCHHH
Confidence 5566655 8999999999999999999999877765443
No 110
>COG0613 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]
Probab=23.68 E-value=1.3e+02 Score=24.81 Aligned_cols=34 Identities=15% Similarity=0.220 Sum_probs=26.6
Q ss_pred CCCCCChHHHHHHHHhCCCCeEEeeCCCH--HHHhh
Q 046781 36 ENDLPSATDVINPYKKYSIGKIRLFDPND--AALNA 69 (142)
Q Consensus 36 g~nLPsp~~vv~llks~~i~~vRlyd~dp--~vL~A 69 (142)
.|.-.+|.+++++.++.|++-+.|.|.|- ..+.|
T Consensus 13 Sdg~~~p~~vv~~A~~~g~~vlAiTDHdt~~g~~~a 48 (258)
T COG0613 13 SDGGLTPREVVERAKAKGVDVLAITDHDTVRGLLEA 48 (258)
T ss_pred CCCCCCHHHHHHHHHHcCCCEEEECCcccccccHHH
Confidence 44445699999999999999999998664 44444
No 111
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=23.41 E-value=1.3e+02 Score=23.71 Aligned_cols=42 Identities=14% Similarity=0.238 Sum_probs=32.8
Q ss_pred CCCCCChHHHHHHHHhCCCC----eEEeeCCCH-HHHhhhcCCCceE
Q 046781 36 ENDLPSATDVINPYKKYSIG----KIRLFDPND-AALNALRGSQIDV 77 (142)
Q Consensus 36 g~nLPsp~~vv~llks~~i~----~vRlyd~dp-~vL~Ala~sgI~v 77 (142)
+...++++++.++++..++. .+.++.+++ +.|+.|+++|..-
T Consensus 162 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~f~~~~~~l~~lk~~G~~~ 208 (251)
T PRK10258 162 ANRFLPPDAIEQALNGWRYQHHIQPITLWFDDALSAMRSLKGIGATH 208 (251)
T ss_pred cccCCCHHHHHHHHHhCCceeeeeEEEEECCCHHHHHHHHHHhCCCC
Confidence 45678999999999987763 456666666 8999999999654
No 112
>PF08491 SE: Squalene epoxidase; InterPro: IPR013698 This domain is found in squalene epoxidase (SE) and related proteins which are found in taxonomically diverse groups of eukaryotes and also in bacteria. SE was first cloned from Saccharomyces cerevisiae (Baker's yeast) where it was named ERG1. It contains a putative FAD binding site and is a key enzyme in the sterol biosynthetic pathway []. Putative transmembrane regions are found to the protein's C terminus. ; GO: 0004506 squalene monooxygenase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=23.37 E-value=55 Score=27.80 Aligned_cols=56 Identities=18% Similarity=0.347 Sum_probs=42.4
Q ss_pred CCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCCCCC
Q 046781 53 SIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPYLKD 110 (142)
Q Consensus 53 ~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py~p~ 110 (142)
+-.+|=+=++-|-.+=-...+..++.+++|.+.+|+.+ ...=.+|++++|.|.+|.
T Consensus 44 ~~ghvil~~~~pil~YqI~~~etR~Lvdvp~~k~P~~~--~g~l~~yl~~~v~P~LP~ 99 (276)
T PF08491_consen 44 NHGHVILGKPGPILLYQISSNETRVLVDVPGPKLPSVS--NGELKEYLREVVAPQLPE 99 (276)
T ss_pred CceEEEEcCCCcEEEEEcCCCceEEEEEeCCCccCCcc--chHHHHHHHHHHHhhchH
Confidence 44566666666666666677889999999988788753 356678999999999883
No 113
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=23.13 E-value=1.9e+02 Score=24.09 Aligned_cols=64 Identities=27% Similarity=0.356 Sum_probs=42.1
Q ss_pred cCCCCCCCChHHHHHHHHhCCCCeEEee---------------CCCH-HHHhhhcCCCceEEeccCCCChhhhhcCHHHH
Q 046781 33 GKLENDLPSATDVINPYKKYSIGKIRLF---------------DPND-AALNALRGSQIDVTLGVRNEDLPNLAASQDAA 96 (142)
Q Consensus 33 G~~g~nLPsp~~vv~llks~~i~~vRly---------------d~dp-~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A 96 (142)
|++- --|+.++|.+-+|..|+++|+|. ..++ +--+.|...|++|.. .+..|+..+.-+
T Consensus 177 gtvE-G~P~~~~vi~~L~~~g~k~V~L~PlMlVAGdHa~nDmaGde~dSWks~L~~~G~~v~~-----~l~GLGE~~~i~ 250 (262)
T PF06180_consen 177 GTVE-GYPSLEDVIARLKKKGIKKVHLIPLMLVAGDHAKNDMAGDEEDSWKSRLEAAGFEVTC-----VLKGLGEYPAIQ 250 (262)
T ss_dssp EETT-SSSBHHHHHHHHHHHT-SEEEEEEESSS--HHHHCCCCSSSTTSHHHHHHHTT-EEEE---------GGGSHHHH
T ss_pred EEeC-CCCCHHHHHHHHHhcCCCeEEEEecccccchhhhhhhcCCCcchHHHHHHHCCCEEEE-----EeccCcCCHHHH
Confidence 4542 36899999999999999999986 1222 333445667888855 677888888888
Q ss_pred HHHHHh
Q 046781 97 NSWFAT 102 (142)
Q Consensus 97 ~~WV~~ 102 (142)
+-|++.
T Consensus 251 ~ifi~h 256 (262)
T PF06180_consen 251 QIFIEH 256 (262)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 888763
No 114
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=23.12 E-value=2.4e+02 Score=24.33 Aligned_cols=74 Identities=15% Similarity=0.122 Sum_probs=49.1
Q ss_pred HHHHHhCCCCeEEeeCCCH-HHHhhhcCCCceEEeccCC----------------CChhhhhc-----CHHHHHHHHHhc
Q 046781 46 INPYKKYSIGKIRLFDPND-AALNALRGSQIDVTLGVRN----------------EDLPNLAA-----SQDAANSWFATN 103 (142)
Q Consensus 46 v~llks~~i~~vRlyd~dp-~vL~Ala~sgI~v~v~vpN----------------~~l~~la~-----s~~~A~~WV~~n 103 (142)
+++-|..-.+--=+|..++ +..++|+.-|+.+.-|-.= -+-|++|. +...|-+|+.+.
T Consensus 140 A~~A~~Re~SEp~~w~~~~~~~~~~~~~~g~~~~~GgRf~H~l~~~~~~~~~~~~~~~~~~~~~~~~~dKg~A~~~L~~~ 219 (302)
T PRK12702 140 AERAQKREYSEIFSYSGDPARLREAFAQQEANLTQHLLRLHQLHFSDLPQWYLTGWMQPTLAAEPNSLPGEQAVQLLLDC 219 (302)
T ss_pred HHHHHhccCCcceEecCCHHHHHHHHHHcCCeEEecCceEEecccccccccccccccccccccccCCCCHHHHHHHHHHH
Confidence 4445555556666665544 4567788888877654321 12234444 788999999999
Q ss_pred CcCCCCCceeEEEEeecc
Q 046781 104 MEPYLKDVVFSLIAVGNQ 121 (142)
Q Consensus 104 V~py~p~t~I~~I~VGNE 121 (142)
-...+ .+|+.|+.|+-
T Consensus 220 y~~~~--~~~~tiaLGDs 235 (302)
T PRK12702 220 YQRHL--GPIKALGIGCS 235 (302)
T ss_pred HHhcc--CCceEEEecCC
Confidence 88765 67899999954
No 115
>TIGR02544 III_secr_YscJ type III secretion apparatus lipoprotein, YscJ/HrcJ family. All members of this protein family are predicted lipoproteins with a conserved Cys near the N-terminus for cleavage and modification, and are part of known or predicted type III secretion systems. Members are found in both plant and animal pathogens, including the obligately intracellular chlamydial species and (non-pathogenic) root nodule bacteria. The most closely related proteins outside this family are examples of the flagellar M-ring protein FliF.
Probab=22.88 E-value=1.9e+02 Score=22.88 Aligned_cols=46 Identities=15% Similarity=0.117 Sum_probs=30.3
Q ss_pred eecCCCCCCC--ChHHHHHHHHhCCCCeEE---------eeCCCHHHHhh---hcCCCce
Q 046781 31 CYGKLENDLP--SATDVINPYKKYSIGKIR---------LFDPNDAALNA---LRGSQID 76 (142)
Q Consensus 31 nyG~~g~nLP--sp~~vv~llks~~i~~vR---------lyd~dp~vL~A---la~sgI~ 76 (142)
.|..+-++|. ...++++.|+++||+.-+ |+-|..++-+| |+..|++
T Consensus 18 ~~~~Ly~~L~~~da~~I~~~L~~~gI~y~~~~~~~~g~~I~Vp~~~~~~ar~~La~~glp 77 (193)
T TIGR02544 18 KVDLLYSGLSEREANEMLAVLMRHGIDAEKEGSGKGGYTISVEESDFARAVELLRQYGLP 77 (193)
T ss_pred CceecccCCCHHHHHHHHHHHHHCCCCeEEeecCCCCeEEEEcHHHHHHHHHHHHHcCCC
Confidence 4555555665 467899999999997644 66565555554 5655554
No 116
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=22.70 E-value=1.4e+02 Score=29.83 Aligned_cols=44 Identities=9% Similarity=0.202 Sum_probs=35.8
Q ss_pred CCCChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhcCCCceEEecc
Q 046781 38 DLPSATDVINPYKKYSIGKIRLFDPN-----DAALNALRGSQIDVTLGV 81 (142)
Q Consensus 38 nLPsp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala~sgI~v~v~v 81 (142)
-.-+|+++++..++.|.+.+-|.|.+ .+..++.+..||++++|+
T Consensus 19 g~~~~~elv~~A~~~G~~avAiTDh~~l~g~~~f~~~~~~~gIkpI~G~ 67 (1046)
T PRK05672 19 GASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGA 67 (1046)
T ss_pred cCCCHHHHHHHHHHcCCCEEEEEeCCcchhHHHHHHHHHHCCCEEEEEE
Confidence 34578999999999999999999876 345566677889888775
No 117
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=22.63 E-value=1.2e+02 Score=21.66 Aligned_cols=39 Identities=13% Similarity=0.204 Sum_probs=21.0
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCCH------HHHhhhcCCCceEEe
Q 046781 41 SATDVINPYKKYSIGKIRLFDPND------AALNALRGSQIDVTL 79 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~dp------~vL~Ala~sgI~v~v 79 (142)
+.++..+++++++|+.+=+-.|+. ++++.+++.|+++-+
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~ 173 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRV 173 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEE
Confidence 567777777777777766554432 455666666666643
No 118
>COG2897 SseA Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=22.61 E-value=97 Score=26.29 Aligned_cols=42 Identities=17% Similarity=0.251 Sum_probs=31.3
Q ss_pred CCCCChHHHHHHHHhCCCC---eEEeeCCCH--------HHHhhhcCCCceEE
Q 046781 37 NDLPSATDVINPYKKYSIG---KIRLFDPND--------AALNALRGSQIDVT 78 (142)
Q Consensus 37 ~nLPsp~~vv~llks~~i~---~vRlyd~dp--------~vL~Ala~sgI~v~ 78 (142)
..+|+|++..+++++.||+ .|=+||-.. .+|+.+-+.++.+.
T Consensus 70 ~~lp~~e~fa~~~~~~GI~~d~tVVvYdd~~~~~A~ra~W~l~~~Gh~~V~iL 122 (285)
T COG2897 70 HMLPSPEQFAKLLGELGIRNDDTVVVYDDGGGFFAARAWWLLRYLGHENVRIL 122 (285)
T ss_pred CCCCCHHHHHHHHHHcCCCCCCEEEEECCCCCeehHHHHHHHHHcCCCceEEe
Confidence 4589999999999999994 588888432 35666666665554
No 119
>PRK15412 thiol:disulfide interchange protein DsbE; Provisional
Probab=22.58 E-value=1.8e+02 Score=22.11 Aligned_cols=11 Identities=9% Similarity=0.160 Sum_probs=7.0
Q ss_pred CCceeEEEEee
Q 046781 109 KDVVFSLIAVG 119 (142)
Q Consensus 109 p~t~I~~I~VG 119 (142)
++=+|++..+|
T Consensus 151 ~~G~i~~~~~G 161 (185)
T PRK15412 151 GNGIIRYRHAG 161 (185)
T ss_pred CCceEEEEEec
Confidence 34466777776
No 120
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=22.53 E-value=94 Score=26.13 Aligned_cols=60 Identities=17% Similarity=0.110 Sum_probs=42.1
Q ss_pred CCCC--ChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCCCCCceeE
Q 046781 37 NDLP--SATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPYLKDVVFS 114 (142)
Q Consensus 37 ~nLP--sp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py~p~t~I~ 114 (142)
..|+ -+.|+..+|.++||..-|.=+.| .|.. +.|+.+ +-..|-.|+++|=.|.-+.+++.
T Consensus 26 ~gL~e~eANemlAlL~~~gI~A~K~~~~~---------g~~~--l~Ve~~-------~fa~Av~iL~~~GlPr~~f~~l~ 87 (246)
T COG4669 26 TGLSEKEANEMLALLMSHGINAEKKADKD---------GGTS--LLVEES-------DFAEAVEILNQNGLPRKKFTTLG 87 (246)
T ss_pred cCCCHhHHHHHHHHHHHcCCcceeeccCC---------CceE--EEEcHH-------HHHHHHHHHHhcCCCCCCCCcHH
Confidence 3454 46789999999999999973322 2222 555543 34578899999999988777764
No 121
>cd00642 GTP_cyclohydro1 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In vertebrates and insects it is the biosynthtic precursor of tetrahydrobiopterin (BH4) which is involved in the formation of catacholamines, nitric oxide, and the stimulation of T lymphocytes. The biosynthetic reaction of BH4 is controlled by a regulatory protein GFRP which mediates feedback inhibition of GTP-CH-I by BH4. This inhibition is reversed by phenylalanine. The decameric GTP-CH-I forms a complex with two pentameric GFRP in the presence of phenylalanine or a combination of GTP and BH4, respectively.
Probab=22.53 E-value=94 Score=24.76 Aligned_cols=71 Identities=18% Similarity=0.255 Sum_probs=45.9
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCCCCCceeEEEEeec
Q 046781 41 SATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPYLKDVVFSLIAVGN 120 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py~p~t~I~~I~VGN 120 (142)
.|++|+++|+.. ++..+ .|+...++..+-..+-+=+|-+.|=.+-++- ..|++||+..+.|-||. +.
T Consensus 29 TP~Rva~~~~e~-~~G~~-~~~~~~~~~~~~~~~~~~mV~v~~I~f~S~C----------EHHllPf~G~~~VaYiP-~~ 95 (185)
T cd00642 29 TPERVAKAYQEI-TSGYD-QALNDPKNTAIFDEDHDEMVIVKDITLFSMC----------EHHLVPFYGKVHIAYIP-KD 95 (185)
T ss_pred HHHHHHHHHHHH-hcCcC-CCchhHHhhccccCCCCcEEEEeCeeEEEec----------cccccceEEEEEEEEec-CC
Confidence 589999999873 22222 3545566665554443335555544444444 38999999989999998 66
Q ss_pred cccC
Q 046781 121 QVIP 124 (142)
Q Consensus 121 Ev~~ 124 (142)
.|+.
T Consensus 96 ~ViG 99 (185)
T cd00642 96 KVIG 99 (185)
T ss_pred eeee
Confidence 6664
No 122
>PRK03092 ribose-phosphate pyrophosphokinase; Provisional
Probab=22.30 E-value=1.4e+02 Score=25.15 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=34.3
Q ss_pred eeecCCC-----CCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcC
Q 046781 30 FCYGKLE-----NDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRG 72 (142)
Q Consensus 30 VnyG~~g-----~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~ 72 (142)
.+|.|.- ....+...+++||++.|++++-.+|+....++.|-+
T Consensus 78 l~YaRQDr~~~~~e~isak~va~lL~~~g~d~vitvD~H~~~~~~~f~ 125 (304)
T PRK03092 78 YPYARQDKKHRGREPISARLVADLFKTAGADRIMTVDLHTAQIQGFFD 125 (304)
T ss_pred ccccccccccCCCCCccHHHHHHHHHhcCCCeEEEEecChHHHHhhcC
Confidence 3677652 235578889999999999999999999988887764
No 123
>cd07998 WGR_DNA_ligase WGR domain of bacterial DNA ligases. The WGR domain is found in a small family of predicted bacterial DNA ligases. It has been called WGR after the most conserved central motif of the domain. The domain typically occurs in together with an ATP-dependent DNA ligase domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=22.27 E-value=49 Score=22.97 Aligned_cols=15 Identities=27% Similarity=0.514 Sum_probs=11.4
Q ss_pred CCccceeecCCCCCC
Q 046781 25 SNDIGFCYGKLENDL 39 (142)
Q Consensus 25 ~~~iGVnyG~~g~nL 39 (142)
...+=++|||.|..+
T Consensus 27 g~~v~~~yGR~Gt~g 41 (77)
T cd07998 27 GYVVNFRYGRRGSAL 41 (77)
T ss_pred ceEEEEEEccccCCc
Confidence 345678899999864
No 124
>PRK09997 hydroxypyruvate isomerase; Provisional
Probab=22.23 E-value=1.8e+02 Score=23.03 Aligned_cols=54 Identities=9% Similarity=0.090 Sum_probs=37.8
Q ss_pred eeecCCCCCCCChHHHHHHHHhCCCCeEEeeCC---CH-HHHhhhcCCCceEEe-ccCCC
Q 046781 30 FCYGKLENDLPSATDVINPYKKYSIGKIRLFDP---ND-AALNALRGSQIDVTL-GVRNE 84 (142)
Q Consensus 30 VnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~---dp-~vL~Ala~sgI~v~v-~vpN~ 84 (142)
+|.+..=.++ |.++.++.+++.|++.|.++.+ ++ ++.+.+...|+++.. .+|..
T Consensus 6 ~~~~~~~~~~-~l~~~l~~~a~~Gf~~VEl~~~~~~~~~~~~~~l~~~gl~~~~~~~~~~ 64 (258)
T PRK09997 6 ANLSMLFGEY-DFLARFEKAAQCGFRGVEFMFPYDYDIEELKQVLASNKLEHTLHNLPAG 64 (258)
T ss_pred eeeehhccCC-CHHHHHHHHHHhCCCEEEEcCCCCCCHHHHHHHHHHcCCcEEEEcCCCC
Confidence 4444443444 4678899999999999998764 44 555677789999975 34543
No 125
>TIGR03599 YloV DAK2 domain fusion protein YloV. This model describes a protein family that contains an N-terminal DAK2 domain (pfam02734), so named because of similarity to the dihydroxyacetone kinase family family. The GTP-binding protein CgtA (a member of the obg family) is a bacterial GTPase associated with ribosome biogenesis, and it has a characteristic extension (TIGR03595) in certain lineages. This protein family described here was found, by the method of partial phylognetic profiling, to have a phylogenetic distribution strongly correlated to that of TIGR03595. This correlation implies some form of functional coupling.
Probab=22.20 E-value=1.5e+02 Score=27.28 Aligned_cols=48 Identities=15% Similarity=0.080 Sum_probs=37.2
Q ss_pred HHHHHHHHhCCCCeEEeeCC--CH---HHHhhhcCCCceEEeccCCCChhhhh
Q 046781 43 TDVINPYKKYSIGKIRLFDP--ND---AALNALRGSQIDVTLGVRNEDLPNLA 90 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd~--dp---~vL~Ala~sgI~v~v~vpN~~l~~la 90 (142)
+-..+++++.|++.|.-=+. +| ++++|...++-+=++=+||+.=--++
T Consensus 324 ~g~~~~f~~~Ga~~vi~ggqt~nPS~~dll~ai~~~~a~~V~iLPNn~nii~a 376 (530)
T TIGR03599 324 EGIAELFKSLGADVVIEGGQTMNPSTEDILKAIEKVNAKNVFVLPNNKNIILA 376 (530)
T ss_pred chHHHHHHHCCCCEEEeCCCCCCCCHHHHHHHHHhCCCCeEEEecCCccHHHH
Confidence 45678999999999986543 44 89999999999888889998533333
No 126
>COG4032 Predicted thiamine-pyrophosphate-binding protein [General function prediction only]
Probab=22.06 E-value=44 Score=26.38 Aligned_cols=30 Identities=27% Similarity=0.525 Sum_probs=26.0
Q ss_pred CCCHHHHhhhcCCCceEEeccCCCChhhhh
Q 046781 61 DPNDAALNALRGSQIDVTLGVRNEDLPNLA 90 (142)
Q Consensus 61 d~dp~vL~Ala~sgI~v~v~vpN~~l~~la 90 (142)
|++..+..+++.+||++...+|=+.|..+-
T Consensus 5 n~seav~e~mkdagIdfa~slPC~~lk~ll 34 (172)
T COG4032 5 NPSEAVYEAMKDAGIDFACSLPCDNLKNLL 34 (172)
T ss_pred CHHHHHHHHHHHcCCcEEEeccHHHHHhHH
Confidence 678899999999999999999987776654
No 127
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=22.04 E-value=2.2e+02 Score=18.07 Aligned_cols=36 Identities=25% Similarity=0.242 Sum_probs=21.0
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCce
Q 046781 41 SATDVINPYKKYSIGKIRLFDPNDAALNALRGSQID 76 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~ 76 (142)
++++..++++.++....-++|.+.++-+.+...+++
T Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P 99 (116)
T cd02966 64 DPAAVKAFLKKYGITFPVLLDPDGELAKAYGVRGLP 99 (116)
T ss_pred CHHHHHHHHHHcCCCcceEEcCcchHHHhcCcCccc
Confidence 456666666666655555556666666665544433
No 128
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=21.75 E-value=2.2e+02 Score=19.89 Aligned_cols=42 Identities=12% Similarity=0.181 Sum_probs=29.5
Q ss_pred HHHHHHHHhCCCCeEEe---eC-CC---HHHHhhhcCCCceEEeccCCC
Q 046781 43 TDVINPYKKYSIGKIRL---FD-PN---DAALNALRGSQIDVTLGVRNE 84 (142)
Q Consensus 43 ~~vv~llks~~i~~vRl---yd-~d---p~vL~Ala~sgI~v~v~vpN~ 84 (142)
+...+.|+++|+.--.+ .+ .+ |.++..++.-.+++++.+|+.
T Consensus 33 ~gTa~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~~ 81 (116)
T cd01423 33 EGTADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPSN 81 (116)
T ss_pred cHHHHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCCC
Confidence 44566777777743333 22 22 889999999999999999873
No 129
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=21.73 E-value=1.9e+02 Score=23.37 Aligned_cols=53 Identities=13% Similarity=0.228 Sum_probs=37.2
Q ss_pred ccceeecCCCCCC-C---ChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEec
Q 046781 27 DIGFCYGKLENDL-P---SATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLG 80 (142)
Q Consensus 27 ~iGVnyG~~g~nL-P---sp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~ 80 (142)
.|+|..|...... . +..++.+.|++.|+. +.+.+.+.+.++-++-.++++++-
T Consensus 6 ~v~~~~g~~~~~~~~~~~s~~~i~~al~~~g~~-v~~i~~~~~~~~~~~~~~~D~v~~ 62 (304)
T PRK01372 6 KVAVLMGGTSAEREVSLNSGAAVLAALREAGYD-AHPIDPGEDIAAQLKELGFDRVFN 62 (304)
T ss_pred EEEEEeCCCCCCceEeHHhHHHHHHHHHHCCCE-EEEEecCcchHHHhccCCCCEEEE
Confidence 4788887654443 3 667788888999998 444567777777776667777763
No 130
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=21.61 E-value=1.7e+02 Score=21.78 Aligned_cols=34 Identities=12% Similarity=0.067 Sum_probs=16.8
Q ss_pred CccceeecCCCCCCCChHHHHHHHHhCCCCeEEee
Q 046781 26 NDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLF 60 (142)
Q Consensus 26 ~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRly 60 (142)
..||+.+-. +.+.+.-.++.+.+++.+...++++
T Consensus 56 d~V~lS~~~-~~~~~~~~~~~~~L~~~~~~~~~i~ 89 (137)
T PRK02261 56 DAILVSSLY-GHGEIDCRGLREKCIEAGLGDILLY 89 (137)
T ss_pred CEEEEcCcc-ccCHHHHHHHHHHHHhcCCCCCeEE
Confidence 334444422 3444555555555655555555544
No 131
>PLN02424 ketopantoate hydroxymethyltransferase
Probab=21.55 E-value=1.2e+02 Score=26.52 Aligned_cols=49 Identities=18% Similarity=0.251 Sum_probs=36.7
Q ss_pred ChHH----HHHHHHhCCCCeEEeeCC---CHHHHhhhcCCCceEE--eccCCCChhhh
Q 046781 41 SATD----VINPYKKYSIGKIRLFDP---NDAALNALRGSQIDVT--LGVRNEDLPNL 89 (142)
Q Consensus 41 sp~~----vv~llks~~i~~vRlyd~---dp~vL~Ala~sgI~v~--v~vpN~~l~~l 89 (142)
+|++ +.+|+|+.|...|||=+. ..++++++...||+|+ +|+.-+....+
T Consensus 111 s~e~av~nA~rl~~eaGa~aVKlEGg~~~~~~~I~~l~~~GIPV~gHiGLtPQs~~~l 168 (332)
T PLN02424 111 STDQAVESAVRMLKEGGMDAVKLEGGSPSRVTAAKAIVEAGIAVMGHVGLTPQAISVL 168 (332)
T ss_pred CHHHHHHHHHHHHHHhCCcEEEECCCcHHHHHHHHHHHHcCCCEEEeecccceeehhh
Confidence 5666 456789999999999987 2488999999999999 44444444433
No 132
>COG4287 PqaA PhoPQ-activated pathogenicity-related protein [General function prediction only]
Probab=21.52 E-value=85 Score=28.58 Aligned_cols=43 Identities=26% Similarity=0.285 Sum_probs=33.3
Q ss_pred EeeCCCHHHHhhhc---CCCceEEeccCCCChhh------hhcCHHHHHHHH
Q 046781 58 RLFDPNDAALNALR---GSQIDVTLGVRNEDLPN------LAASQDAANSWF 100 (142)
Q Consensus 58 Rlyd~dp~vL~Ala---~sgI~v~v~vpN~~l~~------la~s~~~A~~WV 100 (142)
+-+|-+++.|...+ ++-|-.+-+|||+-|.- +..+.+-|.+|-
T Consensus 144 ~s~d~~~e~la~var~t~tpiisVsDvPNQ~lty~ddg~~lrEDesVa~Sws 195 (507)
T COG4287 144 DSFDLDVEELAWVARETETPIISVSDVPNQYLTYQDDGKPLREDESVAHSWS 195 (507)
T ss_pred CCccCCHHHHHHHHHhccCceEEeccCCCcceeeccCCccccchHHHHHHHH
Confidence 34566777776655 46777788999998877 899999999994
No 133
>cd04730 NPD_like 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=21.49 E-value=2.6e+02 Score=21.62 Aligned_cols=52 Identities=13% Similarity=0.142 Sum_probs=39.0
Q ss_pred ecCCCCCC-CChHHHHHHHHhCCCCeEEeeC-CCHHHHhhhcCCCceEEeccCC
Q 046781 32 YGKLENDL-PSATDVINPYKKYSIGKIRLFD-PNDAALNALRGSQIDVTLGVRN 83 (142)
Q Consensus 32 yG~~g~nL-Psp~~vv~llks~~i~~vRlyd-~dp~vL~Ala~sgI~v~v~vpN 83 (142)
++...++. +..++.++.+++.|++.+-+-+ ..++.++.++..++.++..+.+
T Consensus 58 v~~i~~~~~~~~~~~~~~~~~~g~d~v~l~~~~~~~~~~~~~~~~i~~i~~v~~ 111 (236)
T cd04730 58 VNLLVPSSNPDFEALLEVALEEGVPVVSFSFGPPAEVVERLKAAGIKVIPTVTS 111 (236)
T ss_pred EeEecCCCCcCHHHHHHHHHhCCCCEEEEcCCCCHHHHHHHHHcCCEEEEeCCC
Confidence 34455553 4678889999999999888764 3567888888889999887754
No 134
>PF12689 Acid_PPase: Acid Phosphatase; InterPro: IPR010036 This entry represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterised as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues [, ].; GO: 0016791 phosphatase activity; PDB: 1U7P_A 1U7O_A 2WM8_A.
Probab=21.46 E-value=51 Score=25.73 Aligned_cols=43 Identities=14% Similarity=0.217 Sum_probs=25.6
Q ss_pred CCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHh
Q 046781 53 SIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFAT 102 (142)
Q Consensus 53 ~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~ 102 (142)
+=..+++|.--+++|+.|+..|+++.+...+ ..|+-|.+=++.
T Consensus 40 ~g~~v~lypdv~~iL~~L~~~gv~lavASRt-------~~P~~A~~~L~~ 82 (169)
T PF12689_consen 40 RGEEVSLYPDVPEILQELKERGVKLAVASRT-------DEPDWARELLKL 82 (169)
T ss_dssp T--EE---TTHHHHHHHHHHCT--EEEEE---------S-HHHHHHHHHH
T ss_pred CCCEEEeCcCHHHHHHHHHHCCCEEEEEECC-------CChHHHHHHHHh
Confidence 4478999999999999999999999888764 234555555554
No 135
>cd07035 TPP_PYR_POX_like Pyrimidine (PYR) binding domain of POX and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) and related protiens subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. For glyoxylate carboligase, which belongs to this subfamily, but lacks this conserved glutamate, the rate of the initial TPP activation step is reduced but the ensuing steps of the enzymic reaction proceed efficiently. The PYR and PP domains have a common fold, but do not share strong sequence conservatio
Probab=21.45 E-value=1.9e+02 Score=20.87 Aligned_cols=36 Identities=19% Similarity=0.128 Sum_probs=19.0
Q ss_pred HHHHHHhCCCCeEEee--CCCHHHHhhhcCCCceEEec
Q 046781 45 VINPYKKYSIGKIRLF--DPNDAALNALRGSQIDVTLG 80 (142)
Q Consensus 45 vv~llks~~i~~vRly--d~dp~vL~Ala~sgI~v~v~ 80 (142)
+++.||+.|++++=-+ +....+++++...+++++..
T Consensus 3 i~~~L~~~Gv~~vfg~pg~~~~~l~~~~~~~~~~~i~~ 40 (155)
T cd07035 3 LVEALKAEGVDHVFGVPGGAILPLLDALARSGIRYILV 40 (155)
T ss_pred HHHHHHHcCCCEEEECCCCchHHHHHHhccCCCEEEEe
Confidence 4556666666655444 23335555655555555444
No 136
>TIGR00385 dsbE periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily. Involved in the biogenesis of c-type cytochromes as well as in disulfide bond formation in some periplasmic proteins.
Probab=21.39 E-value=2.9e+02 Score=20.60 Aligned_cols=46 Identities=17% Similarity=0.078 Sum_probs=26.7
Q ss_pred CCccceeecCCCCCCCChHHHHHHHHhCCCCeE-EeeCCCHHHHhhhcCCCce
Q 046781 25 SNDIGFCYGKLENDLPSATDVINPYKKYSIGKI-RLFDPNDAALNALRGSQID 76 (142)
Q Consensus 25 ~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~v-Rlyd~dp~vL~Ala~sgI~ 76 (142)
...|||++. .++++..+.+++++++.- -++|++.++.+++.-.+++
T Consensus 93 ~~vi~V~~~------~~~~~~~~~~~~~~~~f~~v~~D~~~~~~~~~~v~~~P 139 (173)
T TIGR00385 93 LPIVGVDYK------DQSQNALKFLKELGNPYQAILIDPNGKLGLDLGVYGAP 139 (173)
T ss_pred CEEEEEECC------CChHHHHHHHHHcCCCCceEEECCCCchHHhcCCeeCC
Confidence 445666642 133555667777776543 3457777777766555544
No 137
>PF03102 NeuB: NeuB family; InterPro: IPR013132 NeuB is the prokaryotic N-acetylneuraminic acid synthase (Neu5Ac). It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been observed in prokaryotes; eukaryotes synthesise the 9-phosphate form, Neu5Ac-9-P, and utilise ManNAc-6-P instead of ManNAc. Such eukaryotic enzymes are not present in this family []. This family also contains SpsE spore coat polysaccharide biosynthesis proteins.; GO: 0016051 carbohydrate biosynthetic process; PDB: 3G8R_B 1XUU_A 1XUZ_A 3CM4_A 2ZDR_A 1VLI_A 2WQP_A.
Probab=21.10 E-value=1.8e+02 Score=23.95 Aligned_cols=65 Identities=12% Similarity=0.160 Sum_probs=40.7
Q ss_pred cceeecCCCCCCCChHHHHHHHHhCCCCeEEeeC---CCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHH
Q 046781 28 IGFCYGKLENDLPSATDVINPYKKYSIGKIRLFD---PNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWF 100 (142)
Q Consensus 28 iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd---~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV 100 (142)
.|+-|....-+ .+-++++.+.++...||=. .+...|+..+.||.+|+++..=..+..+ ..|-+++
T Consensus 68 ~gi~f~stpfd----~~s~d~l~~~~~~~~KIaS~dl~n~~lL~~~A~tgkPvIlSTG~stl~EI----~~Av~~~ 135 (241)
T PF03102_consen 68 LGIDFFSTPFD----EESVDFLEELGVPAYKIASGDLTNLPLLEYIAKTGKPVILSTGMSTLEEI----ERAVEVL 135 (241)
T ss_dssp TT-EEEEEE-S----HHHHHHHHHHT-SEEEE-GGGTT-HHHHHHHHTT-S-EEEE-TT--HHHH----HHHHHHH
T ss_pred cCCEEEECCCC----HHHHHHHHHcCCCEEEeccccccCHHHHHHHHHhCCcEEEECCCCCHHHH----HHHHHHH
Confidence 44555443333 4567888888999999863 5678999999999999999998777755 4566666
No 138
>PRK05660 HemN family oxidoreductase; Provisional
Probab=20.94 E-value=2.4e+02 Score=24.20 Aligned_cols=56 Identities=18% Similarity=0.300 Sum_probs=38.6
Q ss_pred HHHHHHHHhCCCCeEEee--CCCHHHHhhhc----------------CC-----CceEEeccCCCChhhhhcCHHHHHH
Q 046781 43 TDVINPYKKYSIGKIRLF--DPNDAALNALR----------------GS-----QIDVTLGVRNEDLPNLAASQDAANS 98 (142)
Q Consensus 43 ~~vv~llks~~i~~vRly--d~dp~vL~Ala----------------~s-----gI~v~v~vpN~~l~~la~s~~~A~~ 98 (142)
.+-.+.+|+.|++++-+= ..|+++|+.+. .. ++.++.|+|.+...++..+...+.+
T Consensus 107 ~e~l~~Lk~~Gv~risiGvqS~~~~~L~~l~r~~~~~~~~~ai~~~~~~G~~~v~~dli~Glpgqt~~~~~~~l~~~~~ 185 (378)
T PRK05660 107 ADRFVGYQRAGVNRISIGVQSFSEEKLKRLGRIHGPDEAKRAAKLAQGLGLRSFNLDLMHGLPDQSLEEALDDLRQAIA 185 (378)
T ss_pred HHHHHHHHHcCCCEEEeccCcCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCeEEEEeecCCCCCCHHHHHHHHHHHHh
Confidence 366888888999876553 55666654332 12 5668899999988888776666654
No 139
>COG2272 PnbA Carboxylesterase type B [Lipid metabolism]
Probab=20.82 E-value=36 Score=31.21 Aligned_cols=19 Identities=32% Similarity=0.455 Sum_probs=16.4
Q ss_pred CHHHHHHHHHhcCcCCCCC
Q 046781 92 SQDAANSWFATNMEPYLKD 110 (142)
Q Consensus 92 s~~~A~~WV~~nV~py~p~ 110 (142)
|+-.|.+||++||..|=.+
T Consensus 160 DqilALkWV~~NIe~FGGD 178 (491)
T COG2272 160 DQILALKWVRDNIEAFGGD 178 (491)
T ss_pred HHHHHHHHHHHHHHHhCCC
Confidence 6788999999999999643
No 140
>PF12558 DUF3744: ATP-binding cassette cobalt transporter; InterPro: IPR022216 This domain family is found in bacteria, and is approximately 70 amino acids in length. The family is found in association with PF00005 from PFAM. There is a conserved REP sequence motif. There is a single completely conserved residue P that may be functionally important. The proteins in this family are frequently annotated as ABC Cobalt transporters however there is little accompanying literature to confirm this. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances
Probab=20.81 E-value=1.3e+02 Score=20.17 Aligned_cols=53 Identities=23% Similarity=0.317 Sum_probs=36.7
Q ss_pred HHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCH--HHHHHHHHhcCcC
Q 046781 47 NPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQ--DAANSWFATNMEP 106 (142)
Q Consensus 47 ~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~--~~A~~WV~~nV~p 106 (142)
++|.++||+ +|==++||+..|+++.=.-.=.++.++.-+. ..=.+|..+...+
T Consensus 3 ~lL~~~GIR-------EPLYitALk~ag~~l~~~~~l~~l~~l~~~~~~~~l~~w~~~~~~~ 57 (74)
T PF12558_consen 3 DLLEQNGIR-------EPLYITALKYAGVDLTKEDHLSDLDNLDLSDVKEKLQQWQDKQPPP 57 (74)
T ss_pred chHhhcCCC-------ccHHHHHHHHcCCCcccCCCccCHHHCCcHHHHHHHHHHHhccCCc
Confidence 367888886 5788999999999986554445666665443 3337898855544
No 141
>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.44 E-value=1.6e+02 Score=24.09 Aligned_cols=94 Identities=20% Similarity=0.249 Sum_probs=59.5
Q ss_pred HHHHhccCcccCCCCccceeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCC-----HHHHhhhc--CCCceEEeccCCC
Q 046781 12 VVAAVDGNAEASNSNDIGFCYGKLENDLPSATDVINPYKKYSIGKIRLFDPN-----DAALNALR--GSQIDVTLGVRNE 84 (142)
Q Consensus 12 ~~~~~~~~~~~~~~~~iGVnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~d-----p~vL~Ala--~sgI~v~v~vpN~ 84 (142)
+..+.......+.-++|||.|=...-.|+. .--+++|||.- ..+.++.. --||-++..+.|+
T Consensus 29 l~rf~d~~f~~~~~sTiGIDFk~kti~l~g-----------~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne 97 (207)
T KOG0078|consen 29 LLRFSDDSFNTSFISTIGIDFKIKTIELDG-----------KKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNE 97 (207)
T ss_pred hhhhhhccCcCCccceEEEEEEEEEEEeCC-----------eEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccch
Confidence 333333334556678899999776767776 34567888864 34555554 3678888888886
Q ss_pred ChhhhhcCHHHHHHHHHhcCcCCCCCceeEEEEeeccccC
Q 046781 85 DLPNLAASQDAANSWFATNMEPYLKDVVFSLIAVGNQVIP 124 (142)
Q Consensus 85 ~l~~la~s~~~A~~WV~~nV~py~p~t~I~~I~VGNEv~~ 124 (142)
. |-.....|++ +|-.|-++ .+.-+.|||-.-.
T Consensus 98 ~------Sfeni~~W~~-~I~e~a~~-~v~~~LvGNK~D~ 129 (207)
T KOG0078|consen 98 K------SFENIRNWIK-NIDEHASD-DVVKILVGNKCDL 129 (207)
T ss_pred H------HHHHHHHHHH-HHHhhCCC-CCcEEEeeccccc
Confidence 4 3344555764 45555543 3456999997543
No 142
>TIGR03569 NeuB_NnaB N-acetylneuraminate synthase. This family is a subset of the Pfam model pfam03102 and is believed to include only authentic NeuB N-acetylneuraminate (sialic acid) synthase enzymes. The majority of the genes identified by this model are observed adjacent to both the NeuA and NeuC genes which together effect the biosynthesis of CMP-N-acetylneuraminate from UDP-N-acetylglucosamine.
Probab=20.34 E-value=3.5e+02 Score=23.31 Aligned_cols=57 Identities=12% Similarity=0.114 Sum_probs=44.3
Q ss_pred HHHHHHHHhCCCCeEEeeC---CCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhc
Q 046781 43 TDVINPYKKYSIGKIRLFD---PNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATN 103 (142)
Q Consensus 43 ~~vv~llks~~i~~vRlyd---~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~n 103 (142)
.+-|+++.+.|++..||=. .|...|+.++.+|-+|++...=..+. ....|-++++++
T Consensus 99 ~~svd~l~~~~v~~~KIaS~~~~n~pLL~~~A~~gkPvilStGmatl~----Ei~~Av~~i~~~ 158 (329)
T TIGR03569 99 LESADFLEDLGVPRFKIPSGEITNAPLLKKIARFGKPVILSTGMATLE----EIEAAVGVLRDA 158 (329)
T ss_pred HHHHHHHHhcCCCEEEECcccccCHHHHHHHHhcCCcEEEECCCCCHH----HHHHHHHHHHHc
Confidence 4457888888888888863 56799999999999999999876555 445677777753
No 143
>PRK09525 lacZ beta-D-galactosidase; Reviewed
Probab=20.29 E-value=3e+02 Score=27.35 Aligned_cols=80 Identities=10% Similarity=-0.010 Sum_probs=54.2
Q ss_pred HHHHHHHhCCCCeEEee--CCCHHHHhhhcCCCceEEeccCCCC-----hhhhhcCHHHHHH---HHHhcCcCCCCCcee
Q 046781 44 DVINPYKKYSIGKIRLF--DPNDAALNALRGSQIDVTLGVRNED-----LPNLAASQDAANS---WFATNMEPYLKDVVF 113 (142)
Q Consensus 44 ~vv~llks~~i~~vRly--d~dp~vL~Ala~sgI~v~v~vpN~~-----l~~la~s~~~A~~---WV~~nV~py~p~t~I 113 (142)
+-++++|+.|+..||.. -.+|..++.+-.-||=|+-..+-+. ...++.++..... =+++.|......-.|
T Consensus 375 ~di~lmK~~g~NaVR~sHyP~~p~fydlcDe~GilV~dE~~~e~hg~~~~~~~~~dp~~~~~~~~~~~~mV~RdrNHPSI 454 (1027)
T PRK09525 375 QDILLMKQHNFNAVRCSHYPNHPLWYELCDRYGLYVVDEANIETHGMVPMNRLSDDPRWLPAMSERVTRMVQRDRNHPSI 454 (1027)
T ss_pred HHHHHHHHCCCCEEEecCCCCCHHHHHHHHHcCCEEEEecCccccCCccccCCCCCHHHHHHHHHHHHHHHHhCCCCCEE
Confidence 35678999999999984 4578999999999999987765321 1123334433222 245566666655566
Q ss_pred EEEEeecccc
Q 046781 114 SLIAVGNQVI 123 (142)
Q Consensus 114 ~~I~VGNEv~ 123 (142)
-.=+.|||.-
T Consensus 455 i~WSlgNE~~ 464 (1027)
T PRK09525 455 IIWSLGNESG 464 (1027)
T ss_pred EEEeCccCCC
Confidence 6778899964
No 144
>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a precursor to coenzyme A and is required for penicillin biosynthesis.
Probab=20.26 E-value=1.1e+02 Score=25.50 Aligned_cols=34 Identities=18% Similarity=0.167 Sum_probs=30.5
Q ss_pred HHHHHHhCCCCeEEeeCCC--HHHHhhhcCCCceEE
Q 046781 45 VINPYKKYSIGKIRLFDPN--DAALNALRGSQIDVT 78 (142)
Q Consensus 45 vv~llks~~i~~vRlyd~d--p~vL~Ala~sgI~v~ 78 (142)
+++++++.|...|+|=|.+ .+.++++...||+|+
T Consensus 96 a~r~~~~aGa~aVkiEd~~~~~~~I~al~~agipV~ 131 (254)
T cd06557 96 AARLMKEAGADAVKLEGGAEVAETIRALVDAGIPVM 131 (254)
T ss_pred HHHHHHHhCCeEEEEcCcHHHHHHHHHHHHcCCCee
Confidence 5789999999999999884 689999999999987
No 145
>PF10151 DUF2359: Uncharacterised conserved protein (DUF2359); InterPro: IPR019308 This is a 450 amino acid region of a family of proteins conserved from insects to humans. The function is not known.
Probab=20.21 E-value=54 Score=29.84 Aligned_cols=57 Identities=16% Similarity=0.204 Sum_probs=37.4
Q ss_pred eeecCCCCCCCChHHHHHHHHhCCCCeEEeeCCCHHHHhhhcCCCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCCCC
Q 046781 30 FCYGKLENDLPSATDVINPYKKYSIGKIRLFDPNDAALNALRGSQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPYLK 109 (142)
Q Consensus 30 VnyG~~g~nLPsp~~vv~llks~~i~~vRlyd~dp~vL~Ala~sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py~p 109 (142)
++|-..+..-=..+..-++||+.|+-. .+=+| ...+..--.....|+++|+-+||.
T Consensus 281 l~yDv~~hGsF~~S~Tgk~Lk~sGvL~--------~~qqA----------------w~k~~~ys~~G~~Wle~n~P~Yy~ 336 (469)
T PF10151_consen 281 LAYDVRSHGSFQASATGKFLKSSGVLP--------HSQQA----------------WYKVMSYSAQGYSWLEENVPPYYS 336 (469)
T ss_pred HHHhhhcCCCcchhHHHHHHHHcCCch--------hHHHH----------------HHHHHHHHHHHHHHHHHcCcHHHH
Confidence 566665555556789999999999641 12222 223333345678999999999974
Q ss_pred C
Q 046781 110 D 110 (142)
Q Consensus 110 ~ 110 (142)
.
T Consensus 337 ~ 337 (469)
T PF10151_consen 337 A 337 (469)
T ss_pred H
Confidence 3
No 146
>PF02776 TPP_enzyme_N: Thiamine pyrophosphate enzyme, N-terminal TPP binding domain; InterPro: IPR012001 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the N-terminal TPP binding domain of TPP enzymes.; GO: 0030976 thiamine pyrophosphate binding; PDB: 3HWX_1 3FLM_B 3HWW_A 2JLC_A 2JLA_A 2VBG_A 2VBF_B 2Q29_A 2Q27_B 2Q28_B ....
Probab=20.21 E-value=1.4e+02 Score=22.31 Aligned_cols=44 Identities=20% Similarity=0.128 Sum_probs=31.2
Q ss_pred HHHHHHHHhCCCCeEEee--CCCHHHHhhhcCC-CceEEeccCCCChh
Q 046781 43 TDVINPYKKYSIGKIRLF--DPNDAALNALRGS-QIDVTLGVRNEDLP 87 (142)
Q Consensus 43 ~~vv~llks~~i~~vRly--d~dp~vL~Ala~s-gI~v~v~vpN~~l~ 87 (142)
+.+++.|+++||+++=-. +..-.++.+|... ||+++.. .||+-.
T Consensus 5 ~~l~~~L~~~Gv~~vfgvpG~~~~~l~~al~~~~~i~~i~~-~~E~~A 51 (172)
T PF02776_consen 5 EALAEALKANGVTHVFGVPGSGNLPLLDALEKSPGIRFIPV-RHEQGA 51 (172)
T ss_dssp HHHHHHHHHTT-SEEEEE--GGGHHHHHHHHHTTTSEEEE--SSHHHH
T ss_pred HHHHHHHHHCCCeEEEEEeChhHhHHHHHhhhhcceeeecc-cCcchh
Confidence 567889999999987655 3445799999988 7998774 555433
No 147
>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]
Probab=20.16 E-value=2.2e+02 Score=25.16 Aligned_cols=64 Identities=20% Similarity=0.280 Sum_probs=44.0
Q ss_pred HHHHHHHHhCCCCeEEee--CCCHHHHhh---------------------hcCCCceEEeccCCCChhhhhcCHHHHHHH
Q 046781 43 TDVINPYKKYSIGKIRLF--DPNDAALNA---------------------LRGSQIDVTLGVRNEDLPNLAASQDAANSW 99 (142)
Q Consensus 43 ~~vv~llks~~i~~vRly--d~dp~vL~A---------------------la~sgI~v~v~vpN~~l~~la~s~~~A~~W 99 (142)
.+..+.|+..||.|+-+- +=|++++++ |.+-+++++-|+|.+.++++..+-..|.+-
T Consensus 137 ~e~~~~l~~~GvNRiSlGVQsf~~~~lk~lgR~h~~~~~~~a~~~~~~~g~~~in~DLIyglP~QT~~~~~~~l~~a~~l 216 (416)
T COG0635 137 AEKFKALKEAGVNRISLGVQSFNDEVLKALGRIHDEEEAKEAVELARKAGFTSINIDLIYGLPGQTLESLKEDLEQALEL 216 (416)
T ss_pred HHHHHHHHHcCCCEEEeccccCCHHHHHHhcCCCCHHHHHHHHHHHHHcCCCcEEEEeecCCCCCCHHHHHHHHHHHHhC
Confidence 566888899999887664 445555543 334567899999999999888877777653
Q ss_pred HHhcCcC
Q 046781 100 FATNMEP 106 (142)
Q Consensus 100 V~~nV~p 106 (142)
=-+||..
T Consensus 217 ~pdhis~ 223 (416)
T COG0635 217 GPDHLSL 223 (416)
T ss_pred CCCEEEE
Confidence 3333333
No 148
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=20.06 E-value=2.4e+02 Score=22.53 Aligned_cols=66 Identities=15% Similarity=0.321 Sum_probs=41.6
Q ss_pred ChHHHHHHHHhCCCCeEEeeCCC----HHHHhhhcC--CCceEEeccCCCChhhhhcCHHHHHHHHHhcCcCCCCCceeE
Q 046781 41 SATDVINPYKKYSIGKIRLFDPN----DAALNALRG--SQIDVTLGVRNEDLPNLAASQDAANSWFATNMEPYLKDVVFS 114 (142)
Q Consensus 41 sp~~vv~llks~~i~~vRlyd~d----p~vL~Ala~--sgI~v~v~vpN~~l~~la~s~~~A~~WV~~nV~py~p~t~I~ 114 (142)
.|+|+.+.+ +.|.+-||+|=++ ++-+++|++ .+++++.+=. -+.+...+|++.- -.
T Consensus 110 TptEi~~A~-~~G~~~vK~FPA~~~GG~~~ik~l~~p~p~~~~~ptGG--------V~~~N~~~~l~ag---------~~ 171 (196)
T PF01081_consen 110 TPTEIMQAL-EAGADIVKLFPAGALGGPSYIKALRGPFPDLPFMPTGG--------VNPDNLAEYLKAG---------AV 171 (196)
T ss_dssp SHHHHHHHH-HTT-SEEEETTTTTTTHHHHHHHHHTTTTT-EEEEBSS----------TTTHHHHHTST---------TB
T ss_pred CHHHHHHHH-HCCCCEEEEecchhcCcHHHHHHHhccCCCCeEEEcCC--------CCHHHHHHHHhCC---------CE
Confidence 689988776 6789999999666 799999997 4666654311 1234455666621 12
Q ss_pred EEEeeccccC
Q 046781 115 LIAVGNQVIP 124 (142)
Q Consensus 115 ~I~VGNEv~~ 124 (142)
.+.+|...++
T Consensus 172 ~vg~Gs~L~~ 181 (196)
T PF01081_consen 172 AVGGGSWLFP 181 (196)
T ss_dssp SEEEESGGGS
T ss_pred EEEECchhcC
Confidence 4566766665
Done!