Query 030760
Match_columns 172
No_of_seqs 102 out of 1716
Neff 9.4
Searched_HMMs 46136
Date Fri Mar 29 04:09:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030760.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030760hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK09982 universal stress prot 99.9 2.6E-26 5.6E-31 160.3 15.5 136 1-138 1-141 (142)
2 PRK15005 universal stress prot 99.9 3.5E-25 7.6E-30 154.5 14.2 132 2-135 1-144 (144)
3 PRK15456 universal stress prot 99.9 5.8E-25 1.3E-29 153.3 14.8 131 2-135 1-142 (142)
4 PRK10116 universal stress prot 99.9 1.7E-24 3.7E-29 150.7 16.1 136 1-138 1-141 (142)
5 PRK15118 universal stress glob 99.9 1.9E-24 4E-29 151.0 16.3 132 1-137 1-140 (144)
6 cd01989 STK_N The N-terminal d 99.9 6.7E-24 1.4E-28 148.4 14.7 130 5-136 1-145 (146)
7 PF00582 Usp: Universal stress 99.9 3.8E-23 8.3E-28 141.7 15.7 133 2-135 1-140 (140)
8 PRK11175 universal stress prot 99.9 3.8E-23 8.3E-28 160.8 15.4 151 1-153 1-162 (305)
9 cd01988 Na_H_Antiporter_C The 99.9 4.2E-22 9E-27 136.5 14.4 129 5-135 1-132 (132)
10 cd01987 USP_OKCHK USP domain i 99.9 4E-21 8.7E-26 130.7 11.1 121 5-135 1-124 (124)
11 PRK11175 universal stress prot 99.8 2.4E-20 5.2E-25 145.0 13.1 136 2-139 151-303 (305)
12 cd00293 USP_Like Usp: Universa 99.8 7.7E-19 1.7E-23 119.0 14.5 128 5-134 1-130 (130)
13 COG0589 UspA Universal stress 99.8 1.7E-17 3.6E-22 116.0 15.2 136 1-137 3-153 (154)
14 PRK12652 putative monovalent c 99.7 3.2E-15 7E-20 118.0 13.9 107 1-110 3-124 (357)
15 PRK10490 sensor protein KdpD; 99.2 2E-10 4.3E-15 101.2 14.1 122 4-138 251-376 (895)
16 COG2205 KdpD Osmosensitive K+ 99.1 2.9E-09 6.4E-14 90.4 13.5 127 4-140 249-378 (890)
17 cd01984 AANH_like Adenine nucl 98.6 4.9E-07 1.1E-11 57.3 7.7 82 6-133 1-85 (86)
18 PLN03159 cation/H(+) antiporte 97.6 0.00088 1.9E-08 59.2 11.6 133 5-137 460-616 (832)
19 TIGR02432 lysidine_TilS_N tRNA 97.3 0.0085 1.8E-07 43.4 11.8 99 5-115 1-115 (189)
20 PLN03159 cation/H(+) antiporte 97.2 0.017 3.7E-07 51.3 14.1 40 4-43 631-670 (832)
21 cd01992 PP-ATPase N-terminal d 97.0 0.024 5.3E-07 40.7 11.1 99 5-115 1-112 (185)
22 PF01171 ATP_bind_3: PP-loop f 96.9 0.019 4.2E-07 41.4 9.8 102 5-118 1-115 (182)
23 cd01993 Alpha_ANH_like_II This 95.9 0.23 4.9E-06 35.5 10.7 99 5-115 1-122 (185)
24 PRK10696 tRNA 2-thiocytidine b 95.6 0.33 7.2E-06 37.1 11.1 100 3-117 29-149 (258)
25 COG0037 MesJ tRNA(Ile)-lysidin 94.9 0.74 1.6E-05 35.6 11.2 100 4-117 22-138 (298)
26 PF00875 DNA_photolyase: DNA p 94.8 0.24 5.1E-06 35.0 7.6 107 26-137 19-126 (165)
27 PF01012 ETF: Electron transfe 94.3 0.79 1.7E-05 32.3 9.3 89 5-110 1-101 (164)
28 PRK06029 3-octaprenyl-4-hydrox 94.2 0.49 1.1E-05 34.4 8.1 115 3-136 1-123 (185)
29 PRK07313 phosphopantothenoylcy 94.1 0.32 7E-06 35.2 7.1 114 3-136 1-121 (182)
30 TIGR00591 phr2 photolyase PhrI 93.7 0.43 9.4E-06 39.5 8.0 91 11-108 32-122 (454)
31 TIGR00268 conserved hypothetic 93.6 1.3 2.8E-05 33.7 10.0 89 3-109 12-117 (252)
32 TIGR02113 coaC_strep phosphopa 93.4 0.48 1E-05 34.2 6.9 112 4-135 1-119 (177)
33 PRK12342 hypothetical protein; 93.3 0.97 2.1E-05 34.6 8.7 81 11-110 32-120 (254)
34 PRK05253 sulfate adenylyltrans 93.2 1.3 2.8E-05 34.7 9.5 94 3-110 27-138 (301)
35 PRK13982 bifunctional SbtC-lik 92.9 0.69 1.5E-05 38.6 8.0 112 3-136 70-188 (475)
36 PRK05579 bifunctional phosphop 92.8 0.55 1.2E-05 38.3 7.1 115 1-135 4-123 (399)
37 PRK10660 tilS tRNA(Ile)-lysidi 92.8 1.1 2.4E-05 37.0 9.0 102 3-117 15-128 (436)
38 PRK03359 putative electron tra 92.7 1.7 3.6E-05 33.3 9.2 84 11-111 33-124 (256)
39 COG2086 FixA Electron transfer 92.6 1.1 2.4E-05 34.3 8.1 83 9-110 32-122 (260)
40 PF02844 GARS_N: Phosphoribosy 92.4 0.34 7.4E-06 31.6 4.5 44 83-132 47-90 (100)
41 PRK13820 argininosuccinate syn 92.1 3.2 7E-05 33.9 10.7 38 2-42 1-39 (394)
42 PF02441 Flavoprotein: Flavopr 92.0 0.17 3.7E-06 34.4 2.9 106 4-135 1-117 (129)
43 TIGR02765 crypto_DASH cryptoch 91.3 4.1 8.9E-05 33.5 10.8 96 11-111 10-108 (429)
44 TIGR02852 spore_dpaB dipicolin 90.6 3.5 7.6E-05 30.1 8.6 114 4-135 1-123 (187)
45 cd01990 Alpha_ANH_like_I This 90.1 5.7 0.00012 28.9 9.9 89 6-111 1-107 (202)
46 PF02601 Exonuc_VII_L: Exonucl 89.9 2.6 5.6E-05 33.2 8.1 64 71-134 38-113 (319)
47 TIGR03556 photolyase_8HDF deox 89.7 1.7 3.8E-05 36.2 7.3 91 11-109 10-100 (471)
48 cd01713 PAPS_reductase This do 89.5 5.2 0.00011 27.6 10.5 38 5-43 1-38 (173)
49 PRK12563 sulfate adenylyltrans 88.6 8.1 0.00017 30.6 9.9 43 3-45 37-79 (312)
50 TIGR00521 coaBC_dfp phosphopan 88.2 6.1 0.00013 32.2 9.2 115 1-136 1-120 (390)
51 TIGR00421 ubiX_pad polyprenyl 87.7 2.3 4.9E-05 30.8 5.9 113 5-137 1-121 (181)
52 TIGR00342 thiazole biosynthesi 87.0 15 0.00032 29.8 12.5 35 4-42 173-207 (371)
53 PRK00286 xseA exodeoxyribonucl 86.9 4.7 0.0001 33.3 8.1 62 72-134 160-230 (438)
54 COG0151 PurD Phosphoribosylami 86.9 6.7 0.00015 32.2 8.6 23 85-108 50-72 (428)
55 COG0541 Ffh Signal recognition 86.3 12 0.00026 31.0 9.8 97 6-119 104-202 (451)
56 cd01986 Alpha_ANH_like Adenine 86.2 6.8 0.00015 25.1 9.2 77 6-115 1-77 (103)
57 PF00448 SRP54: SRP54-type pro 86.2 11 0.00024 27.5 10.4 95 6-118 5-102 (196)
58 TIGR02039 CysD sulfate adenyly 85.9 15 0.00032 28.8 10.4 93 3-109 19-129 (294)
59 TIGR01162 purE phosphoribosyla 84.9 11 0.00025 26.6 8.1 66 66-138 18-86 (156)
60 COG0452 Dfp Phosphopantothenoy 84.5 6.1 0.00013 32.3 7.5 113 2-135 3-120 (392)
61 cd01995 ExsB ExsB is a transcr 84.0 12 0.00027 26.2 10.2 88 5-111 1-88 (169)
62 PLN02496 probable phosphopanto 84.0 6.1 0.00013 29.3 6.7 113 3-136 19-140 (209)
63 TIGR00237 xseA exodeoxyribonuc 83.3 9.1 0.0002 31.7 8.2 63 72-134 154-225 (432)
64 PRK00919 GMP synthase subunit 83.3 21 0.00045 28.2 10.0 37 4-43 22-58 (307)
65 TIGR00032 argG argininosuccina 83.0 23 0.0005 29.0 10.2 34 5-42 1-34 (394)
66 KOG1650 Predicted K+/H+-antipo 82.6 7.3 0.00016 34.7 7.7 102 4-110 615-723 (769)
67 PRK10867 signal recognition pa 82.6 27 0.00058 29.0 11.7 94 7-118 105-202 (433)
68 COG0041 PurE Phosphoribosylcar 81.0 17 0.00036 25.7 7.7 66 66-138 22-90 (162)
69 cd01997 GMP_synthase_C The C-t 80.3 26 0.00057 27.4 10.2 89 5-109 1-110 (295)
70 TIGR00884 guaA_Cterm GMP synth 80.1 27 0.00059 27.6 10.4 37 4-43 17-53 (311)
71 TIGR02699 archaeo_AfpA archaeo 80.1 13 0.00028 26.8 7.0 115 5-137 1-124 (174)
72 COG1570 XseA Exonuclease VII, 78.8 16 0.00034 30.3 7.9 63 71-134 159-231 (440)
73 PLN00200 argininosuccinate syn 78.6 36 0.00078 28.0 12.4 37 3-42 5-41 (404)
74 cd01712 ThiI ThiI is required 77.9 22 0.00048 25.2 11.0 36 5-44 1-36 (177)
75 PF00731 AIRC: AIR carboxylase 77.7 22 0.00047 25.0 8.4 67 66-139 20-89 (150)
76 COG1606 ATP-utilizing enzymes 77.1 31 0.00068 26.5 9.8 89 3-108 17-122 (269)
77 cd03364 TOPRIM_DnaG_primases T 76.7 9.6 0.00021 23.2 4.9 35 3-37 43-77 (79)
78 PF13167 GTP-bdg_N: GTP-bindin 75.5 19 0.00041 23.2 7.6 25 84-108 42-66 (95)
79 cd03557 L-arabinose_isomerase 75.4 36 0.00078 28.7 9.3 46 89-138 52-101 (484)
80 TIGR00959 ffh signal recogniti 75.0 47 0.001 27.6 10.2 95 6-116 103-199 (428)
81 cd01985 ETF The electron trans 74.9 27 0.00059 24.8 11.1 87 5-111 1-103 (181)
82 COG1066 Sms Predicted ATP-depe 74.4 49 0.0011 27.5 10.7 107 6-135 96-217 (456)
83 PRK00074 guaA GMP synthase; Re 73.5 56 0.0012 27.7 10.8 37 4-43 216-252 (511)
84 PRK02929 L-arabinose isomerase 72.6 54 0.0012 27.8 9.7 45 89-137 58-106 (499)
85 PRK11070 ssDNA exonuclease Rec 72.2 58 0.0013 28.2 10.0 93 3-110 69-162 (575)
86 PF13662 Toprim_4: Toprim doma 70.5 9.1 0.0002 23.4 3.7 34 3-36 46-79 (81)
87 PRK10674 deoxyribodipyrimidine 70.3 51 0.0011 27.6 9.2 92 11-109 11-106 (472)
88 cd06533 Glyco_transf_WecG_TagA 70.3 36 0.00078 24.2 9.1 64 67-134 65-130 (171)
89 TIGR00646 MG010 DNA primase-re 67.4 50 0.0011 24.7 7.6 37 3-39 154-190 (218)
90 PRK08349 hypothetical protein; 66.9 46 0.001 24.1 9.3 34 4-41 1-34 (198)
91 PRK08576 hypothetical protein; 66.4 76 0.0017 26.5 9.7 87 5-109 236-340 (438)
92 PRK00109 Holliday junction res 64.5 32 0.00068 23.7 5.8 50 88-137 43-98 (138)
93 PF03808 Glyco_tran_WecB: Glyc 64.4 49 0.0011 23.5 10.0 64 66-133 66-131 (172)
94 PRK14665 mnmA tRNA-specific 2- 64.4 75 0.0016 25.7 11.3 36 3-42 5-40 (360)
95 PRK05370 argininosuccinate syn 63.2 89 0.0019 26.1 10.0 103 3-111 11-134 (447)
96 PRK14664 tRNA-specific 2-thiou 62.4 83 0.0018 25.5 10.9 88 2-110 4-119 (362)
97 TIGR02766 crypt_chrom_pln cryp 61.6 81 0.0018 26.3 8.8 84 16-108 12-96 (475)
98 TIGR00930 2a30 K-Cl cotranspor 61.4 1.4E+02 0.003 27.7 14.5 124 5-137 577-710 (953)
99 PRK00509 argininosuccinate syn 61.0 93 0.002 25.6 12.1 38 3-43 2-39 (399)
100 COG0420 SbcD DNA repair exonuc 60.6 26 0.00057 28.3 5.6 47 89-135 30-82 (390)
101 PF12683 DUF3798: Protein of u 60.5 25 0.00054 27.2 5.0 94 5-111 4-98 (275)
102 TIGR00250 RNAse_H_YqgF RNAse H 60.2 39 0.00084 23.0 5.6 50 88-137 37-92 (130)
103 PF02571 CbiJ: Precorrin-6x re 59.3 65 0.0014 24.6 7.2 55 84-142 179-233 (249)
104 PF07355 GRDB: Glycine/sarcosi 59.3 94 0.002 25.1 8.3 67 74-140 47-123 (349)
105 COG0299 PurN Folate-dependent 59.2 70 0.0015 23.6 9.8 83 4-107 1-87 (200)
106 COG0415 PhrB Deoxyribodipyrimi 59.0 60 0.0013 27.2 7.4 90 11-109 11-100 (461)
107 PF14459 Prok-E2_C: Prokaryoti 57.7 53 0.0011 21.8 5.5 76 17-121 13-89 (131)
108 cd08550 GlyDH-like Glycerol_de 56.8 99 0.0022 24.6 9.3 58 74-137 49-110 (349)
109 TIGR03156 GTP_HflX GTP-binding 56.7 1E+02 0.0022 24.7 8.3 26 84-109 51-76 (351)
110 TIGR01198 pgl 6-phosphoglucono 56.2 83 0.0018 23.6 10.6 109 5-123 29-150 (233)
111 PRK00766 hypothetical protein; 56.0 31 0.00068 25.3 4.8 59 74-134 42-104 (194)
112 PRK00143 mnmA tRNA-specific 2- 54.5 1.1E+02 0.0024 24.5 10.3 35 4-42 1-35 (346)
113 PRK01565 thiamine biosynthesis 54.0 1.2E+02 0.0026 24.8 13.7 34 4-41 177-210 (394)
114 PRK08384 thiamine biosynthesis 54.0 1.2E+02 0.0026 24.8 13.1 35 4-42 181-215 (381)
115 cd01994 Alpha_ANH_like_IV This 53.9 84 0.0018 22.9 9.6 94 5-111 1-100 (194)
116 cd01029 TOPRIM_primases TOPRIM 53.2 47 0.001 19.8 4.9 32 4-35 44-75 (79)
117 PLN00118 isocitrate dehydrogen 52.9 45 0.00097 27.2 5.6 79 14-107 184-263 (372)
118 KOG1467 Translation initiation 52.0 1.3E+02 0.0028 25.6 8.1 104 6-137 362-470 (556)
119 TIGR00169 leuB 3-isopropylmala 51.9 44 0.00095 27.0 5.4 78 14-107 163-240 (349)
120 cd06361 PBP1_GPC6A_like Ligand 51.7 1.3E+02 0.0028 24.5 12.0 32 3-34 172-203 (403)
121 TIGR02088 LEU3_arch isopropylm 51.6 51 0.0011 26.2 5.7 28 13-40 140-167 (322)
122 PRK05920 aromatic acid decarbo 50.9 43 0.00093 24.8 4.9 36 3-39 3-38 (204)
123 PHA02031 putative DnaG-like pr 50.5 63 0.0014 25.0 5.8 37 4-40 207-243 (266)
124 PRK04527 argininosuccinate syn 50.4 1.4E+02 0.0031 24.6 10.7 37 3-43 2-38 (400)
125 PLN02948 phosphoribosylaminoim 50.4 1E+02 0.0022 26.7 7.7 66 66-138 430-498 (577)
126 COG0615 TagD Cytidylyltransfer 50.4 22 0.00048 24.7 3.0 59 74-137 62-120 (140)
127 PRK14561 hypothetical protein; 49.9 97 0.0021 22.5 10.2 87 5-113 2-108 (194)
128 PRK08057 cobalt-precorrin-6x r 49.8 1.1E+02 0.0024 23.3 7.1 54 83-140 174-227 (248)
129 PRK08194 tartrate dehydrogenas 49.6 51 0.0011 26.6 5.4 29 14-42 161-189 (352)
130 PRK08997 isocitrate dehydrogen 49.2 55 0.0012 26.2 5.5 80 14-108 147-227 (334)
131 PRK08305 spoVFB dipicolinate s 49.0 52 0.0011 24.2 5.0 114 2-135 4-128 (196)
132 cd02072 Glm_B12_BD B12 binding 48.7 84 0.0018 21.4 7.4 27 88-114 39-65 (128)
133 PF13362 Toprim_3: Toprim doma 48.6 51 0.0011 20.6 4.5 38 2-39 40-79 (96)
134 TIGR00696 wecB_tagA_cpsF bacte 48.6 1E+02 0.0022 22.2 9.0 46 66-111 66-112 (177)
135 PF14639 YqgF: Holliday-juncti 48.5 53 0.0012 23.0 4.8 47 89-137 53-107 (150)
136 TIGR03573 WbuX N-acetyl sugar 48.3 1.4E+02 0.003 23.8 9.7 35 5-42 61-95 (343)
137 cd01400 6PGL 6PGL: 6-Phosphogl 48.3 1.1E+02 0.0024 22.6 11.0 124 5-137 24-157 (219)
138 PF05582 Peptidase_U57: YabG p 48.3 1.3E+02 0.0029 23.5 7.4 36 74-109 129-164 (287)
139 PF14582 Metallophos_3: Metall 48.2 72 0.0016 24.3 5.6 16 122-137 83-98 (255)
140 PF01182 Glucosamine_iso: Gluc 48.1 59 0.0013 23.7 5.3 123 6-137 23-160 (199)
141 TIGR02089 TTC tartrate dehydro 48.0 50 0.0011 26.7 5.1 79 14-107 164-242 (352)
142 cd05565 PTS_IIB_lactose PTS_II 47.8 68 0.0015 20.7 4.9 63 64-137 19-81 (99)
143 PF02887 PK_C: Pyruvate kinase 47.5 65 0.0014 21.1 5.0 43 88-137 5-48 (117)
144 PRK11058 GTPase HflX; Provisio 47.4 1.6E+02 0.0036 24.3 8.6 26 84-109 59-84 (426)
145 TIGR01918 various_sel_PB selen 47.3 1.3E+02 0.0029 25.0 7.5 66 74-139 43-118 (431)
146 cd02067 B12-binding B12 bindin 47.2 78 0.0017 20.6 7.6 39 74-114 27-65 (119)
147 TIGR00715 precor6x_red precorr 47.2 1.3E+02 0.0028 23.1 7.3 55 83-141 181-236 (256)
148 TIGR00583 mre11 DNA repair pro 46.4 56 0.0012 26.9 5.3 19 89-107 32-50 (405)
149 PRK14025 multifunctional 3-iso 46.2 81 0.0018 25.3 6.0 80 14-108 140-224 (330)
150 TIGR00175 mito_nad_idh isocitr 45.9 65 0.0014 25.8 5.5 58 14-82 145-203 (333)
151 cd02071 MM_CoA_mut_B12_BD meth 45.3 89 0.0019 20.7 6.0 39 74-114 27-65 (122)
152 PRK00772 3-isopropylmalate deh 45.3 60 0.0013 26.3 5.2 78 14-108 166-244 (358)
153 PRK09590 celB cellobiose phosp 45.0 65 0.0014 21.0 4.5 64 65-137 21-84 (104)
154 TIGR00420 trmU tRNA (5-methyla 44.8 1.6E+02 0.0036 23.6 10.8 33 4-40 1-33 (352)
155 PRK13305 sgbH 3-keto-L-gulonat 44.7 1.3E+02 0.0028 22.4 8.1 36 1-41 1-36 (218)
156 PF02568 ThiI: Thiamine biosyn 44.3 1.3E+02 0.0027 22.2 9.7 36 4-43 4-39 (197)
157 PRK08005 epimerase; Validated 43.8 1E+02 0.0022 22.9 5.9 28 80-108 166-193 (210)
158 COG2379 GckA Putative glycerat 43.8 1.8E+02 0.004 23.9 9.7 128 31-165 177-338 (422)
159 TIGR01917 gly_red_sel_B glycin 43.3 1.2E+02 0.0026 25.2 6.6 66 74-139 43-118 (431)
160 PRK07178 pyruvate carboxylase 43.2 1.6E+02 0.0035 24.6 7.7 35 3-42 2-36 (472)
161 PRK08745 ribulose-phosphate 3- 43.2 1.4E+02 0.003 22.4 8.1 33 74-108 169-201 (223)
162 PF02610 Arabinose_Isome: L-ar 43.0 1.8E+02 0.0039 23.6 9.2 57 75-137 46-106 (359)
163 cd00951 KDGDH 5-dehydro-4-deox 43.0 1.6E+02 0.0034 22.9 8.9 63 74-136 69-133 (289)
164 PRK10481 hypothetical protein; 42.9 1.4E+02 0.0031 22.4 7.4 40 89-133 169-211 (224)
165 KOG3147 6-phosphogluconolacton 42.9 1.5E+02 0.0033 22.7 9.9 49 100-149 143-191 (252)
166 TIGR02855 spore_yabG sporulati 42.6 1.6E+02 0.0035 23.0 7.6 35 74-109 128-163 (283)
167 cd00408 DHDPS-like Dihydrodipi 42.5 1.5E+02 0.0033 22.6 9.7 51 89-139 82-134 (281)
168 TIGR01501 MthylAspMutase methy 42.5 1.1E+02 0.0024 21.0 5.6 27 88-114 41-67 (134)
169 PRK08091 ribulose-phosphate 3- 41.7 1.5E+02 0.0033 22.3 8.1 33 74-108 177-209 (228)
170 COG2069 CdhD CO dehydrogenase/ 41.2 1.8E+02 0.004 23.1 8.6 88 17-109 150-259 (403)
171 COG3969 Predicted phosphoadeno 41.2 49 0.0011 26.7 4.0 41 2-42 26-67 (407)
172 KOG2310 DNA repair exonuclease 40.8 25 0.00055 30.0 2.5 48 89-137 42-98 (646)
173 cd02070 corrinoid_protein_B12- 40.4 1.4E+02 0.0031 21.7 7.5 40 74-115 110-149 (201)
174 TIGR02634 xylF D-xylose ABC tr 40.1 1.7E+02 0.0037 22.4 9.0 41 90-134 45-85 (302)
175 cd06375 PBP1_mGluR_groupII Lig 40.1 2.2E+02 0.0047 23.6 11.9 94 3-110 174-267 (458)
176 PLN00123 isocitrate dehydrogen 40.1 72 0.0016 25.9 4.9 59 14-83 168-227 (360)
177 PRK03692 putative UDP-N-acetyl 39.7 1.7E+02 0.0036 22.3 8.5 42 88-133 146-187 (243)
178 COG2201 CheB Chemotaxis respon 38.8 1.7E+02 0.0037 23.7 6.8 46 89-137 37-83 (350)
179 TIGR00655 PurU formyltetrahydr 38.6 1.9E+02 0.0041 22.5 9.5 83 3-108 84-169 (280)
180 smart00493 TOPRIM topoisomeras 38.6 60 0.0013 19.1 3.5 16 6-21 50-65 (76)
181 cd01996 Alpha_ANH_like_III Thi 38.6 1.3E+02 0.0027 20.5 10.0 35 5-42 3-37 (154)
182 PRK09222 isocitrate dehydrogen 38.2 66 0.0014 27.2 4.6 29 14-42 149-178 (482)
183 PRK09722 allulose-6-phosphate 38.2 1.7E+02 0.0038 22.0 7.9 40 66-108 160-199 (229)
184 PF07302 AroM: AroM protein; 38.1 1.7E+02 0.0038 22.0 7.3 42 89-135 165-209 (221)
185 PF13727 CoA_binding_3: CoA-bi 38.0 88 0.0019 21.4 4.8 45 89-135 131-175 (175)
186 PF13155 Toprim_2: Toprim-like 38.0 98 0.0021 19.1 4.6 28 4-31 48-75 (96)
187 PF01008 IF-2B: Initiation fac 37.7 1.9E+02 0.004 22.2 6.9 44 93-137 171-219 (282)
188 TIGR00640 acid_CoA_mut_C methy 37.4 1.3E+02 0.0029 20.4 6.2 39 74-114 30-68 (132)
189 cd01714 ETF_beta The electron 37.0 1.7E+02 0.0036 21.4 9.7 84 8-110 29-119 (202)
190 PRK08417 dihydroorotase; Provi 37.0 1E+02 0.0022 24.9 5.5 89 16-111 180-280 (386)
191 cd01998 tRNA_Me_trans tRNA met 36.6 2.2E+02 0.0048 22.8 10.8 34 5-42 1-34 (349)
192 TIGR01769 GGGP geranylgeranylg 36.4 1.3E+02 0.0029 22.2 5.5 47 89-136 14-61 (205)
193 PLN02360 probable 6-phosphoglu 36.2 2E+02 0.0043 22.1 11.2 23 99-121 150-172 (268)
194 PF02729 OTCace_N: Aspartate/o 36.1 83 0.0018 21.7 4.2 42 84-134 81-122 (142)
195 cd06301 PBP1_rhizopine_binding 36.0 1.8E+02 0.0038 21.5 8.7 43 90-136 47-89 (272)
196 COG0434 SgcQ Predicted TIM-bar 36.0 1.5E+02 0.0033 22.7 5.7 50 84-135 163-212 (263)
197 PF01933 UPF0052: Uncharacteri 35.9 1.2E+02 0.0025 24.0 5.4 47 89-137 175-224 (300)
198 COG2099 CobK Precorrin-6x redu 35.9 1.9E+02 0.0042 22.3 6.4 59 80-141 47-106 (257)
199 KOG0237 Glycinamide ribonucleo 35.9 55 0.0012 28.5 3.7 20 89-108 58-77 (788)
200 cd07044 CofD_YvcK Family of Co 35.7 70 0.0015 25.3 4.2 47 89-137 166-215 (309)
201 cd01539 PBP1_GGBP Periplasmic 35.7 2E+02 0.0043 22.0 8.4 42 90-135 48-89 (303)
202 TIGR01425 SRP54_euk signal rec 35.5 2.6E+02 0.0057 23.3 11.8 96 7-119 105-202 (429)
203 cd07186 CofD_like LPPG:FO 2-ph 35.0 1.9E+02 0.0042 22.8 6.5 47 89-137 175-224 (303)
204 cd05569 PTS_IIB_fructose PTS_I 34.6 1.1E+02 0.0025 19.3 4.4 50 63-114 19-68 (96)
205 COG1365 Predicted ATPase (PP-l 34.6 2E+02 0.0044 21.7 8.5 25 83-107 138-162 (255)
206 cd05008 SIS_GlmS_GlmD_1 SIS (S 34.4 64 0.0014 21.1 3.4 39 3-42 46-84 (126)
207 PF02878 PGM_PMM_I: Phosphoglu 34.3 95 0.0021 20.9 4.3 40 3-42 40-79 (137)
208 TIGR02313 HpaI-NOT-DapA 2,4-di 34.2 2.2E+02 0.0048 22.1 9.5 66 74-139 69-138 (294)
209 PRK03437 3-isopropylmalate deh 34.0 67 0.0014 25.9 3.9 29 14-42 160-189 (344)
210 PF14606 Lipase_GDSL_3: GDSL-l 33.9 1.1E+02 0.0023 22.2 4.6 63 74-137 33-102 (178)
211 PF01751 Toprim: Toprim domain 33.9 91 0.002 19.7 3.9 30 2-31 59-88 (100)
212 PRK04148 hypothetical protein; 33.7 1.6E+02 0.0034 20.2 7.1 37 74-110 77-113 (134)
213 PRK13010 purU formyltetrahydro 33.4 2.3E+02 0.0051 22.1 9.2 83 4-109 94-179 (289)
214 PF01645 Glu_synthase: Conserv 33.4 2.7E+02 0.0058 22.7 7.2 45 65-110 194-238 (368)
215 PRK15408 autoinducer 2-binding 33.3 2.4E+02 0.0053 22.3 7.9 67 66-137 46-114 (336)
216 PF06050 HGD-D: 2-hydroxygluta 33.3 1.2E+02 0.0025 23.9 5.2 53 84-137 272-326 (349)
217 COG1927 Mtd Coenzyme F420-depe 33.2 1.6E+02 0.0035 22.1 5.4 47 89-137 50-96 (277)
218 PF00180 Iso_dh: Isocitrate/is 33.0 87 0.0019 25.2 4.4 78 14-107 160-239 (348)
219 cd00578 L-fuc_L-ara-isomerases 32.9 2.9E+02 0.0062 22.9 9.0 46 89-138 53-98 (452)
220 COG1922 WecG Teichoic acid bio 32.7 2.3E+02 0.005 21.8 9.1 64 66-133 126-191 (253)
221 COG0788 PurU Formyltetrahydrof 32.7 1.1E+02 0.0024 23.8 4.7 67 63-137 128-197 (287)
222 PF05690 ThiG: Thiazole biosyn 32.7 2.3E+02 0.0049 21.7 10.6 115 5-133 64-180 (247)
223 COG0655 WrbA Multimeric flavod 32.5 2E+02 0.0043 20.9 8.3 42 2-43 2-43 (207)
224 PLN02285 methionyl-tRNA formyl 32.4 1.2E+02 0.0025 24.3 5.0 22 89-110 83-104 (334)
225 PRK10415 tRNA-dihydrouridine s 32.0 2.6E+02 0.0056 22.1 9.0 59 74-135 133-201 (321)
226 TIGR00289 conserved hypothetic 32.0 2.2E+02 0.0048 21.3 9.9 92 5-109 2-95 (222)
227 PLN02329 3-isopropylmalate deh 31.9 63 0.0014 26.7 3.5 29 14-42 211-239 (409)
228 PRK06027 purU formyltetrahydro 31.6 2.5E+02 0.0054 21.9 8.9 21 89-109 155-175 (286)
229 PF03652 UPF0081: Uncharacteri 31.6 1.1E+02 0.0024 20.8 4.3 53 84-137 37-96 (135)
230 COG0552 FtsY Signal recognitio 31.5 2.8E+02 0.006 22.4 8.9 72 63-137 244-320 (340)
231 PF00676 E1_dh: Dehydrogenase 31.3 35 0.00076 26.7 1.9 80 4-96 123-205 (300)
232 PRK10550 tRNA-dihydrouridine s 31.0 2.7E+02 0.0058 22.0 9.3 58 74-134 133-200 (312)
233 PRK00994 F420-dependent methyl 31.0 1.9E+02 0.0041 22.2 5.5 47 90-138 51-97 (277)
234 TIGR03572 WbuZ glycosyl amidat 30.9 2.2E+02 0.0048 21.0 6.6 42 1-42 1-55 (232)
235 PRK01033 imidazole glycerol ph 30.9 2.4E+02 0.0052 21.4 6.6 42 1-42 1-55 (258)
236 TIGR01862 N2-ase-Ialpha nitrog 30.6 3.2E+02 0.0069 22.7 8.1 41 82-134 371-411 (443)
237 PF03853 YjeF_N: YjeF-related 30.5 2E+02 0.0042 20.3 8.2 114 3-139 25-142 (169)
238 PRK06850 hypothetical protein; 30.3 3.5E+02 0.0076 23.2 8.6 36 6-41 37-77 (507)
239 COG1795 Formaldehyde-activatin 30.2 44 0.00096 23.5 2.0 32 103-135 21-52 (170)
240 PRK14057 epimerase; Provisiona 30.2 2.6E+02 0.0056 21.5 8.5 33 74-108 191-223 (254)
241 PRK07627 dihydroorotase; Provi 30.1 1.4E+02 0.0031 24.5 5.4 27 16-42 211-237 (425)
242 PRK05784 phosphoribosylamine-- 30.0 1.5E+02 0.0033 25.1 5.5 28 81-109 52-79 (486)
243 PRK10653 D-ribose transporter 30.0 2.5E+02 0.0053 21.3 8.4 68 63-135 46-114 (295)
244 cd01715 ETF_alpha The electron 29.4 2E+02 0.0043 20.1 9.2 26 86-111 70-95 (168)
245 cd05006 SIS_GmhA Phosphoheptos 29.4 2E+02 0.0044 20.2 6.1 38 4-42 102-139 (177)
246 TIGR00514 accC acetyl-CoA carb 29.3 2E+02 0.0044 23.7 6.2 33 3-40 2-34 (449)
247 TIGR02924 ICDH_alpha isocitrat 29.2 84 0.0018 26.5 3.8 29 14-42 145-174 (473)
248 TIGR01826 CofD_related conserv 29.1 1.1E+02 0.0024 24.2 4.3 47 89-137 164-213 (310)
249 cd05710 SIS_1 A subgroup of th 29.1 88 0.0019 20.5 3.4 39 3-42 47-85 (120)
250 COG2262 HflX GTPases [General 28.9 3.4E+02 0.0073 22.5 8.5 28 84-111 54-81 (411)
251 cd05564 PTS_IIB_chitobiose_lic 28.9 1.6E+02 0.0034 18.7 4.9 64 64-138 18-81 (96)
252 COG1737 RpiR Transcriptional r 28.9 70 0.0015 24.7 3.2 40 2-42 176-215 (281)
253 COG0473 LeuB Isocitrate/isopro 28.7 1.1E+02 0.0023 24.7 4.1 29 14-42 156-185 (348)
254 PRK03170 dihydrodipicolinate s 28.6 2.7E+02 0.0059 21.4 9.8 65 74-138 70-137 (292)
255 PF10808 DUF2542: Protein of u 28.4 54 0.0012 20.1 1.9 27 112-138 23-50 (79)
256 COG1646 Predicted phosphate-bi 28.4 2E+02 0.0044 21.9 5.3 49 88-137 30-79 (240)
257 COG1412 Uncharacterized protei 28.2 1.6E+02 0.0035 20.3 4.5 44 84-137 83-126 (136)
258 PF01177 Asp_Glu_race: Asp/Glu 28.2 1.5E+02 0.0032 21.4 4.7 40 90-132 162-205 (216)
259 TIGR00683 nanA N-acetylneurami 28.0 2.9E+02 0.0062 21.4 10.2 65 74-139 70-139 (290)
260 PF12965 DUF3854: Domain of un 28.0 2E+02 0.0043 19.5 5.4 39 2-40 67-111 (130)
261 TIGR03127 RuMP_HxlB 6-phospho 28.0 86 0.0019 22.1 3.3 39 3-42 72-110 (179)
262 COG1504 Uncharacterized conser 27.9 1.2E+02 0.0026 20.2 3.6 47 89-137 52-98 (121)
263 PRK11914 diacylglycerol kinase 27.8 2.9E+02 0.0063 21.4 8.5 59 74-137 39-97 (306)
264 PF01380 SIS: SIS domain SIS d 27.8 1E+02 0.0023 20.0 3.6 39 3-42 53-91 (131)
265 TIGR03249 KdgD 5-dehydro-4-deo 27.7 2.9E+02 0.0063 21.4 9.2 61 75-135 75-137 (296)
266 cd00950 DHDPS Dihydrodipicolin 27.7 2.8E+02 0.0061 21.2 9.6 50 89-138 85-136 (284)
267 cd00954 NAL N-Acetylneuraminic 27.6 2.9E+02 0.0062 21.3 9.7 50 89-138 86-138 (288)
268 TIGR00524 eIF-2B_rel eIF-2B al 27.5 3.1E+02 0.0067 21.6 7.3 44 94-137 192-240 (303)
269 cd06318 PBP1_ABC_sugar_binding 27.3 2.6E+02 0.0057 20.7 8.9 67 64-135 20-87 (282)
270 COG1597 LCB5 Sphingosine kinas 27.2 3E+02 0.0066 21.5 6.5 58 74-136 33-91 (301)
271 cd03114 ArgK-like The function 27.2 2.1E+02 0.0046 19.6 5.2 43 89-137 81-123 (148)
272 PRK05703 flhF flagellar biosyn 27.2 3.6E+02 0.0079 22.3 11.1 84 11-115 230-315 (424)
273 cd06320 PBP1_allose_binding Pe 26.9 2.6E+02 0.0057 20.6 8.2 42 90-135 48-89 (275)
274 PF01207 Dus: Dihydrouridine s 26.5 3.2E+02 0.0069 21.4 7.7 115 18-133 66-188 (309)
275 PRK07369 dihydroorotase; Provi 26.3 1.7E+02 0.0036 24.1 5.1 89 15-110 211-311 (418)
276 PF02310 B12-binding: B12 bind 26.3 1.8E+02 0.004 18.6 7.9 40 74-115 28-67 (121)
277 cd01974 Nitrogenase_MoFe_beta 26.1 3.8E+02 0.0082 22.2 8.8 99 3-135 303-402 (435)
278 PRK06806 fructose-bisphosphate 26.1 3.2E+02 0.0069 21.3 8.1 46 89-134 156-206 (281)
279 cd01537 PBP1_Repressors_Sugar_ 26.0 2.5E+02 0.0055 20.1 8.7 66 65-136 21-87 (264)
280 PF01507 PAPS_reduct: Phosphoa 26.0 2.2E+02 0.0048 19.5 8.8 35 5-43 1-35 (174)
281 TIGR00177 molyb_syn molybdenum 26.0 2.2E+02 0.0048 19.4 5.6 33 74-107 40-74 (144)
282 PRK13398 3-deoxy-7-phosphohept 25.9 3.1E+02 0.0068 21.1 10.9 85 14-111 38-122 (266)
283 COG2179 Predicted hydrolase of 25.9 2.6E+02 0.0056 20.2 5.8 33 5-38 37-69 (175)
284 COG0301 ThiI Thiamine biosynth 25.8 3.8E+02 0.0082 22.1 9.3 35 6-44 178-212 (383)
285 COG0482 TrmU Predicted tRNA(5- 25.8 3.7E+02 0.0079 21.9 8.7 105 1-112 1-129 (356)
286 cd06322 PBP1_ABC_sugar_binding 25.7 2.7E+02 0.0059 20.4 8.4 70 62-136 18-88 (267)
287 COG0622 Predicted phosphoester 25.5 1.8E+02 0.0039 20.8 4.6 37 77-114 82-124 (172)
288 PRK13790 phosphoribosylamine-- 25.4 2.1E+02 0.0045 23.1 5.5 25 84-109 13-37 (379)
289 TIGR00035 asp_race aspartate r 25.4 1E+02 0.0023 22.9 3.5 19 93-111 69-87 (229)
290 PRK15411 rcsA colanic acid cap 25.4 2.7E+02 0.0059 20.2 8.1 44 89-136 37-85 (207)
291 TIGR00290 MJ0570_dom MJ0570-re 25.4 3E+02 0.0064 20.7 8.4 88 5-109 2-95 (223)
292 cd05017 SIS_PGI_PMI_1 The memb 25.1 1.1E+02 0.0024 19.9 3.3 34 4-38 44-77 (119)
293 cd05014 SIS_Kpsf KpsF-like pro 25.0 1.1E+02 0.0024 19.9 3.3 38 4-42 48-85 (128)
294 PHA02546 47 endonuclease subun 24.9 2.3E+02 0.0051 22.5 5.6 18 89-106 29-46 (340)
295 cd04795 SIS SIS domain. SIS (S 24.7 1.1E+02 0.0024 18.1 3.1 33 4-37 48-80 (87)
296 cd06313 PBP1_ABC_sugar_binding 24.6 3E+02 0.0065 20.5 8.3 68 64-136 20-88 (272)
297 cd02065 B12-binding_like B12 b 24.6 2E+02 0.0043 18.5 6.0 58 74-134 27-86 (125)
298 PLN02347 GMP synthetase 24.6 4.6E+02 0.0099 22.6 8.6 38 3-43 229-266 (536)
299 PRK10200 putative racemase; Pr 24.4 1E+02 0.0022 23.1 3.3 37 92-134 68-104 (230)
300 cd06309 PBP1_YtfQ_like Peripla 24.3 3E+02 0.0065 20.3 8.6 71 61-136 17-88 (273)
301 PF01884 PcrB: PcrB family; I 24.1 1.8E+02 0.0039 22.0 4.5 47 88-137 21-68 (230)
302 TIGR02370 pyl_corrinoid methyl 24.1 2.9E+02 0.0062 20.1 6.6 41 84-127 121-162 (197)
303 PRK13937 phosphoheptose isomer 24.1 2.7E+02 0.006 19.9 6.4 39 3-42 106-144 (188)
304 cd07187 YvcK_like family of mo 24.1 1.6E+02 0.0035 23.3 4.4 47 88-136 166-215 (308)
305 cd07015 Clp_protease_NfeD Nodu 24.0 2.7E+02 0.0059 19.9 5.3 16 89-104 48-63 (172)
306 cd01025 TOPRIM_recR TOPRIM_rec 24.0 1.5E+02 0.0034 19.6 3.7 33 3-35 57-89 (112)
307 TIGR00127 nadp_idh_euk isocitr 23.8 2.9E+02 0.0062 23.0 5.9 29 14-42 186-214 (409)
308 COG1911 RPL30 Ribosomal protei 23.7 2.2E+02 0.0047 18.5 4.1 45 89-136 25-69 (100)
309 TIGR00619 sbcd exonuclease Sbc 23.6 2.8E+02 0.0061 21.0 5.6 8 103-110 80-87 (253)
310 PF09967 DUF2201: VWA-like dom 23.6 2.1E+02 0.0046 19.1 4.4 37 6-42 1-42 (126)
311 cd06278 PBP1_LacI_like_2 Ligan 23.5 3E+02 0.0064 20.0 8.7 63 66-135 22-84 (266)
312 TIGR01391 dnaG DNA primase, ca 23.5 1.9E+02 0.004 23.9 4.9 34 4-37 301-334 (415)
313 PF10087 DUF2325: Uncharacteri 23.3 2E+02 0.0044 18.0 6.4 70 63-137 13-84 (97)
314 COG0042 tRNA-dihydrouridine sy 23.0 3.9E+02 0.0084 21.2 6.8 100 9-110 72-176 (323)
315 PF10649 DUF2478: Protein of u 23.0 1.6E+02 0.0034 20.9 3.8 48 89-136 83-131 (159)
316 cd02801 DUS_like_FMN Dihydrour 22.9 3.1E+02 0.0066 20.0 8.2 46 89-134 141-189 (231)
317 TIGR03183 DNA_S_dndC putative 22.8 4.6E+02 0.01 22.0 9.4 23 6-28 16-38 (447)
318 PRK01269 tRNA s(4)U8 sulfurtra 22.8 4.7E+02 0.01 22.1 12.4 35 4-42 178-212 (482)
319 PLN02257 phosphoribosylamine-- 22.7 1.9E+02 0.004 24.0 4.8 26 83-109 47-72 (434)
320 cd01999 Argininosuccinate_Synt 22.7 4.3E+02 0.0094 21.6 8.9 34 6-42 1-34 (385)
321 PRK02628 nadE NAD synthetase; 22.5 4.6E+02 0.0099 23.3 7.3 38 2-39 360-400 (679)
322 COG1030 NfeD Membrane-bound se 22.4 3E+02 0.0065 23.0 5.7 44 92-135 49-92 (436)
323 cd06317 PBP1_ABC_sugar_binding 22.4 3.2E+02 0.007 20.0 8.7 65 66-135 23-88 (275)
324 PRK03620 5-dehydro-4-deoxygluc 22.3 3.8E+02 0.0083 20.9 8.9 63 74-137 76-141 (303)
325 COG2121 Uncharacterized protei 22.3 3.4E+02 0.0074 20.3 6.2 40 97-136 115-154 (214)
326 TIGR00674 dapA dihydrodipicoli 22.2 3.7E+02 0.008 20.7 9.6 50 89-138 83-134 (285)
327 PRK02261 methylaspartate mutas 22.2 2.7E+02 0.0058 19.0 9.4 27 88-114 43-69 (137)
328 PRK12723 flagellar biosynthesi 21.9 4.5E+02 0.0098 21.6 10.3 105 11-136 183-295 (388)
329 TIGR02260 benz_CoA_red_B benzo 21.9 2.7E+02 0.0059 23.0 5.5 51 87-137 338-390 (413)
330 PTZ00170 D-ribulose-5-phosphat 21.9 3.1E+02 0.0068 20.4 5.5 42 63-108 162-203 (228)
331 PRK08185 hypothetical protein; 21.8 2.2E+02 0.0049 22.2 4.8 52 81-133 20-73 (283)
332 TIGR03264 met_CoM_red_C methyl 21.8 1.9E+02 0.004 21.1 3.9 40 92-136 96-136 (194)
333 PF02670 DXP_reductoisom: 1-de 21.8 1.4E+02 0.003 20.3 3.2 28 89-116 80-107 (129)
334 cd01540 PBP1_arabinose_binding 21.7 3.5E+02 0.0075 20.1 7.8 42 90-135 45-86 (289)
335 PRK00865 glutamate racemase; P 21.3 1.4E+02 0.0031 22.7 3.6 13 97-109 65-77 (261)
336 TIGR03191 benz_CoA_bzdO benzoy 21.2 2.4E+02 0.0053 23.4 5.1 55 83-137 345-400 (430)
337 cd05005 SIS_PHI Hexulose-6-pho 21.2 1.4E+02 0.0031 21.0 3.4 39 3-42 75-113 (179)
338 PF00532 Peripla_BP_1: Peripla 21.2 3.8E+02 0.0082 20.4 9.3 65 66-137 24-88 (279)
339 PF04900 Fcf1: Fcf1; InterPro 21.1 2.3E+02 0.005 17.9 4.3 43 84-136 51-93 (101)
340 cd01538 PBP1_ABC_xylose_bindin 21.1 3.7E+02 0.008 20.2 8.5 68 63-135 19-87 (288)
341 PRK02842 light-independent pro 20.9 4.8E+02 0.01 21.5 7.5 28 80-108 342-369 (427)
342 TIGR02263 benz_CoA_red_C benzo 20.9 2.5E+02 0.0055 22.8 5.1 51 87-137 309-360 (380)
343 cd07388 MPP_Tt1561 Thermus the 20.7 3.2E+02 0.0069 20.4 5.3 9 102-110 66-74 (224)
344 cd00851 MTH1175 This uncharact 20.7 1.5E+02 0.0032 18.5 3.1 26 89-114 53-78 (103)
345 PF13689 DUF4154: Domain of un 20.7 71 0.0015 21.9 1.7 66 98-171 67-133 (145)
346 TIGR00364 exsB protein. This p 20.6 3.3E+02 0.0072 19.5 13.4 32 7-42 2-33 (201)
347 PF00834 Ribul_P_3_epim: Ribul 20.6 1.8E+02 0.0039 21.4 3.9 40 65-107 156-195 (201)
348 PF01949 DUF99: Protein of unk 20.6 76 0.0016 23.2 1.8 64 74-139 36-102 (187)
349 PF04007 DUF354: Protein of un 20.4 4.6E+02 0.0099 21.0 6.7 38 74-115 27-64 (335)
350 cd06296 PBP1_CatR_like Ligand- 20.3 3.5E+02 0.0077 19.8 8.6 63 66-135 22-85 (270)
351 COG0552 FtsY Signal recognitio 20.3 4.7E+02 0.01 21.1 11.1 59 60-120 181-242 (340)
352 KOG1552 Predicted alpha/beta h 20.3 2.3E+02 0.005 21.9 4.4 60 76-135 128-199 (258)
353 COG4126 Hydantoin racemase [Am 20.3 1.2E+02 0.0027 22.8 2.9 27 89-115 164-190 (230)
354 cd06321 PBP1_ABC_sugar_binding 20.2 3.6E+02 0.0078 19.8 8.1 42 90-135 48-89 (271)
355 KOG1014 17 beta-hydroxysteroid 20.2 4.5E+02 0.0099 20.9 7.5 43 66-109 91-138 (312)
356 KOG2584 Dihydroorotase and rel 20.0 1.1E+02 0.0024 25.6 2.8 29 15-43 230-258 (522)
No 1
>PRK09982 universal stress protein UspD; Provisional
Probab=99.95 E-value=2.6e-26 Score=160.30 Aligned_cols=136 Identities=15% Similarity=0.197 Sum_probs=103.8
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccch-----HHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNR-----KKLRLLRLKGYQLALSFKDICNDFFNT 75 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (172)
|.|+|||||+|+|+.+..++++|..+|+..+++++++||.++...... ......+...+...+.+++..+.....
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 80 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWP 80 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 889999999999999999999999999999999999999876432111 111122222233333444444433345
Q ss_pred cEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 76 NVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 76 ~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
.++..+..|++. +.|+++|++.++||||||++ ++++.+++.-+.+++++++||||++|..+
T Consensus 81 ~~~~~v~~G~p~-~~I~~~A~~~~aDLIVmG~~-~~~~~~~~~va~~V~~~s~~pVLvv~~~~ 141 (142)
T PRK09982 81 KTKLRIERGEMP-ETLLEIMQKEQCDLLVCGHH-HSFINRLMPAYRGMINKMSADLLIVPFID 141 (142)
T ss_pred cceEEEEecCHH-HHHHHHHHHcCCCEEEEeCC-hhHHHHHHHHHHHHHhcCCCCEEEecCCC
Confidence 677888889995 99999999999999999986 88888877324599999999999999654
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.93 E-value=3.5e-25 Score=154.46 Aligned_cols=132 Identities=19% Similarity=0.266 Sum_probs=101.5
Q ss_pred CceEEEEEecCCHH--HHHHHHHHHHhhccCCCEEEEEEEecCCCccc------hHHHHHHHHHHHHHHHHHHHHhhh--
Q 030760 2 DVKKIVVIVEDVDA--ARAALLWALQNLLRFGDVVTLLHVFPSLNSRN------RKKLRLLRLKGYQLALSFKDICND-- 71 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~--s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~-- 71 (172)
+|++||+|+|+|+. +..+++||..+|+..+++++++||.++..... .......+...+...+.++++++.
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 80 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKKFK 80 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHHhC
Confidence 38999999999998 58999999999999999999999997532210 010011122233333444444443
Q ss_pred hcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEe
Q 030760 72 FFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIK 135 (172)
Q Consensus 72 ~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~ 135 (172)
.++.+++.++..|++. +.|+++++++++||||||+++ +++.++++||+ +|+++++||||++|
T Consensus 81 ~~~~~~~~~v~~G~p~-~~I~~~a~~~~~DLIV~Gs~~-~~~~~~llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 81 LPTDRVHVHVEEGSPK-DRILELAKKIPADMIIIASHR-PDITTYLLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred CCCCceEEEEeCCCHH-HHHHHHHHHcCCCEEEEeCCC-CCchheeecchHHHHHHhCCCCEEEeC
Confidence 3466788889999996 999999999999999999984 56888899985 99999999999986
No 3
>PRK15456 universal stress protein UspG; Provisional
Probab=99.93 E-value=5.8e-25 Score=153.28 Aligned_cols=131 Identities=20% Similarity=0.235 Sum_probs=100.4
Q ss_pred CceEEEEEecCCH--HHHHHHHHHHHhhccCCCEEEEEEEecCCCccc-----hHHHHHHHHHHHHHHHHHHHHhhh--h
Q 030760 2 DVKKIVVIVEDVD--AARAALLWALQNLLRFGDVVTLLHVFPSLNSRN-----RKKLRLLRLKGYQLALSFKDICND--F 72 (172)
Q Consensus 2 ~~k~Ilv~~d~s~--~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~--~ 72 (172)
+|+|||+|+|+|+ .+..++++|..+++.. ++++++||.++..... .......+...+...+.+.++.+. .
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 79 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHFTI 79 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHhCC
Confidence 3899999999994 8999999999999874 6999999997643211 111112222223333444444433 2
Q ss_pred cCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEe
Q 030760 73 FNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIK 135 (172)
Q Consensus 73 ~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~ 135 (172)
.+.+++.++..|++. +.|+++++++++||||||+++++ +.++++||+ +++++++|||||+|
T Consensus 80 ~~~~v~~~v~~G~~~-~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 80 DPSRIKQHVRFGSVR-DEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred CCcceEEEEcCCChH-HHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence 467888999999996 99999999999999999999986 777889985 99999999999986
No 4
>PRK10116 universal stress protein UspC; Provisional
Probab=99.93 E-value=1.7e-24 Score=150.71 Aligned_cols=136 Identities=16% Similarity=0.191 Sum_probs=103.7
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchH---H-HHHHHHHHHHHHHHHHHHhhhhcCCc
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRK---K-LRLLRLKGYQLALSFKDICNDFFNTN 76 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~---~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (172)
|+|++|||++|+++.+..++++|..+|+.++++++++|+.+........ . .+..+...++..+.+++...+. +++
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~ 79 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQDA-DYP 79 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhc-CCC
Confidence 8999999999999999999999999999999999999998664321111 1 1111222223333344444433 554
Q ss_pred EE-EEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 77 VE-IIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 77 ~~-~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
.. ..+..|++. +.|++++++.++||||||+++++++.++++.+++++++++|||||||.+.
T Consensus 80 ~~~~~~~~G~~~-~~I~~~a~~~~~DLiV~g~~~~~~~~~~~s~a~~v~~~~~~pVLvv~~~~ 141 (142)
T PRK10116 80 IEKTFIAYGELS-EHILEVCRKHHFDLVICGNHNHSFFSRASCSAKRVIASSEVDVLLVPLTG 141 (142)
T ss_pred eEEEEEecCCHH-HHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHHhcCCCCEEEEeCCC
Confidence 43 566789996 99999999999999999999999999876545699999999999999653
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.93 E-value=1.9e-24 Score=150.98 Aligned_cols=132 Identities=13% Similarity=0.197 Sum_probs=96.7
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchH-----HHHHHHHHHHHHHHHHHHHhhhhcCC
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRK-----KLRLLRLKGYQLALSFKDICNDFFNT 75 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (172)
|+|++||+|+|+|+.+..++++|..+|+..+++++++||..+....... .....++..+...+.++++.... ++
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~ 79 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDLYTGLIDVNLGDMQKRISEETHHALTELSTNA-GY 79 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHhC-CC
Confidence 8999999999999999999999999999999999999995332111100 01111222223334444444333 55
Q ss_pred cEE-EEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCC
Q 030760 76 NVE-IIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQP 137 (172)
Q Consensus 76 ~~~-~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~ 137 (172)
+.. ..+..|++. +.|+++|++.++||||||+++ +.+.. +||+ +|+++++||||+||.+
T Consensus 80 ~~~~~~~~~G~p~-~~I~~~a~~~~~DLIV~Gs~~-~~~~~--lgSva~~v~~~a~~pVLvv~~~ 140 (144)
T PRK15118 80 PITETLSGSGDLG-QVLVDAIKKYDMDLVVCGHHQ-DFWSK--LMSSARQLINTVHVDMLIVPLR 140 (144)
T ss_pred CceEEEEEecCHH-HHHHHHHHHhCCCEEEEeCcc-cHHHH--HHHHHHHHHhhCCCCEEEecCC
Confidence 543 455689995 999999999999999999996 44554 4564 9999999999999964
No 6
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=99.92 E-value=6.7e-24 Score=148.36 Aligned_cols=130 Identities=23% Similarity=0.370 Sum_probs=100.3
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccch------HHHHH---HHHHHHHHHHHHHHHhhhhcCC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNR------KKLRL---LRLKGYQLALSFKDICNDFFNT 75 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~------~~~~~---~~~~~~~~~~~~~~~~~~~~~~ 75 (172)
+||||+|+|+.+..+++||.+++...+++++++||.++...... ..... .++..++..+.+.+.+.. .++
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~ 79 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSR-KGV 79 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhh-cCC
Confidence 59999999999999999999999999999999999876432111 01111 112222333333333333 378
Q ss_pred cEEEEEecC-CchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH--HHhccCC--ceEEEEeC
Q 030760 76 NVEIIVTEG-DQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN--DISSSFN--CRVLAIKQ 136 (172)
Q Consensus 76 ~~~~~~~~g-~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~--~i~~~~~--~PVlvv~~ 136 (172)
+++..+..| ++ ++.|++++++.++|+||||+++++++.++++| |. +|+++++ ||||||+.
T Consensus 80 ~~~~~~~~g~~~-~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 80 QCEDVVLEDDDV-AKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred eEEEEEEeCCcH-HHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeC
Confidence 888888886 56 59999999999999999999999999998887 44 9999999 99999985
No 7
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.91 E-value=3.8e-23 Score=141.71 Aligned_cols=133 Identities=23% Similarity=0.293 Sum_probs=101.9
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHH--HHHHHHHHHH---HHhhhhcCCc
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRL--KGYQLALSFK---DICNDFFNTN 76 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~--~~~~~~~~~~---~~~~~~~~~~ 76 (172)
+|||||||+|+++.+..+++||+.++...+++|+++||.+............... .......... ..........
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSFSAAEDEESEEEAEEEEQARQAEAEEAEAEGGIV 80 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSE
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccccccccccccccccchhhhhhhHHHHHHhhhccce
Confidence 4799999999999999999999999999999999999999876543221111111 1011000000 1222233666
Q ss_pred EEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEe
Q 030760 77 VEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIK 135 (172)
Q Consensus 77 ~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~ 135 (172)
....+..|++. ++|++++++.++|+||||+++++++.++++||. +|+++++|||+|+|
T Consensus 81 ~~~~~~~~~~~-~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 81 IEVVIESGDVA-DAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp EEEEEEESSHH-HHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEEE
T ss_pred eEEEEEeeccc-hhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEeC
Confidence 77777788885 999999999999999999999999999999985 99999999999997
No 8
>PRK11175 universal stress protein UspE; Provisional
Probab=99.91 E-value=3.8e-23 Score=160.76 Aligned_cols=151 Identities=15% Similarity=0.100 Sum_probs=110.9
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCcc-----chHHHH-HHHHHHHHHHHHHHHHhhh--h
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSR-----NRKKLR-LLRLKGYQLALSFKDICND--F 72 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~-----~~~~~~-~~~~~~~~~~~~~~~~~~~--~ 72 (172)
|+|++||||+|+|+.+..++++|+.+|+..+++++++|+.+..... ...... ..+...++..+.+++.... .
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 80 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAKPYLD 80 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999999999999999999999997543211 111111 1111112222233333322 2
Q ss_pred cCCcEEEEEe-cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCCCCCCCCcccCcC
Q 030760 73 FNTNVEIIVT-EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQPAASPQLRTQTSA 149 (172)
Q Consensus 73 ~~~~~~~~~~-~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~~~~~~~~~~~~~ 149 (172)
.+++++..+. .|++. +.|+++++++++||||||+++++++.+.++||+ +++++++||||+++...... .+.+..+
T Consensus 81 ~~~~~~~~v~~~g~~~-~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~~~~~-~~~Ilva 158 (305)
T PRK11175 81 AGIPIEIKVVWHNRPF-EAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQDWPE-GGKILVA 158 (305)
T ss_pred cCCceEEEEecCCCcH-HHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecccccCC-CCeEEEE
Confidence 3778888766 58885 999999999999999999999999999999986 89999999999999764433 3445455
Q ss_pred CcCC
Q 030760 150 ATTP 153 (172)
Q Consensus 150 ~~~~ 153 (172)
.+++
T Consensus 159 ~D~s 162 (305)
T PRK11175 159 VNVA 162 (305)
T ss_pred eCCC
Confidence 4443
No 9
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.89 E-value=4.2e-22 Score=136.53 Aligned_cols=129 Identities=20% Similarity=0.220 Sum_probs=103.0
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec-
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE- 83 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 83 (172)
+||||+|+++++..++++|..++...+++++++|+.+..............+..++..+.+.+...+. +.+++..+..
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~~~ 79 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQAERIAASL-GVPVHTIIRID 79 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHHHHHHhhhc-CCceEEEEEec
Confidence 69999999999999999999999999999999999987543221111222333445555555555554 7788877764
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEe
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIK 135 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~ 135 (172)
|++. +.|+++++++++|+||||+++++.+.+.++||. +++++++|||+++|
T Consensus 80 ~~~~-~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 80 HDIA-SGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred CCHH-HHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence 6774 999999999999999999999999888889975 99999999999986
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.86 E-value=4e-21 Score=130.71 Aligned_cols=121 Identities=17% Similarity=0.106 Sum_probs=93.9
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
+||||+|+++.+..+++||..++...+++++++||.++...... +..++..+.+.+.+++. ++++. .+..|
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~~~-------~~~~~~l~~~~~~~~~~-~~~~~-~~~~~ 71 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNRLS-------EAERRRLAEALRLAEEL-GAEVV-TLPGD 71 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCccccCC-------HHHHHHHHHHHHHHHHc-CCEEE-EEeCC
Confidence 69999999999999999999999999999999999987532111 11122233334443333 34332 23445
Q ss_pred CchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccC-CceEEEEe
Q 030760 85 DQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSF-NCRVLAIK 135 (172)
Q Consensus 85 ~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~-~~PVlvv~ 135 (172)
++ +++|.++++++++|+||||+++++++.++++||. ++++++ +|||||+.
T Consensus 72 ~~-~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 72 DV-AEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred cH-HHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence 66 5999999999999999999999999999999985 999999 99999974
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.85 E-value=2.4e-20 Score=145.03 Aligned_cols=136 Identities=21% Similarity=0.221 Sum_probs=101.4
Q ss_pred CceEEEEEecCCHH-------HHHHHHHHHHhhccC-CCEEEEEEEecCCCccc------hHHHHHHHHHHHHHHHHHHH
Q 030760 2 DVKKIVVIVEDVDA-------ARAALLWALQNLLRF-GDVVTLLHVFPSLNSRN------RKKLRLLRLKGYQLALSFKD 67 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~-------s~~al~~a~~la~~~-~~~l~~l~V~~~~~~~~------~~~~~~~~~~~~~~~~~~~~ 67 (172)
.+++||+|+|+++. +..++++|..++... +++++++||.+...... .......+....+..+.+++
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 230 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIAIELPEFDPSVYNDAIRGQHLLAMKA 230 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhccccccccchhhHHHHHHHHHHHHHHH
Confidence 36899999999865 368999999999998 99999999986432110 00111112222233344455
Q ss_pred HhhhhcCCcE-EEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCCCC
Q 030760 68 ICNDFFNTNV-EIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 68 ~~~~~~~~~~-~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~~~ 139 (172)
+.+.. ++.. ..++..|++. +.|.+++++.++||||||+++++++.++++||+ +|+++++||||++|++.+
T Consensus 231 ~~~~~-~~~~~~~~v~~G~~~-~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pVLvv~~~~~ 303 (305)
T PRK11175 231 LRQKF-GIDEEQTHVEEGLPE-EVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDLLAIKPDGY 303 (305)
T ss_pred HHHHh-CCChhheeeccCCHH-HHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCEEEEcCCCC
Confidence 54443 4443 4566789885 999999999999999999999999999999985 999999999999986543
No 12
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.82 E-value=7.7e-19 Score=118.99 Aligned_cols=128 Identities=28% Similarity=0.401 Sum_probs=99.6
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
+||||+|+++.+..++++|..+++..+++++++|+.+.................++..+.+...+. ..++++...+..|
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~ 79 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSAAELAELLEEEARALLEALREALA-EAGVKVETVVLEG 79 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHHh-cCCCceEEEEecC
Confidence 699999999999999999999999999999999998775443221111111122222222333222 3478888888899
Q ss_pred CchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEE
Q 030760 85 DQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAI 134 (172)
Q Consensus 85 ~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv 134 (172)
++. ++|.+++++.++|+||||+++++.+.+.++|+. +++++++||||++
T Consensus 80 ~~~-~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 80 DPA-EAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred CCH-HHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence 984 999999999999999999999999888888874 9999999999985
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.78 E-value=1.7e-17 Score=115.98 Aligned_cols=136 Identities=28% Similarity=0.298 Sum_probs=107.1
Q ss_pred CCceEEEEEec-CCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchH-----H------HHHHHHHHHHHHHHHHHH
Q 030760 1 MDVKKIVVIVE-DVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRK-----K------LRLLRLKGYQLALSFKDI 68 (172)
Q Consensus 1 m~~k~Ilv~~d-~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~-----~------~~~~~~~~~~~~~~~~~~ 68 (172)
+.+++|++++| +++.+..+++++..++...+..+++++|.+........ . ....+....+..+.+++.
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAEAKAL 82 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHHHHHH
Confidence 36899999999 99999999999999999999999999998775432110 0 011122233344444444
Q ss_pred hhhhcCCc-EEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCC
Q 030760 69 CNDFFNTN-VEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQP 137 (172)
Q Consensus 69 ~~~~~~~~-~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~ 137 (172)
.... +.+ +...+..|++..+.|+.++.+.++|+||||++++++++++++||. +++++++|||+++|..
T Consensus 83 ~~~~-~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pVlvv~~~ 153 (154)
T COG0589 83 AEAA-GVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRSE 153 (154)
T ss_pred HHHc-CCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCEEEEccC
Confidence 4443 555 588889999955999999999999999999999999999999975 9999999999999864
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.66 E-value=3.2e-15 Score=118.03 Aligned_cols=107 Identities=15% Similarity=0.134 Sum_probs=80.1
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccC--CCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhh-----hc
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRF--GDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICND-----FF 73 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~--~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~ 73 (172)
|+|||||||+|+|+.+.+++++|+++|+.. +++|+++||.+........ .......++..++.++..++ ..
T Consensus 3 ~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~~--~~~~~~~eelle~~~~~~~~~l~~~~~ 80 (357)
T PRK12652 3 MAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDPEG--QDELAAAEELLERVEVWATEDLGDDAS 80 (357)
T ss_pred cccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCcccccch--hHHHHHHHHHHHHHHHHHHHhhhcccC
Confidence 689999999999999999999999999884 6999999999864432221 12222233333444444332 24
Q ss_pred CCcEEEEEec--------CCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 74 NTNVEIIVTE--------GDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 74 ~~~~~~~~~~--------g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
+++++..+.. |++. +.|+++|+++++|+||||..=.
T Consensus 81 gV~ve~~vv~~~~~~~~~G~pa-e~Iv~~Aee~~aDLIVm~~~~~ 124 (357)
T PRK12652 81 SVTIETALLGTDEYLFGPGDYA-EVLIAYAEEHGIDRVVLDPEYN 124 (357)
T ss_pred CCceEEEEEeccccccCCCCHH-HHHHHHHHHcCCCEEEECCCCC
Confidence 7888888765 7885 9999999999999999998654
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.24 E-value=2e-10 Score=101.16 Aligned_cols=122 Identities=11% Similarity=0.109 Sum_probs=92.2
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCcc-chHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSR-NRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
.+||||+++++.+..+++++.++|.+.+++++++||..+.... ... ..+.+.+.+ +++++. |.+ +...
T Consensus 251 eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~~~~-------~~~~l~~~~-~lA~~l-Ga~--~~~~ 319 (895)
T PRK10490 251 DAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHRLPEK-------KRRAILSAL-RLAQEL-GAE--TATL 319 (895)
T ss_pred CeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcCCHH-------HHHHHHHHH-HHHHHc-CCE--EEEE
Confidence 5799999999999999999999999999999999999764321 111 112222222 355554 544 4455
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH--HHHhccCC-ceEEEEeCCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSH--NDISSSFN-CRVLAIKQPA 138 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs--~~i~~~~~-~PVlvv~~~~ 138 (172)
.|+.++++|+++|++++++.||||.++++.+ ++-|| +.+++.++ +.|.||+...
T Consensus 320 ~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~~ 376 (895)
T PRK10490 320 SDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALDE 376 (895)
T ss_pred eCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCCc
Confidence 5655579999999999999999999998876 44555 48999887 9999997553
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.09 E-value=2.9e-09 Score=90.38 Aligned_cols=127 Identities=18% Similarity=0.163 Sum_probs=100.3
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
.+||||++.++.+...+++|.++|.+.+++++++||..+.....+. ..........+++++. .-++....
T Consensus 249 e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~~~-------~~~~~l~~~~~Lae~l---Gae~~~l~ 318 (890)
T COG2205 249 ERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHRLSE-------KEARRLHENLRLAEEL---GAEIVTLY 318 (890)
T ss_pred ceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEeccccccccH-------HHHHHHHHHHHHHHHh---CCeEEEEe
Confidence 5899999999999999999999999999999999999886543322 1112222335555543 34556666
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH--HHHhccCC-ceEEEEeCCCCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSH--NDISSSFN-CRVLAIKQPAAS 140 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs--~~i~~~~~-~PVlvv~~~~~~ 140 (172)
|..++++|.+||+.+++.-||+|.+.++.|..++.|| +++++..+ +.|.+++.+..+
T Consensus 319 ~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~~~~ 378 (890)
T COG2205 319 GGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALDAPP 378 (890)
T ss_pred CCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCCCCc
Confidence 6666799999999999999999999999999988887 48888886 899999865544
No 17
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=98.57 E-value=4.9e-07 Score=57.28 Aligned_cols=82 Identities=18% Similarity=0.082 Sum_probs=70.0
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGD 85 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 85 (172)
|++|++++.+|..++.++.+.+ +.+..++++|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence 6899999999999999999988 456778888887
Q ss_pred chHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-H--HHHhccCCceEEE
Q 030760 86 QEGARIAALVREIGASALVVGLHDRSFLHKLAMS-H--NDISSSFNCRVLA 133 (172)
Q Consensus 86 ~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s--~~i~~~~~~PVlv 133 (172)
.....+.+.+++.++|+|++|++.....+..+.| + ..+++.++|||+.
T Consensus 35 ~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence 3348888999999999999999999888876766 4 3999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.63 E-value=0.00088 Score=59.19 Aligned_cols=133 Identities=11% Similarity=0.110 Sum_probs=81.9
Q ss_pred EEEEEecCCHHHHHHHHHHHHh--hccCCCEEEEEEEecCCCccc-------h-H-HHH---HHHHHHHHHHHHHHHHhh
Q 030760 5 KIVVIVEDVDAARAALLWALQN--LLRFGDVVTLLHVFPSLNSRN-------R-K-KLR---LLRLKGYQLALSFKDICN 70 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~l--a~~~~~~l~~l~V~~~~~~~~-------~-~-~~~---~~~~~~~~~~~~~~~~~~ 70 (172)
|||+|+...++....++.+-.. ..+..-.++++|..+-..... . . ... ......++..+.++....
T Consensus 460 riL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~~l~~h~~~~~~~~~~~~~~~~~~~i~~af~~~~~ 539 (832)
T PLN03159 460 RMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASAMLIVHNTRKSGRPALNRTQAQSDHIINAFENYEQ 539 (832)
T ss_pred eEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCccceeeeecccccccccccccccccHHHHHHHHHHh
Confidence 8999999988888888765553 233346899999987432110 0 0 000 000112233344444432
Q ss_pred hhcCCcEEEEEe--cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHh------hhhH-H-HHhccCCceEEEEeCC
Q 030760 71 DFFNTNVEIIVT--EGDQEGARIAALVREIGASALVVGLHDRSFLHKL------AMSH-N-DISSSFNCRVLAIKQP 137 (172)
Q Consensus 71 ~~~~~~~~~~~~--~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~------~~gs-~-~i~~~~~~PVlvv~~~ 137 (172)
....+.++.... ..+.-.+.|+..|+++.+++|+++-|++...++- .++. + ++++++||+|-|+=+.
T Consensus 540 ~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVgIlVDR 616 (832)
T PLN03159 540 HAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPCSVGILVDR 616 (832)
T ss_pred hcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCCCEEEEEeC
Confidence 222455554432 2334469999999999999999999987544332 2222 3 9999999999998654
No 19
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=97.32 E-value=0.0085 Score=43.36 Aligned_cols=99 Identities=17% Similarity=0.165 Sum_probs=68.2
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec-
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE- 83 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 83 (172)
+|+|++++..+|..++..+.+.....+.++.++|+...... . .....+.++.+++.. ++++......
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~~---~--------~~~~~~~~~~~~~~~-gi~~~~~~~~~ 68 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRP---E--------SDEEAEFVQQFCKKL-NIPLEIKKVDV 68 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCh---h--------HHHHHHHHHHHHHHc-CCCEEEEEecc
Confidence 58999999999999999999988777778999999865321 0 011122345555554 5555544332
Q ss_pred -------CCchH--------HHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 84 -------GDQEG--------ARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 84 -------g~~~~--------~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
+.+.. ..+.+.|++++++.|+.|.+.....+.
T Consensus 69 ~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D~~e~ 115 (189)
T TIGR02432 69 KALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADDQAET 115 (189)
T ss_pred hhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHHHHHH
Confidence 11121 478889999999999999987665544
No 20
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.19 E-value=0.017 Score=51.30 Aligned_cols=40 Identities=20% Similarity=0.233 Sum_probs=36.2
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
.+|.++.=+.++.+.|+.+|.+++...+-.++++|....+
T Consensus 631 ~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~ 670 (832)
T PLN03159 631 HHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGE 670 (832)
T ss_pred eeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEccc
Confidence 4899999999999999999999999989999999997653
No 21
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=96.97 E-value=0.024 Score=40.72 Aligned_cols=99 Identities=22% Similarity=0.235 Sum_probs=67.4
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE--Ee
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEII--VT 82 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~ 82 (172)
+|+|++++..+|..++.++.......+.++.++|+....... ..+..+.++++++.. ++++... ..
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~~~-----------~~~~~~~~~~~~~~~-~i~~~~~~~~~ 68 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRPE-----------SDEEAAFVADLCAKL-GIPLYILVVAL 68 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCch-----------HHHHHHHHHHHHHHc-CCcEEEEeecc
Confidence 589999999999999999999877667889999998663211 012233345555554 5665554 11
Q ss_pred -c--CCc--------hHHHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 83 -E--GDQ--------EGARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 83 -~--g~~--------~~~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
. +.. ....+.++|++++++.|+.|.+.....+.
T Consensus 69 ~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD~~e~ 112 (185)
T cd01992 69 APKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQAET 112 (185)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHHHHHH
Confidence 1 111 01457788999999999999987665454
No 22
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=96.86 E-value=0.019 Score=41.39 Aligned_cols=102 Identities=21% Similarity=0.244 Sum_probs=64.9
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec-
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE- 83 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 83 (172)
||+|++.+..+|...+..+..+....+-++.++||...-..... .....++++++.. +++..+....
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~~s~-----------~~~~~v~~~~~~~-~i~~~~~~~~~ 68 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLREESD-----------EEAEFVEEICEQL-GIPLYIVRIDE 68 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSCCHH-----------HHHHHHHHHHHHT-T-EEEEEE--C
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCcccc-----------hhHHHHHHHHHhc-CCceEEEEeee
Confidence 79999999999999999999999988889999999976442111 1122346666654 5665555433
Q ss_pred ----CCc--------hHHHHHHHHHHhCCCEEEEeecCCcchhHhhh
Q 030760 84 ----GDQ--------EGARIAALVREIGASALVVGLHDRSFLHKLAM 118 (172)
Q Consensus 84 ----g~~--------~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~ 118 (172)
+.. ..+.+.++|++++++.|++|.+.-...+.+++
T Consensus 69 ~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD~~ET~l~ 115 (182)
T PF01171_consen 69 DRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLDDQAETFLM 115 (182)
T ss_dssp HCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHHHHHHHHH
T ss_pred eecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCCccHHHHHH
Confidence 111 12466788999999999999997665555443
No 23
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=95.90 E-value=0.23 Score=35.52 Aligned_cols=99 Identities=15% Similarity=0.185 Sum_probs=62.6
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccC--CCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRF--GDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~--~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+|+|++.+..+|..++..+....... +-+++++|+........... .+.+++++... ++++.....
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~~~~~~~~-----------~~~~~~~~~~~-~i~~~~~~~ 68 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGYRDES-----------LEVVERLAEEL-GIELEIVSF 68 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCCCCCcHHH-----------HHHHHHHHHHc-CCceEEEeh
Confidence 58999999999999999888876544 66899999986543211111 11123333332 333333222
Q ss_pred c---------------------CCchHHHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 83 E---------------------GDQEGARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 83 ~---------------------g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
. .......+.+.|++++++.|+.|.+..-..+.
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~~c~~~r~~~l~~~a~~~g~~~l~~Gh~~dD~~et 122 (185)
T cd01993 69 KEEYTDDIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNLDDEAET 122 (185)
T ss_pred hhhcchhhhhhccCCCCCCCccHHHHHHHHHHHHHHcCCCEEEEcCChHHHHHH
Confidence 1 11123567788999999999999987654444
No 24
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=95.61 E-value=0.33 Score=37.05 Aligned_cols=100 Identities=14% Similarity=0.143 Sum_probs=65.4
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccC--CCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRF--GDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEII 80 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~--~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (172)
-.+|+|++.+..+|...+.++..+.... +-++.++|+......... + .++++|++. ++++.+.
T Consensus 29 ~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~~~~---~-----------~~~~~~~~l-gI~~~v~ 93 (258)
T PRK10696 29 GDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPGFPE---H-----------VLPEYLESL-GVPYHIE 93 (258)
T ss_pred CCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCCCCH---H-----------HHHHHHHHh-CCCEEEE
Confidence 4689999999999999999888876554 357889998754221110 0 124555553 5555433
Q ss_pred Eec-----------CC--------chHHHHHHHHHHhCCCEEEEeecCCcchhHhh
Q 030760 81 VTE-----------GD--------QEGARIAALVREIGASALVVGLHDRSFLHKLA 117 (172)
Q Consensus 81 ~~~-----------g~--------~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~ 117 (172)
-.+ +. .....+.++|++.++|.|++|.+.....+.++
T Consensus 94 ~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD~~Et~l 149 (258)
T PRK10696 94 EQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDDILETLF 149 (258)
T ss_pred EecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHHHHHHHH
Confidence 221 11 12256778899999999999999866555433
No 25
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=94.85 E-value=0.74 Score=35.63 Aligned_cols=100 Identities=18% Similarity=0.162 Sum_probs=65.5
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcE---EEE
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNV---EII 80 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~ 80 (172)
.+|+|++.+..+|..++..+.++... -.+.++||...-...... .....+.++... ++.. .+.
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~~~~~~~~-----------~~~~~~~~~~~~-~~~~~v~~~~ 87 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHGLRGYSDQ-----------EAELVEKLCEKL-GIPLIVERVT 87 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCCCCCccch-----------HHHHHHHHHHHh-CCceEEEEEE
Confidence 68999999999999999998888876 789999998775431111 111224444432 2211 111
Q ss_pred Eec--------------CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhh
Q 030760 81 VTE--------------GDQEGARIAALVREIGASALVVGLHDRSFLHKLA 117 (172)
Q Consensus 81 ~~~--------------g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~ 117 (172)
... +......+.+.|++.++|.|+.|.+.....+.++
T Consensus 88 ~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~~et~l 138 (298)
T COG0037 88 DDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQAETFL 138 (298)
T ss_pred eeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHHHHHHHH
Confidence 111 1222355778888999999999999877666543
No 26
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=94.76 E-value=0.24 Score=35.03 Aligned_cols=107 Identities=18% Similarity=0.214 Sum_probs=60.8
Q ss_pred hhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEE
Q 030760 26 NLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVV 105 (172)
Q Consensus 26 la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVm 105 (172)
.|...+.+|..+++.++...... ..-......+.+.+.++..+.....+...+..|++. +.+.+.+++.+++.|+.
T Consensus 19 ~A~~~~~~v~~vfv~d~~~~~~~---~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~~~~~~V~~ 94 (165)
T PF00875_consen 19 AAAQNGDPVLPVFVFDPEEFHPY---RIGPRRRRFLLESLADLQESLRKLGIPLLVLRGDPE-EVLPELAKEYGATAVYF 94 (165)
T ss_dssp HHHHTTSEEEEEEEE-HHGGTTC---SSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEESSHH-HHHHHHHHHHTESEEEE
T ss_pred HHHHcCCCeEEEEEecccccccc---cCcchHHHHHHHHHHHHHHHHHhcCcceEEEecchH-HHHHHHHHhcCcCeeEe
Confidence 44556788999999988621110 001122333334444444443344567888899996 99999999999999998
Q ss_pred eecCCcchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 106 GLHDRSFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 106 g~~~~~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
...-... .+-.--. ...+.+.++++..+...
T Consensus 95 ~~~~~~~-~~~rd~~v~~~l~~~~i~~~~~~~~ 126 (165)
T PF00875_consen 95 NEEYTPY-ERRRDERVRKALKKHGIKVHTFDDH 126 (165)
T ss_dssp E---SHH-HHHHHHHHHHHHHHTTSEEEEE--S
T ss_pred ccccCHH-HHHHHHHHHHHHHhcceEEEEECCc
Confidence 7653332 2211111 15566667888877644
No 27
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=94.28 E-value=0.79 Score=32.29 Aligned_cols=89 Identities=18% Similarity=0.218 Sum_probs=57.2
Q ss_pred EEEEEecC-----CHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEE
Q 030760 5 KIVVIVED-----VDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEI 79 (172)
Q Consensus 5 ~Ilv~~d~-----s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (172)
+|||-.+. ++.+..++..|.+++...|.+++++.+-+.... .+.+++.+..+ +.+--+
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g~~v~av~~G~~~~~----------------~~~l~~~l~~~-G~d~v~ 63 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEALGGEVTAVVLGPAEEA----------------AEALRKALAKY-GADKVY 63 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTTSEEEEEEEETCCCH----------------HHHHHHHHHST-TESEEE
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhcCCeEEEEEEecchhh----------------HHHHhhhhhhc-CCcEEE
Confidence 45666554 488999999999999999999999998842210 11123333322 554444
Q ss_pred EEecC-------CchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 80 IVTEG-------DQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 80 ~~~~g-------~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.+... ...++.|.+.+++.++|+|++|....
T Consensus 64 ~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~~ 101 (164)
T PF01012_consen 64 HIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTSF 101 (164)
T ss_dssp EEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSHH
T ss_pred EecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcCC
Confidence 43221 12457899999999999999997643
No 28
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=94.19 E-value=0.49 Score=34.43 Aligned_cols=115 Identities=14% Similarity=0.066 Sum_probs=66.9
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
++||++++.++-.+-++.+.+-.+.+..|.+|+++-......+ .........+.+..+.... .
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~T~~A~~f--------v~~~~~~~~~~~~~l~~~v-----~---- 63 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVGEIETHLVISQAARQT--------LAHETDFSLRDVQALADVV-----H---- 63 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEECHHHHHH--------HHHHHCCChhhHHHhcCcc-----c----
Confidence 5799999999999999999998887756777766654433111 1110000011122221110 0
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH-------HHhccCCceEEEEeC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN-------DISSSFNCRVLAIKQ 136 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~-------~i~~~~~~PVlvv~~ 136 (172)
........|..- ...+|++|+..-.-..+.++-.| ++ .+.....+|+++++.
T Consensus 64 ~~~~~~~~i~~~--s~~aD~~vIaPaTaNtlAKiA~GiaDnLlt~~a~~~L~~~~pvii~P~ 123 (185)
T PRK06029 64 DVRDIGASIASG--SFGTDGMVIAPCSMKTLAKIAHGYSDNLITRAADVMLKERRRLVLCVR 123 (185)
T ss_pred ChhhcccChhhc--CchhCEEEEeeCCHhHHHHHHccccCcHHHHHHHHHHhcCCCEEEEec
Confidence 000000111110 12479999999998888888777 32 245567899999994
No 29
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=94.10 E-value=0.32 Score=35.24 Aligned_cols=114 Identities=18% Similarity=0.148 Sum_probs=66.1
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+|||++++.++..+-++.++.-.+.+ .|.+|+++--.... +.... ..++.+. +.++.....
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~g~~V~vv~T~~A~--------~fi~~------~~l~~l~----~~~v~~~~~ 61 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTK-RGYQVTVLMTKAAT--------KFITP------LTLQVLS----KNPVHLDVM 61 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHH-CCCEEEEEEChhHH--------HHcCH------HHHHHHh----CCceEeccc
Confidence 58999999999999999888888865 47777765432221 11110 0112221 222222222
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhccC--CceEEEEeC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DISSSF--NCRVLAIKQ 136 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~~~--~~PVlvv~~ 136 (172)
..... ....+..-...+|++++..-.-..+.++-.| ++ .++... .+|+++++-
T Consensus 62 ~~~~~-~~~~hi~l~~~aD~~vIaPaTantlakiA~GiaDnllt~~~~a~~~~~pvvi~Pa 121 (182)
T PRK07313 62 DEHDP-KLMNHIELAKRADLFLVAPATANTIAKLAHGIADDLVTSVALALPATTPKLIAPA 121 (182)
T ss_pred ccccc-CCccccccccccCEEEEeeCCHhHHHHHHccccCcHHHHHHHHcCCCCCEEEEEC
Confidence 11111 1122222234589999999888888888777 22 222334 899999984
No 30
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.71 E-value=0.43 Score=39.50 Aligned_cols=91 Identities=12% Similarity=0.077 Sum_probs=60.7
Q ss_pred cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHH
Q 030760 11 EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGAR 90 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 90 (172)
|+--....+|..|++.+...+.+|.++++.++..... -..+...+.+.++++.++.....+...+..|++. +.
T Consensus 32 DLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~------~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~-~~ 104 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAA------TRRHYFFMLGGLDEVANECERLIIPFHLLDGPPK-EL 104 (454)
T ss_pred chhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccc------cHHHHHHHHHHHHHHHHHHHHcCCceEEeecChH-HH
Confidence 5544556778888877666677899999998753321 1122333334444444432234455567789996 99
Q ss_pred HHHHHHHhCCCEEEEeec
Q 030760 91 IAALVREIGASALVVGLH 108 (172)
Q Consensus 91 I~~~a~~~~~DllVmg~~ 108 (172)
|.+.+++.+++.|+.-..
T Consensus 105 l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 105 LPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred HHHHHHHcCCCEEEEecc
Confidence 999999999999998874
No 31
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=93.65 E-value=1.3 Score=33.74 Aligned_cols=89 Identities=15% Similarity=0.106 Sum_probs=55.5
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+++++|++.+.-+|..++.++.+. |..+..+|+..+... ... . +.++++++.. +++....-.
T Consensus 12 ~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~~~~~~--~~e---~--------~~a~~~a~~l-gi~~~ii~~ 73 (252)
T TIGR00268 12 FKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVVSPSIS--PRE---L--------EDAIIIAKEI-GVNHEFVKI 73 (252)
T ss_pred cCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEecCCCCC--HHH---H--------HHHHHHHHHc-CCCEEEEEc
Confidence 578999999999999999888765 667999999754211 110 0 1113333332 333332211
Q ss_pred c-----------------CCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 83 E-----------------GDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 83 ~-----------------g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
. .......+.++|++.+++.|+.|.+.
T Consensus 74 ~~~~~~~~~n~~~~c~~ck~~~~~~l~~~A~~~g~~~I~~G~n~ 117 (252)
T TIGR00268 74 DKMINPFRANVEERCYFCKKMVLSILVKEAEKRGYDVVVDGTNA 117 (252)
T ss_pred HHHHHHHHhCCCcccchhhHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 1 11223567788999999999999854
No 32
>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal. In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.
Probab=93.38 E-value=0.48 Score=34.18 Aligned_cols=112 Identities=19% Similarity=0.143 Sum_probs=63.6
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
|||++++.++..+-++.++.-.+.+ .|.+|+++--.... +.... ..++.+. +.++......
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~~-~g~~V~vi~T~~A~--------~fi~~------~~l~~l~----~~~v~~~~~~ 61 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLTK-LGYDVTVLMTQAAT--------QFITP------LTLQVLS----KNPVHLDVMD 61 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHHH-CCCEEEEEEChHHH--------hhccH------hhHHHHh----CCCeEeeccc
Confidence 6899999999999999877666654 47777765532221 11110 0122221 2223222221
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhc--cCCceEEEEe
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DISS--SFNCRVLAIK 135 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~--~~~~PVlvv~ 135 (172)
.... ..+.+..-...+|++|+..-.-..+.++-.| ++ .+.. ...+||++++
T Consensus 62 ~~~~-~~~~hi~l~~~aD~~vVaPaSanTlakiA~GiaDnLlt~~a~a~~~~~pv~i~P 119 (177)
T TIGR02113 62 EHDP-KVINHIELAKKADLFLVAPASANTIAHLAHGFADNIVTSVALALPPETPKLIAP 119 (177)
T ss_pred cccC-CCcccceechhhCEEEEEeCCHHHHHHHHcCcCCcHHHHHHHHcCCCCCEEEEe
Confidence 1111 1222222234589999999888888887777 22 2222 3479999998
No 33
>PRK12342 hypothetical protein; Provisional
Probab=93.25 E-value=0.97 Score=34.59 Aligned_cols=81 Identities=22% Similarity=0.106 Sum_probs=53.5
Q ss_pred cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHH-HHhhhhcCCcEEEEEe----cCC
Q 030760 11 EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFK-DICNDFFNTNVEIIVT----EGD 85 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~----~g~ 85 (172)
-.++....|++.|+++. .+|.+|+++++-++... +. ..++ .+.. |.+=-+++. .|.
T Consensus 32 ~iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a~---------~~------~l~r~alam---GaD~avli~d~~~~g~ 92 (254)
T PRK12342 32 KISQFDLNAIEAASQLA-TDGDEIAALTVGGSLLQ---------NS------KVRKDVLSR---GPHSLYLVQDAQLEHA 92 (254)
T ss_pred cCChhhHHHHHHHHHHh-hcCCEEEEEEeCCChHh---------HH------HHHHHHHHc---CCCEEEEEecCccCCC
Confidence 46788999999999999 68999999999987210 00 0001 1221 333223332 233
Q ss_pred ch---HHHHHHHHHHhCCCEEEEeecCC
Q 030760 86 QE---GARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 86 ~~---~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.. +..|...++..++|||+.|....
T Consensus 93 D~~ata~~La~~i~~~~~DLVl~G~~s~ 120 (254)
T PRK12342 93 LPLDTAKALAAAIEKIGFDLLLFGEGSG 120 (254)
T ss_pred CHHHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 22 47888888988999999997664
No 34
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=93.21 E-value=1.3 Score=34.74 Aligned_cols=94 Identities=12% Similarity=0.089 Sum_probs=61.2
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+.++++++.+..+|...+..+.+.....+-++.++|+.....+ ++..+.. .+.+++. ++++.....
T Consensus 27 f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iDTG~~F--pEt~ef~-----------d~~a~~~-gl~l~v~~~ 92 (301)
T PRK05253 27 FENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDTGWKF--PEMIEFR-----------DRRAKEL-GLELIVHSN 92 (301)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEeCCCCC--HHHHHHH-----------HHHHHHh-CCCEEEEeC
Confidence 5789999999999999999997765544557899999877542 1111111 2233333 455544321
Q ss_pred -----cC-------------CchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 83 -----EG-------------DQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 83 -----~g-------------~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.| ......+.+.++++++|.++.|.+.-
T Consensus 93 ~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrD 138 (301)
T PRK05253 93 PEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRD 138 (301)
T ss_pred hHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccc
Confidence 11 11125677888889999999999874
No 35
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=92.94 E-value=0.69 Score=38.58 Aligned_cols=112 Identities=17% Similarity=0.107 Sum_probs=69.4
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
.++|++++.++-.+-++.+++-.+.+ .|.+|+++....... ..... .++.+. +.++-....
T Consensus 70 ~k~IllgVtGsIAayka~~lvr~L~k-~G~~V~VvmT~sA~~--------fv~p~------~~~~ls----~~~V~~d~~ 130 (475)
T PRK13982 70 SKRVTLIIGGGIAAYKALDLIRRLKE-RGAHVRCVLTKAAQQ--------FVTPL------TASALS----GQRVYTDLF 130 (475)
T ss_pred CCEEEEEEccHHHHHHHHHHHHHHHh-CcCEEEEEECcCHHH--------HhhHH------HHHHhc----CCceEecCC
Confidence 58999999999999999998888865 477877776443211 11110 112221 222222221
Q ss_pred cCCchHHHH--HHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhccCCceEEEEeC
Q 030760 83 EGDQEGARI--AALVREIGASALVVGLHDRSFLHKLAMS-HN----DISSSFNCRVLAIKQ 136 (172)
Q Consensus 83 ~g~~~~~~I--~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~~~~~PVlvv~~ 136 (172)
..... ..+ ++.++ .+|++|+..-.-..+.++-.| ++ .++....+||++++-
T Consensus 131 ~~~~~-~~~~Hi~la~--~aD~~vVAPATANTIAKiA~GiADnLlt~v~La~~~PvliaPa 188 (475)
T PRK13982 131 DPESE-FDAGHIRLAR--DCDLIVVAPATADLMAKMANGLADDLASAILLAANRPILLAPA 188 (475)
T ss_pred Ccccc-cCccchhhhh--hcCEEEEeeCCHHHHHHHHccccCcHHHHHHHhcCCCEEEEEc
Confidence 11110 112 22333 389999999998888888777 22 666778999999983
No 36
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=92.80 E-value=0.55 Score=38.34 Aligned_cols=115 Identities=18% Similarity=0.132 Sum_probs=68.6
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEII 80 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (172)
|..++|++++.++-.+-.+.++.-.+.+ .|.+|+++-..... +.... ..++.+. +.++-..
T Consensus 4 l~~k~IllgvTGsiaa~k~~~lv~~L~~-~g~~V~vv~T~~A~--------~fi~~------~~l~~l~----~~~V~~~ 64 (399)
T PRK05579 4 LAGKRIVLGVSGGIAAYKALELVRRLRK-AGADVRVVMTEAAK--------KFVTP------LTFQALS----GNPVSTD 64 (399)
T ss_pred CCCCeEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEECHhHH--------HHHhH------HHHHHhh----CCceEcc
Confidence 3568999999999999999888877765 57777766533221 11111 0122222 2222111
Q ss_pred EecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhccCCceEEEEe
Q 030760 81 VTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DISSSFNCRVLAIK 135 (172)
Q Consensus 81 ~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~~~~~PVlvv~ 135 (172)
....... ..+.+..-...+|++|+..-.-..+.++-.| ++ .++..+++||++++
T Consensus 65 ~~~~~~~-~~~~hi~l~~~aD~~vVaPaTaNtlaKiA~GiaDnllt~~~la~~~pvvi~P 123 (399)
T PRK05579 65 LWDPAAE-AAMGHIELAKWADLVLIAPATADLIAKLAHGIADDLLTTTLLATTAPVLVAP 123 (399)
T ss_pred ccccccC-CCcchhhcccccCEEEEeeCCHHHHHHHHcccCCcHHHHHHHhcCCCEEEEe
Confidence 1111110 1111222223589999999998889988887 22 66666799999998
No 37
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=92.77 E-value=1.1 Score=36.99 Aligned_cols=102 Identities=15% Similarity=0.134 Sum_probs=61.1
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhh-ccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNL-LRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIV 81 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la-~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (172)
.++|+|++.+..+|...+..+..+. ...+-+++++||...-.... .+..+.++++|++. +++....-
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhglr~~s-----------~~~~~~~~~~~~~l-~i~~~~~~ 82 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHGLSPNA-----------DSWVKHCEQVCQQW-QVPLVVER 82 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCCCCcch-----------HHHHHHHHHHHHHc-CCcEEEEE
Confidence 3789999999999999999888765 33467999999986643211 11123356677664 66665543
Q ss_pred ec----CCchHHHHHHHHHH-------hCCCEEEEeecCCcchhHhh
Q 030760 82 TE----GDQEGARIAALVRE-------IGASALVVGLHDRSFLHKLA 117 (172)
Q Consensus 82 ~~----g~~~~~~I~~~a~~-------~~~DllVmg~~~~~~~~~~~ 117 (172)
.. +... +...+.++. ...+.|+.|.|.-...+.++
T Consensus 83 ~~~~~~~~~~-e~~AR~~Ry~~~~~~~~~~~~l~~aHh~DDq~ET~L 128 (436)
T PRK10660 83 VQLDQRGLGI-EAAARQARYQAFARTLLPGEVLVTAQHLDDQCETFL 128 (436)
T ss_pred EeccCCCCCH-HHHHHHHHHHHHHHHHHhCCEEEEcCchHHHHHHHH
Confidence 32 2222 333222211 12477777777655444443
No 38
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=92.65 E-value=1.7 Score=33.34 Aligned_cols=84 Identities=19% Similarity=0.087 Sum_probs=54.3
Q ss_pred cCCHHHHHHHHHHHHhhccCC-CEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec----C-
Q 030760 11 EDVDAARAALLWALQNLLRFG-DVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE----G- 84 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~-~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----g- 84 (172)
-.++....|++.|+++..+.+ .+|+++++-++..... .. +++.... |.+=-+++.. |
T Consensus 33 ~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a~~~----~~-----------lr~aLAm--GaD~avli~d~~~~g~ 95 (256)
T PRK03359 33 KISQYDLNAIEAACQLKQQAAEAQVTALSVGGKALTNA----KG-----------RKDVLSR--GPDELIVVIDDQFEQA 95 (256)
T ss_pred ccChhhHHHHHHHHHHhhhcCCCEEEEEEECCcchhhH----HH-----------HHHHHHc--CCCEEEEEecCcccCc
Confidence 357889999999999998875 8999999998732100 11 1211111 3332223321 2
Q ss_pred C--chHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 85 D--QEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 85 ~--~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
+ ..+..|...+++.++|||++|.....
T Consensus 96 D~~~tA~~La~ai~~~~~DLVl~G~~s~D 124 (256)
T PRK03359 96 LPQQTASALAAAAQKAGFDLILCGDGSSD 124 (256)
T ss_pred CHHHHHHHHHHHHHHhCCCEEEEcCcccc
Confidence 1 22477888888889999999987643
No 39
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=92.56 E-value=1.1 Score=34.34 Aligned_cols=83 Identities=19% Similarity=0.195 Sum_probs=55.5
Q ss_pred EecCCHHHHHHHHHHHHhhc-cCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe----c
Q 030760 9 IVEDVDAARAALLWALQNLL-RFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT----E 83 (172)
Q Consensus 9 ~~d~s~~s~~al~~a~~la~-~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~ 83 (172)
+...++....|++.|+++.. .++.+|+++++-++.. .+. +++... -|.+=-+++. .
T Consensus 32 ~~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~~a------~~~-----------lr~aLA--mGaDraili~d~~~~ 92 (260)
T COG2086 32 PLSINPFDLNAVEEALRLKEKGYGGEVTVLTMGPPQA------EEA-----------LREALA--MGADRAILITDRAFA 92 (260)
T ss_pred CcccChhhHHHHHHHHHhhccCCCceEEEEEecchhh------HHH-----------HHHHHh--cCCCeEEEEeccccc
Confidence 34456889999999999998 6899999999997721 111 122111 1333333332 1
Q ss_pred ---CCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 84 ---GDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 84 ---g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.-..+..|...++..+.|||++|...-
T Consensus 93 ~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~ 122 (260)
T COG2086 93 GADPLATAKALAAAVKKIGPDLVLTGKQAI 122 (260)
T ss_pred CccHHHHHHHHHHHHHhcCCCEEEEecccc
Confidence 223357888899999999999998653
No 40
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=92.42 E-value=0.34 Score=31.56 Aligned_cols=44 Identities=18% Similarity=0.188 Sum_probs=31.7
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEE
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVL 132 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVl 132 (172)
.-... ++|.++|+++++|++|+|.. .-+..|-.+.++...+||+
T Consensus 47 ~~~d~-~~l~~~a~~~~idlvvvGPE-----~pL~~Gl~D~l~~~gi~vf 90 (100)
T PF02844_consen 47 DITDP-EELADFAKENKIDLVVVGPE-----APLVAGLADALRAAGIPVF 90 (100)
T ss_dssp -TT-H-HHHHHHHHHTTESEEEESSH-----HHHHTTHHHHHHHTT-CEE
T ss_pred CCCCH-HHHHHHHHHcCCCEEEECCh-----HHHHHHHHHHHHHCCCcEE
Confidence 45554 99999999999999999943 4455665577777777775
No 41
>PRK13820 argininosuccinate synthase; Provisional
Probab=92.14 E-value=3.2 Score=33.86 Aligned_cols=38 Identities=16% Similarity=0.112 Sum_probs=31.3
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCCC-EEEEEEEecC
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFGD-VVTLLHVFPS 42 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~-~l~~l~V~~~ 42 (172)
++++|++++.+.-+|..++.++.+ ..+. +++++|+...
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e---~~g~~~Viav~vd~g 39 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKE---KYGYDEVITVTVDVG 39 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHH---hcCCCEEEEEEEECC
Confidence 468999999999999999998754 2464 8999999864
No 42
>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN []. This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance []. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC [].; GO: 0003824 catalytic activity; PDB: 3QJG_L 1G63_G 1G5Q_L 1P3Y_1 1QZU_A 1E20_A 1MVN_A 1MVL_A 3ZQU_A 2EJB_A ....
Probab=92.01 E-value=0.17 Score=34.36 Aligned_cols=106 Identities=21% Similarity=0.101 Sum_probs=62.5
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE---
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEII--- 80 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--- 80 (172)
|||++++.++.....+.++..++.+. |.+|+++--... .+..... . .. ..++...
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g~~v~vv~S~~A--------~~~~~~~--------~-~~----~~~v~~~~~~ 58 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-GWEVRVVLSPSA--------ERFVTPE--------G-LT----GEPVYTDWDT 58 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-TSEEEEEESHHH--------HHHSHHH--------G-HC----CSCEECTHCT
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-CCEEEEEECCcH--------HHHhhhh--------c-cc----cchhhhcccc
Confidence 69999999999988888888888776 767555432211 1111111 0 10 1111111
Q ss_pred EecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhccC---CceEEEEe
Q 030760 81 VTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DISSSF---NCRVLAIK 135 (172)
Q Consensus 81 ~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~~~---~~PVlvv~ 135 (172)
...+... ..+ +. ...+|++|+..-....+.++-.| ++ .++..+ +.||++++
T Consensus 59 ~~~~~~~-~~~-~~--~~~~D~~vVaPaT~NtlaKiA~GiaD~l~~~~~~~~l~~~~pvvi~P 117 (129)
T PF02441_consen 59 WDRGDPA-EHI-EL--SRWADAMVVAPATANTLAKIANGIADNLLTRVALAALKEGKPVVIAP 117 (129)
T ss_dssp CSTTTTT-CHH-HH--HHTESEEEEEEEEHHHHHHHHTT--SSHHHHHHHHHHHTTCGEEEEE
T ss_pred CCCCCCc-Ccc-cc--cccCCEEEEcccCHHHHHHHHhCCcchHHHHHHHHHccCCCCeEEEE
Confidence 1123332 332 22 33489999999888888888888 32 555556 99999987
No 43
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=91.32 E-value=4.1 Score=33.47 Aligned_cols=96 Identities=19% Similarity=0.194 Sum_probs=56.1
Q ss_pred cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccch---HHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCch
Q 030760 11 EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNR---KKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQE 87 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 87 (172)
|+--....+|..|+.. +.+|..|+|.++...... .....-......+.+.++++.++.....+...+..|++.
T Consensus 10 DLRl~DN~aL~~A~~~----~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~G~~~ 85 (429)
T TIGR02765 10 DLRVHDNPALYKASSS----SDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRSGKPE 85 (429)
T ss_pred CCccccHHHHHHHHhc----CCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEeCCHH
Confidence 4433445566666543 347999999987432210 000011222233334444444442234455567789996
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCc
Q 030760 88 GARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
+.|.+.+++.+++.|+.-..-..
T Consensus 86 -~vl~~L~~~~~~~~V~~~~~~~~ 108 (429)
T TIGR02765 86 -DVLPELIKELGVRTVFLHQEVGS 108 (429)
T ss_pred -HHHHHHHHHhCCCEEEEeccCCH
Confidence 99999999999999998866443
No 44
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit. Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.
Probab=90.63 E-value=3.5 Score=30.05 Aligned_cols=114 Identities=13% Similarity=0.042 Sum_probs=62.2
Q ss_pred eEEEEEecCCHHHHHHH-HHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 4 KKIVVIVEDVDAARAAL-LWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al-~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+||++++.++..+-.+. +..-.+. +.|.+|+++--...... ...+.. ..+....++.+. +..+.....
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L~-~~g~~V~vI~S~~A~~~-----~~~~g~-~~~~i~~l~~~t----g~~v~~~~~ 69 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKLV-DEGAEVTPIVSETVQTT-----DTRFGK-GADWIKKIEEIT----GRPAINTIV 69 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHHH-hCcCEEEEEEchhHHHH-----HHHcCC-hHHHHHHHHHHH----CCCCEEECC
Confidence 68999999999999996 6555554 45888776653322100 000000 001111223332 222221111
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH-------HHhccCCceEEEEe
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN-------DISSSFNCRVLAIK 135 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~-------~i~~~~~~PVlvv~ 135 (172)
...+. .. ...+|.+|+..-.-..+.++-.| ++ ...-+-.+||++++
T Consensus 70 ~~~~~-~~------s~~~D~mVIaPcTanTLAKiA~GiaDnlv~~aa~a~Lke~rPlvlaP 123 (187)
T TIGR02852 70 EAEPF-GP------KVPLDCMVIAPLTGNSMSKLANAMTDSPVLMAAKATLRNNKPVVLAI 123 (187)
T ss_pred CCccc-CC------chhhCEEEEEeCCHhHHHHHHccccCcHHHHHHHHHhcCCCCEEEEE
Confidence 22221 11 35589999998888888888777 32 22224479999997
No 45
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=90.13 E-value=5.7 Score=28.86 Aligned_cols=89 Identities=18% Similarity=0.188 Sum_probs=53.8
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe---
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT--- 82 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--- 82 (172)
|+|++.+..+|..++.++.+.. +..++.+|+...... .. . .+.++.+++.. +++....-.
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~---~~~v~~v~vd~g~~~--~~---~--------~~~~~~~a~~l-gi~~~~~~~~~~ 63 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL---GDRVLAVTATSPLFP--RR---E--------LEEAKRLAKEI-GIRHEVIETDEL 63 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh---CCcEEEEEeCCCCCC--HH---H--------HHHHHHHHHHc-CCcEEEEeCCcc
Confidence 6899999999999988876653 237889999865321 11 1 11123333332 333322211
Q ss_pred ---------------cCCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 83 ---------------EGDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 83 ---------------~g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
........+.++|++.+++.|+.|.+...
T Consensus 64 ~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~dD 107 (202)
T cd01990 64 DDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNADD 107 (202)
T ss_pred ccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCcccc
Confidence 11222356778899999999999987543
No 46
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=89.92 E-value=2.6 Score=33.17 Aligned_cols=64 Identities=11% Similarity=0.100 Sum_probs=43.6
Q ss_pred hhcCCcEEEE--EecCCchHHHHHHHHHHh-------CCCEEEEeecCCcchhHhhhhHH---HHhccCCceEEEE
Q 030760 71 DFFNTNVEII--VTEGDQEGARIAALVREI-------GASALVVGLHDRSFLHKLAMSHN---DISSSFNCRVLAI 134 (172)
Q Consensus 71 ~~~~~~~~~~--~~~g~~~~~~I~~~a~~~-------~~DllVmg~~~~~~~~~~~~gs~---~i~~~~~~PVlvv 134 (172)
+.+.+++... .+-|...+..|++..+.. ++|+||+++.|.+..+=+.|.+. .-+..+++||+.=
T Consensus 38 r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~eDL~~FN~e~varai~~~~~Pvisa 113 (319)
T PF02601_consen 38 RNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGSIEDLWAFNDEEVARAIAASPIPVISA 113 (319)
T ss_pred hCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCCChHHhcccChHHHHHHHHhCCCCEEEe
Confidence 3445555544 345776668888777765 48999999988885443346664 7777889998764
No 47
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=89.66 E-value=1.7 Score=36.23 Aligned_cols=91 Identities=15% Similarity=0.122 Sum_probs=53.8
Q ss_pred cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHH
Q 030760 11 EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGAR 90 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 90 (172)
|+--....+|..|+. .+.+|.++++.++........ -......+.+.+.++.++.....+...+..|++. +.
T Consensus 10 DLRl~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~---~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~p~-~v 81 (471)
T TIGR03556 10 DLRLSDNIGLAAARQ----QSAKVVGLFCLDPNILQADDM---APARVAYLIGCLQELQQRYQQAGSQLLILQGDPV-QL 81 (471)
T ss_pred CCCcchHHHHHHHHh----cCCCEEEEEEEchhhhccccC---CHHHHHHHHHHHHHHHHHHHHCCCCeEEEECCHH-HH
Confidence 333334455665553 456799999998743221110 0111233334444444432233455677789997 99
Q ss_pred HHHHHHHhCCCEEEEeecC
Q 030760 91 IAALVREIGASALVVGLHD 109 (172)
Q Consensus 91 I~~~a~~~~~DllVmg~~~ 109 (172)
+.+.+++.+++.|+.-..-
T Consensus 82 l~~l~~~~~~~~V~~~~~~ 100 (471)
T TIGR03556 82 IPQLAQQLGAKAVYWNLDV 100 (471)
T ss_pred HHHHHHHcCCCEEEEeccc
Confidence 9999999999999976553
No 48
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=89.54 E-value=5.2 Score=27.61 Aligned_cols=38 Identities=18% Similarity=0.209 Sum_probs=30.3
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
+|+|++.+..+|...+..+.+...+. ..+.++|+....
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~dtg~ 38 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLDTGY 38 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeCCCC
Confidence 58999999999999999887765433 478889988764
No 49
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=88.64 E-value=8.1 Score=30.55 Aligned_cols=43 Identities=19% Similarity=0.097 Sum_probs=35.5
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCc
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNS 45 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~ 45 (172)
+.++++++.+..+|...+..+.+.....+-++-++||.+...+
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VDTG~~F 79 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVDTTWKF 79 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeCCCCCC
Confidence 5678999999999999999998887655667899999877543
No 50
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=88.16 E-value=6.1 Score=32.25 Aligned_cols=115 Identities=10% Similarity=0.072 Sum_probs=67.3
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEII 80 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (172)
+.-++|++++.++..+-.+++++..+.+ .|.+|+++--... .+..... .+..+. +.++...
T Consensus 1 l~~k~IllgiTGSiaa~~~~~ll~~L~~-~g~~V~vv~T~~A--------~~fv~~~------~l~~~~----~~~v~~~ 61 (390)
T TIGR00521 1 LENKKILLGVTGGIAAYKTVELVRELVR-QGAEVKVIMTEAA--------KKFITPL------TLEALS----GHKVVTE 61 (390)
T ss_pred CCCCEEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEECHhH--------HHHHHHH------HHHHhh----CCceeeh
Confidence 3568999999999999999998888754 4777776542221 1111110 112221 2222111
Q ss_pred EecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhccCCceEEEEeC
Q 030760 81 VTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DISSSFNCRVLAIKQ 136 (172)
Q Consensus 81 ~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~~~~~PVlvv~~ 136 (172)
....... ... +..-...+|++|+..-.-..+.++-.| ++ .++..+.+|+++++-
T Consensus 62 ~~~~~~~-~~~-hi~l~~~aD~~vVaPaTanTlaKiA~GiaDnLlt~~~~~~~~plviaPa 120 (390)
T TIGR00521 62 LWGPIEH-NAL-HIDLAKWADLILIAPATANTISKIAHGIADDLVSTTALAASAPIILAPA 120 (390)
T ss_pred hcccccc-ccc-hhhcccccCEEEEecCCHHHHHHHHcccCCcHHHHHHHHhCCCEEEEeC
Confidence 1111110 111 333334689999999888888888777 22 444555699999985
No 51
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases. In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.
Probab=87.67 E-value=2.3 Score=30.83 Aligned_cols=113 Identities=11% Similarity=0.044 Sum_probs=63.3
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
||++++.++-.+-++.+.+-.+.+ .|.+|+++-......+...+. ..-...+..+...... ..+. .
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~~-~g~~V~vv~T~~A~~fv~~e~--------~~~~~~l~~~~~~~~~-~~~~----~ 66 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLKE-AGVEVHLVISDWAKETIKYET--------DIDPGEVEELATKYYD-ADDF----A 66 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHHH-CCCEEEEEECccHHHHHHHHH--------CCCHHHHHHHhhhhCC-Cccc----c
Confidence 689999999999999998888865 467776665543322211100 0000111111111100 0000 0
Q ss_pred CchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----H---HhccCCceEEEEeCC
Q 030760 85 DQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----D---ISSSFNCRVLAIKQP 137 (172)
Q Consensus 85 ~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~---i~~~~~~PVlvv~~~ 137 (172)
.. +..- ...+|++|+..-.-..+.++-.| ++ . +.-+..+|+++++..
T Consensus 67 ~~----i~~~--s~~aD~~vIaPATantiAkiA~GiaD~Llt~~a~~~L~~~~pv~i~P~~ 121 (181)
T TIGR00421 67 AP----IASG--SFPFDGMVVVPCSMKTLSAIANGYADNLITRAADVCLKERRKLVLVPRE 121 (181)
T ss_pred cc----cccC--CchhCEEEEecCCHhHHHHHHcccCCCHHHHHHHHHHhcCCCEEEEeCC
Confidence 01 0000 23489999999888888887777 32 2 355678999999943
No 52
>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI. The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.
Probab=86.99 E-value=15 Score=29.75 Aligned_cols=35 Identities=17% Similarity=0.243 Sum_probs=28.9
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.++++++.+.-+|..++.++.+ .|.+++++|+...
T Consensus 173 ~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~~~ 207 (371)
T TIGR00342 173 GKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFFNE 207 (371)
T ss_pred CeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEeCC
Confidence 5899999999999988877755 3789999999854
No 53
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=86.90 E-value=4.7 Score=33.26 Aligned_cols=62 Identities=23% Similarity=0.273 Sum_probs=42.8
Q ss_pred hcCCcEEEE--EecCCchHHHHHHHHHHhCC---CEEEEeecCCcchhHhh-hhHH---HHhccCCceEEEE
Q 030760 72 FFNTNVEII--VTEGDQEGARIAALVREIGA---SALVVGLHDRSFLHKLA-MSHN---DISSSFNCRVLAI 134 (172)
Q Consensus 72 ~~~~~~~~~--~~~g~~~~~~I~~~a~~~~~---DllVmg~~~~~~~~~~~-~gs~---~i~~~~~~PVlvv 134 (172)
++.+++... .+-|......|++..+..+. |+||+++.|.+ ++.++ |... .-+..+++||+.=
T Consensus 160 ~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS-~eDL~~Fn~e~v~~ai~~~~~Pvis~ 230 (438)
T PRK00286 160 FPLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGGS-LEDLWAFNDEAVARAIAASRIPVISA 230 (438)
T ss_pred CCCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCC-HHHhhccCcHHHHHHHHcCCCCEEEe
Confidence 444454444 24477666888887766554 99999998887 45554 5553 7778889998875
No 54
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=86.89 E-value=6.7 Score=32.20 Aligned_cols=23 Identities=22% Similarity=0.369 Sum_probs=19.6
Q ss_pred CchHHHHHHHHHHhCCCEEEEeec
Q 030760 85 DQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 85 ~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
... +.|+++|+++++||+|+|..
T Consensus 50 ~~~-~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 50 TDH-EALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred cCH-HHHHHHHHHcCCCEEEECCc
Confidence 344 89999999999999999964
No 55
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=86.28 E-value=12 Score=31.01 Aligned_cols=97 Identities=15% Similarity=0.034 Sum_probs=63.8
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGD 85 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 85 (172)
.+|...++--+..+-..|..+.+ .+-.+-++...... -.+.++++.+..+. ++++=......+
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~R---------------pAA~eQL~~La~q~-~v~~f~~~~~~~ 166 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYR---------------PAAIEQLKQLAEQV-GVPFFGSGTEKD 166 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCC---------------hHHHHHHHHHHHHc-CCceecCCCCCC
Confidence 35667888778888888888888 67777777665542 22334456666543 333322211223
Q ss_pred ch--HHHHHHHHHHhCCCEEEEeecCCcchhHhhhh
Q 030760 86 QE--GARIAALVREIGASALVVGLHDRSFLHKLAMS 119 (172)
Q Consensus 86 ~~--~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g 119 (172)
|+ +..-++.+++.++|+||+-+.+|-.++.-++.
T Consensus 167 Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~ 202 (451)
T COG0541 167 PVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMD 202 (451)
T ss_pred HHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHH
Confidence 32 24557788889999999999999988876654
No 56
>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group..
Probab=86.20 E-value=6.8 Score=25.13 Aligned_cols=77 Identities=13% Similarity=0.136 Sum_probs=52.4
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGD 85 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 85 (172)
|+|++.+..+|...+..+.+.. .++.++|+...... .. +. .++.+++
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~~----~~~~~~~~~~~~~~---~~-~~-----------~~~~~~~-------------- 47 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKLG----YQVIAVTVDHGISP---RL-ED-----------AKEIAKE-------------- 47 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHhC----CCEEEEEEcCCCcc---cH-HH-----------HHHHHHH--------------
Confidence 5899999999999888887753 26899999877442 10 01 1111111
Q ss_pred chHHHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 86 QEGARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 86 ~~~~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
...+.+.+.+++.+++.|+.|.+.....+.
T Consensus 48 ~r~~~~~~~a~~~g~~~i~~g~~~~D~~~~ 77 (103)
T cd01986 48 AREEAAKRIAKEKGAETIATGTRRDDVANR 77 (103)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCcchHHHH
Confidence 334788888889999999999887654443
No 57
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=86.16 E-value=11 Score=27.52 Aligned_cols=95 Identities=16% Similarity=0.077 Sum_probs=56.9
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGD 85 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 85 (172)
++|.-.+.--+..+.+.|..+..+ +..|-++....... ...++++.+++.. ++++.......+
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~---------------ga~eQL~~~a~~l-~vp~~~~~~~~~ 67 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRI---------------GAVEQLKTYAEIL-GVPFYVARTESD 67 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSST---------------HHHHHHHHHHHHH-TEEEEESSTTSC
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCc---------------cHHHHHHHHHHHh-ccccchhhcchh
Confidence 455566777778888889888887 88888888765532 1223345555543 444333222223
Q ss_pred chHHH---HHHHHHHhCCCEEEEeecCCcchhHhhh
Q 030760 86 QEGAR---IAALVREIGASALVVGLHDRSFLHKLAM 118 (172)
Q Consensus 86 ~~~~~---I~~~a~~~~~DllVmg~~~~~~~~~~~~ 118 (172)
+. +. .++..+..++|+|++-+.|++.......
T Consensus 68 ~~-~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~ 102 (196)
T PF00448_consen 68 PA-EIAREALEKFRKKGYDLVLIDTAGRSPRDEELL 102 (196)
T ss_dssp HH-HHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHH
T ss_pred hH-HHHHHHHHHHhhcCCCEEEEecCCcchhhHHHH
Confidence 32 33 3445556789999999999987665433
No 58
>TIGR02039 CysD sulfate adenylyltransferase, small subunit. In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.
Probab=85.93 E-value=15 Score=28.81 Aligned_cols=93 Identities=11% Similarity=0.049 Sum_probs=59.2
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+.++++++.+..+|...+..+.+.....+-++.++|+.....+ ++..+..+ +.++.. ++++.+...
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~IDTG~~F--~Et~efrd-----------~~a~~~-gl~l~v~~~ 84 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDTGWKF--REMIAFRD-----------HMVAKY-GLRLIVHSN 84 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEecCCCC--HHHHHHHH-----------HHHHHh-CCCEEEEec
Confidence 5677889999999999999998876654567999999887542 11112211 122222 333333211
Q ss_pred ------------------cCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 83 ------------------EGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 83 ------------------~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
.+....+.+.+.+++++.|.++.|.+.
T Consensus 85 ~~~~~~g~~~~~~~~~~~c~vlK~~pL~~al~e~g~da~itG~RR 129 (294)
T TIGR02039 85 EEGIADGINPFTEGSALHTDIMKTEALRQALDKNQFDAAFGGARR 129 (294)
T ss_pred hhhhhcCccccccChHHHhhHHHHHHHHHHHHHcCCCEEEecCCh
Confidence 111112457778888999999999876
No 59
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=84.95 E-value=11 Score=26.57 Aligned_cols=66 Identities=17% Similarity=0.284 Sum_probs=45.4
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHHHHHH---HhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIAALVR---EIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~---~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
...++.+ +++++..+..-+--.+.+.++++ +.+++.+|.+......+.. -+.-++..||+-+|.+.
T Consensus 18 ~~~L~~~-gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg------vva~~t~~PVIgvP~~~ 86 (156)
T TIGR01162 18 ADILEEF-GIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG------MVAALTPLPVIGVPVPS 86 (156)
T ss_pred HHHHHHc-CCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH------HHHhccCCCEEEecCCc
Confidence 3333444 88888888753222266666654 4678999988877776666 55677899999998754
No 60
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=84.50 E-value=6.1 Score=32.27 Aligned_cols=113 Identities=12% Similarity=0.042 Sum_probs=69.6
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEE
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIV 81 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (172)
.-|+|++++.++-.+-++++.+-.+-+ .|+.+.++.......+..+... +.+. + +..++ .
T Consensus 3 ~~k~ill~v~gsiaayk~~~l~r~L~~-~ga~v~vvmt~~a~~fv~p~~~--------------~~~s-~--~~v~t--~ 62 (392)
T COG0452 3 EGKRILLGVTGSIAAYKSVELVRLLRR-SGAEVRVVMTESARKFITPLTF--------------QALS-G--NPVYT--L 62 (392)
T ss_pred CCceEEEEecCchhhhhHHHHHHHHhh-CCCeeEEEcchhhhhhcCcccH--------------HHhh-C--CCccc--c
Confidence 457999999999998888776665554 6888888877655443333211 1111 1 11122 2
Q ss_pred ecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-----HHHHhccCCceEEEEe
Q 030760 82 TEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-----HNDISSSFNCRVLAIK 135 (172)
Q Consensus 82 ~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-----s~~i~~~~~~PVlvv~ 135 (172)
.+... ...+.+..-...+|++++.......+..+-.| +...+..+.+|+++.+
T Consensus 63 ~~~~~-~~~~~HI~l~~~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~~p~~~aP 120 (392)
T COG0452 63 LDEEL-TGSVEHIELARWADLLLVAPATANTIAKLAVGIADNLSTTTLLAAKAPLVLAP 120 (392)
T ss_pred ccccc-cccccHhhhhhccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhcCcEEEec
Confidence 22221 12232333333699999999998888886555 2256666777999986
No 61
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=84.05 E-value=12 Score=26.22 Aligned_cols=88 Identities=20% Similarity=0.216 Sum_probs=52.1
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
++++.+.+..+|..++.++.+. +.+++++|+...... .. +. +.++.+++.. +... ......
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~~----~~~v~~~~~~~~~~~--~~--~~---------~~~~~~~~~~-g~~~-~~~~~~ 61 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKKE----GYEVHALSFDYGQRH--AK--EE---------EAAKLIAEKL-GPST-YVPARN 61 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHHc----CCcEEEEEEECCCCC--hh--HH---------HHHHHHHHHH-CCCE-EEeCcC
Confidence 5889999999999988877653 456889999754221 01 00 1122222222 2111 111112
Q ss_pred CchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 85 DQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 85 ~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
......+.++|++++++.|+.|.+...
T Consensus 62 ~~~~~~l~~~a~~~g~~~i~~G~~~~d 88 (169)
T cd01995 62 LIFLSIAAAYAEALGAEAIIIGVNAED 88 (169)
T ss_pred HHHHHHHHHHHHHCCCCEEEEeeccCc
Confidence 222245677889999999999998754
No 62
>PLN02496 probable phosphopantothenoylcysteine decarboxylase
Probab=83.95 E-value=6.1 Score=29.33 Aligned_cols=113 Identities=16% Similarity=0.052 Sum_probs=64.5
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEE-
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIV- 81 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 81 (172)
-++|++++-+|-.+-++.+.+-.+. . +++|.++-......+..+.. +....+-+.+.+ .+..
T Consensus 19 ~k~IllgVtGSIAAyk~~~lvr~L~-~-g~~V~VvmT~~A~~FI~p~~--------------l~~~~~v~td~~-~~~~~ 81 (209)
T PLN02496 19 KPRILLAASGSVAAIKFGNLCHCFS-E-WAEVRAVVTKASLHFIDRAS--------------LPKDVTLYTDED-EWSSW 81 (209)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHhc-C-CCeEEEEEChhHhhhcCHHH--------------cCCCCcEEeCcc-ccccc
Confidence 4789999999999999988776664 3 77887776554433322110 000000000000 0000
Q ss_pred -ecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHhcc--CCceEEEEeC
Q 030760 82 -TEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DISSS--FNCRVLAIKQ 136 (172)
Q Consensus 82 -~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~~~--~~~PVlvv~~ 136 (172)
..+.+ ..=++.++ .+|++|+..-.-..+.++-.| ++ .+++. .++|+++++-
T Consensus 82 ~~~~~~--~~HI~La~--wAD~~vVaPaTaNtlaKiA~GiaDnlltt~l~a~~~~~Pv~iaPa 140 (209)
T PLN02496 82 NKIGDS--VLHIELRR--WADVMVIAPLSANTLGKIAGGLCDNLLTCIVRAWDYSKPLFVAPA 140 (209)
T ss_pred ccCCCC--cchhHhhh--hhCEEEEEeCCHHHHHHHHcccCCcHHHHHHHHcCCCCCEEEEeC
Confidence 11222 11223333 389999999998889988888 22 33333 4799999983
No 63
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=83.35 E-value=9.1 Score=31.66 Aligned_cols=63 Identities=13% Similarity=0.098 Sum_probs=41.7
Q ss_pred hcCCcEEEE--EecCCchHHHHHHHHHHh----CCCEEEEeecCCcchhHhhhhHH---HHhccCCceEEEE
Q 030760 72 FFNTNVEII--VTEGDQEGARIAALVREI----GASALVVGLHDRSFLHKLAMSHN---DISSSFNCRVLAI 134 (172)
Q Consensus 72 ~~~~~~~~~--~~~g~~~~~~I~~~a~~~----~~DllVmg~~~~~~~~~~~~gs~---~i~~~~~~PVlvv 134 (172)
+|.+++... .+-|......|+...+.. ++|+||+++.|.+.-+=+.|... .-+..+++||+.-
T Consensus 154 ~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~eDL~~Fn~e~~~rai~~~~~Pvis~ 225 (432)
T TIGR00237 154 DPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSLEDLWSFNDEKVARAIFLSKIPIISA 225 (432)
T ss_pred CCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCHHHhhhcCcHHHHHHHHcCCCCEEEe
Confidence 445555544 344776667777766533 37999999888885332336554 6677889999875
No 64
>PRK00919 GMP synthase subunit B; Validated
Probab=83.27 E-value=21 Score=28.22 Aligned_cols=37 Identities=22% Similarity=0.222 Sum_probs=31.3
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
++++|++.+.-+|..++.++.+ ..|..++++|+....
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~---~lG~~v~aV~vD~G~ 58 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR---AIGDRLTPVFVDTGL 58 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH---HhCCeEEEEEEECCC
Confidence 6899999999999999887766 247789999999774
No 65
>TIGR00032 argG argininosuccinate synthase. argG in bacteria, ARG1 in Saccharomyces cerevisiae. There is a very unusual clustering in the alignment, with a deep split between one cohort of E. coli, H. influenzae, and Streptomyces, and the other cohort of eukaryotes, archaea, and the rest of the eubacteria.
Probab=82.96 E-value=23 Score=29.00 Aligned_cols=34 Identities=18% Similarity=0.158 Sum_probs=29.2
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+|++++.+.-+|..++.|+.+. |..|+.+|+...
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id~G 34 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTADVG 34 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEecC
Confidence 5899999999999999888764 778999999765
No 66
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=82.63 E-value=7.3 Score=34.72 Aligned_cols=102 Identities=23% Similarity=0.230 Sum_probs=61.3
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchH----HHHHHHHHHHHHHHHH-HHHhhhhcCCcE-
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRK----KLRLLRLKGYQLALSF-KDICNDFFNTNV- 77 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~~~~~~~~~~~- 77 (172)
.+|.+..=+.++.+.|+.++.+++......+++++........... .....++. ....+ +...+...+...
T Consensus 615 ~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~~~~~~~i~~~ 691 (769)
T KOG1650|consen 615 YKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDESKYNRKVLVEVGKMLDQE---GLEDFVKSTRESNLDIIYA 691 (769)
T ss_pred eEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccchhhcccccchhhhhhhhh---HHHHHHHHhhhchhhhhhh
Confidence 3677777788888999999999999889999999999875433211 11111111 11111 111101001111
Q ss_pred -EEEEecCCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 78 -EIIVTEGDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 78 -~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
+..+.+|... -.++....+ ++|++++|+...
T Consensus 692 ~ek~v~~~~et-~~~~~~~~~-~ydL~ivGr~~~ 723 (769)
T KOG1650|consen 692 EEKIVLNGAET-TALLRSITE-DYDLFIVGRSHG 723 (769)
T ss_pred hHHHHhcchhH-HHHHHHhcc-ccceEEEecccc
Confidence 2444556665 556665555 789999998765
No 67
>PRK10867 signal recognition particle protein; Provisional
Probab=82.56 E-value=27 Score=29.02 Aligned_cols=94 Identities=16% Similarity=0.031 Sum_probs=55.1
Q ss_pred EEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCc
Q 030760 7 VVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQ 86 (172)
Q Consensus 7 lv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 86 (172)
++..-++--+..+...|..+....|..+.++....... .+.++++.+++.. ++++.......++
T Consensus 105 ~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~---------------aa~eQL~~~a~~~-gv~v~~~~~~~dp 168 (433)
T PRK10867 105 MVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRP---------------AAIEQLKTLGEQI-GVPVFPSGDGQDP 168 (433)
T ss_pred EECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccch---------------HHHHHHHHHHhhc-CCeEEecCCCCCH
Confidence 44445666677888888888776577777776654311 1112234444432 5544322222333
Q ss_pred hHHHHH----HHHHHhCCCEEEEeecCCcchhHhhh
Q 030760 87 EGARIA----ALVREIGASALVVGLHDRSFLHKLAM 118 (172)
Q Consensus 87 ~~~~I~----~~a~~~~~DllVmg~~~~~~~~~~~~ 118 (172)
..+. +.++..++|+|++-+.++...+..++
T Consensus 169 --~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~lm 202 (433)
T PRK10867 169 --VDIAKAALEEAKENGYDVVIVDTAGRLHIDEELM 202 (433)
T ss_pred --HHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHHH
Confidence 3333 45667789999999999876655443
No 68
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=81.02 E-value=17 Score=25.67 Aligned_cols=66 Identities=14% Similarity=0.263 Sum_probs=46.1
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHHHHH---HHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIAALV---REIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a---~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
.+.++++ +++++..+..-+--.+.+.+|+ ++.++..||-|..+-..+-+ -+.-.++.||+=||-+.
T Consensus 22 a~~L~~f-gi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPG------mvAa~T~lPViGVPv~s 90 (162)
T COG0041 22 AEILEEF-GVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPG------MVAAKTPLPVIGVPVQS 90 (162)
T ss_pred HHHHHHc-CCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcch------hhhhcCCCCeEeccCcc
Confidence 3444445 8999988876332236666665 56778889999887666555 45667899999998663
No 69
>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched between helical layers. It has a signature nucleotide-binding motif, or P-loop, at the end of the first-beta strand.The dimerization domain formed by the C-terminal 115 amino acid for prokaryotic proteins. It is adjacent to teh ATP-binding site of the ATP-PPase subdomain. The largest difference between the primary sequence of prokaryotic and eukaryotic GMP synthetase map to the dimerization domain.Eukaryotic GMP synthetase has several large insertions relative to prokaryotes.
Probab=80.29 E-value=26 Score=27.44 Aligned_cols=89 Identities=16% Similarity=0.204 Sum_probs=53.7
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe--
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT-- 82 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 82 (172)
+++|++.+.-+|..++..+.+. .|.+++++|+...... .. + .+.+++++++...+++...-.
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd~g~~~--~~--E---------~~~~~~~~~~~g~i~~~vvd~~e 64 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVDNGLLR--KN--E---------AERVEELFSKLLGINLIVVDASE 64 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEecCCCCC--hH--H---------HHHHHHHHHHhCCCcEEEEcCcH
Confidence 5899999999999888877653 4667999999866321 11 0 112233333321112222111
Q ss_pred ------------------cCCchHHHHHHHHHHhC-CCEEEEeecC
Q 030760 83 ------------------EGDQEGARIAALVREIG-ASALVVGLHD 109 (172)
Q Consensus 83 ------------------~g~~~~~~I~~~a~~~~-~DllVmg~~~ 109 (172)
.|....+.+.+.|++.+ ++.|+-|++.
T Consensus 65 ~fl~~l~~v~npe~rr~~~g~~~~~~l~~~A~~~g~~~~Ia~Gh~~ 110 (295)
T cd01997 65 RFLSALKGVTDPEEKRKIIGETFIEVFEEEAKKLGLAEYLAQGTLY 110 (295)
T ss_pred HHHHHhcCCCCHHHHHHHhhHHHHHHHHHHHHHcCCCCEEEECCcc
Confidence 01122245777889999 9999999764
No 70
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=80.14 E-value=27 Score=27.55 Aligned_cols=37 Identities=22% Similarity=0.262 Sum_probs=30.2
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
++++|++.+.-+|..++.++.+. .|.+++++|+....
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~---~G~~v~av~vd~G~ 53 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA---IGDRLTCVFVDHGL 53 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH---hCCCEEEEEEeCCC
Confidence 68999999999998888777553 36789999998764
No 71
>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA. The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.
Probab=80.14 E-value=13 Score=26.77 Aligned_cols=115 Identities=11% Similarity=0.084 Sum_probs=61.7
Q ss_pred EEEEEecCC-HHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec
Q 030760 5 KIVVIVEDV-DAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 5 ~Ilv~~d~s-~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
||++++-+| ......++.+..+..+.|.+++++--... .+..+.. . ..+.+.+. . + .+....-.
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g~eV~vv~S~~A--------~~vi~~~-~-~~~~l~~~---~-~-~~~~~~~~ 65 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRYGDEIDVFLSKAG--------EQVVKWY-K-LWDKLEND---F-P-NFRVEINA 65 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhcCCEEEEEECHhH--------HHHHHHH-H-hHHHHhcc---C-C-cccccCCC
Confidence 688999998 44566888888888777877766543322 1111111 0 11111111 1 1 01111111
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH----HHh---ccCCceEEEEeCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN----DIS---SSFNCRVLAIKQP 137 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~----~i~---~~~~~PVlvv~~~ 137 (172)
+.+...+-.... .+|++|+..-.-..+.++-.| ++ .++ -+..+|+++++-.
T Consensus 66 ~~p~~sg~~~l~---~~D~~vVaPaTaNtlakiA~GiaD~l~t~~~~~~lk~~~pvvi~P~m 124 (174)
T TIGR02699 66 NSPFLAGQLQMG---KYDFLLIAPATANTVAKIAYGIADTLVTNAVIQAAKAKVPVYIMPSD 124 (174)
T ss_pred CCccccCccccc---ccCEEEEEeCCHHHHHHHHccccCcHHHHHHHHHhccCCCEEEEECc
Confidence 111101111111 269999999888888888777 32 222 3679999999853
No 72
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=78.78 E-value=16 Score=30.33 Aligned_cols=63 Identities=14% Similarity=0.202 Sum_probs=43.7
Q ss_pred hhcCCcEEEEE--ecCCchHHHHHHHHHH----hCCCEEEEeecCCcchhHhh-hhHH---HHhccCCceEEEE
Q 030760 71 DFFNTNVEIIV--TEGDQEGARIAALVRE----IGASALVVGLHDRSFLHKLA-MSHN---DISSSFNCRVLAI 134 (172)
Q Consensus 71 ~~~~~~~~~~~--~~g~~~~~~I~~~a~~----~~~DllVmg~~~~~~~~~~~-~gs~---~i~~~~~~PVlvv 134 (172)
++|.+++.+.- +-|+..+..|++.++. .++|+||+|+.|.+ ++.+| |..+ .-+..+++||+--
T Consensus 159 R~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGS-iEDLW~FNdE~vaRAi~~s~iPvISA 231 (440)
T COG1570 159 RFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGGS-IEDLWAFNDEIVARAIAASRIPVISA 231 (440)
T ss_pred hCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcch-HHHHhccChHHHHHHHHhCCCCeEee
Confidence 46666655443 4477777888877664 34999999988877 56655 5543 6667788998764
No 73
>PLN00200 argininosuccinate synthase; Provisional
Probab=78.61 E-value=36 Score=28.03 Aligned_cols=37 Identities=19% Similarity=0.247 Sum_probs=31.3
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.++|++++.+.-+|..++.++.+- .|.+|+.+|+...
T Consensus 5 ~~kVvva~SGGlDSsvla~~L~e~---~G~eViav~id~G 41 (404)
T PLN00200 5 LNKVVLAYSGGLDTSVILKWLREN---YGCEVVCFTADVG 41 (404)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHh---hCCeEEEEEEECC
Confidence 469999999999999999888662 4678999999866
No 74
>cd01712 ThiI ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.
Probab=77.90 E-value=22 Score=25.18 Aligned_cols=36 Identities=17% Similarity=0.102 Sum_probs=30.2
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLN 44 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~ 44 (172)
+++|++.+.-+|..++.++.+. |.+++.+|+.....
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~~----g~~v~av~~d~g~~ 36 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMKR----GIEVDALHFNSGPF 36 (177)
T ss_pred CEEEEecCChhHHHHHHHHHHc----CCeEEEEEEeCCCC
Confidence 5899999999999998888773 77899999987643
No 75
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=77.74 E-value=22 Score=25.01 Aligned_cols=67 Identities=16% Similarity=0.236 Sum_probs=41.7
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHHHHHHHh---CCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCCC
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIAALVREI---GASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~---~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~~ 139 (172)
...++++ ++.++.++..-.--.+.+.+++++. +++.+|.+......+.. -+.-.+.+||+-+|....
T Consensus 20 ~~~L~~~-gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpg------vva~~t~~PVIgvP~~~~ 89 (150)
T PF00731_consen 20 AKTLEEF-GIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPG------VVASLTTLPVIGVPVSSG 89 (150)
T ss_dssp HHHHHHT-T-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHH------HHHHHSSS-EEEEEE-ST
T ss_pred HHHHHHc-CCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchh------hheeccCCCEEEeecCcc
Confidence 4444444 7888888776333237888888764 57888888877666665 455678999999986644
No 76
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=77.08 E-value=31 Score=26.53 Aligned_cols=89 Identities=20% Similarity=0.166 Sum_probs=55.7
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
..+++|++.+.-+|...+..|.+.+ |..+.++.|..+.... +..+.. ...+++. +++.++.-.
T Consensus 17 ~~kv~vAfSGGvDSslLa~la~~~l---G~~v~AvTv~sP~~p~-----~e~e~A--------~~~A~~i-Gi~H~~i~~ 79 (269)
T COG1606 17 KKKVVVAFSGGVDSSLLAKLAKEAL---GDNVVAVTVDSPYIPR-----REIEEA--------KNIAKEI-GIRHEFIKM 79 (269)
T ss_pred cCeEEEEecCCccHHHHHHHHHHHh---ccceEEEEEecCCCCh-----hhhhHH--------HHHHHHh-CCcceeeeh
Confidence 3589999999988888877665554 5788888888763321 111211 2222221 222222211
Q ss_pred -----------------cCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 83 -----------------EGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 83 -----------------~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
......+.|++.|.+.++|.|+=|+.
T Consensus 80 ~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 80 NRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred hhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 12334589999999999999999885
No 77
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=76.71 E-value=9.6 Score=23.17 Aligned_cols=35 Identities=31% Similarity=0.470 Sum_probs=27.6
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLL 37 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l 37 (172)
+++|.+++|.++....+.+.+.+.....|-.+.++
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 37899999999998888887777777777666544
No 78
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=75.54 E-value=19 Score=23.21 Aligned_cols=25 Identities=24% Similarity=0.355 Sum_probs=20.6
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeec
Q 030760 84 GDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
|..-.+.|.+.+++.++|+||.-..
T Consensus 42 G~GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 42 GSGKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred chhHHHHHHHHHhhcCCCEEEECCC
Confidence 4444489999999999999999864
No 79
>cd03557 L-arabinose_isomerase L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=75.37 E-value=36 Score=28.74 Aligned_cols=46 Identities=15% Similarity=0.140 Sum_probs=34.9
Q ss_pred HHHHHHHHHh----CCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 89 ARIAALVREI----GASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 89 ~~I~~~a~~~----~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
+.|.+.+++. ++|.||+-.+.-+.-+.+. .+++..++|||+...+.
T Consensus 52 ~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~~~i----~~~~~l~~PvL~~~~q~ 101 (484)
T cd03557 52 DEILAVCREANADDNCAGVITWMHTFSPAKMWI----AGLTALQKPLLHLHTQF 101 (484)
T ss_pred HHHHHHHHHccccCCccEEEEccCCCchHHHHH----HHHHHcCCCEEEEccCC
Confidence 6777877775 4999999888777654433 56888999999997653
No 80
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=75.02 E-value=47 Score=27.56 Aligned_cols=95 Identities=13% Similarity=0.029 Sum_probs=54.5
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGD 85 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 85 (172)
++++.-++--+..+...|..+..+.|..+.++....... .+.++++.++... ++++.......+
T Consensus 103 ~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~---------------~a~~QL~~~a~~~-gvp~~~~~~~~~ 166 (428)
T TIGR00959 103 LMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRP---------------AAIEQLKVLGQQV-GVPVFALGKGQS 166 (428)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccch---------------HHHHHHHHHHHhc-CCceEecCCCCC
Confidence 344556667778888888887655677777776664321 1122334444332 444333222223
Q ss_pred ch--HHHHHHHHHHhCCCEEEEeecCCcchhHh
Q 030760 86 QE--GARIAALVREIGASALVVGLHDRSFLHKL 116 (172)
Q Consensus 86 ~~--~~~I~~~a~~~~~DllVmg~~~~~~~~~~ 116 (172)
+. ....++.+...++|+|++-+.++...+..
T Consensus 167 P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~~ 199 (428)
T TIGR00959 167 PVEIARRALEYAKENGFDVVIVDTAGRLQIDEE 199 (428)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEeCCCccccCHH
Confidence 31 12334456677899999999998765543
No 81
>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=74.89 E-value=27 Score=24.80 Aligned_cols=87 Identities=21% Similarity=0.272 Sum_probs=53.5
Q ss_pred EEEEEec---------CCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 030760 5 KIVVIVE---------DVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNT 75 (172)
Q Consensus 5 ~Ilv~~d---------~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (172)
+|+|.++ ..+.+..++..|.+++. .+..+.++.+-+... .. . ++.. ..+ +.
T Consensus 1 ~ilV~~e~~~~~~~~~l~~~~~e~l~~A~~l~~-~~~~v~~v~~G~~~~-------~~-------~---~~~~-~~~-Ga 60 (181)
T cd01985 1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKE-YGGEVTALVIGPPAA-------EV-------A---LREA-LAM-GA 60 (181)
T ss_pred CEEEEEEEEcCCCccccCHhhHHHHHHHHHHhh-cCCeEEEEEECChHH-------HH-------H---HHHH-HHh-CC
Confidence 4666665 56778889998988876 556787777764410 00 0 0111 112 44
Q ss_pred cEEEEEec-------CCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 76 NVEIIVTE-------GDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 76 ~~~~~~~~-------g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
+--+.+.. -...++.|.+.+++.++|+|++|....+
T Consensus 61 d~v~~~~~~~~~~~~~~~~a~~l~~~i~~~~p~~Vl~g~t~~g 103 (181)
T cd01985 61 DKVLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATSIG 103 (181)
T ss_pred CEEEEEecCcccCCChHHHHHHHHHHHHHhCCCEEEECCcccc
Confidence 33333322 1233477888889999999999998764
No 82
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=74.44 E-value=49 Score=27.48 Aligned_cols=107 Identities=12% Similarity=0.061 Sum_probs=66.9
Q ss_pred EEEEecCC-HHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCC-cEEEEEec
Q 030760 6 IVVIVEDV-DAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNT-NVEIIVTE 83 (172)
Q Consensus 6 Ilv~~d~s-~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 83 (172)
||+.=|.. --|...++.+.++|.+. .+|||.-... .++..-+.+++ ++ .-+..+..
T Consensus 96 iLIgGdPGIGKSTLLLQva~~lA~~~----~vLYVsGEES-------------~~QiklRA~RL-----~~~~~~l~l~a 153 (456)
T COG1066 96 ILIGGDPGIGKSTLLLQVAARLAKRG----KVLYVSGEES-------------LQQIKLRADRL-----GLPTNNLYLLA 153 (456)
T ss_pred EEEccCCCCCHHHHHHHHHHHHHhcC----cEEEEeCCcC-------------HHHHHHHHHHh-----CCCccceEEeh
Confidence 44444443 34788899999999865 7788875532 11222222222 32 23455566
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHh--hhhH--------H---HHhccCCceEEEEe
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKL--AMSH--------N---DISSSFNCRVLAIK 135 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~--~~gs--------~---~i~~~~~~PVlvv~ 135 (172)
..+. +.|+..+++.++|++|+-+=+.-.-..+ ..|| . .+....++++++|=
T Consensus 154 Et~~-e~I~~~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVG 217 (456)
T COG1066 154 ETNL-EDIIAELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAIFIVG 217 (456)
T ss_pred hcCH-HHHHHHHHhcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcCCeEEEEE
Confidence 6776 9999999999999999987553222211 1222 1 66777789999983
No 83
>PRK00074 guaA GMP synthase; Reviewed
Probab=73.49 E-value=56 Score=27.74 Aligned_cols=37 Identities=22% Similarity=0.222 Sum_probs=30.0
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
++++|++.+.-+|..++..+.+. .|..++++|+....
T Consensus 216 ~~vlva~SGGvDS~vll~ll~~~---lg~~v~av~vd~g~ 252 (511)
T PRK00074 216 KKVILGLSGGVDSSVAAVLLHKA---IGDQLTCVFVDHGL 252 (511)
T ss_pred CcEEEEeCCCccHHHHHHHHHHH---hCCceEEEEEeCCC
Confidence 68999999999998888877654 26789999998663
No 84
>PRK02929 L-arabinose isomerase; Provisional
Probab=72.59 E-value=54 Score=27.82 Aligned_cols=45 Identities=18% Similarity=0.179 Sum_probs=35.2
Q ss_pred HHHHHHHHHhC----CCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIG----ASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~----~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
+.|...+++.+ +|.||+-.+.-+.-+.+. .+++..++|||+....
T Consensus 58 ~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~~~i----~~~~~l~~PvL~~~~Q 106 (499)
T PRK02929 58 DEITAVCREANYDDNCAGVITWMHTFSPAKMWI----RGLSALQKPLLHLHTQ 106 (499)
T ss_pred HHHHHHHHHccccCCCcEEEEccCCCchHHHHH----HHHHHcCCCEEEEecC
Confidence 67778888777 999999988777654433 5688899999999863
No 85
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=72.21 E-value=58 Score=28.16 Aligned_cols=93 Identities=14% Similarity=0.099 Sum_probs=52.1
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC-CccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL-NSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIV 81 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (172)
-++|+|.-|-+-+.-.+.........+.|..-+..++ +.. .....-..... +++.+ .+.+.-+.+
T Consensus 69 ~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~I-P~R~~eGYGl~~~~i-----------~~~~~--~~~~LiItv 134 (575)
T PRK11070 69 GTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLV-PNRFEDGYGLSPEVV-----------DQAHA--RGAQLIVTV 134 (575)
T ss_pred CCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEe-CCCCcCCCCCCHHHH-----------HHHHh--cCCCEEEEE
Confidence 3578888777655444444445555555652111222 221 11111111111 22222 256677777
Q ss_pred ecCCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 82 TEGDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 82 ~~g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
-.|... ..-+++|++.++|+||...|..
T Consensus 135 D~Gi~~-~e~i~~a~~~gidvIVtDHH~~ 162 (575)
T PRK11070 135 DNGISS-HAGVAHAHALGIPVLVTDHHLP 162 (575)
T ss_pred cCCcCC-HHHHHHHHHCCCCEEEECCCCC
Confidence 788885 7888889999999999888754
No 86
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=70.51 E-value=9.1 Score=23.42 Aligned_cols=34 Identities=26% Similarity=0.313 Sum_probs=21.1
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTL 36 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~ 36 (172)
+++|.+++|.+...+.+.....+.....+-+++.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~~ 79 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVTR 79 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG--------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhcccccc
Confidence 4789999999998888888888866555655543
No 87
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=70.31 E-value=51 Score=27.60 Aligned_cols=92 Identities=8% Similarity=0.034 Sum_probs=51.0
Q ss_pred cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec----CCc
Q 030760 11 EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE----GDQ 86 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----g~~ 86 (172)
|+-=+...+|..|+..+ +..|..|+|.++....... .-......+.+.+.++..+.........+.. |++
T Consensus 11 DLRl~DN~aL~~A~~~~---~~~vlpvyv~dp~~~~~~~---~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~g~~ 84 (472)
T PRK10674 11 DLRLHDNLALAAACRDP---SARVLALFIATPAQWAAHD---MAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDFAAS 84 (472)
T ss_pred CCCcchHHHHHHHHhCC---CCCEEEEEEECchhhccCC---CCHHHHHHHHHHHHHHHHHHHHcCCceEEEecCCcCCH
Confidence 55444556666665433 2469999999874321111 0111222333333333333222233444444 578
Q ss_pred hHHHHHHHHHHhCCCEEEEeecC
Q 030760 87 EGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 87 ~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
. +.+.+.+++.+++-|+.-..-
T Consensus 85 ~-~vl~~l~~~~~i~~v~~~~~~ 106 (472)
T PRK10674 85 V-EWLKQFCQQHQVTHLFYNYQY 106 (472)
T ss_pred H-HHHHHHHHHcCCCEEEEeccc
Confidence 6 999999999999999986543
No 88
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=70.30 E-value=36 Score=24.18 Aligned_cols=64 Identities=16% Similarity=0.075 Sum_probs=39.8
Q ss_pred HHhhhhcCCcEEEE--EecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEE
Q 030760 67 DICNDFFNTNVEII--VTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAI 134 (172)
Q Consensus 67 ~~~~~~~~~~~~~~--~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv 134 (172)
.+.+.+|++++... -..+....+.|++.+.+.++|+|++|-...+. +.++. ....+.+.+|++-
T Consensus 65 ~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv~vglG~PkQ-E~~~~---~~~~~l~~~v~~~ 130 (171)
T cd06533 65 RLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGADILFVGLGAPKQ-ELWIA---RHKDRLPVPVAIG 130 (171)
T ss_pred HHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCCEEEEECCCCHH-HHHHH---HHHHHCCCCEEEE
Confidence 34445778876652 22333334668999999999999999776552 33222 4444556666653
No 89
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=67.42 E-value=50 Score=24.74 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=31.4
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHV 39 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V 39 (172)
.++|.++.|.+...+.|...+.++....|-.+.++..
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~l 190 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIEI 190 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeC
Confidence 4789999999999999999999999877877666544
No 90
>PRK08349 hypothetical protein; Validated
Probab=66.89 E-value=46 Score=24.12 Aligned_cols=34 Identities=21% Similarity=0.142 Sum_probs=27.7
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEec
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFP 41 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~ 41 (172)
.+.++++.+..+|..++.++.. .|.+|+.+|+..
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d~ 34 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFRQ 34 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence 3689999999999988866554 477999999986
No 91
>PRK08576 hypothetical protein; Provisional
Probab=66.38 E-value=76 Score=26.46 Aligned_cols=87 Identities=18% Similarity=0.129 Sum_probs=51.4
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE--E-
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEII--V- 81 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~- 81 (172)
+|+|++.+..+|..++..+.+... .+.++++.+...+ +...+. ++++++.. ++++... -
T Consensus 236 rVvVafSGGKDStvLL~La~k~~~----~V~aV~iDTG~e~--pet~e~-----------~~~lae~L-GI~lii~~v~~ 297 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVDTGYEM--PLTDEY-----------VEKVAEKL-GVDLIRAGVDV 297 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeCCCCCC--hHHHHH-----------HHHHHHHc-CCCEEEcccCH
Confidence 899999999999999887766532 3888888655322 111111 12222222 3433320 0
Q ss_pred ---------------ecCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 82 ---------------TEGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 82 ---------------~~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
.++...-+.+.+.+++.+++.++.|.+.
T Consensus 298 ~~~~~~~g~p~~~~rcCt~lK~~pL~raake~g~~~iatG~R~ 340 (438)
T PRK08576 298 PMPIEKYGMPTHSNRWCTKLKVEALEEAIRELEDGLLVVGDRD 340 (438)
T ss_pred HHHhhhcCCCCcccchhhHHHHHHHHHHHHhCCCCEEEEEeeH
Confidence 0111112467778888999999999753
No 92
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=64.46 E-value=32 Score=23.67 Aligned_cols=50 Identities=24% Similarity=0.299 Sum_probs=32.2
Q ss_pred HHHHHHHHHHhCCCEEEEeecC-----CcchhHhhhh-HHHHhccCCceEEEEeCC
Q 030760 88 GARIAALVREIGASALVVGLHD-----RSFLHKLAMS-HNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~-----~~~~~~~~~g-s~~i~~~~~~PVlvv~~~ 137 (172)
.+.|.+++++++++.||+|--. .+......-- ...+-.+.++||..+-+.
T Consensus 43 ~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr 98 (138)
T PRK00109 43 WDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDER 98 (138)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCC
Confidence 4899999999999999999432 2221111100 125555568998888643
No 93
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=64.42 E-value=49 Score=23.51 Aligned_cols=64 Identities=11% Similarity=0.125 Sum_probs=39.6
Q ss_pred HHHhhhhcCCcEEEEEe--cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEE
Q 030760 66 KDICNDFFNTNVEIIVT--EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLA 133 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~--~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlv 133 (172)
..+.+.+|++++.-..- ......+.|++.+++.++|+|++|-..... +.++. ...++.+.+|++
T Consensus 66 ~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv~vglG~PkQ-E~~~~---~~~~~l~~~v~i 131 (172)
T PF03808_consen 66 ANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDIVFVGLGAPKQ-ERWIA---RHRQRLPAGVII 131 (172)
T ss_pred HHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCEEEEECCCCHH-HHHHH---HHHHHCCCCEEE
Confidence 33444466766664321 122335999999999999999999776552 33222 455566666444
No 94
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=64.37 E-value=75 Score=25.69 Aligned_cols=36 Identities=17% Similarity=0.065 Sum_probs=29.0
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-++|+|++.+.-+|..++..+.+ .|..++.+|+...
T Consensus 5 ~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~~~ 40 (360)
T PRK14665 5 NKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFRFY 40 (360)
T ss_pred CCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEecC
Confidence 36899999999999988877765 3678999998743
No 95
>PRK05370 argininosuccinate synthase; Validated
Probab=63.16 E-value=89 Score=26.12 Aligned_cols=103 Identities=13% Similarity=0.071 Sum_probs=60.3
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHH----------HHHH-HHHHHhhh
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGY----------QLAL-SFKDICND 71 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~----------~~~~-~~~~~~~~ 71 (172)
-+||++++.+.=++..++.|..+- +.+|+.+++.-..... +..+..++... .+.+ -+++.+..
T Consensus 11 ~~KVvLAYSGGLDTSv~l~wL~e~----~~eVia~~aDvGQ~~~--ed~~~i~~kA~~~GA~~~~viDlr~eF~e~~i~a 84 (447)
T PRK05370 11 GQRVGIAFSGGLDTSAALLWMRQK----GAVPYAYTANLGQPDE--DDYDAIPRRAMEYGAENARLIDCRAQLVAEGIAA 84 (447)
T ss_pred CCEEEEEecCCchHHHHHHHHHhc----CCeEEEEEEECCCCCc--cchHHHHHHHHHhCCCEEEEeccHHHHHHHHHHH
Confidence 479999999998889998888764 7889999998653100 11111111111 0111 11122211
Q ss_pred -hcCCcE----EE-----EEecCCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 72 -FFNTNV----EI-----IVTEGDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 72 -~~~~~~----~~-----~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
..+.-+ +- ....-...+..+++.|++.++|.|.-|+.+++
T Consensus 85 I~anA~Y~~~~e~~Y~l~t~LaRplia~~lv~~A~~~ga~aIAHG~TGKG 134 (447)
T PRK05370 85 IQCGAFHISTGGVTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYKG 134 (447)
T ss_pred HHcCCccccccCccccCCCcchHHHHHHHHHHHHHHhCCcEEEEcCCCCC
Confidence 112211 11 11123455689999999999999999998765
No 96
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=62.38 E-value=83 Score=25.50 Aligned_cols=88 Identities=10% Similarity=0.071 Sum_probs=53.8
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEE
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIV 81 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (172)
..++|+|++.+.-+|..++.++.+ .|..++.+|+..... +. +.++.+++.. +++....-
T Consensus 4 ~~~kVlVa~SGGvDSsv~a~lL~~----~G~eV~av~~~~~~~----e~------------~~a~~va~~L-GI~~~vvd 62 (362)
T PRK14664 4 SKKRVLVGMSGGIDSTATCLMLQE----QGYEIVGVTMRVWGD----EP------------QDARELAARM-GIEHYVAD 62 (362)
T ss_pred CCCEEEEEEeCCHHHHHHHHHHHH----cCCcEEEEEecCcch----hH------------HHHHHHHHHh-CCCEEEEe
Confidence 457999999999988887765433 466789998853211 00 1123333332 33332221
Q ss_pred ec-----------------CC-----------chHHHHHHHHHHhCCCEEEEeecCC
Q 030760 82 TE-----------------GD-----------QEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 82 ~~-----------------g~-----------~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.. |. .....+.++|++.++|.|+-|.+.+
T Consensus 63 ~~~~f~~~v~~~~~~~~~~G~tpnpC~~Cn~~iKf~~L~~~A~~~G~~~IATGHyar 119 (362)
T PRK14664 63 ERVPFKDTIVKNFIDEYRQGRTPNPCVMCNPLFKFRMLIEWADKLGCAWIATGHYSR 119 (362)
T ss_pred ChHHHHHHHHHHhHHHHHcCCCCCCchhhhHHHHHHHHHHHHHHcCCCEEEECCccc
Confidence 10 11 1124688999999999999998864
No 97
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=61.58 E-value=81 Score=26.35 Aligned_cols=84 Identities=19% Similarity=0.173 Sum_probs=44.7
Q ss_pred HHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe-cCCchHHHHHHH
Q 030760 16 ARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT-EGDQEGARIAAL 94 (172)
Q Consensus 16 s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~I~~~ 94 (172)
...+|..|++ .+ .|..|+|.++.......... .....+.+.+.++.++.........+. .|++. +.|.+.
T Consensus 12 DN~aL~~A~~----~~-~vlpvyi~dp~~~~~~~~~~---~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~~~-~~l~~l 82 (475)
T TIGR02766 12 DNPALAAAAR----AG-PVIPVFVWAPEEEGQYYPGR---VSRWWLKQSLAHLDQSLRSLGTCLVTIRSTDTV-AALLDC 82 (475)
T ss_pred hHHHHHHHHh----CC-CEEEEEEechHHhccccccH---HHHHHHHHHHHHHHHHHHHcCCceEEEeCCCHH-HHHHHH
Confidence 3455555542 23 69999999874221100000 111122233333333211222333333 47886 999999
Q ss_pred HHHhCCCEEEEeec
Q 030760 95 VREIGASALVVGLH 108 (172)
Q Consensus 95 a~~~~~DllVmg~~ 108 (172)
+++.+++-|..-..
T Consensus 83 ~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 83 VRSTGATRLFFNHL 96 (475)
T ss_pred HHHcCCCEEEEecc
Confidence 99999999887765
No 98
>TIGR00930 2a30 K-Cl cotransporter.
Probab=61.38 E-value=1.4e+02 Score=27.69 Aligned_cols=124 Identities=10% Similarity=0.035 Sum_probs=76.7
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
+|||.+.........++++-.+.+ ...-..+.||.+.+.. ...+ ..+...+++..+.+.. +++.=..++..
T Consensus 577 qiLvl~~~p~~~~~Ll~f~~~l~~-~~gl~i~~~v~~~~~~------~~~~-~~~~~~~~~~~~~~~~-~~~~f~~~~~~ 647 (953)
T TIGR00930 577 QCLVLTGPPVCRPALLDFASQFTK-GKGLMICGSVIQGPRL------ECVK-EAQAAEAKIQTWLEKN-KVKAFYAVVVA 647 (953)
T ss_pred eEEEEeCCCcCcHHHHHHHHHhcc-CCcEEEEEEEecCchh------hhHH-HHHHHHHHHHHHHHHh-CCCeEEEEecC
Confidence 689999887778889999999984 4457888899876321 1111 1122233334444432 45544555555
Q ss_pred CchHHHHHHHHHH-----hCCCEEEEeecCCcch-----hHhhhhHHHHhccCCceEEEEeCC
Q 030760 85 DQEGARIAALVRE-----IGASALVVGLHDRSFL-----HKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 85 ~~~~~~I~~~a~~-----~~~DllVmg~~~~~~~-----~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
....+++....+. .++..|+||....... ..-+.+.-+-....+.-|+++|..
T Consensus 648 ~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~~w~~~~~~~~~~y~~~i~~a~~~~~~v~i~r~~ 710 (953)
T TIGR00930 648 DDLREGVRHLIQASGLGRMKPNTLVMGYKKDWRQAEPRAWETYIGIIHDAFDAHLAVVVVRNS 710 (953)
T ss_pred CCHHHHHHHHHHhcCCCCCCCCEEEecCccchhhccchhHHHHHHHHHHHHHcCCcEEEEccc
Confidence 5556999999887 4578899998753111 111222224445778899999863
No 99
>PRK00509 argininosuccinate synthase; Provisional
Probab=61.02 E-value=93 Score=25.62 Aligned_cols=38 Identities=16% Similarity=0.176 Sum_probs=31.6
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
.++|+|++.+.-+|..++.|+.+. .|.+|+.+++....
T Consensus 2 ~~kVvva~SGGlDSsvla~~l~e~---lG~eViavt~d~Gq 39 (399)
T PRK00509 2 KKKVVLAYSGGLDTSVIIKWLKET---YGCEVIAFTADVGQ 39 (399)
T ss_pred CCeEEEEEcCCHHHHHHHHHHHHh---hCCeEEEEEEecCC
Confidence 569999999999999999888763 36789999998663
No 100
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=60.58 E-value=26 Score=28.29 Aligned_cols=47 Identities=9% Similarity=0.017 Sum_probs=26.4
Q ss_pred HHHHHHHHHhCCCEEEEeecC----CcchhHh--hhhHHHHhccCCceEEEEe
Q 030760 89 ARIAALVREIGASALVVGLHD----RSFLHKL--AMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~----~~~~~~~--~~gs~~i~~~~~~PVlvv~ 135 (172)
+.+++.|++.++|+||++.-- ....+.. +...-.-++.+.|||+++.
T Consensus 30 ~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~ 82 (390)
T COG0420 30 DELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIA 82 (390)
T ss_pred HHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEec
Confidence 667777777788888877522 1111211 1111144444568888886
No 101
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=60.48 E-value=25 Score=27.20 Aligned_cols=94 Identities=16% Similarity=0.176 Sum_probs=52.1
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec-
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE- 83 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 83 (172)
+|-+.+.-...+..-++-|-++.+.+|+. .+.|+.-|+.++... +...+++..++. +..+...++.
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg~~-~I~h~tyPdnf~~e~---------EttIskI~~lAd---Dp~mKaIVv~q 70 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKYGDV-MIKHVTYPDNFMSEQ---------ETTISKIVSLAD---DPDMKAIVVSQ 70 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHHHHH-EEEEEE--TTGGGCH---------HHHHHHHHGGGG----TTEEEEEEE-
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHhCcc-eEEEEeCCCcccchH---------HHHHHHHHHhcc---CCCccEEEEeC
Confidence 56677766666777777777887777765 888998887654321 122233344444 3445555544
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
+.+---.-.+-+++...|+|.++...+-
T Consensus 71 ~vpGt~~af~kIkekRpDIl~ia~~~~E 98 (275)
T PF12683_consen 71 AVPGTAEAFRKIKEKRPDILLIAGEPHE 98 (275)
T ss_dssp SS---HHHHHHHHHH-TTSEEEESS--S
T ss_pred CCcchHHHHHHHHhcCCCeEEEcCCCcC
Confidence 2222245567788899999999877553
No 102
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=60.19 E-value=39 Score=22.95 Aligned_cols=50 Identities=26% Similarity=0.343 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhCCCEEEEee-----cCCcchhHhhhh-HHHHhccCCceEEEEeCC
Q 030760 88 GARIAALVREIGASALVVGL-----HDRSFLHKLAMS-HNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~-----~~~~~~~~~~~g-s~~i~~~~~~PVlvv~~~ 137 (172)
.+.|.+++++++++.||+|- ...+......-- ...+-.+.++||..+.+.
T Consensus 37 ~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr 92 (130)
T TIGR00250 37 WSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDER 92 (130)
T ss_pred HHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCC
Confidence 48999999999999999993 333322211110 125555668999888643
No 103
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=59.33 E-value=65 Score=24.57 Aligned_cols=55 Identities=22% Similarity=0.233 Sum_probs=37.7
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCCCCCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPAASPQ 142 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~~~~~ 142 (172)
|.-..+.=....+++++|.||.=-+|..+....+ ...+...+||++++.+..+.+
T Consensus 179 GPfs~e~n~al~~~~~i~~lVtK~SG~~g~~eKi----~AA~~lgi~vivI~RP~~~~~ 233 (249)
T PF02571_consen 179 GPFSKELNRALFRQYGIDVLVTKESGGSGFDEKI----EAARELGIPVIVIKRPPEPYG 233 (249)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHHH----HHHHHcCCeEEEEeCCCCCCC
Confidence 4433233456677899999998766655433322 788999999999987766543
No 104
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=59.28 E-value=94 Score=25.09 Aligned_cols=67 Identities=10% Similarity=0.152 Sum_probs=47.9
Q ss_pred CCcEEEEEecCCc--------hHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCCCCC
Q 030760 74 NTNVEIIVTEGDQ--------EGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQPAAS 140 (172)
Q Consensus 74 ~~~~~~~~~~g~~--------~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~~~~ 140 (172)
+.++...+++|++ +-+.|++.+++.++|++|.|.-=..+.=...-|.. .|-.+..+|++.--....+
T Consensus 47 ~~eIv~TiiCGDnyf~en~eea~~~i~~mv~~~~pD~viaGPaFnagrYG~acg~v~~aV~e~~~IP~vtaM~~ENp 123 (349)
T PF07355_consen 47 DAEIVATIICGDNYFNENKEEALKKILEMVKKLKPDVVIAGPAFNAGRYGVACGEVAKAVQEKLGIPVVTAMYEENP 123 (349)
T ss_pred CCEEEEEEEECcchhhhCHHHHHHHHHHHHHhcCCCEEEEcCCcCCchHHHHHHHHHHHHHHhhCCCEEEEecccCh
Confidence 4667777777663 23678899999999999999765544333344443 7888999999987655443
No 105
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=59.20 E-value=70 Score=23.60 Aligned_cols=83 Identities=11% Similarity=0.036 Sum_probs=48.9
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
+||.|-+.++-..-.++--|+. ....+++|.+|-...++. -. .+.+++. +++....-..
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~~~A-------~~------------lerA~~~-gIpt~~~~~k 59 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDKADA-------YA------------LERAAKA-GIPTVVLDRK 59 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCCCCC-------HH------------HHHHHHc-CCCEEEeccc
Confidence 4677888776555555544555 333366676665554422 11 2222232 6655443333
Q ss_pred CCc----hHHHHHHHHHHhCCCEEEEee
Q 030760 84 GDQ----EGARIAALVREIGASALVVGL 107 (172)
Q Consensus 84 g~~----~~~~I~~~a~~~~~DllVmg~ 107 (172)
+.+ ...+|.+..++.++|+||+..
T Consensus 60 ~~~~r~~~d~~l~~~l~~~~~dlvvLAG 87 (200)
T COG0299 60 EFPSREAFDRALVEALDEYGPDLVVLAG 87 (200)
T ss_pred cCCCHHHHHHHHHHHHHhcCCCEEEEcc
Confidence 322 458899999999999999874
No 106
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=59.03 E-value=60 Score=27.24 Aligned_cols=90 Identities=17% Similarity=0.155 Sum_probs=51.0
Q ss_pred cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHH
Q 030760 11 EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGAR 90 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 90 (172)
|+--+...+|.+|+..... .+.++++.++.... ..-......+.+.++++........+...+..|++. ..
T Consensus 11 DLR~~DN~aL~~A~~~~~~---~~~~vfi~~~~~~~-----~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~~~~-~~ 81 (461)
T COG0415 11 DLRLTDNAALAAACQSGQP---VIIAVFILDPEQLG-----HASPRHAAFLLQSLQALQQSLAELGIPLLVREGDPE-QV 81 (461)
T ss_pred ccccCChHHHHHHHhcCCC---ceEEEEEechhhcc-----ccCHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCHH-HH
Confidence 3333344555555554432 24678887774332 011112222333334443333345567788889996 99
Q ss_pred HHHHHHHhCCCEEEEeecC
Q 030760 91 IAALVREIGASALVVGLHD 109 (172)
Q Consensus 91 I~~~a~~~~~DllVmg~~~ 109 (172)
+.+++++.+++.|+-...-
T Consensus 82 l~~~~~~~~~~~v~~n~~~ 100 (461)
T COG0415 82 LPELAKQLAATTVFWNRDY 100 (461)
T ss_pred HHHHHHHhCcceEEeeeee
Confidence 9999999988887766544
No 107
>PF14459 Prok-E2_C: Prokaryotic E2 family C
Probab=57.66 E-value=53 Score=21.76 Aligned_cols=76 Identities=17% Similarity=0.180 Sum_probs=38.1
Q ss_pred HHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHHHHHH
Q 030760 17 RAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIAALVR 96 (172)
Q Consensus 17 ~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~ 96 (172)
+..++.++++..+.=-.+.++.+.... ......++++.+.. +.++++.-..+++-
T Consensus 13 rA~lDL~vRLlARLYP~l~ilp~g~as---------------~~~a~~l~~LA~sI-Np~I~i~r~G~s~~--------- 67 (131)
T PF14459_consen 13 RASLDLVVRLLARLYPKLCILPSGEAS---------------SFQAQNLQSLARSI-NPRIEIRRSGSSPM--------- 67 (131)
T ss_pred hhHHHHHHHHHHHhcceEEEeecchhH---------------HHHHHHHHHHHHhc-CCCeEEEecCCCce---------
Confidence 456677777776655555555444331 11111234444432 44555544444432
Q ss_pred HhCCCEEEEeecCCc-chhHhhhhHH
Q 030760 97 EIGASALVVGLHDRS-FLHKLAMSHN 121 (172)
Q Consensus 97 ~~~~DllVmg~~~~~-~~~~~~~gs~ 121 (172)
-.+|+|+...+ ...++|.||+
T Consensus 68 ----~clV~G~trp~~sc~~fFiGSd 89 (131)
T PF14459_consen 68 ----HCLVIGSTRPKISCPRFFIGSD 89 (131)
T ss_pred ----EEEEecCCCCCcccceEEEcCC
Confidence 45677766543 3555666665
No 108
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=56.85 E-value=99 Score=24.62 Aligned_cols=58 Identities=16% Similarity=0.240 Sum_probs=32.4
Q ss_pred CCcEEEEEecCCchH---HHHHHHHHHhCCCEEE-EeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 74 NTNVEIIVTEGDQEG---ARIAALVREIGASALV-VGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~---~~I~~~a~~~~~DllV-mg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
++.+.+.+..|++.. +.+.+.+++.++|+|| +| |.+.++- ...+......|++.|+-.
T Consensus 49 ~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavG--GGs~~D~----aK~ia~~~~~p~i~VPTt 110 (349)
T cd08550 49 IIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVG--GGKTLDT----AKAVADRLDKPIVIVPTI 110 (349)
T ss_pred CCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEec--CcHHHHH----HHHHHHHcCCCEEEeCCc
Confidence 555555555555222 4567777888999876 55 2222221 112223346899999854
No 109
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=56.74 E-value=1e+02 Score=24.74 Aligned_cols=26 Identities=27% Similarity=0.328 Sum_probs=19.6
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
|..--+.|.+.+++.++|+||.-..-
T Consensus 51 g~gk~~e~~~~~~~~~~~~vi~~~~l 76 (351)
T TIGR03156 51 GKGKVEEIAELVEELEADLVIFDHEL 76 (351)
T ss_pred cccHHHHHHHHHHhcCCCEEEECCCC
Confidence 33334889999999999999987543
No 110
>TIGR01198 pgl 6-phosphogluconolactonase. This enzyme of the pentose phosphate pathway is often found as a part of a multifunctional protein with
Probab=56.25 E-value=83 Score=23.56 Aligned_cols=109 Identities=7% Similarity=-0.064 Sum_probs=58.2
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCc-EEEEEec
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTN-VEIIVTE 83 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 83 (172)
++.+++.+...-...++..... .-...++++..+.+.-...... +....+ +. +.+.... .+. -.++...
T Consensus 29 ~~~lalsGGstp~~~y~~L~~~-~i~w~~v~~f~~DER~Vp~~~~--~SN~~~---~~---~~Ll~~~-~i~~~~i~~~~ 98 (233)
T TIGR01198 29 QFSLALSGGRSPIALLEALAAQ-PLDWSRIHLFLGDERYVPLDHA--DSNTGL---AR---EALLDRV-AIPASNIHPMP 98 (233)
T ss_pred cEEEEECCCccHHHHHHHHhhC-CCCcceEEEEEecccccCCCCc--cchHHH---HH---HHHhccC-CCChhheeeCC
Confidence 4566676655556666655543 3334788888888764322111 111111 11 1222221 111 1222223
Q ss_pred CC--chHHHHHHHHHHh----C------CCEEEEeecCCcchhHhhhhHHHH
Q 030760 84 GD--QEGARIAALVREI----G------ASALVVGLHDRSFLHKLAMSHNDI 123 (172)
Q Consensus 84 g~--~~~~~I~~~a~~~----~------~DllVmg~~~~~~~~~~~~gs~~i 123 (172)
+. ...++...|.++. . .|++++|-..-+....+|.|+..+
T Consensus 99 ~~~~~~~~~a~~y~~~i~~~~~~~~~p~fDl~lLGmG~DGHtASlFPg~~~l 150 (233)
T TIGR01198 99 TELSDIEEAAELYEQELAAAFQPIVFPVFDLLLLGMGPDGHTASLFPHTPAL 150 (233)
T ss_pred CccCCHHHHHHHHHHHHHHhhcccCCCcccEEEECCcCCccceeCCCCChhh
Confidence 22 2236666666543 2 399999999988899999887543
No 111
>PRK00766 hypothetical protein; Provisional
Probab=56.02 E-value=31 Score=25.32 Aligned_cols=59 Identities=8% Similarity=0.074 Sum_probs=36.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHH----hCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEE
Q 030760 74 NTNVEIIVTEGDQEGARIAALVRE----IGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAI 134 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~----~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv 134 (172)
++-.....+.|....+.|++.++. .++.+|++..=..++++ +.--..+-+.+..||++|
T Consensus 42 Gv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFN--vvD~~~l~~~tg~PVI~V 104 (194)
T PRK00766 42 GVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFN--VVDIEELYRETGLPVIVV 104 (194)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeE--EecHHHHHHHHCCCEEEE
Confidence 455566777888888888888876 23445555433223222 111127888888999988
No 112
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=54.51 E-value=1.1e+02 Score=24.48 Aligned_cols=35 Identities=17% Similarity=-0.021 Sum_probs=27.7
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
++|+|++.+.-+|..++..+.+ .+-.+..+|+...
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~~ 35 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKLW 35 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeCC
Confidence 4899999999999988776654 3567899998754
No 113
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=54.01 E-value=1.2e+02 Score=24.75 Aligned_cols=34 Identities=15% Similarity=0.152 Sum_probs=27.9
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEec
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFP 41 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~ 41 (172)
.++++.+.+.-+|..++.++.+ .|..++.+|+..
T Consensus 177 gkvvvllSGGiDS~vaa~l~~k----~G~~v~av~~~~ 210 (394)
T PRK01565 177 GKALLLLSGGIDSPVAGYLAMK----RGVEIEAVHFHS 210 (394)
T ss_pred CCEEEEECCChhHHHHHHHHHH----CCCEEEEEEEeC
Confidence 5789999999999988877755 377899999964
No 114
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=53.99 E-value=1.2e+02 Score=24.76 Aligned_cols=35 Identities=17% Similarity=0.246 Sum_probs=28.1
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.++++.+.+.-+|..|+-.+.+ .|.+|..+|+...
T Consensus 181 gkvlvllSGGiDSpVAa~ll~k----rG~~V~~v~f~~g 215 (381)
T PRK08384 181 GKVVALLSGGIDSPVAAFLMMK----RGVEVIPVHIYMG 215 (381)
T ss_pred CcEEEEEeCChHHHHHHHHHHH----cCCeEEEEEEEeC
Confidence 5899999999998887665554 4889999999644
No 115
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=53.92 E-value=84 Score=22.88 Aligned_cols=94 Identities=19% Similarity=0.161 Sum_probs=51.0
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
|+++++.+..+|..++.++.+ .|.++..+++..+...... .. .....+.++..++.. +++.......+
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~~~~~~~~----~~---h~~~~e~~~~~A~~l-gipl~~i~~~~ 68 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLTPEEGSSM----MY---HTVNHELLELQAEAM-GIPLIRIEISG 68 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEecCCCCcc----cc---cccCHHHHHHHHHHc-CCcEEEEeCCC
Confidence 578999999999999998888 3567777777654321110 00 000111223333333 66655443322
Q ss_pred C--chHHH----HHHHHHHhCCCEEEEeecCCc
Q 030760 85 D--QEGAR----IAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 85 ~--~~~~~----I~~~a~~~~~DllVmg~~~~~ 111 (172)
+ ...+. +.+..++ +++.||-|..-..
T Consensus 69 ~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd 100 (194)
T cd01994 69 EEEDEVEDLKELLRKLKEE-GVDAVVFGAILSE 100 (194)
T ss_pred CchHHHHHHHHHHHHHHHc-CCCEEEECccccH
Confidence 1 11123 3333333 6999999987543
No 116
>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=53.17 E-value=47 Score=19.79 Aligned_cols=32 Identities=25% Similarity=0.426 Sum_probs=22.0
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEE
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVT 35 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~ 35 (172)
++|.++.|.+...+.+...+.+.....+..+.
T Consensus 44 ~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~~ 75 (79)
T cd01029 44 RTVILAFDNDEAGKKAAARALELLLALGGRVR 75 (79)
T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHCCCEEE
Confidence 78888888888777777666666655444443
No 117
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=52.91 E-value=45 Score=27.16 Aligned_cols=79 Identities=10% Similarity=0.086 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHH
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIA 92 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~ 92 (172)
+.+++.+++|+++|+..+ .+|+++|=.+--.. .. . -..+.+++..+++|+++++...++.-. -.++
T Consensus 184 ~~~eRIar~AF~~A~~r~~k~Vt~v~KaNvlk~---td-g-------lf~e~~~eva~eyPdI~~~~~~VDa~a--~~Lv 250 (372)
T PLN00118 184 QASLRVAEYAFHYAKTHGRKRVSAIHKANIMKK---TD-G-------LFLKCCREVAEKYPEIVYEEVIIDNCC--MMLV 250 (372)
T ss_pred HHHHHHHHHHHHHHHHcCCCeEEEEECCccchh---hh-H-------HHHHHHHHHHhhCCCceEEeeeHHHHH--HHhc
Confidence 568889999999997775 45888875543110 10 1 111223455556777777766653221 2332
Q ss_pred HHHHHhCCCEEEEee
Q 030760 93 ALVREIGASALVVGL 107 (172)
Q Consensus 93 ~~a~~~~~DllVmg~ 107 (172)
.. -...|.||...
T Consensus 251 ~~--P~~fDViVt~N 263 (372)
T PLN00118 251 KN--PALFDVLVMPN 263 (372)
T ss_pred cC--cccCcEEEEcC
Confidence 22 24467666554
No 118
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=51.98 E-value=1.3e+02 Score=25.56 Aligned_cols=104 Identities=13% Similarity=0.189 Sum_probs=59.8
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGD 85 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~ 85 (172)
+++-++.+.- ++..+-.|+..+-...++-|...+...... .++.+.+. |+++.+..+.+-
T Consensus 362 viltyg~s~v----V~~ill~A~~~~k~frVvVVDSRP~~EG~~--------------~lr~Lv~~--GinctYv~I~a~ 421 (556)
T KOG1467|consen 362 VLLTYGSSSV----VNMILLEAKELGKKFRVVVVDSRPNLEGRK--------------LLRRLVDR--GINCTYVLINAA 421 (556)
T ss_pred EEEEecchHH----HHHHHHHHHHhCcceEEEEEeCCCCcchHH--------------HHHHHHHc--CCCeEEEEehhH
Confidence 4455555554 444444455555566777676665432211 12344332 899998888765
Q ss_pred chHHHHHHHHHHhCCCEEEEeecCCcchhHhh--hhHH---HHhccCCceEEEEeCC
Q 030760 86 QEGARIAALVREIGASALVVGLHDRSFLHKLA--MSHN---DISSSFNCRVLAIKQP 137 (172)
Q Consensus 86 ~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~--~gs~---~i~~~~~~PVlvv~~~ 137 (172)
.+ |. ..++-|++|.|.--.-..+. -|+- -+.++.++||+|+=+.
T Consensus 422 sy---im-----~evtkvfLGahailsNG~vysR~GTa~valvAna~nVPVlVCCE~ 470 (556)
T KOG1467|consen 422 SY---IM-----LEVTKVFLGAHAILSNGAVYSRVGTACVALVANAFNVPVLVCCEA 470 (556)
T ss_pred HH---HH-----HhcceeeechhhhhcCcchhhhcchHHHHHHhcccCCCEEEEech
Confidence 54 22 23799999988632111111 2321 6778889999999643
No 119
>TIGR00169 leuB 3-isopropylmalate dehydrogenase. This model will not find all isopropylmalate dehydrogenases; the enzyme from Sulfolobus sp. strain 7 is more similar to mitochondrial NAD-dependent isocitrate dehydrogenases than to other known isopropylmalate dehydrogenases and was omitted to improve the specificity of the model. It scores below the cutoff and below some enzymes known not to be isopropylmalate dehydrogenase.
Probab=51.86 E-value=44 Score=26.96 Aligned_cols=78 Identities=13% Similarity=0.114 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHHH
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIAA 93 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~ 93 (172)
..+++.+++|+++|...+..|+++|=.+--. .. ..+ .+.+++..+++|+++++...++.-. ..++.
T Consensus 163 ~~~eRI~r~AF~~A~~r~~~Vt~v~KaNvlk----t~-glf-------~~~~~eva~~yP~I~~~~~~vDa~~--~~Lv~ 228 (349)
T TIGR00169 163 PEIERIARVAFEMARKRRKKVTSVDKANVLE----SS-RLW-------RKTVEEIAKEYPDVELEHQYIDNAA--MQLVK 228 (349)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEECCcccc----hh-HHH-------HHHHHHHHhhCCCceEEeeeHHHHH--HHHHh
Confidence 5688889999999977766777777554421 11 111 1123445556777777766553211 22222
Q ss_pred HHHHhCCCEEEEee
Q 030760 94 LVREIGASALVVGL 107 (172)
Q Consensus 94 ~a~~~~~DllVmg~ 107 (172)
. -...|.||+..
T Consensus 229 ~--P~~fDViv~~N 240 (349)
T TIGR00169 229 S--PTQFDVVVTGN 240 (349)
T ss_pred C--ccCceEEEEcC
Confidence 2 24467555543
No 120
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=51.70 E-value=1.3e+02 Score=24.45 Aligned_cols=32 Identities=22% Similarity=0.145 Sum_probs=17.3
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVV 34 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l 34 (172)
.++|.+-.+.++..+..++...+.+++.|-.|
T Consensus 172 w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicI 203 (403)
T cd06361 172 WNWVGIIITDDDYGRSALETFIIQAEANGVCI 203 (403)
T ss_pred CcEEEEEEecCchHHHHHHHHHHHHHHCCeEE
Confidence 34555555555555555555555555555433
No 121
>TIGR02088 LEU3_arch isopropylmalate/isohomocitrate dehydrogenases. This family is closely related to both the LeuB genes found in TIGR00169 and the mitochondrial eukaryotic isocitrate dehydratases found in TIGR00175. All of these are included within the broader subfamily model, pfam00180.
Probab=51.60 E-value=51 Score=26.25 Aligned_cols=28 Identities=14% Similarity=0.051 Sum_probs=21.7
Q ss_pred CHHHHHHHHHHHHhhccCCCEEEEEEEe
Q 030760 13 VDAARAALLWALQNLLRFGDVVTLLHVF 40 (172)
Q Consensus 13 s~~s~~al~~a~~la~~~~~~l~~l~V~ 40 (172)
.+.+++.+++|.++|.+.+.+|+++|=.
T Consensus 140 r~~~eRi~r~AF~~A~~r~~~Vt~v~Ka 167 (322)
T TIGR02088 140 REGSERIARFAFNLAKERNRKVTCVHKA 167 (322)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEeCC
Confidence 4668889999999998777776666544
No 122
>PRK05920 aromatic acid decarboxylase; Validated
Probab=50.87 E-value=43 Score=24.77 Aligned_cols=36 Identities=19% Similarity=0.106 Sum_probs=29.1
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHV 39 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V 39 (172)
.+||++++.++-.+-++++.+-.+.+. |.+|+++-.
T Consensus 3 ~krIllgITGsiaa~ka~~lvr~L~~~-g~~V~vi~T 38 (204)
T PRK05920 3 MKRIVLAITGASGAIYGVRLLECLLAA-DYEVHLVIS 38 (204)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHHHC-CCEEEEEEC
Confidence 589999999999998998888888664 777766653
No 123
>PHA02031 putative DnaG-like primase
Probab=50.52 E-value=63 Score=24.99 Aligned_cols=37 Identities=8% Similarity=0.012 Sum_probs=31.9
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEe
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVF 40 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~ 40 (172)
++|+++.|++...++|...++++....+-.+.++..-
T Consensus 207 ~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~lP 243 (266)
T PHA02031 207 PRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIITP 243 (266)
T ss_pred CCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEECC
Confidence 7899999999999999999999988778777766653
No 124
>PRK04527 argininosuccinate synthase; Provisional
Probab=50.43 E-value=1.4e+02 Score=24.57 Aligned_cols=37 Identities=14% Similarity=0.020 Sum_probs=30.6
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
.++++|++.+.-+|..++.|+.+ .|..++.+++....
T Consensus 2 ~~kVvVA~SGGvDSSvla~~l~e----~G~~Viavt~d~gq 38 (400)
T PRK04527 2 SKDIVLAFSGGLDTSFCIPYLQE----RGYAVHTVFADTGG 38 (400)
T ss_pred CCcEEEEEcCChHHHHHHHHHHH----cCCcEEEEEEEeCC
Confidence 37899999999999999988776 26789999997653
No 125
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=50.43 E-value=1e+02 Score=26.69 Aligned_cols=66 Identities=14% Similarity=0.234 Sum_probs=42.2
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHH---HHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIA---ALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~---~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
...++.+ +++++..+..-+--.+.+. +.+++.+++++|.+......+.. -+.-++.+||+=||.+.
T Consensus 430 ~~~l~~~-g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~------~~a~~t~~pvi~vp~~~ 498 (577)
T PLN02948 430 AEILDSF-GVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPG------MVASMTPLPVIGVPVKT 498 (577)
T ss_pred HHHHHHc-CCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchH------HHhhccCCCEEEcCCCC
Confidence 3333444 7777777764221124444 44556788888888776666665 56678899999998753
No 126
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=50.41 E-value=22 Score=24.65 Aligned_cols=59 Identities=12% Similarity=-0.108 Sum_probs=38.8
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
..++--.++.|.+. +.=.++.+++++|.+++|--.......+ .+-+.+....+-|.|-.
T Consensus 62 s~ryVD~vi~~~p~-~~~~~~i~~~k~Div~lG~D~~~d~~~l----~~~~~k~G~~~~v~R~~ 120 (140)
T COG0615 62 SLRYVDEVILGAPW-DIKFEDIEEYKPDIVVLGDDQKFDEDDL----KYELVKRGLFVEVKRTE 120 (140)
T ss_pred cCcchheeeeCCcc-ccChHHHHHhCCCEEEECCCCcCChHHH----HHHHHHcCCeeEEEecc
Confidence 45666678888884 4438999999999999997766322211 13333366667776644
No 127
>PRK14561 hypothetical protein; Provisional
Probab=49.95 E-value=97 Score=22.48 Aligned_cols=87 Identities=8% Similarity=-0.020 Sum_probs=50.0
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
+|+|++.+..+|..++.++... ..+.++|+..... . + .+.++..++.. +++........
T Consensus 2 kV~ValSGG~DSslll~~l~~~-----~~v~a~t~~~g~~----~--e---------~~~a~~~a~~l-Gi~~~~v~~~~ 60 (194)
T PRK14561 2 KAGVLFSGGKDSSLAAILLERF-----YDVELVTVNFGVL----D--S---------WKHAREAAKAL-GFPHRVLELDR 60 (194)
T ss_pred EEEEEEechHHHHHHHHHHHhc-----CCeEEEEEecCch----h--H---------HHHHHHHHHHh-CCCEEEEECCH
Confidence 5999999999999888766543 3456777754421 0 0 11234444443 55444433221
Q ss_pred C--------------------chHHHHHHHHHHhCCCEEEEeecCCcch
Q 030760 85 D--------------------QEGARIAALVREIGASALVVGLHDRSFL 113 (172)
Q Consensus 85 ~--------------------~~~~~I~~~a~~~~~DllVmg~~~~~~~ 113 (172)
. .....++..+. .+++.|+.|.+.-...
T Consensus 61 ~~~~~~~~~~~~~~~P~~~~~~l~~~~l~~~a-~g~~~Ia~G~n~DD~~ 108 (194)
T PRK14561 61 EILEKAVDMIIEDGYPNNAIQYVHEHALEALA-EEYDVIADGTRRDDRV 108 (194)
T ss_pred HHHHHHHHHHHHcCCCCchhHHHHHHHHHHHH-cCCCEEEEEecCCCcc
Confidence 0 11134444445 8899999999886533
No 128
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=49.77 E-value=1.1e+02 Score=23.34 Aligned_cols=54 Identities=17% Similarity=0.118 Sum_probs=36.3
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCCCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPAAS 140 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~~~ 140 (172)
.|.-..+.=....+++++|.||.=-+|..+....+ ...+...+||++++.+..+
T Consensus 174 ~gPfs~e~n~aL~~~~~i~~lVtK~SG~~g~~eKi----~AA~~lgi~vivI~RP~~~ 227 (248)
T PRK08057 174 RGPFSLELERALLRQHRIDVVVTKNSGGAGTEAKL----EAARELGIPVVMIARPALP 227 (248)
T ss_pred eCCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHHH----HHHHHcCCeEEEEeCCCCC
Confidence 34332233456677899999998766554333322 7889999999999866543
No 129
>PRK08194 tartrate dehydrogenase; Provisional
Probab=49.63 E-value=51 Score=26.61 Aligned_cols=29 Identities=14% Similarity=0.043 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+.+++.+++|+++|...+.+|+++|=.+-
T Consensus 161 ~~~eRI~r~Af~~A~~r~~~Vt~v~KaNv 189 (352)
T PRK08194 161 KGTERAMRYAFELAAKRRKHVTSATKSNG 189 (352)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCcch
Confidence 56889999999999776667888875543
No 130
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=49.22 E-value=55 Score=26.21 Aligned_cols=80 Identities=13% Similarity=0.123 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHH
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIA 92 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~ 92 (172)
+.+++.+++|+++|...+ .+|+++|=.+--.. .. .. ..+.+++..+++|+++++...++.-. -.++
T Consensus 147 ~~~eRi~r~Af~~A~~r~~~~Vt~v~KaNvl~~---t~-gl-------f~~~~~eva~~yP~V~~~~~~vDa~~--~~lv 213 (334)
T PRK08997 147 KGAERIVRFAYELARKEGRKKVTAVHKANIMKS---TS-GL-------FLKVAREVALRYPDIEFEEMIVDATC--MQLV 213 (334)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEEeCCCcchh---hh-HH-------HHHHHHHHHhhCCCeEEEeeeHHHHH--HHHh
Confidence 568889999999997775 46888875544211 00 11 11123444455667766665543222 2222
Q ss_pred HHHHHhCCCEEEEeec
Q 030760 93 ALVREIGASALVVGLH 108 (172)
Q Consensus 93 ~~a~~~~~DllVmg~~ 108 (172)
.. =...|.||+..-
T Consensus 214 ~~--P~~fdVivt~Nl 227 (334)
T PRK08997 214 MN--PEQFDVIVTTNL 227 (334)
T ss_pred hC--cccCcEEEEcCc
Confidence 22 245676665543
No 131
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=49.00 E-value=52 Score=24.18 Aligned_cols=114 Identities=11% Similarity=-0.022 Sum_probs=63.8
Q ss_pred CceEEEEEecCCHHHHH-HHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHH--HHHHHHHHHHHhhhhcCCcEE
Q 030760 2 DVKKIVVIVEDVDAARA-ALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLK--GYQLALSFKDICNDFFNTNVE 78 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~-al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 78 (172)
.-++|++++.++-.+-+ +.+.+-.+.+ .|.+|+++-...... ..... ..+....++.+. +.++.
T Consensus 4 ~~k~IllgVTGsiaa~k~a~~lir~L~k-~G~~V~vv~T~aA~~--------~~~~~~~~~~~~~~l~~ls----~~~v~ 70 (196)
T PRK08305 4 KGKRIGFGLTGSHCTYDEVMPEIEKLVD-EGAEVTPIVSYTVQT--------TDTRFGKAEEWIKKIEEIT----GNKVI 70 (196)
T ss_pred CCCEEEEEEcCHHHHHHHHHHHHHHHHh-CcCEEEEEECHhHHH--------HhhhcCChHHHHHHHHHHH----CCCcE
Confidence 45899999999999998 5887777755 477777665332211 00000 000111122221 22222
Q ss_pred EEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HH-------HHhccCCceEEEEe
Q 030760 79 IIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HN-------DISSSFNCRVLAIK 135 (172)
Q Consensus 79 ~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~-------~i~~~~~~PVlvv~ 135 (172)
.... +.. +.+- ...+|++|+..-.-..+.++-.| ++ ...-+..+||++++
T Consensus 71 ~~~~-~~~----~isl--s~~aD~mvIAPaSanTLAKiA~GiaDnll~~aa~a~lke~~PvvlaP 128 (196)
T PRK08305 71 NTIV-EAE----PLGP--KKLLDCMVIAPCTGNTMAKLANAITDSPVLMAAKATLRNQRPVVLAI 128 (196)
T ss_pred EecC-CCc----cCcc--ccccCEEEEEeCCHhHHHHHHccccCcHHHHHHHHHhcCCCCEEEEE
Confidence 2211 111 1111 34589999999888888888777 32 22233479999997
No 132
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=48.71 E-value=84 Score=21.39 Aligned_cols=27 Identities=15% Similarity=-0.066 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 88 GARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
.+.+++.|.++++|+|.+++--.+...
T Consensus 39 ~e~~v~aa~~~~adiVglS~L~t~~~~ 65 (128)
T cd02072 39 QEEFIDAAIETDADAILVSSLYGHGEI 65 (128)
T ss_pred HHHHHHHHHHcCCCEEEEeccccCCHH
Confidence 399999999999999999886655544
No 133
>PF13362 Toprim_3: Toprim domain
Probab=48.59 E-value=51 Score=20.63 Aligned_cols=38 Identities=16% Similarity=0.212 Sum_probs=28.2
Q ss_pred CceEEEEEecCCHH--HHHHHHHHHHhhccCCCEEEEEEE
Q 030760 2 DVKKIVVIVEDVDA--ARAALLWALQNLLRFGDVVTLLHV 39 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~--s~~al~~a~~la~~~~~~l~~l~V 39 (172)
..++|+++.|.+.. ...+...+.+...+.|..+.++.-
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p 79 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP 79 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC
Confidence 36789999999877 777777777777767766665544
No 134
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=48.55 E-value=1e+02 Score=22.20 Aligned_cols=46 Identities=15% Similarity=0.133 Sum_probs=30.9
Q ss_pred HHHhhhhcCCcEEEEEe-cCCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 66 KDICNDFFNTNVEIIVT-EGDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~-~g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
+.+.+++|++++....- .+....+.|++.+.+.++|+|++|-...+
T Consensus 66 ~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~s~~dil~VglG~Pk 112 (177)
T TIGR00696 66 VKLIKEYPKLKIVGAFGPLEPEERKAALAKIARSGAGIVFVGLGCPK 112 (177)
T ss_pred HHHHHHCCCCEEEEECCCCChHHHHHHHHHHHHcCCCEEEEEcCCcH
Confidence 44444577887665411 12223377999999999999999976655
No 135
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=48.49 E-value=53 Score=22.96 Aligned_cols=47 Identities=17% Similarity=0.242 Sum_probs=21.5
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhH-HHHhcc-------CCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSH-NDISSS-------FNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs-~~i~~~-------~~~PVlvv~~~ 137 (172)
+.+.++++++++|+|++|..+.... + +.-. ..++.. .++||.++.+.
T Consensus 53 ~~l~~~i~~~kP~vI~v~g~~~~s~-~-l~~~v~~~v~~~~~~~~~~~i~V~~v~~~ 107 (150)
T PF14639_consen 53 ERLKKFIEKHKPDVIAVGGNSRESR-K-LYDDVRDIVEELDEDEQMPPIPVVIVDDE 107 (150)
T ss_dssp HHHHHHHHHH--SEEEE--SSTHHH-H-HHHHHHHHHHHTTB-TTS-B--EEE---T
T ss_pred HHHHHHHHHcCCeEEEEcCCChhHH-H-HHHHHHHHHHHhhhcccCCCceEEEECcH
Confidence 6777888999999999965443321 1 2111 133332 35888888754
No 136
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=48.32 E-value=1.4e+02 Score=23.84 Aligned_cols=35 Identities=14% Similarity=0.070 Sum_probs=25.4
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.++||+.+..+|..++..+.. ..|-.+.++|+...
T Consensus 61 D~iV~lSGGkDSs~la~ll~~---~~gl~~l~vt~~~~ 95 (343)
T TIGR03573 61 DCIIGVSGGKDSTYQAHVLKK---KLGLNPLLVTVDPG 95 (343)
T ss_pred CEEEECCCCHHHHHHHHHHHH---HhCCceEEEEECCC
Confidence 489999999999888765533 34556777788654
No 137
>cd01400 6PGL 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard against the accumulation of the delta form of the lactone, which may be toxic through its reaction with endogenous cellular nucleophiles.
Probab=48.32 E-value=1.1e+02 Score=22.62 Aligned_cols=124 Identities=8% Similarity=-0.026 Sum_probs=62.8
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcE-EEEEec
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNV-EIIVTE 83 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 83 (172)
+..+++.+.......++.......-.-..+++..+.+.-...... +..... +. +.+.... .+.. .++...
T Consensus 24 ~~~l~lsGGstp~~~y~~L~~~~~i~w~~v~~f~~DEr~Vp~~~~--~Sn~~~---~~---~~ll~~~-~~~~~~v~~~~ 94 (219)
T cd01400 24 RFSLALSGGSTPKPLYELLAAAPALDWSKVHVFLGDERCVPPDDP--DSNYRL---AR---EALLSHV-AIPAANIHPIP 94 (219)
T ss_pred eEEEEECCCccHHHHHHHhccccCCCCceEEEEEeeccccCCCCc--ccHHHH---HH---HHhhccC-CCCHhhEEeCC
Confidence 456666665555566555444332234789999998774322111 111111 11 1122211 1211 222223
Q ss_pred CC-chHHHHHHHHHH--------hCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 84 GD-QEGARIAALVRE--------IGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 84 g~-~~~~~I~~~a~~--------~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
+. ...++..+|.+. -..|++++|-..-+....+|.|+..........|+.+...
T Consensus 95 ~~~~~~~~a~~y~~~i~~~~~~~~~~Dl~lLGmG~DGH~ASlfP~~~~~~~~~~~~v~~~~~~ 157 (219)
T cd01400 95 TELGPEDAAAAYEKELRALFGGVPPFDLVLLGMGPDGHTASLFPGHPALLEETDRLVVAVTDS 157 (219)
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCCEEEECCcCCCceeecCCCCcccccccCceEEEEeCC
Confidence 22 123555555542 2579999999999989998888753322333345555433
No 138
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=48.28 E-value=1.3e+02 Score=23.52 Aligned_cols=36 Identities=22% Similarity=0.218 Sum_probs=27.7
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
++++.-.........+.|.+..+++.+|.||+..|.
T Consensus 129 ~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 164 (287)
T PF05582_consen 129 GIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGHD 164 (287)
T ss_pred CCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCch
Confidence 666665555444335999999999999999998765
No 139
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=48.19 E-value=72 Score=24.31 Aligned_cols=16 Identities=13% Similarity=0.206 Sum_probs=11.7
Q ss_pred HHhccCCceEEEEeCC
Q 030760 122 DISSSFNCRVLAIKQP 137 (172)
Q Consensus 122 ~i~~~~~~PVlvv~~~ 137 (172)
..+..++||++++|-+
T Consensus 83 ~~L~~~~~p~~~vPG~ 98 (255)
T PF14582_consen 83 RILGELGVPVFVVPGN 98 (255)
T ss_dssp HHHHCC-SEEEEE--T
T ss_pred HHHHhcCCcEEEecCC
Confidence 7889999999999844
No 140
>PF01182 Glucosamine_iso: Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase; InterPro: IPR006148 This domain is characteristic of the enzymes 6-phosphogluconolactonase (3.1.1.31 from EC), Glucosamine-6-phosphate isomerase (3.5.99.6 from EC), and Galactosamine-6-phosphate isomerase. 6-Phosphogluconolactonase is the enzyme responsible for the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate, the second step in the pentose phosphate pathway. Glucosamine-6-phosphate isomerase (or Glucosamine 6-phosphate deaminase) is the enzyme responsible for the conversion of D-glucosamine 6-phosphate into D-fructose 6-phosphate []. It is the last specific step in the pathway for N-acetylglucosamine (GlcNAC) utilization in bacteria such as Escherichia coli (gene nagB) or in fungi such as Candida albicans (gene NAG1).; GO: 0005975 carbohydrate metabolic process; PDB: 3CSS_A 3CH7_A 1Y89_B 3TX2_A 2BKX_B 2BKV_B 3E15_B 1HOR_B 1JT9_A 1HOT_A ....
Probab=48.10 E-value=59 Score=23.66 Aligned_cols=123 Identities=11% Similarity=0.067 Sum_probs=57.7
Q ss_pred EEEEecCCHHHHHHHHHHHHhh--ccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcE-EEEEe
Q 030760 6 IVVIVEDVDAARAALLWALQNL--LRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNV-EIIVT 82 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la--~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ 82 (172)
..+++.+........+...... ......|++..+.+.-...... +..... +. +.+.... .++. .++..
T Consensus 23 ~~i~LsgGstp~~~y~~L~~~~~~~i~w~~v~~~~~DEr~v~~~~~--~Sn~~~---~~---~~l~~~~-~i~~~~i~~~ 93 (199)
T PF01182_consen 23 AVIALSGGSTPKPLYQELAKLHKERIDWSRVHFFNVDERVVPPDDP--DSNYRM---LR---EHLLDPL-PIPPENIHPI 93 (199)
T ss_dssp EEEEE--SCTHHHHHHHHHHHHHTCSCGGGEEEEESEEESSTTTST--TSHHHH---HH---HHTGGGS-GGGGGGEETS
T ss_pred EEEEEcCCHHHHHHHHHHhhhccccCChhHeEEEeCcccccCCCCC--ccHHHH---HH---HHhhccC-CCCcceEEeC
Confidence 4455544443455555555544 2233678888887764221111 111111 11 1122211 1111 23333
Q ss_pred cC--CchHHHHHHHHHHh----------CCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 83 EG--DQEGARIAALVREI----------GASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 83 ~g--~~~~~~I~~~a~~~----------~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
.+ ....++...|.++. ..|++++|-...+.+..+|.|+..+.......+..+...
T Consensus 94 ~~~~~~~~~~~~~y~~~l~~~~~~~~~p~~Dl~lLG~G~DGH~aslfPg~~~~~~~~~~~~~~~~~~ 160 (199)
T PF01182_consen 94 DGEADDPEEAAERYEQELASLGGEAGFPGFDLVLLGMGEDGHTASLFPGSPALLEESERWVVAVTDS 160 (199)
T ss_dssp STTTSSHHHHHHHHHHHHHHHSSSEECESBSEEEEE--TTS-BTTB-TTCHTTHHHHSSSSEEEECC
T ss_pred CCCCCCHHHHHHHHHHHHHHhccccCCCceeEEEeccccCCCeeccCCCCccccccccceEEEecCC
Confidence 32 33336666666654 399999999999999999988765443222245555533
No 141
>TIGR02089 TTC tartrate dehydrogenase. Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate. These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in TIGR00169 and TIGR02088, respectively.
Probab=48.04 E-value=50 Score=26.68 Aligned_cols=79 Identities=8% Similarity=0.045 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHHH
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIAA 93 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~ 93 (172)
..+++.+++|+++|+....+|+++|=.+--.. .. .. ..+.+++.++++|+++++...++.-. -.++.
T Consensus 164 ~~~eRi~r~Af~~A~~rr~kVt~v~KaNvl~~---t~-~l-------f~~~~~eva~~yp~v~~~~~~vD~~~--~~lv~ 230 (352)
T TIGR02089 164 KGVERIMRFAFELAQKRRKHLTSATKSNGIRH---SM-PF-------WDEVFAEVAAEYPDVEWDSYHIDALA--ARFVL 230 (352)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeCCcchhh---hh-HH-------HHHHHHHHHhhCCCceEeeehHHHHH--HHHhc
Confidence 56888899999999776667888876543110 10 11 11223445555667666655443222 22332
Q ss_pred HHHHhCCCEEEEee
Q 030760 94 LVREIGASALVVGL 107 (172)
Q Consensus 94 ~a~~~~~DllVmg~ 107 (172)
.= ...|.||+..
T Consensus 231 ~P--~~fDVivt~N 242 (352)
T TIGR02089 231 KP--ETFDVIVASN 242 (352)
T ss_pred Ch--hhCcEEEecc
Confidence 22 4567666543
No 142
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=47.77 E-value=68 Score=20.74 Aligned_cols=63 Identities=3% Similarity=0.055 Sum_probs=37.0
Q ss_pred HHHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 64 SFKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
++++.+++. ++++++....- ..+.+.. .++|++++|..-+-.++. -.........||.++...
T Consensus 19 km~~~a~~~-gi~~~i~a~~~----~e~~~~~--~~~Dvill~PQv~~~~~~----i~~~~~~~~ipv~~I~~~ 81 (99)
T cd05565 19 ALNKGAKER-GVPLEAAAGAY----GSHYDMI--PDYDLVILAPQMASYYDE----LKKDTDRLGIKLVTTTGK 81 (99)
T ss_pred HHHHHHHHC-CCcEEEEEeeH----HHHHHhc--cCCCEEEEcChHHHHHHH----HHHHhhhcCCCEEEeCHH
Confidence 345565554 77766554332 3344443 357999999764333332 126677778999888743
No 143
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=47.52 E-value=65 Score=21.10 Aligned_cols=43 Identities=19% Similarity=0.176 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhc-cCCceEEEEeCC
Q 030760 88 GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISS-SFNCRVLAIKQP 137 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~-~~~~PVlvv~~~ 137 (172)
.....+.|++.++..||+-+....... .+.+ +.+||++++-+.
T Consensus 5 a~aa~~~A~~~~ak~Ivv~T~sG~ta~-------~isk~RP~~pIiavt~~ 48 (117)
T PF02887_consen 5 ARAAVELAEDLNAKAIVVFTESGRTAR-------LISKYRPKVPIIAVTPN 48 (117)
T ss_dssp HHHHHHHHHHHTESEEEEE-SSSHHHH-------HHHHT-TSSEEEEEESS
T ss_pred HHHHHHHHHhcCCCEEEEECCCchHHH-------HHHhhCCCCeEEEEcCc
Confidence 467788889999999988877554433 2333 356999998755
No 144
>PRK11058 GTPase HflX; Provisional
Probab=47.37 E-value=1.6e+02 Score=24.34 Aligned_cols=26 Identities=27% Similarity=0.381 Sum_probs=19.6
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
|..--+.|.+.+++.++|+||+-..-
T Consensus 59 g~gk~~e~~~~~~~~~~~~vi~~~~l 84 (426)
T PRK11058 59 GEGKAVEIAEAVKATGASVVLFDHAL 84 (426)
T ss_pred cccHHHHHHHHHHhcCCCEEEECCCC
Confidence 34334889999999999999987543
No 145
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=47.30 E-value=1.3e+02 Score=24.96 Aligned_cols=66 Identities=14% Similarity=0.098 Sum_probs=46.5
Q ss_pred CCcEEEEEecCCchH--------HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCCCC
Q 030760 74 NTNVEIIVTEGDQEG--------ARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~--------~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~~~ 139 (172)
+.++...++.|+++- +.|++.+++.++|++|.|.-=..+.=...-|.. .|-.+..+|++.--....
T Consensus 43 ~~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG~acg~va~aV~e~~~IP~vt~My~EN 118 (431)
T TIGR01918 43 DAEVVHTVVCGDSFFGENLEEAVARVLEMLKDKEPDIFIAGPAFNAGRYGVACGEICKVVQDKLNVPAVTSMYVEN 118 (431)
T ss_pred CCEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHHHHHHHHHHHHHHhhCCCeEEEecccC
Confidence 566777777776432 568899999999999999765443333344433 677889999998765543
No 146
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=47.23 E-value=78 Score=20.60 Aligned_cols=39 Identities=13% Similarity=0.001 Sum_probs=27.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
|.++... -...+. +.+++.+.+.++|+|.++........
T Consensus 27 G~~V~~l-g~~~~~-~~l~~~~~~~~pdvV~iS~~~~~~~~ 65 (119)
T cd02067 27 GFEVIDL-GVDVPP-EEIVEAAKEEDADAIGLSGLLTTHMT 65 (119)
T ss_pred CCEEEEC-CCCCCH-HHHHHHHHHcCCCEEEEeccccccHH
Confidence 6665222 233454 89999999999999999987544443
No 147
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=47.15 E-value=1.3e+02 Score=23.07 Aligned_cols=55 Identities=20% Similarity=0.218 Sum_probs=36.0
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCc-chhHhhhhHHHHhccCCceEEEEeCCCCCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRS-FLHKLAMSHNDISSSFNCRVLAIKQPAASP 141 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~-~~~~~~~gs~~i~~~~~~PVlvv~~~~~~~ 141 (172)
.|.-..+.=....+++++|.||.=-+|.. +....+ ...+...+||++++.+..+.
T Consensus 181 ~gPfs~e~n~al~~~~~i~~lVtK~SG~~Gg~~eKi----~AA~~lgi~vivI~RP~~~~ 236 (256)
T TIGR00715 181 RGPFSEELEKALLREYRIDAVVTKASGEQGGELEKV----KAAEALGINVIRIARPQTIP 236 (256)
T ss_pred eCCCCHHHHHHHHHHcCCCEEEEcCCCCccchHHHH----HHHHHcCCcEEEEeCCCCCC
Confidence 34332233356677889999997666654 333222 78889999999998665543
No 148
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=46.41 E-value=56 Score=26.90 Aligned_cols=19 Identities=11% Similarity=0.317 Sum_probs=12.4
Q ss_pred HHHHHHHHHhCCCEEEEee
Q 030760 89 ARIAALVREIGASALVVGL 107 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~ 107 (172)
+.|++.|.+.++|+|+++.
T Consensus 32 ~eil~~a~~~~vD~VLiaG 50 (405)
T TIGR00583 32 EEVLQIAKEQDVDMILLGG 50 (405)
T ss_pred HHHHHHHHHcCCCEEEECC
Confidence 5566666666667666664
No 149
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=46.21 E-value=81 Score=25.25 Aligned_cols=80 Identities=14% Similarity=0.117 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHhhccC----C-CEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchH
Q 030760 14 DAARAALLWALQNLLRF----G-DVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEG 88 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~----~-~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 88 (172)
..+++.+++|+++|.+. + .+|+++|=.+--. ... . -..+.+++.++++|+++++...++.-.
T Consensus 140 ~~~~Ri~r~Af~~A~~r~~~~~~k~Vt~v~KaNvl~---~t~-g-------lf~e~~~eva~~yp~i~~~~~~vDa~~-- 206 (330)
T PRK14025 140 KASERIFRFAFEMAKRRKKMGKEGKVTCAHKANVLK---KTD-G-------LFKKTFYEVAKEYPDIKAEDYYVDAMN-- 206 (330)
T ss_pred HHHHHHHHHHHHHHHhccccCCCCeEEEEECCCchh---hhh-H-------HHHHHHHHHHhhCCCeEEEeeeHHHHH--
Confidence 56888899999999766 3 4688887654311 010 1 111223445556677766655543222
Q ss_pred HHHHHHHHHhCCCEEEEeec
Q 030760 89 ARIAALVREIGASALVVGLH 108 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~ 108 (172)
..++.. =...|.||+..-
T Consensus 207 ~~lv~~--P~~fDVivt~Nl 224 (330)
T PRK14025 207 MYIITR--PQTFDVVVTSNL 224 (330)
T ss_pred HHHhcC--cccCcEEEEcCc
Confidence 222222 245676665543
No 150
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1.
Probab=45.88 E-value=65 Score=25.81 Aligned_cols=58 Identities=14% Similarity=0.239 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
+.+++.+++|+++|...+ .+|+++|=.+--.. .. .. ..+.+++..+++|+++++...+
T Consensus 145 ~~~eRi~r~Af~~A~~r~~k~Vt~v~KaNvl~~---t~-gl-------f~~~~~eva~~yp~v~~~~~~v 203 (333)
T TIGR00175 145 DKSERIARYAFEYARKNGRKKVTAVHKANIMKL---AD-GL-------FLNVCREVAKEYPDITFESMIV 203 (333)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEEECCccchh---hH-HH-------HHHHHHHHHHHCCCCeeeeeeH
Confidence 568888999999997775 45888875543211 10 11 1112344455567777776665
No 151
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=45.31 E-value=89 Score=20.67 Aligned_cols=39 Identities=10% Similarity=-0.015 Sum_probs=27.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
+.++.. ...+...+.+++.+.+.++|+|+++........
T Consensus 27 G~~vi~--lG~~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~ 65 (122)
T cd02071 27 GFEVIY--TGLRQTPEEIVEAAIQEDVDVIGLSSLSGGHMT 65 (122)
T ss_pred CCEEEE--CCCCCCHHHHHHHHHHcCCCEEEEcccchhhHH
Confidence 544433 333333499999999999999999988655444
No 152
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=45.28 E-value=60 Score=26.29 Aligned_cols=78 Identities=13% Similarity=0.112 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHHH
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIAA 93 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~ 93 (172)
+.+++.+++|+++|...+..|+++|=.+--. .. ..+ .+.+++..+++++++++...++. ....
T Consensus 166 ~~~~Ri~r~Af~~A~~r~~~Vt~v~KaNvl~----~~-glf-------~~~~~eva~eyp~i~~~~~~vDa-----~~~~ 228 (358)
T PRK00772 166 EEIERIARVAFELARKRRKKVTSVDKANVLE----SS-RLW-------REVVTEVAKEYPDVELSHMYVDN-----AAMQ 228 (358)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEECccccc----cc-hHH-------HHHHHHHHhHCCCceEEEEeHHH-----HHHH
Confidence 5688889999999977766888887654421 10 111 11234445556777776655432 2222
Q ss_pred HHHH-hCCCEEEEeec
Q 030760 94 LVRE-IGASALVVGLH 108 (172)
Q Consensus 94 ~a~~-~~~DllVmg~~ 108 (172)
.++. ...|.||+..-
T Consensus 229 lv~~P~~fDViv~~Nl 244 (358)
T PRK00772 229 LVRNPKQFDVIVTENL 244 (358)
T ss_pred HhhCcccCeEEeecCc
Confidence 2222 45676665543
No 153
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=44.96 E-value=65 Score=21.01 Aligned_cols=64 Identities=6% Similarity=0.128 Sum_probs=37.1
Q ss_pred HHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 65 FKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 65 ~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
+++.+++. +++++..... . ..+.++....++|++++|..-+-..+. -..+....++||.++++.
T Consensus 21 ~k~~~~e~-gi~~~i~a~~--~--~e~~~~~~~~~~DvIll~PQi~~~~~~----i~~~~~~~~ipv~~I~~~ 84 (104)
T PRK09590 21 TTEYLKEQ-GKDIEVDAIT--A--TEGEKAIAAAEYDLYLVSPQTKMYFKQ----FEEAGAKVGKPVVQIPPQ 84 (104)
T ss_pred HHHHHHHC-CCceEEEEec--H--HHHHHhhccCCCCEEEEChHHHHHHHH----HHHHhhhcCCCEEEeCHH
Confidence 35555543 6665543332 2 334445555678999999653222221 126666778999999754
No 154
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=44.81 E-value=1.6e+02 Score=23.63 Aligned_cols=33 Identities=18% Similarity=0.053 Sum_probs=27.2
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEe
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVF 40 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~ 40 (172)
++|+|++.+.-+|..++.++.+ .+-+|+.+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEE
Confidence 4899999999999988877766 35689999985
No 155
>PRK13305 sgbH 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=44.74 E-value=1.3e+02 Score=22.45 Aligned_cols=36 Identities=14% Similarity=0.142 Sum_probs=22.0
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEec
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFP 41 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~ 41 (172)
|...++.|+.|..+.. .+++ ++......+..+-|-.
T Consensus 1 ~~~~~livALD~~~~~-~A~~----l~~~l~~~v~~iKVG~ 36 (218)
T PRK13305 1 MSRPLLQLALDHTSLE-AAQR----DVTLLKDHVDIVEAGT 36 (218)
T ss_pred CCCCCEEEEeCCCCHH-HHHH----HHHHccccCCEEEECH
Confidence 5667899999997644 3444 4444444454555543
No 156
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=44.29 E-value=1.3e+02 Score=22.17 Aligned_cols=36 Identities=17% Similarity=0.084 Sum_probs=22.9
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
.|+|+-+.+.-+|.-|. .+..+.|.+|+.||...++
T Consensus 4 gk~l~LlSGGiDSpVAa----~lm~krG~~V~~l~f~~~~ 39 (197)
T PF02568_consen 4 GKALALLSGGIDSPVAA----WLMMKRGCEVIALHFDSPP 39 (197)
T ss_dssp -EEEEE-SSCCHHHHHH----HHHHCBT-EEEEEEEE-TT
T ss_pred ceEEEEecCCccHHHHH----HHHHHCCCEEEEEEEECCC
Confidence 36777787777776653 3444469999999998554
No 157
>PRK08005 epimerase; Validated
Probab=43.85 E-value=1e+02 Score=22.94 Aligned_cols=28 Identities=32% Similarity=0.426 Sum_probs=19.8
Q ss_pred EEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 80 IVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 80 ~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
..++|..- ..-+..+.+.++|.+|+|+.
T Consensus 166 I~VDGGI~-~~~i~~l~~aGad~~V~Gsa 193 (210)
T PRK08005 166 CWADGGIT-LRAARLLAAAGAQHLVIGRA 193 (210)
T ss_pred EEEECCCC-HHHHHHHHHCCCCEEEEChH
Confidence 45566664 55555677789999999953
No 158
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=43.83 E-value=1.8e+02 Score=23.94 Aligned_cols=128 Identities=16% Similarity=0.117 Sum_probs=74.3
Q ss_pred CCEEEEEEEecCCCcc---------------chHHHHHHHHHHHHHHHHHHHHhh----hhc---C---CcEEEEEe--c
Q 030760 31 GDVVTLLHVFPSLNSR---------------NRKKLRLLRLKGYQLALSFKDICN----DFF---N---TNVEIIVT--E 83 (172)
Q Consensus 31 ~~~l~~l~V~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~----~~~---~---~~~~~~~~--~ 83 (172)
.+.|.-+-+.+-+... ..+....++++.-+.-+.++.+.+ +.+ + .+++.+++ .
T Consensus 177 pA~VvsliiSDVpGDd~~~IASGPTv~D~tt~~DAlavl~ry~i~~p~~v~~~l~~~~~~t~~~~d~~~~~v~~~iIasn 256 (422)
T COG2379 177 PAKVVSLIISDVPGDDPSVIASGPTVPDPTTREDALAVLERYGIALPESVRAHLESERAETPKPGDERFANVENRIIASN 256 (422)
T ss_pred CCeEEEEEEccCCCCCHhhcccCCCCCCCCchHHHHHHHHHhcccccHHHHHHHhhhcccCCCCCccccccceeEEEech
Confidence 4777777776543211 122445666666554455555544 111 1 22333333 3
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhH--hhhhH--HHHhccC---CceEEEEeCCCCCCCCcccCcCCcCCCCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHK--LAMSH--NDISSSF---NCRVLAIKQPAASPQLRTQTSAATTPDRS 156 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~--~~~gs--~~i~~~~---~~PVlvv~~~~~~~~~~~~~~~~~~~~~~ 156 (172)
.... +++..++++.++..+|+|..-.+-.+. .++++ ..+.++- ..|++++.-. ++++..-...+..
T Consensus 257 ~~sl-eaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~g~Pf~~P~~llsGG------ETTVTvrG~gkGG 329 (422)
T COG2379 257 RLSL-EAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARRGRPFKKPVVLLSGG------ETTVTVRGNGKGG 329 (422)
T ss_pred HHHH-HHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHcCCCCCCCEEEEECC------ceEEEecCCCCCC
Confidence 4454 899999999999999999977664444 24444 2666655 7899998743 2233333334666
Q ss_pred CCccccccc
Q 030760 157 SNLDFSLSQ 165 (172)
Q Consensus 157 ~~~~~~~~~ 165 (172)
-|..|+||-
T Consensus 330 RN~E~~Ls~ 338 (422)
T COG2379 330 RNQEFLLSF 338 (422)
T ss_pred ccHHHHHHH
Confidence 677676653
No 159
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=43.29 E-value=1.2e+02 Score=25.21 Aligned_cols=66 Identities=9% Similarity=0.116 Sum_probs=46.4
Q ss_pred CCcEEEEEecCCchH--------HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEEEeCCCC
Q 030760 74 NTNVEIIVTEGDQEG--------ARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~--------~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlvv~~~~~ 139 (172)
+.++...++.|+++- +.|++.+++.++|++|.|.-=..+.=...-|.. .|-.+..+|++.--....
T Consensus 43 ~~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG~acg~va~aV~e~~~IP~vtaMy~EN 118 (431)
T TIGR01917 43 DAEIVATVVCGDSFFGENLEEAKAKVLEMIKGANPDIFIAGPAFNAGRYGMAAGAITKAVQDELGIKAFTAMYEEN 118 (431)
T ss_pred CCEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHHHHHHHHHHHHHHhhCCCeEEEecccC
Confidence 566777777776432 568899999999999999765443333344433 677889999998865543
No 160
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=43.24 E-value=1.6e+02 Score=24.62 Aligned_cols=35 Identities=14% Similarity=0.093 Sum_probs=23.4
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+||||++ ...+-+...++.+.+ .|-++.+++....
T Consensus 2 ~~kvLi~-~~geia~~ii~a~~~----~Gi~~v~v~~~~d 36 (472)
T PRK07178 2 IKKILIA-NRGEIAVRIVRACAE----MGIRSVAIYSEAD 36 (472)
T ss_pred CcEEEEE-CCcHHHHHHHHHHHH----cCCeEEEEeCCCc
Confidence 7999998 556666666665554 4666777666544
No 161
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=43.23 E-value=1.4e+02 Score=22.37 Aligned_cols=33 Identities=18% Similarity=0.355 Sum_probs=21.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
+.++.+.+-.|-.. +.+. .+.+.++|.+|+|+.
T Consensus 169 ~~~~~IeVDGGI~~-eti~-~l~~aGaDi~V~GSa 201 (223)
T PRK08745 169 GKPIRLEIDGGVKA-DNIG-AIAAAGADTFVAGSA 201 (223)
T ss_pred CCCeeEEEECCCCH-HHHH-HHHHcCCCEEEEChh
Confidence 44555555555553 5554 666778999999964
No 162
>PF02610 Arabinose_Isome: L-arabinose isomerase; InterPro: IPR003762 The Escherichia coli araBAD operon consists of three genes encoding three enzymes that convert L-arabinose to D-xylulose-5 phosphate. L-arabinose isomerase (AraA) 5.3.1.4 from EC catalyses the conversion of L-arabinose to L-ribulose as the first step in the pathway of L-arabinose utilization as a carbon source [].; GO: 0008733 L-arabinose isomerase activity, 0008152 metabolic process; PDB: 4F2D_A 2AJT_C 2HXG_C.
Probab=43.04 E-value=1.8e+02 Score=23.61 Aligned_cols=57 Identities=11% Similarity=0.054 Sum_probs=30.4
Q ss_pred CcEEEEEecCCchHHHHHHHHHH----hCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 75 TNVEIIVTEGDQEGARIAALVRE----IGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 75 ~~~~~~~~~g~~~~~~I~~~a~~----~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
+++.+.-+-.++ +.|.+.+++ .+++.||.=.+..++-+.++ ..++..++|++.+...
T Consensus 46 ~~vv~k~~~~t~--~~i~~~~~~an~~~~c~gvi~wMhTfSpakmwI----~gl~~l~kPllhl~tQ 106 (359)
T PF02610_consen 46 VKVVFKPVVTTP--EEITRVCKEANADEDCDGVITWMHTFSPAKMWI----PGLQRLQKPLLHLHTQ 106 (359)
T ss_dssp SEEEE---B-SH--HHHHHHHHHHHH-TTEEEEEEEESS---THHHH----HHHHH--S-EEEEE--
T ss_pred eEEEecCccCCH--HHHHHHHHHhhccCCccEEeehhhhhccHHHHH----HHHHHhCCCeEEeecc
Confidence 444444443443 556555444 57888888888877666544 6788899999999844
No 163
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=43.01 E-value=1.6e+02 Score=22.85 Aligned_cols=63 Identities=13% Similarity=0.041 Sum_probs=38.3
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcch--hHhhhhHHHHhccCCceEEEEeC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFL--HKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~--~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
.+.+-..+..+....-...+.+++.++|.+++........ +.++---..|...+++||++...
T Consensus 69 ~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~~~pi~lYn~ 133 (289)
T cd00951 69 RVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLGVIVYNR 133 (289)
T ss_pred CCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 3555554443222234556888899999999876544322 22111123788889999999973
No 164
>PRK10481 hypothetical protein; Provisional
Probab=42.94 E-value=1.4e+02 Score=22.41 Aligned_cols=40 Identities=13% Similarity=0.207 Sum_probs=29.2
Q ss_pred HHHHHHHH---HhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEE
Q 030760 89 ARIAALVR---EIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLA 133 (172)
Q Consensus 89 ~~I~~~a~---~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlv 133 (172)
+.+.+.++ +.++|+||++.-+.+. +. -..+-+.+.+||+-
T Consensus 169 ~~l~~aa~~L~~~gaD~Ivl~C~G~~~-~~----~~~le~~lg~PVI~ 211 (224)
T PRK10481 169 EELIDAGKELLDQGADVIVLDCLGYHQ-RH----RDLLQKALDVPVLL 211 (224)
T ss_pred HHHHHHHHHhhcCCCCEEEEeCCCcCH-HH----HHHHHHHHCcCEEc
Confidence 56777777 5789999999998874 11 22666777888875
No 165
>KOG3147 consensus 6-phosphogluconolactonase - like protein [Carbohydrate transport and metabolism]
Probab=42.93 E-value=1.5e+02 Score=22.70 Aligned_cols=49 Identities=14% Similarity=0.144 Sum_probs=38.2
Q ss_pred CCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCCCCCCCcccCcC
Q 030760 100 ASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPAASPQLRTQTSA 149 (172)
Q Consensus 100 ~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~~~~~~~~~~~~ 149 (172)
.||+.+|...-+...++|.| ...++...--|..+.+...+.|.|.+.+.
T Consensus 143 FDL~LLG~GpDGHtaSLFP~-~~~l~e~~~wV~~itdSPkpPp~RITlTL 191 (252)
T KOG3147|consen 143 FDLLLLGMGPDGHTASLFPG-HPLLNEKLKWVVPITDSPKPPPKRITLTL 191 (252)
T ss_pred eeEEEeccCCCCCeeecCCC-chhhhcccCEEEEeCCCCCCCCccEEEeh
Confidence 89999999999988998888 56677777888888877666666665433
No 166
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=42.62 E-value=1.6e+02 Score=22.95 Aligned_cols=35 Identities=26% Similarity=0.323 Sum_probs=27.2
Q ss_pred CCcEEEEEe-cCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 74 NTNVEIIVT-EGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 74 ~~~~~~~~~-~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
++++.-... +... .+.|....+++.+|+||+..|.
T Consensus 128 ~i~a~G~~~~E~eq-p~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 128 GVPVVGIHCKEKEM-PEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred CCceEEEEecchhc-hHHHHHHHHHhCCCEEEEeCch
Confidence 666664444 4555 4999999999999999998775
No 167
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=42.52 E-value=1.5e+02 Score=22.58 Aligned_cols=51 Identities=14% Similarity=0.141 Sum_probs=34.3
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchh--HhhhhHHHHhccCCceEEEEeCCCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLH--KLAMSHNDISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~--~~~~gs~~i~~~~~~PVlvv~~~~~ 139 (172)
-...+.+++.++|.+++......... .++---..|...+++|+++...+..
T Consensus 82 i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~~~pi~iYn~P~~ 134 (281)
T cd00408 82 IELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADASDLPVILYNIPGR 134 (281)
T ss_pred HHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEECccc
Confidence 45567888999999999876543321 1111113788889999999976643
No 168
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=42.45 E-value=1.1e+02 Score=20.97 Aligned_cols=27 Identities=15% Similarity=-0.082 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 88 GARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
.+.+++.|+++++|+|.+++.-.+...
T Consensus 41 ~e~~v~aa~~~~adiVglS~l~~~~~~ 67 (134)
T TIGR01501 41 QEEFIKAAIETKADAILVSSLYGHGEI 67 (134)
T ss_pred HHHHHHHHHHcCCCEEEEecccccCHH
Confidence 399999999999999999887655443
No 169
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=41.68 E-value=1.5e+02 Score=22.34 Aligned_cols=33 Identities=9% Similarity=0.012 Sum_probs=21.2
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
+.++.+.+-.|-.. +.+ ..+.+.++|.+|+|+.
T Consensus 177 ~~~~~IeVDGGI~~-~ti-~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 177 RVEKLISIDGSMTL-ELA-SYLKQHQIDWVVSGSA 209 (228)
T ss_pred CCCceEEEECCCCH-HHH-HHHHHCCCCEEEEChh
Confidence 45555444444553 544 4667779999999964
No 170
>COG2069 CdhD CO dehydrogenase/acetyl-CoA synthase delta subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=41.19 E-value=1.8e+02 Score=23.12 Aligned_cols=88 Identities=13% Similarity=0.117 Sum_probs=51.4
Q ss_pred HHHHHHHHHhhccCCCEEEEEEEecCCCcc----chHHHHHHHHHHHH------------------HHHHHHHHhhhhcC
Q 030760 17 RAALLWALQNLLRFGDVVTLLHVFPSLNSR----NRKKLRLLRLKGYQ------------------LALSFKDICNDFFN 74 (172)
Q Consensus 17 ~~al~~a~~la~~~~~~l~~l~V~~~~~~~----~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~ 74 (172)
..-.+||....+++|+.+.-+|.+..+... ..+....+|+..+. .+++..+. ..|
T Consensus 150 edP~eWArk~Vk~fgadmvTiHlIsTdPki~D~p~~EAak~lEdvLqAVdvPiiiGGSGnpeKDpeVlekaAEv---aEG 226 (403)
T COG2069 150 EDPGEWARKCVKKFGADMVTIHLISTDPKIKDTPAKEAAKTLEDVLQAVDVPIIIGGSGNPEKDPEVLEKAAEV---AEG 226 (403)
T ss_pred hCHHHHHHHHHHHhCCceEEEEeecCCccccCCCHHHHHHHHHHHHHhcCcCEEecCCCCCccCHHHHHHHHHh---hcC
Confidence 344689999999999877777777654322 12233444444332 11222222 235
Q ss_pred CcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 75 TNVEIIVTEGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 75 ~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
-++-....+-+.-.+.|.+.|.++ |.+|+....
T Consensus 227 eRclLaSanldlDy~~ia~AA~ky--~H~VLswt~ 259 (403)
T COG2069 227 ERCLLASANLDLDYERIAEAALKY--DHVVLSWTQ 259 (403)
T ss_pred ceEEeeccccccCHHHHHHHHHhc--CceEEEeec
Confidence 555555555554458999998886 555555443
No 171
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=41.18 E-value=49 Score=26.74 Aligned_cols=41 Identities=12% Similarity=0.082 Sum_probs=35.6
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCC-CEEEEEEEecC
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFG-DVVTLLHVFPS 42 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~-~~l~~l~V~~~ 42 (172)
.+.+|.|...+..+|...+..+++.++..+ ++|.++|+.-.
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~~~~~i~VlfiD~E 67 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVARENGRDKISVLFIDWE 67 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHhCCCceEEEEEcch
Confidence 367899999999999999999999998886 48999998654
No 172
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=40.79 E-value=25 Score=30.02 Aligned_cols=48 Identities=10% Similarity=0.129 Sum_probs=31.3
Q ss_pred HHHHHHHHHhCCCEEEEeecC---C----cchhHhhhhH--HHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHD---R----SFLHKLAMSH--NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~---~----~~~~~~~~gs--~~i~~~~~~PVlvv~~~ 137 (172)
++|+.+|++.++|||++|.-- . +.+.+. ++. .+|+..-||-+=++.+.
T Consensus 42 eEIl~iA~e~~VDmiLlGGDLFHeNkPSr~~L~~~-i~lLRryClgdkP~~le~lSD~ 98 (646)
T KOG2310|consen 42 EEILEIAQENDVDMILLGGDLFHENKPSRKTLHRC-LELLRRYCLGDKPVQLEILSDQ 98 (646)
T ss_pred HHHHHHHHhcCCcEEEecCcccccCCccHHHHHHH-HHHHHHHccCCCceeeEEeccc
Confidence 899999999999999999732 1 122221 111 26666667766666543
No 173
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=40.38 E-value=1.4e+02 Score=21.65 Aligned_cols=40 Identities=13% Similarity=0.029 Sum_probs=28.2
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
|.++ +.....-+. +.+++.+++.++|+|.++.........
T Consensus 110 G~~v-i~lG~~~p~-~~l~~~~~~~~~d~v~lS~~~~~~~~~ 149 (201)
T cd02070 110 GFEV-IDLGRDVPP-EEFVEAVKEHKPDILGLSALMTTTMGG 149 (201)
T ss_pred CCEE-EECCCCCCH-HHHHHHHHHcCCCEEEEeccccccHHH
Confidence 5555 122234454 999999999999999999866555443
No 174
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=40.14 E-value=1.7e+02 Score=22.43 Aligned_cols=41 Identities=15% Similarity=0.109 Sum_probs=19.6
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEE
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAI 134 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv 134 (172)
.+++.....++|-||+...........+ .-+...++||+++
T Consensus 45 ~~i~~l~~~~vDgIIi~~~~~~~~~~~l----~~~~~~~iPvV~~ 85 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQNGQVLSNAV----QEAKDEGIKVVAY 85 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCChhHHHHHH----HHHHHCCCeEEEe
Confidence 4555555566776666543222111111 2234456666666
No 175
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=40.08 E-value=2.2e+02 Score=23.65 Aligned_cols=94 Identities=10% Similarity=0.028 Sum_probs=44.5
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
.++|.+-.+.++.....++...+.+...|..|.....++.... .......++++... .+.++-+...
T Consensus 174 W~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~------------~~d~~~~l~~l~~~-~~a~vVvl~~ 240 (458)
T cd06375 174 WTYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSAD------------RKSYDSVIRKLLQK-PNARVVVLFT 240 (458)
T ss_pred CeEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCC------------HHHHHHHHHHHhcc-CCCEEEEEec
Confidence 4566666666666666666555555555533332222221100 01111122222211 1344333333
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.... +..+++.+++.+.+...+|+.+-
T Consensus 241 ~~~~-~~~ll~~a~~~g~~~~wigs~~~ 267 (458)
T cd06375 241 RSED-ARELLAAAKRLNASFTWVASDGW 267 (458)
T ss_pred ChHH-HHHHHHHHHHcCCcEEEEEeccc
Confidence 3334 36677778888888777776553
No 176
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=40.08 E-value=72 Score=25.88 Aligned_cols=59 Identities=12% Similarity=0.142 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
..+++.+++|+++|...+ .+|+++|=.+--.... .. ..+.+++..+++|+++++...++
T Consensus 168 ~~~eRIar~AF~~A~~r~rkkVt~v~KaNvl~~t~----gl-------f~~~~~eva~eyPdV~~~~~~VD 227 (360)
T PLN00123 168 FCSERIAKYAFEYAYLNNRKKVTAVHKANIMKLAD----GL-------FLESCREVAKKYPGIKYNEIIVD 227 (360)
T ss_pred HHHHHHHHHHHHHHHhcCCCcEEEEECCccccchh----hH-------HHHHHHHHHhhCCCceEeeeeHH
Confidence 668899999999996553 4688887654421111 11 11123444456777777666553
No 177
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=39.73 E-value=1.7e+02 Score=22.27 Aligned_cols=42 Identities=12% Similarity=0.116 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEE
Q 030760 88 GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLA 133 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlv 133 (172)
.+.|++.+.+.++|+|++|-...+ .+. |. .+.....+.+|++
T Consensus 146 ~~~i~~~I~~s~~dil~VglG~Pk-QE~-~~--~~~~~~~~~~v~~ 187 (243)
T PRK03692 146 RQALFERIHASGAKIVTVAMGSPK-QEI-FM--RDCRLVYPDALYM 187 (243)
T ss_pred HHHHHHHHHhcCCCEEEEECCCcH-HHH-HH--HHHHHhCCCCEEE
Confidence 367999999999999999977655 232 32 1445555667654
No 178
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=38.81 E-value=1.7e+02 Score=23.70 Aligned_cols=46 Identities=7% Similarity=0.098 Sum_probs=33.1
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
..-++.+++...|.|.|.-.-.. .+. +-. ..+++..++||+++..-
T Consensus 37 ~~a~~~~~~~~PDVi~ld~emp~-mdg--l~~l~~im~~~p~pVimvssl 83 (350)
T COG2201 37 REAIDKVKKLKPDVITLDVEMPV-MDG--LEALRKIMRLRPLPVIMVSSL 83 (350)
T ss_pred HHHHHHHHhcCCCEEEEeccccc-ccH--HHHHHHHhcCCCCcEEEEecc
Confidence 56678888999999999865332 111 112 38999999999999753
No 179
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=38.62 E-value=1.9e+02 Score=22.52 Aligned_cols=83 Identities=14% Similarity=0.252 Sum_probs=45.7
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
.+||.|-+.++..+-.++-.+..-- ..+++|.++-...+. +..++++. ++++...-.
T Consensus 84 ~~ki~vl~Sg~g~nl~~l~~~~~~g-~l~~~i~~visn~~~---------------------~~~~A~~~-gIp~~~~~~ 140 (280)
T TIGR00655 84 LKRVAILVSKEDHCLGDLLWRWYSG-ELDAEIALVISNHED---------------------LRSLVERF-GIPFHYIPA 140 (280)
T ss_pred CcEEEEEEcCCChhHHHHHHHHHcC-CCCcEEEEEEEcChh---------------------HHHHHHHh-CCCEEEcCC
Confidence 4678888888766666655554332 223444443332221 01122332 666554332
Q ss_pred cC---CchHHHHHHHHHHhCCCEEEEeec
Q 030760 83 EG---DQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 83 ~g---~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
.. ......+.+..++.++|++|+..-
T Consensus 141 ~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 141 TKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred CCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 11 122367889999999999999854
No 180
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=38.60 E-value=60 Score=19.06 Aligned_cols=16 Identities=6% Similarity=0.140 Sum_probs=6.9
Q ss_pred EEEEecCCHHHHHHHH
Q 030760 6 IVVIVEDVDAARAALL 21 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~ 21 (172)
|.+++|.+.+.+.+..
T Consensus 50 Iii~~D~D~~G~~~~~ 65 (76)
T smart00493 50 VILATDPDREGEAIAW 65 (76)
T ss_pred EEEEcCCChhHHHHHH
Confidence 4444444444444333
No 181
>cd01996 Alpha_ANH_like_III This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domain has a strongly conserved motif SGGKD at the N terminus.
Probab=38.58 E-value=1.3e+02 Score=20.52 Aligned_cols=35 Identities=14% Similarity=0.015 Sum_probs=26.2
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.++|++.+..+|..++.++.+.. +-++.++|+...
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~---~~~v~~v~~~~g 37 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKY---GLNPLAVTVDNG 37 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHh---CCceEEEEeCCC
Confidence 58999999999999988776542 226777887644
No 182
>PRK09222 isocitrate dehydrogenase; Validated
Probab=38.25 E-value=66 Score=27.17 Aligned_cols=29 Identities=17% Similarity=0.083 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~ 42 (172)
+.+++.+++|.++|+..+ .+|+++|=.+-
T Consensus 149 ~~~eRI~r~AFe~A~~r~rkkVt~v~KaNV 178 (482)
T PRK09222 149 PGSEKIIRYAFEYARANGRKKVTCLTKDNI 178 (482)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEEECCCc
Confidence 568999999999998876 46888875543
No 183
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=38.20 E-value=1.7e+02 Score=22.01 Aligned_cols=40 Identities=20% Similarity=0.196 Sum_probs=24.4
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
+++.++. +.++.+.+-.|-.. +.|. .+.+-++|.+|+|+.
T Consensus 160 r~~~~~~-~~~~~IeVDGGI~~-~~i~-~~~~aGad~~V~Gss 199 (229)
T PRK09722 160 KALRERN-GLEYLIEVDGSCNQ-KTYE-KLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHhc-CCCeEEEEECCCCH-HHHH-HHHHcCCCEEEEChH
Confidence 3443332 55555555555553 5554 566779999999964
No 184
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=38.07 E-value=1.7e+02 Score=21.96 Aligned_cols=42 Identities=21% Similarity=0.249 Sum_probs=30.0
Q ss_pred HHHHHHHHH---hCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 89 ARIAALVRE---IGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 89 ~~I~~~a~~---~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
+.+.+.+++ .++|+|||-+-|.+...+ +.+-+.+.+||+.-+
T Consensus 165 ~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r-----~~~~~~~g~PVlLsr 209 (221)
T PF07302_consen 165 EELAAAARELAEQGADLIVLDCMGYTQEMR-----DIVQRALGKPVLLSR 209 (221)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCCCHHHH-----HHHHHHhCCCEEeHH
Confidence 667666664 589999999988875444 145566788988643
No 185
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=38.05 E-value=88 Score=21.43 Aligned_cols=45 Identities=16% Similarity=0.153 Sum_probs=26.7
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
+.+.++++++++|.|++.-..... +. +.---..+++.+|.|.++|
T Consensus 131 ~~l~~~~~~~~id~v~ial~~~~~-~~-i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALPWSEE-EQ-IKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp GGHHHHHHHHT--EEEE--TTS-H-HH-HHHHHHHHHTTT-EEEE--
T ss_pred HHHHHHHHhCCCCEEEEEcCccCH-HH-HHHHHHHHHhCCCEEEEeC
Confidence 889999999999999999765442 11 2111277888889998875
No 186
>PF13155 Toprim_2: Toprim-like
Probab=38.01 E-value=98 Score=19.14 Aligned_cols=28 Identities=32% Similarity=0.315 Sum_probs=18.2
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFG 31 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~ 31 (172)
++|.+++|.++..+.+.+...+.....+
T Consensus 48 ~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 48 KKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred CcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 5677777777777777666665554433
No 187
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=37.67 E-value=1.9e+02 Score=22.17 Aligned_cols=44 Identities=9% Similarity=0.123 Sum_probs=25.6
Q ss_pred HHHHHhCCCEEEEeecCCcchhHh--hhhHH---HHhccCCceEEEEeCC
Q 030760 93 ALVREIGASALVVGLHDRSFLHKL--AMSHN---DISSSFNCRVLAIKQP 137 (172)
Q Consensus 93 ~~a~~~~~DllVmg~~~~~~~~~~--~~gs~---~i~~~~~~PVlvv~~~ 137 (172)
...+. ++|.+++|+..-..=..+ -.|+- -+.++.++||+|+-+.
T Consensus 171 ~~m~~-~vd~VliGad~v~~nG~v~nk~Gt~~~a~~Ak~~~vPv~v~~~~ 219 (282)
T PF01008_consen 171 YVMPR-DVDKVLIGADAVLANGGVVNKVGTLQLALAAKEFNVPVYVLAES 219 (282)
T ss_dssp HHHHC-TESEEEEE-SEEETTS-EEEETTHHHHHHHHHHTT-EEEEE--G
T ss_pred HHHHH-hCCeeEEeeeEEecCCCEeehhhHHHHHHHHHhhCCCEEEEccc
Confidence 33444 699999999764322222 14442 7778889999999644
No 188
>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=37.41 E-value=1.3e+02 Score=20.39 Aligned_cols=39 Identities=15% Similarity=0.037 Sum_probs=27.4
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
|.++...-.. .+ .+.+++.+.+.++|.+++.+...+...
T Consensus 30 GfeVi~lg~~-~s-~e~~v~aa~e~~adii~iSsl~~~~~~ 68 (132)
T TIGR00640 30 GFDVDVGPLF-QT-PEEIARQAVEADVHVVGVSSLAGGHLT 68 (132)
T ss_pred CcEEEECCCC-CC-HHHHHHHHHHcCCCEEEEcCchhhhHH
Confidence 5544433333 23 389999999999999999887755544
No 189
>cd01714 ETF_beta The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=37.01 E-value=1.7e+02 Score=21.42 Aligned_cols=84 Identities=18% Similarity=0.216 Sum_probs=52.0
Q ss_pred EEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec----
Q 030760 8 VIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE---- 83 (172)
Q Consensus 8 v~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---- 83 (172)
++.-.++.+..++..+..++...++.+.++.+..... +.. .+.+ ..+ +.+--+++..
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~G~~~~----------~~~-------~~~l-~~~-G~d~V~~~~~~~~~ 89 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSMGPPQA----------EEA-------LREA-LAM-GADRAILVSDRAFA 89 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEECCHHH----------HHH-------HHHH-HHc-CCCEEEEEeccccc
Confidence 4455678888899999999877777888877764310 000 0111 122 4432333221
Q ss_pred ---CCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 84 ---GDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 84 ---g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
.......|.+.+++.++|+|++|....
T Consensus 90 ~~~~e~~a~al~~~i~~~~p~lVL~~~t~~ 119 (202)
T cd01714 90 GADTLATAKALAAAIKKIGVDLILTGKQSI 119 (202)
T ss_pred CCChHHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 223346788888888999999998774
No 190
>PRK08417 dihydroorotase; Provisional
Probab=36.95 E-value=1e+02 Score=24.94 Aligned_cols=89 Identities=11% Similarity=-0.043 Sum_probs=52.6
Q ss_pred HHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHH------------HHHHHHHHhhhhcCCcEEEEEec
Q 030760 16 ARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQ------------LALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 16 s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
...++..++.+|...++++|++|+..... .+...+.+.. +.-.-..+.+.....++..-++.
T Consensus 180 E~~~v~~~~~la~~~~~~lhi~hvS~~~~------~~~i~~ak~~g~~vt~ev~ph~L~l~~~~~~~~~~~~k~~PPlR~ 253 (386)
T PRK08417 180 ETKEVAKMKELAKFYKNKVLFDTLALPRS------LELLDKFKSEGEKLLKEVSIHHLILDDSACENFNTAAKLNPPLRS 253 (386)
T ss_pred HHHHHHHHHHHHHHhCCCEEEEeCCCHHH------HHHHHHHHHCCCCEEEEechHHHeeCHHHhcCcCcccEECCCCCC
Confidence 45578999999999999999999997721 1222211110 00000011000112344444555
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
.... +++.+..++--+|+|.-....++
T Consensus 254 ~~d~-~~L~~~l~~g~Id~i~SDHaP~~ 280 (386)
T PRK08417 254 KEDR-LALLEALKEGKIDFLTSLHSAKS 280 (386)
T ss_pred HHHH-HHHHHHHhcCCceEEEcCCCCCC
Confidence 6665 89999888888898887766653
No 191
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=36.57 E-value=2.2e+02 Score=22.78 Aligned_cols=34 Identities=18% Similarity=0.002 Sum_probs=26.1
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+|+|++.+.-+|..++..+.+ .+..++.+|+...
T Consensus 1 kVlValSGGvDSsvla~lL~~----~g~~v~~v~i~~~ 34 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE----QGYEVIGVFMKNW 34 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEecc
Confidence 589999999999888776654 3567888888643
No 192
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=36.35 E-value=1.3e+02 Score=22.21 Aligned_cols=47 Identities=17% Similarity=0.111 Sum_probs=28.8
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhcc-CCceEEEEeC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSS-FNCRVLAIKQ 136 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~-~~~PVlvv~~ 136 (172)
+.+...+.+.+.|.+.+|.+..-..+. +.--...+++ +++||++.+-
T Consensus 14 ~~ia~~v~~~gtDaI~VGGS~gvt~~~-~~~~v~~ik~~~~lPvilfp~ 61 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVGGSLGIVESN-LDQTVKKIKKITNLPVILFPG 61 (205)
T ss_pred HHHHHHHHhcCCCEEEEcCcCCCCHHH-HHHHHHHHHhhcCCCEEEECC
Confidence 445667778889999998663222222 1112244454 7899999753
No 193
>PLN02360 probable 6-phosphogluconolactonase
Probab=36.15 E-value=2e+02 Score=22.07 Aligned_cols=23 Identities=13% Similarity=0.251 Sum_probs=20.0
Q ss_pred CCCEEEEeecCCcchhHhhhhHH
Q 030760 99 GASALVVGLHDRSFLHKLAMSHN 121 (172)
Q Consensus 99 ~~DllVmg~~~~~~~~~~~~gs~ 121 (172)
..|++++|-..-+....+|.|+.
T Consensus 150 ~fDlvlLGmG~DGHtASlFPg~~ 172 (268)
T PLN02360 150 KFDLILLGMGSDGHVASLFPNHP 172 (268)
T ss_pred cccEEEEccCCCCceeccCCCCc
Confidence 47999999999998999898865
No 194
>PF02729 OTCace_N: Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; InterPro: IPR006132 This entry contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and may also play a role in trimerization of the molecules []. The carboxyl-terminal, aspartate/ornithine-binding domain is is described by IPR006131 from INTERPRO. ; GO: 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 2P2G_D 2I6U_A 2YFK_B 3D6N_B 3SDS_A 3GD5_A 3R7L_B 3R7F_A 3R7D_A ....
Probab=36.13 E-value=83 Score=21.70 Aligned_cols=42 Identities=14% Similarity=0.252 Sum_probs=28.1
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEE
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAI 134 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv 134 (172)
|... +......... +|+||+-...+..+. .+..++.+||+=-
T Consensus 81 ~Esl-~Dtar~ls~~-~D~iv~R~~~~~~~~-------~~a~~~~vPVINa 122 (142)
T PF02729_consen 81 GESL-EDTARVLSRY-VDAIVIRHPSHGALE-------ELAEHSSVPVINA 122 (142)
T ss_dssp SSEH-HHHHHHHHHH-CSEEEEEESSHHHHH-------HHHHHCSSEEEEE
T ss_pred CCCH-HHHHHHHHHh-hheEEEEeccchHHH-------HHHHhccCCeEcC
Confidence 5554 4555555566 999998866555444 6778889998643
No 195
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=36.02 E-value=1.8e+02 Score=21.48 Aligned_cols=43 Identities=9% Similarity=0.090 Sum_probs=26.6
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
..++.....++|-+|+...........+ .-+.+.++|++.+-.
T Consensus 47 ~~i~~l~~~~vdgiii~~~~~~~~~~~~----~~l~~~~iPvv~~~~ 89 (272)
T cd06301 47 SQVENFIAQGVDAIIVVPVDTAATAPIV----KAANAAGIPLVYVNR 89 (272)
T ss_pred HHHHHHHHcCCCEEEEecCchhhhHHHH----HHHHHCCCeEEEecC
Confidence 4455556678999998765432222111 445778899998853
No 196
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=36.02 E-value=1.5e+02 Score=22.74 Aligned_cols=50 Identities=14% Similarity=-0.006 Sum_probs=30.9
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
.+- .+.+.+.++...+|.+|+.-+..+..-..- -=..+-+.++.|||+=.
T Consensus 163 ~~~-~~~v~dtver~~aDaVI~tG~~TG~~~d~~-el~~a~~~~~~pvlvGS 212 (263)
T COG0434 163 RSL-EEAVKDTVERGLADAVIVTGSRTGSPPDLE-ELKLAKEAVDTPVLVGS 212 (263)
T ss_pred cCH-HHHHHHHHHccCCCEEEEecccCCCCCCHH-HHHHHHhccCCCEEEec
Confidence 344 477777788899999998765544322100 00155666779998843
No 197
>PF01933 UPF0052: Uncharacterised protein family UPF0052; InterPro: IPR002882 This entry contains LPPG:Fo 2-phospho-L-lactate transferase (CofD) and related sequences of unknown function belong to unidentified protein family UPF0052. CofD catalyses the fourth step in the biosynthesis of coenzyme F420, which is the transfer of the 2-phospholactate moiety from lactyl (2) diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin (FO) with the formation of the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) and GMP. F420 is a flavin derivative found in methanogens, Mycobacteria, and several other lineages. This enzyme is characterised so far in Methanocaldococcus jannaschii (Methanococcus jannaschii) [] but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. ; PDB: 2HZB_A 2O2Z_C 3CGW_A 3C3E_D 3C3D_D 2PPV_A 2P0Y_A 2Q7X_B.
Probab=35.92 E-value=1.2e+02 Score=23.98 Aligned_cols=47 Identities=11% Similarity=0.164 Sum_probs=29.2
Q ss_pred HHHHHHHHHhCCCEEEEeecCC--cchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDR--SFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~--~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
...++.+++ +|+||+|.... |-.--+.... .+-++++++|++.+.+-
T Consensus 175 p~~l~AI~~--AD~IiigPgs~~TSI~P~L~v~gi~~Ai~~s~a~kV~V~ni 224 (300)
T PF01933_consen 175 PEALEAIEE--ADLIIIGPGSLYTSIIPNLLVPGIREAIRESKAPKVYVSNI 224 (300)
T ss_dssp HHHHHHHHH---SEEEE-SS-CCCCCHHHHTSHHHHHHHHHSSSEEEEE-SS
T ss_pred HHHHHHHHh--CCEEEEcCCCchhhhcccccchhHHHHHHhCCCCEEEEcCC
Confidence 566666665 79999998763 3333333222 38889999999999764
No 198
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=35.89 E-value=1.9e+02 Score=22.26 Aligned_cols=59 Identities=19% Similarity=0.251 Sum_probs=42.5
Q ss_pred EEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-HHHHhccCCceEEEEeCCCCCC
Q 030760 80 IVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS-HNDISSSFNCRVLAIKQPAASP 141 (172)
Q Consensus 80 ~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~~i~~~~~~PVlvv~~~~~~~ 141 (172)
....|-.-.+++.++.+++++|+||=.+|.... + ++- ...+.+.+++|.+.+..+....
T Consensus 47 ~~~~G~l~~e~l~~~l~e~~i~llIDATHPyAa--~-iS~Na~~aake~gipy~r~eRP~~~~ 106 (257)
T COG2099 47 VRVGGFLGAEGLAAFLREEGIDLLIDATHPYAA--R-ISQNAARAAKETGIPYLRLERPPWAP 106 (257)
T ss_pred eeecCcCCHHHHHHHHHHcCCCEEEECCChHHH--H-HHHHHHHHHHHhCCcEEEEECCcccc
Confidence 344455445999999999999999999885442 1 221 1288889999999997655544
No 199
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=35.87 E-value=55 Score=28.51 Aligned_cols=20 Identities=25% Similarity=0.408 Sum_probs=15.3
Q ss_pred HHHHHHHHHhCCCEEEEeec
Q 030760 89 ARIAALVREIGASALVVGLH 108 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~ 108 (172)
+++.++|+++++.++|.|..
T Consensus 58 ~ala~f~~e~~I~lVvvGPE 77 (788)
T KOG0237|consen 58 EALASFCKEHNINLVVVGPE 77 (788)
T ss_pred HHHHHHHHHcceeEEEECCc
Confidence 77778888888888887754
No 200
>cd07044 CofD_YvcK Family of CofD-like proteins and proteins related to YvcK. CofD is a 2-phospho-L-lactate transferase that catalyzes the last step in the biosynthesis of coenzyme F(420)-0 (F(420) without polyglutamate) by transferring the lactyl phosphate moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0). F420 is a hydride carrier, important for energy metabolism of methanogenic archaea, as well as for the biosynthesis of other natural products, like tetracycline in Streptomyces. F420 and some of its precursors are also utilized as cofactors for enzymes, like DNA photolyase in Mycobacterium tuberculosis. YvcK from Bacillus subtilis is a member of a family of mostly uncharacterized proteins and has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and pentose phosphate pathway. Both families appear to have a conserved phosphate binding site, but ha
Probab=35.74 E-value=70 Score=25.32 Aligned_cols=47 Identities=11% Similarity=0.214 Sum_probs=31.4
Q ss_pred HHHHHHHHHhCCCEEEEeecCC--cchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDR--SFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~--~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
...++.+++ +|+||+|.... |-+--++... ..-+++++||++.|.+-
T Consensus 166 ~~~l~AI~~--ADlIvlgPGSlyTSI~P~Llv~gi~eAi~~s~a~kV~V~ni 215 (309)
T cd07044 166 REVLEAIEK--ADNIVIGPGSLYTSILPNISVPGIREALKKTXAKKVYVSNI 215 (309)
T ss_pred HHHHHHHHh--CCEEEECCCcCHHHhhhhcCcHhHHHHHHhcCCCeEEECCC
Confidence 566666666 79999997653 2222222222 28888999999999754
No 201
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=35.69 E-value=2e+02 Score=21.97 Aligned_cols=42 Identities=17% Similarity=0.096 Sum_probs=26.6
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
.+++.+...++|-+|+.......... .-+-+...++||+++-
T Consensus 48 ~~i~~l~~~~vdgiii~~~~~~~~~~----~~~~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVDPTAAQT----VINKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecCchhhHHH----HHHHHHHCCCCEEEeC
Confidence 56666778899998886543222221 1144566789998884
No 202
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=35.46 E-value=2.6e+02 Score=23.30 Aligned_cols=96 Identities=10% Similarity=-0.075 Sum_probs=53.1
Q ss_pred EEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCc
Q 030760 7 VVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQ 86 (172)
Q Consensus 7 lv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 86 (172)
++...++--+..+...|..+.. .|..+.++....... .+.++++.+.+.. ++++.......++
T Consensus 105 lvG~~GvGKTTtaaKLA~~l~~-~G~kV~lV~~D~~R~---------------aA~eQLk~~a~~~-~vp~~~~~~~~dp 167 (429)
T TIGR01425 105 FVGLQGSGKTTTCTKLAYYYQR-KGFKPCLVCADTFRA---------------GAFDQLKQNATKA-RIPFYGSYTESDP 167 (429)
T ss_pred EECCCCCCHHHHHHHHHHHHHH-CCCCEEEEcCcccch---------------hHHHHHHHHhhcc-CCeEEeecCCCCH
Confidence 3444566667777777776654 466777776543311 1122234444432 4444322223343
Q ss_pred h--HHHHHHHHHHhCCCEEEEeecCCcchhHhhhh
Q 030760 87 E--GARIAALVREIGASALVVGLHDRSFLHKLAMS 119 (172)
Q Consensus 87 ~--~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g 119 (172)
. ...-++.++..++|+|++-+.|+...+..++.
T Consensus 168 ~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~ 202 (429)
T TIGR01425 168 VKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFE 202 (429)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHH
Confidence 2 11234455667899999999998877654443
No 203
>cd07186 CofD_like LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis. CofD is a 2-phospho-L-lactate transferase that catalyzes the last step in the biosynthesis of coenzyme F(420)-0 (F(420) without polyglutamate) by transferring the lactyl phosphate moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0). F420 is a hydride carrier, important for energy metabolism of methanogenic archaea, as well as for the biosynthesis of other natural products, like tetracycline in Streptomyces. F420 and some of its precursors are also utilized as cofactors for enzymes, like DNA photolyase in Mycobacterium tuberculosis.
Probab=35.05 E-value=1.9e+02 Score=22.84 Aligned_cols=47 Identities=9% Similarity=0.182 Sum_probs=32.2
Q ss_pred HHHHHHHHHhCCCEEEEeecCC-cchhHhhhhH--HHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDR-SFLHKLAMSH--NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~-~~~~~~~~gs--~~i~~~~~~PVlvv~~~ 137 (172)
.+.++.+++ +|+||+|.... +.+--.+.-. ..-+++++.|++.|.+-
T Consensus 175 p~vl~AI~~--AD~IVlGPgsp~TSI~P~LlVpgI~eAL~~s~A~vV~Vspi 224 (303)
T cd07186 175 PEVLEAIED--ADLVIIGPSNPVTSIGPILALPGIREALRDKKAPVVAVSPI 224 (303)
T ss_pred HHHHHHHHh--CCEEEECCCccHHHhhhhccchhHHHHHHhCCCCEEEEcCC
Confidence 666666665 79999998763 2222222222 38889999999999864
No 204
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=34.64 E-value=1.1e+02 Score=19.33 Aligned_cols=50 Identities=4% Similarity=-0.080 Sum_probs=29.3
Q ss_pred HHHHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 63 LSFKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
+.+++.+++. ++++.+........ ..-+....-.++|++|+.........
T Consensus 19 ~~L~~aa~~~-g~~~~ve~~~~~g~-~~~l~~~~i~~Ad~vi~~~~~~~~~~ 68 (96)
T cd05569 19 EALEKAAKKL-GWEIKVETQGSLGI-ENELTAEDIAEADAVILAADVPVDDE 68 (96)
T ss_pred HHHHHHHHHC-CCeEEEEEecCcCc-cCcCCHHHHhhCCEEEEecCCCCchh
Confidence 3456666654 77766665554433 33333344556899999887764433
No 205
>COG1365 Predicted ATPase (PP-loop superfamily) [General function prediction only]
Probab=34.58 E-value=2e+02 Score=21.73 Aligned_cols=25 Identities=12% Similarity=0.088 Sum_probs=20.2
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEee
Q 030760 83 EGDQEGARIAALVREIGASALVVGL 107 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~ 107 (172)
.......++.+.+++.++|.++.|-
T Consensus 138 Ch~~I~~~V~~k~re~di~~vafGD 162 (255)
T COG1365 138 CHSMIENAVMDKARELDIDVVAFGD 162 (255)
T ss_pred HHHHHHHHHHHHHHhcCCeEEEEcc
Confidence 3444458999999999999999885
No 206
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=34.43 E-value=64 Score=21.06 Aligned_cols=39 Identities=13% Similarity=0.128 Sum_probs=26.8
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-+.+++.+..+.++...++ +++.++..|+++..+.-.+.
T Consensus 46 ~~d~~I~iS~sG~t~e~~~-~~~~a~~~g~~vi~iT~~~~ 84 (126)
T cd05008 46 EDTLVIAISQSGETADTLA-ALRLAKEKGAKTVAITNVVG 84 (126)
T ss_pred CCcEEEEEeCCcCCHHHHH-HHHHHHHcCCeEEEEECCCC
Confidence 4567888888887777655 56666667777776665533
No 207
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=34.35 E-value=95 Score=20.93 Aligned_cols=40 Identities=15% Similarity=0.030 Sum_probs=33.5
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
..+|+|+-|....++...+.+..-....|..|+.+...+.
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~t 79 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVPT 79 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-H
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccCc
Confidence 4689999999999999999999999999999998885544
No 208
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=34.25 E-value=2.2e+02 Score=22.09 Aligned_cols=66 Identities=9% Similarity=0.103 Sum_probs=41.1
Q ss_pred CCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHh-hhh-HHHHhccC-CceEEEEeCCCC
Q 030760 74 NTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKL-AMS-HNDISSSF-NCRVLAIKQPAA 139 (172)
Q Consensus 74 ~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~-~~g-s~~i~~~~-~~PVlvv~~~~~ 139 (172)
.+.+-..+...+.. .-...+.|++.++|.+++..--......- +.. -..|...+ +.||++...+..
T Consensus 69 ~~pvi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lpv~iYn~P~~ 138 (294)
T TIGR02313 69 RIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFPIIIYNIPGR 138 (294)
T ss_pred CCcEEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCCEEEEeCchh
Confidence 35554444433332 23466888999999999998654332221 111 13788889 899999976543
No 209
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=34.00 E-value=67 Score=25.87 Aligned_cols=29 Identities=14% Similarity=0.011 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~ 42 (172)
..+++.+++|+++|...+ .+|+++|=.+-
T Consensus 160 ~~~~RIa~~AF~~A~~r~~k~Vt~v~KaNv 189 (344)
T PRK03437 160 FGVERVVRDAFERAQKRPRKHLTLVHKTNV 189 (344)
T ss_pred HHHHHHHHHHHHHHHhCCCCeEEEEECCcc
Confidence 568889999999997764 56888876543
No 210
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=33.94 E-value=1.1e+02 Score=22.19 Aligned_cols=63 Identities=16% Similarity=0.114 Sum_probs=35.5
Q ss_pred CCcEEEEEec--CCchHHHHHHHHHHhCCCEEEEeecCCcchhH---hhhhHHHHhccCC--ceEEEEeCC
Q 030760 74 NTNVEIIVTE--GDQEGARIAALVREIGASALVVGLHDRSFLHK---LAMSHNDISSSFN--CRVLAIKQP 137 (172)
Q Consensus 74 ~~~~~~~~~~--g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~---~~~gs~~i~~~~~--~PVlvv~~~ 137 (172)
+.++...-.. +.-. ..+.++..+.++|++++-.-.....+. -..+-.+.+|..+ +|++++.+.
T Consensus 33 ~~~~iNLGfsG~~~le-~~~a~~ia~~~a~~~~ld~~~N~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~~ 102 (178)
T PF14606_consen 33 GLDVINLGFSGNGKLE-PEVADLIAEIDADLIVLDCGPNMSPEEFRERLDGFVKTIREAHPDTPILLVSPI 102 (178)
T ss_dssp T-EEEEEE-TCCCS---HHHHHHHHHS--SEEEEEESHHCCTTTHHHHHHHHHHHHHTT-SSS-EEEEE--
T ss_pred CCCeEeeeecCccccC-HHHHHHHhcCCCCEEEEEeecCCCHHHHHHHHHHHHHHHHHhCCCCCEEEEecC
Confidence 5666555554 4454 788999999999999988765432222 2222237777776 999999743
No 211
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=33.91 E-value=91 Score=19.68 Aligned_cols=30 Identities=7% Similarity=0.041 Sum_probs=20.9
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCC
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFG 31 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~ 31 (172)
.+++|++++|.+.+-+........++...+
T Consensus 59 ~~~~iiiatD~D~EGe~Ia~~i~~~~~~~~ 88 (100)
T PF01751_consen 59 KADEIIIATDPDREGELIAWEIIELLGKNN 88 (100)
T ss_dssp SCSEEEEEC-SSHHHHHHHHHHHHHHHHHS
T ss_pred hccEeeecCCCChHHHHHHHHHHHHHhHhC
Confidence 356788888888888777777777765443
No 212
>PRK04148 hypothetical protein; Provisional
Probab=33.75 E-value=1.6e+02 Score=20.24 Aligned_cols=37 Identities=14% Similarity=0.163 Sum_probs=20.0
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
+.+....++-...--..|++.|++.++|++|---.+.
T Consensus 77 ~a~liysirpp~el~~~~~~la~~~~~~~~i~~l~~e 113 (134)
T PRK04148 77 NAKLIYSIRPPRDLQPFILELAKKINVPLIIKPLSGE 113 (134)
T ss_pred cCCEEEEeCCCHHHHHHHHHHHHHcCCCEEEEcCCCC
Confidence 4444444444332235666777777777776544443
No 213
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=33.44 E-value=2.3e+02 Score=22.11 Aligned_cols=83 Identities=16% Similarity=0.197 Sum_probs=44.6
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEec
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTE 83 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (172)
.||.|-+.++..+-.++-.+.+.-. .+++|.+ |+.... + +.+.++++ ++++...-..
T Consensus 94 ~kiavl~Sg~g~nl~al~~~~~~~~-l~~~i~~--visn~~-------~------------~~~~A~~~-gIp~~~~~~~ 150 (289)
T PRK13010 94 PKVVIMVSKFDHCLNDLLYRWRMGE-LDMDIVG--IISNHP-------D------------LQPLAVQH-DIPFHHLPVT 150 (289)
T ss_pred eEEEEEEeCCCccHHHHHHHHHCCC-CCcEEEE--EEECCh-------h------------HHHHHHHc-CCCEEEeCCC
Confidence 4677777776666555555543332 2344433 333321 0 12333333 6665543211
Q ss_pred -C--CchHHHHHHHHHHhCCCEEEEeecC
Q 030760 84 -G--DQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 84 -g--~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
. ......+.+..+++++|++|+..-.
T Consensus 151 ~~~~~~~~~~~~~~l~~~~~Dlivlagym 179 (289)
T PRK13010 151 PDTKAQQEAQILDLIETSGAELVVLARYM 179 (289)
T ss_pred cccccchHHHHHHHHHHhCCCEEEEehhh
Confidence 1 1123678999999999999998543
No 214
>PF01645 Glu_synthase: Conserved region in glutamate synthase; InterPro: IPR002932 Ferredoxin-dependent glutamate synthases have been implicated in a number of functions including photorespiration in Arabidopsis where they may also play a role in primary nitrogen assimilation in roots []. This region is expressed as a seperate subunit in the glutamate synthase alpha subunit from archaebacteria, or part of a large multidomain enzyme in other organisms. The aligned region of these proteins contains a putative FMN binding site and Fe-S cluster.; GO: 0015930 glutamate synthase activity, 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0006537 glutamate biosynthetic process, 0055114 oxidation-reduction process; PDB: 1EA0_A 2VDC_E 1OFE_A 1LLW_A 1OFD_A 1LLZ_A 1LM1_A.
Probab=33.37 E-value=2.7e+02 Score=22.74 Aligned_cols=45 Identities=16% Similarity=0.133 Sum_probs=30.9
Q ss_pred HHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 65 FKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 65 ~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
+.++.+..++..+-+.+..++.. +.+...+.+.++|.|++.....
T Consensus 194 I~~Lr~~~~~~pVgvKl~~~~~~-~~~~~~~~~ag~D~ItIDG~~G 238 (368)
T PF01645_consen 194 IEELRELNPGKPVGVKLVAGRGV-EDIAAGAAKAGADFITIDGAEG 238 (368)
T ss_dssp HHHHHHH-TTSEEEEEEE-STTH-HHHHHHHHHTT-SEEEEE-TT-
T ss_pred HHHHHhhCCCCcEEEEECCCCcH-HHHHHhhhhccCCEEEEeCCCC
Confidence 34443334588899999999997 8888878899999999976553
No 215
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=33.30 E-value=2.4e+02 Score=22.26 Aligned_cols=67 Identities=16% Similarity=0.138 Sum_probs=37.5
Q ss_pred HHHhhhhcCCcEEEEE-ecCCchH-HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 66 KDICNDFFNTNVEIIV-TEGDQEG-ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~-~~g~~~~-~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
++.+++. +.++.+.. ..++... ..+++.....++|.|++.......+...+ .-++...+||+.+-..
T Consensus 46 ~~aa~~~-G~~v~~~~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l----~~a~~~gIpVV~~d~~ 114 (336)
T PRK15408 46 KEAGKEL-GVDVTYDGPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPAL----KRAMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHh-CCEEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHH----HHHHHCCCeEEEeCCC
Confidence 4444443 66665422 1223221 24566677789999999754333333211 4466778999998543
No 216
>PF06050 HGD-D: 2-hydroxyglutaryl-CoA dehydratase, D-component ; InterPro: IPR010327 Degradation of glutamate via the hydroxyglutarate pathway involves the syn-elimination of water from 2-hydroxyglutaryl-CoA. This anaerobic process is catalysed by 2-hydroxyglutaryl-CoA dehydratase, an enzyme with two components (A and D) that reversibly associate during reaction cycles. This component contains one non-reducible [4Fe-4S]2+ cluster and a reduced riboflavin 5'-monophosphate [].; PDB: 3O3O_B 3O3N_D 3O3M_D.
Probab=33.27 E-value=1.2e+02 Score=23.88 Aligned_cols=53 Identities=15% Similarity=0.140 Sum_probs=34.6
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH-HHHhccC-CceEEEEeCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSH-NDISSSF-NCRVLAIKQP 137 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs-~~i~~~~-~~PVlvv~~~ 137 (172)
..- .+.+.+.+++.++|.+|...+...........- ...+++. .+|+|.+.-+
T Consensus 272 ~~r-~~~~~~~~~~~~~dgvi~~~~~~C~~~~~~~~~l~~~~~~~~gIP~l~le~d 326 (349)
T PF06050_consen 272 ERR-IEYIDDLIEKYGADGVIFHGHKGCDPYSYDQPLLKEALREFLGIPVLFLEGD 326 (349)
T ss_dssp HCH-HHHHHHHHHHTT-SEEEEEEETT-HHHHCCHHHHHHHHHCCHT--EEEEEE-
T ss_pred HhH-HHHHHHHHHHhCCCEEEEhHhcCCCcHHHHHHHHHHHHHHhcCCCeEeeccc
Confidence 344 499999999999999999988765433222222 2777777 9999999743
No 217
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=33.15 E-value=1.6e+02 Score=22.10 Aligned_cols=47 Identities=11% Similarity=0.116 Sum_probs=34.1
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
....+..++.++|.+|+++.......- .....++..+..|.+|+.+.
T Consensus 50 aav~~~~e~~~pDfvi~isPNpaaPGP--~kARE~l~~s~~PaiiigDa 96 (277)
T COG1927 50 AAVTEMLEEFNPDFVIYISPNPAAPGP--KKAREILSDSDVPAIIIGDA 96 (277)
T ss_pred HHHHHHHHhcCCCEEEEeCCCCCCCCc--hHHHHHHhhcCCCEEEecCC
Confidence 567788889999999999876542110 11238888999999999754
No 218
>PF00180 Iso_dh: Isocitrate/isopropylmalate dehydrogenase; InterPro: IPR024084 Isocitrate dehydrogenase (IDH) [, ] is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate. IDH is either dependent on NAD+ (1.1.1.41 from EC) or on NADP+ (1.1.1.42 from EC). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated. 3-isopropylmalate dehydrogenase (1.1.1.85 from EC) (IMDH) [, ] catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate. Tartrate dehydrogenase (1.1.1.93 from EC) [] catalyses the reduction of tartrate to oxaloglycolate. These enzymes are evolutionary related. To this family also belongs the enzyme tartrate dehydrogenase, which shows strong homology to prokaryotic isopropylmalate dehydrogenases and, to a lesser extent, isocitrate dehydrogenase []. This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described []. ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1WAL_A 1CNZ_B 2D4V_C 1CM7_A 4AOY_D 3FMX_X 3FLK_C 1A05_A 1X0L_B 4F7I_D ....
Probab=32.97 E-value=87 Score=25.17 Aligned_cols=78 Identities=13% Similarity=0.201 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHhhccC-CCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhh-hhcCCcEEEEEecCCchHHHH
Q 030760 14 DAARAALLWALQNLLRF-GDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICN-DFFNTNVEIIVTEGDQEGARI 91 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~-~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~I 91 (172)
+.+++.+++|+++|... ..+|+++|=.+--. ... .+ .+.+++..+ ++++++++...++.-. -.+
T Consensus 160 ~~~eRi~r~AF~~A~~r~~k~Vt~v~KaNvl~---~~~--lf-------~~~~~eva~~~yp~I~~~~~~vD~~~--~~L 225 (348)
T PF00180_consen 160 EGIERIARFAFEYARKRGRKKVTVVHKANVLK---STD--LF-------REVFQEVAKQEYPDIEVEHMLVDAAA--MQL 225 (348)
T ss_dssp HHHHHHHHHHHHHHHHTTTSEEEEEESTTTST---THH--HH-------HHHHHHHHHHTHTTSEEEEEEHHHHH--HHH
T ss_pred chhhHHHHHHHHHHHHhCCceEEEEeccchhH---HHH--HH-------HHHHHHHHHhhcceeEeeeeechhhh--hee
Confidence 56889999999999887 68999998654422 111 11 122344555 5778888877764222 333
Q ss_pred HHHHHHhCCCEEEEee
Q 030760 92 AALVREIGASALVVGL 107 (172)
Q Consensus 92 ~~~a~~~~~DllVmg~ 107 (172)
+.. -.+.|.||+..
T Consensus 226 v~~--P~~fdViv~~N 239 (348)
T PF00180_consen 226 VKN--PEQFDVIVTPN 239 (348)
T ss_dssp HHS--GGGESEEEEEH
T ss_pred ecC--CcceeEEeecc
Confidence 333 24578666653
No 219
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=32.87 E-value=2.9e+02 Score=22.93 Aligned_cols=46 Identities=17% Similarity=0.085 Sum_probs=32.0
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
..+.+.++..++|.||+-...-+.-.... ..++..++||++.-.+.
T Consensus 53 ~~~~~~~~~~~~d~ii~~~~tf~~~~~~~----~~~~~~~~Pvll~a~~~ 98 (452)
T cd00578 53 RKAAEEFNEANCDGLIVWMHTFGPAKMWI----AGLSELRKPVLLLATQF 98 (452)
T ss_pred HHHHHHHhhcCCcEEEEcccccccHHHHH----HHHHhcCCCEEEEeCCC
Confidence 55667777788999998766555433222 45677899999997654
No 220
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=32.71 E-value=2.3e+02 Score=21.80 Aligned_cols=64 Identities=11% Similarity=0.041 Sum_probs=38.0
Q ss_pred HHHhhhhcCCcEEEEE--ecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEE
Q 030760 66 KDICNDFFNTNVEIIV--TEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLA 133 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~--~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlv 133 (172)
+++..+++++++.-.. .......++|++.+...++|+|.+|-..... +.++. .-..+.+++|.+
T Consensus 126 ~~l~~~~p~l~ivg~h~GYf~~~e~~~i~~~I~~s~pdil~VgmG~P~Q-E~wi~---~~~~~~~~~v~i 191 (253)
T COG1922 126 AKLRAKYPGLKIVGSHDGYFDPEEEEAIVERIAASGPDILLVGMGVPRQ-EIWIA---RNRQQLPVAVAI 191 (253)
T ss_pred HHHHHHCCCceEEEecCCCCChhhHHHHHHHHHhcCCCEEEEeCCCchh-HHHHH---HhHHhcCCceEE
Confidence 4444456666555443 3344443689999999999999999765542 32222 233344455554
No 221
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=32.70 E-value=1.1e+02 Score=23.77 Aligned_cols=67 Identities=18% Similarity=0.344 Sum_probs=44.5
Q ss_pred HHHHHHhhhhcCCcEEEEEecCC---chHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 63 LSFKDICNDFFNTNVEIIVTEGD---QEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~g~---~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
..++.+...+ ++++...-.+.. ...+.+.+..+++++|+||++.. +-.-|..+.++.+..++=++..
T Consensus 128 ~dl~~~v~~~-~IPfhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY-------MqILS~d~~~~~~g~iINIHHS 197 (287)
T COG0788 128 DDLRPLVERF-DIPFHHIPVTKENKAEAEARLLELLEEYGADLVVLARY-------MQILSPDFVERFPGKIINIHHS 197 (287)
T ss_pred HHHHHHHHHc-CCCeeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh-------HhhCCHHHHHhccCcEEEeccc
Confidence 3445555555 777776655432 33478899999999999998732 1222557777888888777643
No 222
>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences. ThiG, together with ThiF and ThiH, is proposed to be involved in the synthesis of 4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an intermediate in the thiazole production pathway [].; GO: 0009228 thiamine biosynthetic process; PDB: 1WV2_B 1TYG_C 1XM3_B 2HTM_C 2YZR_C.
Probab=32.68 E-value=2.3e+02 Score=21.71 Aligned_cols=115 Identities=14% Similarity=0.040 Sum_probs=59.8
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
++|--+.+-..++.|+..|.---..++..+.=|.|+..+....++..+.++.. +.+.++ |+.+=..+ .
T Consensus 64 ~lLPNTaGc~tA~EAv~~A~laRe~~~t~wIKLEVi~D~~~L~PD~~etl~Aa--------e~Lv~e--GF~VlPY~--~ 131 (247)
T PF05690_consen 64 TLLPNTAGCRTAEEAVRTARLAREAFGTNWIKLEVIGDDKTLLPDPIETLKAA--------EILVKE--GFVVLPYC--T 131 (247)
T ss_dssp EEEEE-TT-SSHHHHHHHHHHHHHTTS-SEEEE--BS-TTT--B-HHHHHHHH--------HHHHHT--T-EEEEEE---
T ss_pred EECCcCCCCCCHHHHHHHHHHHHHHcCCCeEEEEEeCCCCCcCCChhHHHHHH--------HHHHHC--CCEEeecC--C
Confidence 45556677777778877554444455778888999988766555554555544 666654 44443333 2
Q ss_pred CchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH--HHhccCCceEEE
Q 030760 85 DQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN--DISSSFNCRVLA 133 (172)
Q Consensus 85 ~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~--~i~~~~~~PVlv 133 (172)
+. -.+.+..++.++..|.-....-+.-.++..... .|..+.+.||+|
T Consensus 132 ~D--~v~akrL~d~GcaavMPlgsPIGSg~Gi~n~~~l~~i~~~~~vPvIv 180 (247)
T PF05690_consen 132 DD--PVLAKRLEDAGCAAVMPLGSPIGSGRGIQNPYNLRIIIERADVPVIV 180 (247)
T ss_dssp S---HHHHHHHHHTT-SEBEEBSSSTTT---SSTHHHHHHHHHHGSSSBEE
T ss_pred CC--HHHHHHHHHCCCCEEEecccccccCcCCCCHHHHHHHHHhcCCcEEE
Confidence 32 346777778888877644333222222222222 667788999988
No 223
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=32.53 E-value=2e+02 Score=20.95 Aligned_cols=42 Identities=10% Similarity=-0.050 Sum_probs=32.1
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
.+-.|.+-.....++...++.+++-+...|+++.++++.+..
T Consensus 2 ki~~I~gs~r~~G~t~~l~~~~~~g~~~~G~E~~~i~v~~~~ 43 (207)
T COG0655 2 KILGINGSPRSNGNTAKLAEAVLEGAEEAGAEVEIIRLPEKN 43 (207)
T ss_pred eeeEEEecCCCCCcHHHHHHHHHHHHHHcCCEEEEEEecCCC
Confidence 344444444446778889999999998889999999998763
No 224
>PLN02285 methionyl-tRNA formyltransferase
Probab=32.44 E-value=1.2e+02 Score=24.28 Aligned_cols=22 Identities=9% Similarity=0.154 Sum_probs=17.2
Q ss_pred HHHHHHHHHhCCCEEEEeecCC
Q 030760 89 ARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~ 110 (172)
+.+++..++.++|++|+..-++
T Consensus 83 ~~~~~~l~~~~~Dliv~~~~~~ 104 (334)
T PLN02285 83 EDFLSALRELQPDLCITAAYGN 104 (334)
T ss_pred HHHHHHHHhhCCCEEEhhHhhh
Confidence 5667888899999999885443
No 225
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=31.99 E-value=2.6e+02 Score=22.13 Aligned_cols=59 Identities=20% Similarity=0.231 Sum_probs=35.8
Q ss_pred CCcEEEEEecCCc----hHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh-H-----HHHhccCCceEEEEe
Q 030760 74 NTNVEIIVTEGDQ----EGARIAALVREIGASALVVGLHDRSFLHKLAMS-H-----NDISSSFNCRVLAIK 135 (172)
Q Consensus 74 ~~~~~~~~~~g~~----~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g-s-----~~i~~~~~~PVlvv~ 135 (172)
++.+...+..|.. ....+.+.+++.++|.|.+..+.+. +...| . ..+.++.++||+..=
T Consensus 133 d~pv~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~---~~~~G~a~~~~i~~ik~~~~iPVI~nG 201 (321)
T PRK10415 133 DVPVTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRA---CLFNGEAEYDSIRAVKQKVSIPVIANG 201 (321)
T ss_pred CCceEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccc---cccCCCcChHHHHHHHHhcCCcEEEeC
Confidence 4556666655432 1246777778899999988665432 12223 1 166677788887753
No 226
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=31.96 E-value=2.2e+02 Score=21.34 Aligned_cols=92 Identities=20% Similarity=0.252 Sum_probs=51.6
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEG 84 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 84 (172)
++++.+.+..+|..++.++.+- ...+.++++.+...... .. +....+.++..++.. +++.......+
T Consensus 2 kv~vl~SGGKDS~lAl~~~~~~----~~V~~L~~~~~~~~~s~-----~~---h~~~~~~~~~qA~al-giPl~~~~~~~ 68 (222)
T TIGR00289 2 KVAVLYSGGKDSILALYKALEE----HEVISLVGVFSENEESY-----MF---HSPNLHLTDLVAEAV-GIPLIKLYTSG 68 (222)
T ss_pred eEEEEecCcHHHHHHHHHHHHc----CeeEEEEEEcCCCCCcc-----cc---ccCCHHHHHHHHHHc-CCCeEEEEcCC
Confidence 5788899999999999988773 34455555554421100 00 000001112222222 66654444333
Q ss_pred --CchHHHHHHHHHHhCCCEEEEeecC
Q 030760 85 --DQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 85 --~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
...-+.+.+..++.+++-+|.|.=-
T Consensus 69 ~~e~~~~~l~~~l~~~gv~~vv~GdI~ 95 (222)
T TIGR00289 69 EEEKEVEDLAGQLGELDVEALCIGAIE 95 (222)
T ss_pred chhHHHHHHHHHHHHcCCCEEEECccc
Confidence 2223667777778899999998754
No 227
>PLN02329 3-isopropylmalate dehydrogenase
Probab=31.91 E-value=63 Score=26.68 Aligned_cols=29 Identities=3% Similarity=-0.141 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+.+++.+++|+++|...+.+|+++|=.+-
T Consensus 211 ~~~eRI~r~AFe~A~~r~~kVT~v~KaNV 239 (409)
T PLN02329 211 HEIDRIARVAFETARKRRGKLCSVDKANV 239 (409)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEEECCCC
Confidence 56889999999999777667777775433
No 228
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=31.62 E-value=2.5e+02 Score=21.87 Aligned_cols=21 Identities=24% Similarity=0.273 Sum_probs=17.9
Q ss_pred HHHHHHHHHhCCCEEEEeecC
Q 030760 89 ARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~ 109 (172)
..+.+..++.++|++|+..-.
T Consensus 155 ~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 155 ARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred HHHHHHHHHhCCCEEEEecch
Confidence 578999999999999998644
No 229
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=31.58 E-value=1.1e+02 Score=20.83 Aligned_cols=53 Identities=15% Similarity=0.235 Sum_probs=35.6
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCc-----chhHhhhh-HHHHhccC-CceEEEEeCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRS-----FLHKLAMS-HNDISSSF-NCRVLAIKQP 137 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~-----~~~~~~~g-s~~i~~~~-~~PVlvv~~~ 137 (172)
+... +.|.+.+++++++.+|+|--.+. ...+.... ...+-... ++||..+-+.
T Consensus 37 ~~~~-~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DEr 96 (135)
T PF03652_consen 37 EKDI-EELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDER 96 (135)
T ss_dssp CCCH-HHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEECS
T ss_pred chHH-HHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECCC
Confidence 4554 99999999999999999985432 11111110 12556665 8999998754
No 230
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=31.52 E-value=2.8e+02 Score=22.38 Aligned_cols=72 Identities=10% Similarity=0.138 Sum_probs=42.6
Q ss_pred HHHHHHhhh-hcCCcEEEEEe-c---CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 63 LSFKDICND-FFNTNVEIIVT-E---GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 63 ~~~~~~~~~-~~~~~~~~~~~-~---g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
..+.+.++. .++.+.+..+. + |.+.-...-.+-+..+.|-+|+.--..+.-.+.++ .|.+..+.||..+=-.
T Consensus 244 ~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F~eav~l~GiIlTKlDgtAKGG~il---~I~~~l~~PI~fiGvG 320 (340)
T COG0552 244 KKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNEAVGLDGIILTKLDGTAKGGIIL---SIAYELGIPIKFIGVG 320 (340)
T ss_pred HHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHHHHhcCCceEEEEecccCCCcceee---eHHHHhCCCEEEEeCC
Confidence 444555554 33455665554 3 44443444455556778989987544332222222 8999999999998644
No 231
>PF00676 E1_dh: Dehydrogenase E1 component; InterPro: IPR001017 This entry includes a number of dehydrogenases all of which use thiamine pyrophosphate as a cofactor and are members of a multienzyme complex. Pyruvate dehydrogenase (1.2.4.1 from EC), a component of the multienzyme pyruvate dehydrogenase complex; 2-oxoglutarate dehydrogenase (1.2.4.2 from EC), a component of the multienzyme 2-oxoglutarate dehydrogenase which contains multiple copies of three enzymatic components: 2-oxoglutarate dehydrogenase (E1), dihydrolipoamide succinyltransferase (E2) and lipoamide dehydrogenase (E3); and 2-oxoisovalerate dehydrogenase (1.2.4.4 from EC), a component of the multienzyme branched-chain alpha-keto dehydrogenase complex all belong to this family.; GO: 0016624 oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor, 0008152 metabolic process; PDB: 1X7Y_A 1V1M_A 1X7W_A 1OLU_A 2J9F_A 2BEW_A 1V11_A 2BFE_A 1U5B_A 2BEU_A ....
Probab=31.26 E-value=35 Score=26.73 Aligned_cols=80 Identities=13% Similarity=0.079 Sum_probs=44.7
Q ss_pred eEEEEEe--cCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchH-HHHHHHHHHHHHHHHHHHHhhhhcCCcEEEE
Q 030760 4 KKIVVIV--EDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRK-KLRLLRLKGYQLALSFKDICNDFFNTNVEII 80 (172)
Q Consensus 4 k~Ilv~~--d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (172)
+.|.+++ |++ .++-.+.-++.+|...+.+| |+|++.+...... ..+. .....+.+...+..+...
T Consensus 123 ~~v~v~~~GDga-~~qG~~~EalN~A~~~~lPv--ifvveNN~~aist~~~~~---------~~~~~~~~~a~~~gip~~ 190 (300)
T PF00676_consen 123 DGVVVCFFGDGA-TSQGDFHEALNLAALWKLPV--IFVVENNQYAISTPTEEQ---------TASPDIADRAKGYGIPGI 190 (300)
T ss_dssp SEEEEEEEETGG-GGSHHHHHHHHHHHHTTTSE--EEEEEEESEETTEEHHHH---------CSSSTSGGGGGGTTSEEE
T ss_pred ceeEEEEecCcc-cccCccHHHHHHHhhccCCe--EEEEecCCcccccCcccc---------ccccchhhhhhccCCcEE
Confidence 4566666 444 57778888899998888877 5555544322111 0000 001222333335667778
Q ss_pred EecCCchHHHHHHHHH
Q 030760 81 VTEGDQEGARIAALVR 96 (172)
Q Consensus 81 ~~~g~~~~~~I~~~a~ 96 (172)
.++|+++ .++.+.++
T Consensus 191 ~VDG~D~-~av~~a~~ 205 (300)
T PF00676_consen 191 RVDGNDV-EAVYEAAK 205 (300)
T ss_dssp EEETTSH-HHHHHHHH
T ss_pred EECCEeH-HHHHHHHH
Confidence 8899876 65555443
No 232
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=30.97 E-value=2.7e+02 Score=22.00 Aligned_cols=58 Identities=24% Similarity=0.208 Sum_probs=35.8
Q ss_pred CCcEEEEEecCC---chHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH-------HHHhccCCceEEEE
Q 030760 74 NTNVEIIVTEGD---QEGARIAALVREIGASALVVGLHDRSFLHKLAMSH-------NDISSSFNCRVLAI 134 (172)
Q Consensus 74 ~~~~~~~~~~g~---~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs-------~~i~~~~~~PVlvv 134 (172)
++.+..++..|. .....+.+.+++.++|+|.+..+.+.. ...|. ..+.+..++||+..
T Consensus 133 ~~pVsvKiR~g~~~~~~~~~~a~~l~~~Gvd~i~Vh~Rt~~~---~y~g~~~~~~~i~~ik~~~~iPVi~n 200 (312)
T PRK10550 133 HLPVTVKVRLGWDSGERKFEIADAVQQAGATELVVHGRTKED---GYRAEHINWQAIGEIRQRLTIPVIAN 200 (312)
T ss_pred CcceEEEEECCCCCchHHHHHHHHHHhcCCCEEEECCCCCcc---CCCCCcccHHHHHHHHhhcCCcEEEe
Confidence 356666665553 123677888889999999997655421 12221 15566667787764
No 233
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=30.96 E-value=1.9e+02 Score=22.19 Aligned_cols=47 Identities=9% Similarity=0.068 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
......++.+.|++|+.+-...... -.+...++....+|++|+.+..
T Consensus 51 ~~~~~~~~~~pDf~i~isPN~a~PG--P~~ARE~l~~~~iP~IvI~D~p 97 (277)
T PRK00994 51 VVKKMLEEWKPDFVIVISPNPAAPG--PKKAREILKAAGIPCIVIGDAP 97 (277)
T ss_pred HHHHHHHhhCCCEEEEECCCCCCCC--chHHHHHHHhcCCCEEEEcCCC
Confidence 3444557889999999876644211 1112388889999999998553
No 234
>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ. This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr
Probab=30.91 E-value=2.2e+02 Score=21.01 Aligned_cols=42 Identities=19% Similarity=0.023 Sum_probs=25.6
Q ss_pred CCceEEEEEecCCHH-------------HHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 1 MDVKKIVVIVEDVDA-------------ARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~-------------s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
|.+++|..++|.-+. ....++.|..+....-..++++.+...
T Consensus 1 ~~~~~ii~~iD~~~g~~V~~~~~~~~~~~~dp~~~a~~~~~~g~~~i~i~dl~~~ 55 (232)
T TIGR03572 1 MLKKRIIPCLLLKDGRLVKTVQFKDPRYIGDPVNAARIYNAKGADELIVLDIDAS 55 (232)
T ss_pred CCCceEEEEEEEECCeEEEeeccCCCeECCCHHHHHHHHHHcCCCEEEEEeCCCc
Confidence 788899998887532 124555566553332356777766543
No 235
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=30.87 E-value=2.4e+02 Score=21.43 Aligned_cols=42 Identities=14% Similarity=-0.065 Sum_probs=27.0
Q ss_pred CCceEEEEEecCCHH-------------HHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 1 MDVKKIVVIVEDVDA-------------ARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~-------------s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
|..++|..++|.-.. ....++.|..+....=..++++-+...
T Consensus 1 m~~~~iipaiD~~~G~~V~~~~~~~~~~~~dp~~~a~~~~~~g~~~l~i~Dl~~~ 55 (258)
T PRK01033 1 MLRPRIIPCLLLKDGGLVKTVKFKDPRYIGDPINAVRIFNEKEVDELIVLDIDAS 55 (258)
T ss_pred CCCcEEEEEEEEECCcEEEeecccCceeCCCHHHHHHHHHHcCCCEEEEEECCCC
Confidence 778889888887533 335666666666544356666666543
No 236
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=30.56 E-value=3.2e+02 Score=22.72 Aligned_cols=41 Identities=5% Similarity=0.259 Sum_probs=25.9
Q ss_pred ecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEE
Q 030760 82 TEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAI 134 (172)
Q Consensus 82 ~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv 134 (172)
+.+... ..+.+.+++.++|+++=+++++ ++.++..+|.+-+
T Consensus 371 v~~~~~-~e~~~~i~~~~pdllig~s~~~-----------~~A~~lgip~~~~ 411 (443)
T TIGR01862 371 IDDPNE-LEFEEILEKLKPDIIFSGIKEK-----------FVAQKLGVPYRQM 411 (443)
T ss_pred ecCCCH-HHHHHHHHhcCCCEEEEcCcch-----------hhhhhcCCCeEec
Confidence 333343 7788888999999877554432 3344566776644
No 237
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=30.50 E-value=2e+02 Score=20.30 Aligned_cols=114 Identities=17% Similarity=0.172 Sum_probs=59.3
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVT 82 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (172)
.++|+|-.....+.-+++-.|..++. .|..++++.+.+.... ... .+.+ .++++.. +. .+...
T Consensus 25 ~~~v~il~G~GnNGgDgl~~AR~L~~-~G~~V~v~~~~~~~~~-~~~----~~~~--------~~~~~~~-g~--~~~~~ 87 (169)
T PF03853_consen 25 GPRVLILCGPGNNGGDGLVAARHLAN-RGYNVTVYLVGPPEKL-SED----AKQQ--------LEILKKM-GI--KIIEL 87 (169)
T ss_dssp T-EEEEEE-SSHHHHHHHHHHHHHHH-TTCEEEEEEEESSSST-SHH----HHHH--------HHHHHHT-T---EEESS
T ss_pred CCeEEEEECCCCChHHHHHHHHHHHH-CCCeEEEEEEeccccC-CHH----HHHH--------HHHHHhc-CC--cEeec
Confidence 46888888888999999988877755 5777888666654321 111 1111 2222222 32 22222
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhh---H-HHHhccCCceEEEEeCCCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMS---H-NDISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~g---s-~~i~~~~~~PVlvv~~~~~ 139 (172)
.........++ .+|+||=|--+.+. ++-+.+ . -..++..++||+.+--+..
T Consensus 88 ~~~~~~~~~~~-----~~dlIIDal~G~G~-~~~l~~~~~~~i~~iN~~~~~viAiDiPSG 142 (169)
T PF03853_consen 88 DSDEDLSEALE-----PADLIIDALFGTGF-SGPLRGPIAELIDWINASRAPVIAIDIPSG 142 (169)
T ss_dssp CCGSGGGHHGS-----CESEEEEES-STTG-GSCGSTCHHHHHHHHHHHCSEEEEESS-TT
T ss_pred cccchhhcccc-----cccEEEEecccCCC-CCCcCHHHHHHHHHHhccCCcEEEecCCCC
Confidence 21111011111 78999965555432 222222 1 1666777999999876644
No 238
>PRK06850 hypothetical protein; Provisional
Probab=30.33 E-value=3.5e+02 Score=23.17 Aligned_cols=36 Identities=14% Similarity=0.031 Sum_probs=24.4
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccC-----CCEEEEEEEec
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRF-----GDVVTLLHVFP 41 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~-----~~~l~~l~V~~ 41 (172)
++|++.+..+|..++..+....... ..+|++++..+
T Consensus 37 ~vV~fSGGKDStavL~Lv~~Al~~lp~e~r~k~v~Vi~~DT 77 (507)
T PRK06850 37 WVIGYSGGKDSTAVLQLVWNALAGLPPEKRTKPVYVISSDT 77 (507)
T ss_pred eEEeCCCCchHHHHHHHHHHHHHhcchhccCCcEEEEECCC
Confidence 6899999999999998887654322 12455555543
No 239
>COG1795 Formaldehyde-activating enzyme nesessary for methanogenesis [Energy production and conversion]
Probab=30.19 E-value=44 Score=23.51 Aligned_cols=32 Identities=16% Similarity=0.147 Sum_probs=19.5
Q ss_pred EEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 103 LVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 103 lVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
|+||.++.. ..+.|..+-.-..+.+||+|.+=
T Consensus 21 l~iG~k~g~-vg~AFanaLa~~s~GhtPllavl 52 (170)
T COG1795 21 LIIGPKGGP-VGQAFANALASPSQGHTPLLAVL 52 (170)
T ss_pred EEecCCCCh-HHHHHHHHhcCcccCCCceEEEe
Confidence 456665543 44445444455567899999884
No 240
>PRK14057 epimerase; Provisional
Probab=30.17 E-value=2.6e+02 Score=21.55 Aligned_cols=33 Identities=12% Similarity=0.174 Sum_probs=21.1
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
+.++.+.+-.|-.. +.| ..+.+.++|.+|+|+.
T Consensus 191 ~~~~~IeVDGGI~~-~ti-~~l~~aGad~~V~GSa 223 (254)
T PRK14057 191 REGKIIVIDGSLTQ-DQL-PSLIAQGIDRVVSGSA 223 (254)
T ss_pred CCCceEEEECCCCH-HHH-HHHHHCCCCEEEEChH
Confidence 44454544445553 544 4667789999999954
No 241
>PRK07627 dihydroorotase; Provisional
Probab=30.14 E-value=1.4e+02 Score=24.54 Aligned_cols=27 Identities=19% Similarity=0.096 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 16 ARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 16 s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
...++..++.+|...++++|++|+...
T Consensus 211 E~~av~r~~~la~~~~~~~hi~HvSs~ 237 (425)
T PRK07627 211 ETIALHTIFELMRVTGARVHLARLSSA 237 (425)
T ss_pred HHHHHHHHHHHHHHHCCcEEEEeCCCH
Confidence 456889999999999999999999976
No 242
>PRK05784 phosphoribosylamine--glycine ligase; Provisional
Probab=30.03 E-value=1.5e+02 Score=25.05 Aligned_cols=28 Identities=11% Similarity=0.358 Sum_probs=19.3
Q ss_pred EecCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 81 VTEGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 81 ~~~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
....... +.|+++|+++++|++|.|...
T Consensus 52 ~~~~~d~-~~l~~~a~~~~id~Vi~g~E~ 79 (486)
T PRK05784 52 IGNINSP-EEVKKVAKEVNPDLVVIGPEE 79 (486)
T ss_pred ecCCCCH-HHHHHHHHHhCCCEEEECCch
Confidence 3444454 778888888888888877654
No 243
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=29.98 E-value=2.5e+02 Score=21.27 Aligned_cols=68 Identities=9% Similarity=0.134 Sum_probs=37.3
Q ss_pred HHHHHHhhhhcCCcEEEEEecCCc-hHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 63 LSFKDICNDFFNTNVEIIVTEGDQ-EGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~g~~-~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
..+++.+++. +.++......+++ .....++.....++|.+|++.......... -..+...++|++.+.
T Consensus 46 ~~i~~~~~~~-G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~----l~~~~~~~ipvV~~~ 114 (295)
T PRK10653 46 DGAQKEADKL-GYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVGNA----VKMANQANIPVITLD 114 (295)
T ss_pred HHHHHHHHHc-CCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHH----HHHHHHCCCCEEEEc
Confidence 3344444444 6666554333232 123455566677899888875432221111 155667789999885
No 244
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=29.42 E-value=2e+02 Score=20.07 Aligned_cols=26 Identities=15% Similarity=0.207 Sum_probs=21.2
Q ss_pred chHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 86 QEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 86 ~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
...+.|.+.+++.++|+|++|....+
T Consensus 70 ~~a~al~~~i~~~~p~~Vl~~~t~~g 95 (168)
T cd01715 70 PYAPALVALAKKEKPSHILAGATSFG 95 (168)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCccc
Confidence 34577888889989999999988754
No 245
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=29.41 E-value=2e+02 Score=20.15 Aligned_cols=38 Identities=13% Similarity=0.052 Sum_probs=28.2
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+.+++.+..+.++...++ +++.++..|+++..+.-...
T Consensus 102 ~Dv~I~iS~SG~t~~~i~-~~~~ak~~Ga~vI~IT~~~~ 139 (177)
T cd05006 102 GDVLIGISTSGNSPNVLK-ALEAAKERGMKTIALTGRDG 139 (177)
T ss_pred CCEEEEEeCCCCCHHHHH-HHHHHHHCCCEEEEEeCCCC
Confidence 568899998888888877 55666667888877765543
No 246
>TIGR00514 accC acetyl-CoA carboxylase, biotin carboxylase subunit. This model represents the biotin carboxylase subunit found usually as a component of acetyl-CoA carboxylase. Acetyl-CoA carboxylase is designated EC 6.4.1.2 and this component, biotin carboxylase, has its own designation, EC 6.3.4.14. Homologous domains are found in eukaryotic forms of acetyl-CoA carboxylase and in a number of other carboxylases (e.g. pyruvate carboxylase), but seed members and trusted cutoff are selected so as to exclude these. In some systems, the biotin carboxyl carrier protein and this protein (biotin carboxylase) may be shared by different carboxyltransferases. However, this model is not intended to identify the biotin carboxylase domain of propionyl-coA carboxylase. The model should hit the full length of proteins, except for chloroplast transit peptides in plants. If it hits a domain only of a longer protein, there may be a problem with the identification.
Probab=29.28 E-value=2e+02 Score=23.71 Aligned_cols=33 Identities=18% Similarity=0.168 Sum_probs=22.4
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEe
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVF 40 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~ 40 (172)
+||||+. ..++.+...++.|.+ .|-++.+++..
T Consensus 2 ~kkili~-g~g~~~~~~~~aa~~----lG~~vv~~~~~ 34 (449)
T TIGR00514 2 LDKILIA-NRGEIALRILRACKE----LGIKTVAVHST 34 (449)
T ss_pred cceEEEe-CCCHHHHHHHHHHHH----cCCeEEEEECh
Confidence 7899998 666666666555544 47777777653
No 247
>TIGR02924 ICDH_alpha isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear.
Probab=29.15 E-value=84 Score=26.50 Aligned_cols=29 Identities=14% Similarity=0.048 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHhhccCC-CEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRFG-DVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~-~~l~~l~V~~~ 42 (172)
+.+++.+++|+++|+..+ .+|+++|=.+-
T Consensus 145 ~g~eRI~r~AFe~A~~r~rkkVT~v~KaNV 174 (473)
T TIGR02924 145 SGSEKICRYAFEYARKHNRKKVTCLTKDNI 174 (473)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEEECCcc
Confidence 568899999999998776 46888876543
No 248
>TIGR01826 CofD_related conserved hypothetical protein, cofD-related. This model represents a subfamily of conserved hypothetical proteins that forms a sister group to the family of CofD, (TIGR01819), LPPG:Fo 2-phospho-L-lactate transferase, an enzyme of cytochrome F420 biosynthesis. Both this family and TIGR01819 are within the scope of the pfam model pfam01933.
Probab=29.11 E-value=1.1e+02 Score=24.24 Aligned_cols=47 Identities=13% Similarity=0.176 Sum_probs=30.9
Q ss_pred HHHHHHHHHhCCCEEEEeecCC--cchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDR--SFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~--~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
...++.+++ +|+||+|.... |-+.-++... ..-+++++||++.+.+-
T Consensus 164 ~~al~AI~~--ADlIvlgPGSlyTSIiPnLlv~gI~eAI~~s~a~kV~v~N~ 213 (310)
T TIGR01826 164 REAVEAIRE--ADLIILGPGSLYTSIIPNLLVPEIAEALRESKAPKVYVCNL 213 (310)
T ss_pred HHHHHHHHh--CCEEEECCCcCHHHhchhcCchhHHHHHHhCCCCEEEEeCC
Confidence 566666665 89999997653 2222222222 27888999999999754
No 249
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=29.07 E-value=88 Score=20.53 Aligned_cols=39 Identities=15% Similarity=0.106 Sum_probs=26.3
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-+.+++.+..+.++...++ +++.++..|.++..+.-...
T Consensus 47 ~~dl~I~iS~SG~t~~~~~-~~~~a~~~g~~vi~iT~~~~ 85 (120)
T cd05710 47 EKSVVILASHSGNTKETVA-AAKFAKEKGATVIGLTDDED 85 (120)
T ss_pred CCcEEEEEeCCCCChHHHH-HHHHHHHcCCeEEEEECCCC
Confidence 3567888888877777665 56666667777766655443
No 250
>COG2262 HflX GTPases [General function prediction only]
Probab=28.93 E-value=3.4e+02 Score=22.54 Aligned_cols=28 Identities=25% Similarity=0.280 Sum_probs=21.8
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCc
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRS 111 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~ 111 (172)
|..-.+.|.+.++..++|+||+...-..
T Consensus 54 G~GK~eEi~~~v~~~~ad~VIf~~~LsP 81 (411)
T COG2262 54 GSGKLEEIAEAVEETGADLVIFDHELSP 81 (411)
T ss_pred CcchHHHHHHHHHhcCCCEEEECCcCCH
Confidence 3333489999999999999999866443
No 251
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=28.88 E-value=1.6e+02 Score=18.66 Aligned_cols=64 Identities=14% Similarity=0.213 Sum_probs=35.9
Q ss_pred HHHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCC
Q 030760 64 SFKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
.+++.+++. +.++++.... . ..+.+. ..++|+|+++..-...++.+ .......++||.++++..
T Consensus 18 ki~~~~~~~-~~~~~v~~~~--~--~~~~~~--~~~~Diil~~Pqv~~~~~~i----~~~~~~~~~pv~~I~~~~ 81 (96)
T cd05564 18 KMKKAAEKR-GIDAEIEAVP--E--SELEEY--IDDADVVLLGPQVRYMLDEV----KKKAAEYGIPVAVIDMMD 81 (96)
T ss_pred HHHHHHHHC-CCceEEEEec--H--HHHHHh--cCCCCEEEEChhHHHHHHHH----HHHhccCCCcEEEcChHh
Confidence 345565553 6665444333 2 222233 35689999997644333321 134456789999998653
No 252
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=28.86 E-value=70 Score=24.68 Aligned_cols=40 Identities=13% Similarity=0.029 Sum_probs=31.6
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.-+.++|+++++.++...++ +.+.++..|+++..+.-...
T Consensus 176 ~~~Dv~i~iS~sG~t~e~i~-~a~~ak~~ga~vIaiT~~~~ 215 (281)
T COG1737 176 TPGDVVIAISFSGYTREIVE-AAELAKERGAKVIAITDSAD 215 (281)
T ss_pred CCCCEEEEEeCCCCcHHHHH-HHHHHHHCCCcEEEEcCCCC
Confidence 45678999999999998877 66777778888888776644
No 253
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=28.70 E-value=1.1e+02 Score=24.72 Aligned_cols=29 Identities=14% Similarity=0.048 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhhccC-CCEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRF-GDVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~-~~~l~~l~V~~~ 42 (172)
..+++.+++|+++|+.. ..+|+.+|=.+-
T Consensus 156 ~~~eRI~r~AFe~A~~R~~kkvTsv~KaNV 185 (348)
T COG0473 156 KGSERIARFAFELARKRGRKKVTSVHKANV 185 (348)
T ss_pred HHHHHHHHHHHHHHHhhCCCceEEEehhhh
Confidence 56889999999999887 689999987654
No 254
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=28.65 E-value=2.7e+02 Score=21.40 Aligned_cols=65 Identities=12% Similarity=0.100 Sum_probs=38.9
Q ss_pred CCcEEEEEecCCc-hHHHHHHHHHHhCCCEEEEeecCCcch--hHhhhhHHHHhccCCceEEEEeCCC
Q 030760 74 NTNVEIIVTEGDQ-EGARIAALVREIGASALVVGLHDRSFL--HKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 74 ~~~~~~~~~~g~~-~~~~I~~~a~~~~~DllVmg~~~~~~~--~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
.+.+-..+...+. ..-...+.+++.++|-+++..-..... +.+.---..|...++.|+++...+.
T Consensus 70 ~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~~pv~lYn~P~ 137 (292)
T PRK03170 70 RVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEATDLPIILYNVPG 137 (292)
T ss_pred CCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEECcc
Confidence 3444444443232 224555788889999999876543222 2211101378888999999997654
No 255
>PF10808 DUF2542: Protein of unknown function (DUF2542) ; InterPro: IPR020155 This entry represents transmembrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=28.43 E-value=54 Score=20.09 Aligned_cols=27 Identities=7% Similarity=-0.021 Sum_probs=20.7
Q ss_pred chhHhhhhH-HHHhccCCceEEEEeCCC
Q 030760 112 FLHKLAMSH-NDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 112 ~~~~~~~gs-~~i~~~~~~PVlvv~~~~ 138 (172)
+++.+-+|. ++++++++-||.+-|...
T Consensus 23 a~KgwRsGaVdK~vkna~ePvyi~R~~~ 50 (79)
T PF10808_consen 23 AWKGWRSGAVDKIVKNAQEPVYIYRAKN 50 (79)
T ss_pred HHHHHhhcchHHHhcCCCCcEEEEecCC
Confidence 355555675 499999999999998653
No 256
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=28.36 E-value=2e+02 Score=21.89 Aligned_cols=49 Identities=18% Similarity=0.183 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH-HHhccCCceEEEEeCC
Q 030760 88 GARIAALVREIGASALVVGLHDRSFLHKLAMSHN-DISSSFNCRVLAIKQP 137 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~-~i~~~~~~PVlvv~~~ 137 (172)
...|.+.+.+-+-|.|++|-+..-..+. ..... .|-.+.+.||++.+-.
T Consensus 30 ~~ei~~~~~~~GTDaImIGGS~gvt~~~-~~~~v~~ik~~~~lPvilfP~~ 79 (240)
T COG1646 30 ADEIAEAAAEAGTDAIMIGGSDGVTEEN-VDNVVEAIKERTDLPVILFPGS 79 (240)
T ss_pred cHHHHHHHHHcCCCEEEECCcccccHHH-HHHHHHHHHhhcCCCEEEecCC
Confidence 4889999999999999999776433232 22222 5555999999998743
No 257
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=28.21 E-value=1.6e+02 Score=20.29 Aligned_cols=44 Identities=16% Similarity=0.225 Sum_probs=29.5
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
|....+.|.+.|.+++ ..++.+.... ++ .-++...+||+.+++.
T Consensus 83 ~~~aDe~i~~~a~~~~--~~iVaTnD~e-Lk-------~rlr~~GIPvi~lr~r 126 (136)
T COG1412 83 GRYADECLLEAALKHG--RYIVATNDKE-LK-------RRLRENGIPVITLRQR 126 (136)
T ss_pred CCChHHHHHHHHHHcC--CEEEEeCCHH-HH-------HHHHHcCCCEEEEeCC
Confidence 4444699999999986 4455555444 33 2344559999999965
No 258
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=28.20 E-value=1.5e+02 Score=21.36 Aligned_cols=40 Identities=23% Similarity=0.341 Sum_probs=26.5
Q ss_pred HHHHHHH----HhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEE
Q 030760 90 RIAALVR----EIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVL 132 (172)
Q Consensus 90 ~I~~~a~----~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVl 132 (172)
.+.+.++ +.++|.||+|..+-..+.... ..+....+.||+
T Consensus 162 ~~~~~~~~l~~~~~~d~iiLgCt~l~~~~~~~---~~l~~~~gipVi 205 (216)
T PF01177_consen 162 ILAEAARELIKEDGADAIILGCTHLPLLLGAI---EALEEELGIPVI 205 (216)
T ss_dssp HHHHHHHHHHHCTTSSEEEEESTTGGGGHHHH---HHHHHTCSSEEE
T ss_pred HHHHHHHHHhccCCCCEEEECCCchHHHHHHH---HhhcccCCCEEE
Confidence 5666666 789999999988776542211 145555567765
No 259
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=28.01 E-value=2.9e+02 Score=21.43 Aligned_cols=65 Identities=11% Similarity=0.040 Sum_probs=38.8
Q ss_pred CCcEEEEEecCCc-hHHHHHHHHHHhCCCEEEEeecCCcch--hHhhhh-HHHHhccC-CceEEEEeCCCC
Q 030760 74 NTNVEIIVTEGDQ-EGARIAALVREIGASALVVGLHDRSFL--HKLAMS-HNDISSSF-NCRVLAIKQPAA 139 (172)
Q Consensus 74 ~~~~~~~~~~g~~-~~~~I~~~a~~~~~DllVmg~~~~~~~--~~~~~g-s~~i~~~~-~~PVlvv~~~~~ 139 (172)
.+.+-..+...+. ..-...+.+++.++|.+++..-..... +. +.. -..|...+ +.|+++...+..
T Consensus 70 ~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~-i~~yf~~v~~~~~~lpv~lYn~P~~ 139 (290)
T TIGR00683 70 QIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPE-IKHYYDTIIAETGGLNMIVYSIPFL 139 (290)
T ss_pred CCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHH-HHHHHHHHHhhCCCCCEEEEeCccc
Confidence 3444444443232 224556888899999999976543222 22 111 12677777 799999987643
No 260
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=28.01 E-value=2e+02 Score=19.54 Aligned_cols=39 Identities=13% Similarity=0.060 Sum_probs=25.5
Q ss_pred CceEEEEEecCC------HHHHHHHHHHHHhhccCCCEEEEEEEe
Q 030760 2 DVKKIVVIVEDV------DAARAALLWALQNLLRFGDVVTLLHVF 40 (172)
Q Consensus 2 ~~k~Ilv~~d~s------~~s~~al~~a~~la~~~~~~l~~l~V~ 40 (172)
+-++|.++.|.+ .+-..++.....+....|+++.++.-.
T Consensus 67 ~gr~v~iaFD~D~~~~Tn~~V~~a~~~l~~~L~~~G~~v~~~~w~ 111 (130)
T PF12965_consen 67 PGREVYIAFDADTKPKTNKNVRRAIKRLGKLLKEAGCKVKIITWP 111 (130)
T ss_pred CCceEEEEecCCCccchhHHHHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 357899999887 333345555555566678888876644
No 261
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=27.98 E-value=86 Score=22.10 Aligned_cols=39 Identities=8% Similarity=0.208 Sum_probs=28.8
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-+.+++.++.+.++...++ +++.++..|+++.++.-...
T Consensus 72 ~~Dv~I~iS~sG~t~~~i~-~~~~ak~~g~~ii~IT~~~~ 110 (179)
T TIGR03127 72 KGDLLIAISGSGETESLVT-VAKKAKEIGATVAAITTNPE 110 (179)
T ss_pred CCCEEEEEeCCCCcHHHHH-HHHHHHHCCCeEEEEECCCC
Confidence 4568899999888888877 45557778888877765444
No 262
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=27.90 E-value=1.2e+02 Score=20.23 Aligned_cols=47 Identities=23% Similarity=0.443 Sum_probs=32.7
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
+.+-++ -+.+++.||+|+...+.+. +.--+...+++-.|-|.+.|.+
T Consensus 52 eEle~~-lee~~E~ivvGTG~~G~l~-l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 52 EELEEL-LEEGPEVIVVGTGQSGMLE-LSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred HHHHHH-HhcCCcEEEEecCceeEEE-eCHHHHHHHHhcCCeEEEeCCH
Confidence 444443 3478999999998777544 1222348889999999998755
No 263
>PRK11914 diacylglycerol kinase; Reviewed
Probab=27.84 E-value=2.9e+02 Score=21.40 Aligned_cols=59 Identities=17% Similarity=0.137 Sum_probs=34.3
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
+.++..........+..+.+.+.+.++|+||+.. +-+.+..... -+.....|+-++|-.
T Consensus 39 g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~G-GDGTi~evv~----~l~~~~~~lgiiP~G 97 (306)
T PRK11914 39 GVDVVEIVGTDAHDARHLVAAALAKGTDALVVVG-GDGVISNALQ----VLAGTDIPLGIIPAG 97 (306)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEEC-CchHHHHHhH----HhccCCCcEEEEeCC
Confidence 5666655544333347777777777889777553 3344454332 223457888888844
No 264
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=27.83 E-value=1e+02 Score=19.96 Aligned_cols=39 Identities=15% Similarity=0.115 Sum_probs=28.7
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-+.+++.+..+.++...++.+. .+++.|.++.++.-...
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~-~ak~~g~~vi~iT~~~~ 91 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLR-FAKERGAPVILITSNSE 91 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHH-HHHHTTSEEEEEESSTT
T ss_pred ccceeEeeeccccchhhhhhhH-HHHhcCCeEEEEeCCCC
Confidence 4578888888888888877665 88888888866554433
No 265
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=27.75 E-value=2.9e+02 Score=21.40 Aligned_cols=61 Identities=15% Similarity=0.045 Sum_probs=35.7
Q ss_pred CcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhH-hhhh-HHHHhccCCceEEEEe
Q 030760 75 TNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHK-LAMS-HNDISSSFNCRVLAIK 135 (172)
Q Consensus 75 ~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~-~~~g-s~~i~~~~~~PVlvv~ 135 (172)
+.+-..+......+-...+.+++.++|.+++-..-...... -+.- -..|...+++||+++.
T Consensus 75 ~pvi~gv~~~t~~ai~~a~~a~~~Gadav~~~pP~y~~~s~~~i~~~f~~v~~a~~~pvilYn 137 (296)
T TIGR03249 75 VPVYTGVGGNTSDAIEIARLAEKAGADGYLLLPPYLINGEQEGLYAHVEAVCESTDLGVIVYQ 137 (296)
T ss_pred CcEEEecCccHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhccCCCEEEEe
Confidence 44444443221122346678889999999886644322111 0111 1278888899999986
No 266
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=27.71 E-value=2.8e+02 Score=21.20 Aligned_cols=50 Identities=16% Similarity=0.125 Sum_probs=33.4
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcch--hHhhhhHHHHhccCCceEEEEeCCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFL--HKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~--~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
-...+.|++.++|.+++........ +.++-=-..|...+++|+++...+.
T Consensus 85 ~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~~~pi~lYn~P~ 136 (284)
T cd00950 85 IELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEATDLPVILYNVPG 136 (284)
T ss_pred HHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcCCCCEEEEEChh
Confidence 4556788899999888886543222 2211112378888999999997653
No 267
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=27.65 E-value=2.9e+02 Score=21.31 Aligned_cols=50 Identities=14% Similarity=0.054 Sum_probs=32.6
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhH-hhhh-HHHHhccC-CceEEEEeCCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHK-LAMS-HNDISSSF-NCRVLAIKQPA 138 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~-~~~g-s~~i~~~~-~~PVlvv~~~~ 138 (172)
-...+.+++.++|.+++.......... -+.- -..|...+ ++||++...+.
T Consensus 86 i~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~iYn~P~ 138 (288)
T cd00954 86 QELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAASLPMIIYHIPA 138 (288)
T ss_pred HHHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEeCcc
Confidence 445578889999999987654432211 0111 12788888 79999987664
No 268
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=27.54 E-value=3.1e+02 Score=21.62 Aligned_cols=44 Identities=11% Similarity=0.146 Sum_probs=28.3
Q ss_pred HHHHhCCCEEEEeecCCcchhHhh--hhHH---HHhccCCceEEEEeCC
Q 030760 94 LVREIGASALVVGLHDRSFLHKLA--MSHN---DISSSFNCRVLAIKQP 137 (172)
Q Consensus 94 ~a~~~~~DllVmg~~~~~~~~~~~--~gs~---~i~~~~~~PVlvv~~~ 137 (172)
..+...+|.+++|+..-..-..+. .|+- -+.++.+.||+|+-+.
T Consensus 192 ~m~~~~vd~VlvGAd~v~~nG~v~nk~GT~~lA~~Ak~~~vPv~V~a~s 240 (303)
T TIGR00524 192 FMQKGEIDAVIVGADRIARNGDVANKIGTYQLAVLAKEFRIPFFVAAPL 240 (303)
T ss_pred HccccCCCEEEEcccEEecCCCEeEhhhHHHHHHHHHHhCCCEEEeccc
Confidence 333457999999987743222221 4442 6678889999999543
No 269
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=27.25 E-value=2.6e+02 Score=20.69 Aligned_cols=67 Identities=12% Similarity=0.077 Sum_probs=36.4
Q ss_pred HHHHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 64 SFKDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
.+++.+++. +.++......++.. ....++.....++|-||+...........+ .-+.....|++++-
T Consensus 20 ~i~~~~~~~-g~~v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i----~~~~~~~iPvV~~~ 87 (282)
T cd06318 20 AAKAHAKAL-GYELISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAV----AAAKAAGVPVVVVD 87 (282)
T ss_pred HHHHHHHHc-CCEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHH----HHHHHCCCCEEEec
Confidence 344444443 56555443333432 124566677889999999754322111111 33455678888874
No 270
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=27.24 E-value=3e+02 Score=21.52 Aligned_cols=58 Identities=14% Similarity=0.125 Sum_probs=36.4
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCce-EEEEeC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCR-VLAIKQ 136 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~P-Vlvv~~ 136 (172)
+.++..+..+....+..+++.+...+.|.||.+.-..+ +.... .-+.....| +-++|-
T Consensus 33 g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGDGT-v~evi----ngl~~~~~~~LgilP~ 91 (301)
T COG1597 33 GHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGDGT-VNEVA----NGLAGTDDPPLGILPG 91 (301)
T ss_pred CCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecCcch-HHHHH----HHHhcCCCCceEEecC
Confidence 77777777776623488888888889999998755433 33322 333333433 556653
No 271
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=27.24 E-value=2.1e+02 Score=19.62 Aligned_cols=43 Identities=14% Similarity=0.176 Sum_probs=31.1
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
..+.+.++..++|+|++-+.+..... ...+..+...++++.++
T Consensus 81 ~~~~~~~~~~~~D~iiIDtaG~~~~~------~~~~~~Ad~~ivv~tpe 123 (148)
T cd03114 81 PEVIRVLDAAGFDVIIVETVGVGQSE------VDIASMADTTVVVMAPG 123 (148)
T ss_pred HHHHHHHHhcCCCEEEEECCccChhh------hhHHHhCCEEEEEECCC
Confidence 45667787789999999995533111 15788888888888766
No 272
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=27.15 E-value=3.6e+02 Score=22.32 Aligned_cols=84 Identities=14% Similarity=0.080 Sum_probs=44.3
Q ss_pred cCCHHHHHHHHHHHHhh-ccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHH
Q 030760 11 EDVDAARAALLWALQNL-LRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGA 89 (172)
Q Consensus 11 d~s~~s~~al~~a~~la-~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 89 (172)
.+.--+..+...|..++ ...+..|.++...+.. ....++++.+.+.. ++.+...... .
T Consensus 230 tGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r---------------~~a~eqL~~~a~~~-~vp~~~~~~~-----~ 288 (424)
T PRK05703 230 TGVGKTTTLAKLAARYALLYGKKKVALITLDTYR---------------IGAVEQLKTYAKIM-GIPVEVVYDP-----K 288 (424)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccH---------------HHHHHHHHHHHHHh-CCceEccCCH-----H
Confidence 44555667777777777 4556778877654431 01112334444332 4444322111 2
Q ss_pred HHHHHHH-HhCCCEEEEeecCCcchhH
Q 030760 90 RIAALVR-EIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 90 ~I~~~a~-~~~~DllVmg~~~~~~~~~ 115 (172)
.+....+ ..++|+|++-+.+++....
T Consensus 289 ~l~~~l~~~~~~DlVlIDt~G~~~~d~ 315 (424)
T PRK05703 289 ELAKALEQLRDCDVILIDTAGRSQRDK 315 (424)
T ss_pred hHHHHHHHhCCCCEEEEeCCCCCCCCH
Confidence 2222222 2468999999888876543
No 273
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=26.88 E-value=2.6e+02 Score=20.62 Aligned_cols=42 Identities=14% Similarity=0.081 Sum_probs=23.7
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
..++.....++|-||+...........+ ..+...++||+.+-
T Consensus 48 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~----~~~~~~~iPvV~~~ 89 (275)
T cd06320 48 SIAENMINKGYKGLLFSPISDVNLVPAV----ERAKKKGIPVVNVN 89 (275)
T ss_pred HHHHHHHHhCCCEEEECCCChHHhHHHH----HHHHHCCCeEEEEC
Confidence 4455556667888777654322222211 34456778888774
No 274
>PF01207 Dus: Dihydrouridine synthase (Dus); InterPro: IPR001269 Members of this family catalyse the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archae. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. Dus 1 (P53759 from SWISSPROT) from Saccharomyces cerevisiae (Baker's yeast) acts on pre-tRNA-Phe, while Dus 2 (P53720 from SWISSPROT) acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active as a single subunit, requiring NADPH or NADH, and is stimulated by the presence of FAD []. Some family members may be targeted to the mitochondria and even have a role in mitochondria []. ; GO: 0017150 tRNA dihydrouridine synthase activity, 0050660 flavin adenine dinucleotide binding, 0008033 tRNA processing, 0055114 oxidation-reduction process; PDB: 1VHN_A 3B0P_A 3B0V_D 3B0U_Y.
Probab=26.53 E-value=3.2e+02 Score=21.45 Aligned_cols=115 Identities=17% Similarity=0.045 Sum_probs=50.6
Q ss_pred HHHHHHHHhhccCCCEEEEEEEecCCCccc-hHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCc--h--HHHHH
Q 030760 18 AALLWALQNLLRFGDVVTLLHVFPSLNSRN-RKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQ--E--GARIA 92 (172)
Q Consensus 18 ~al~~a~~la~~~~~~l~~l~V~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~--~--~~~I~ 92 (172)
..+..|..++...+....=|+.-.|..... ......+-+..+.+.+-++...+.. +.++...++.|.. . ...++
T Consensus 66 ~~~~~aa~~~~~~~~~~IDlN~GCP~~~v~~~g~Ga~Ll~~p~~~~~iv~~~~~~~-~~pvsvKiR~g~~~~~~~~~~~~ 144 (309)
T PF01207_consen 66 EDLAEAAEIVAELGFDGIDLNMGCPAPKVTKGGAGAALLKDPDLLAEIVKAVRKAV-PIPVSVKIRLGWDDSPEETIEFA 144 (309)
T ss_dssp HHHHHHHHHHCCTT-SEEEEEE---SHHHHHCT-GGGGGC-HHHHHHHHHHHHHH--SSEEEEEEESECT--CHHHHHHH
T ss_pred HHHHHHHHhhhccCCcEEeccCCCCHHHHhcCCcChhhhcChHHhhHHHHhhhccc-ccceEEecccccccchhHHHHHH
Confidence 344455556655565444455554432210 0000111111122222233333332 4666666655443 2 25677
Q ss_pred HHHHHhCCCEEEEeecCCcchhHh--hhhH-HHHhccCCceEEE
Q 030760 93 ALVREIGASALVVGLHDRSFLHKL--AMSH-NDISSSFNCRVLA 133 (172)
Q Consensus 93 ~~a~~~~~DllVmg~~~~~~~~~~--~~gs-~~i~~~~~~PVlv 133 (172)
..+.+.+++.|.+-.|.+.-..+- -... ..+....++||+.
T Consensus 145 ~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~~i~~i~~~~~ipvi~ 188 (309)
T PF01207_consen 145 RILEDAGVSAITVHGRTRKQRYKGPADWEAIAEIKEALPIPVIA 188 (309)
T ss_dssp HHHHHTT--EEEEECS-TTCCCTS---HHHHHHCHHC-TSEEEE
T ss_pred HHhhhcccceEEEecCchhhcCCcccchHHHHHHhhcccceeEE
Confidence 777889999999887754321110 0001 1777788888876
No 275
>PRK07369 dihydroorotase; Provisional
Probab=26.33 E-value=1.7e+02 Score=24.12 Aligned_cols=89 Identities=13% Similarity=0.110 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHH--------HHHH---HHHhhhh-cCCcEEEEEe
Q 030760 15 AARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQL--------ALSF---KDICNDF-FNTNVEIIVT 82 (172)
Q Consensus 15 ~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~--------~~~~---~~~~~~~-~~~~~~~~~~ 82 (172)
....++..++.++...+.++|++|+.... ..+..++.++.- -..+ .+..... ...++..-.+
T Consensus 211 aE~~av~r~~~la~~~~~~~hi~HvSs~~------~~~~i~~ak~~g~~vt~Ev~phhL~l~~~~~~~~~~~~kv~PPLR 284 (418)
T PRK07369 211 AETTALAALLELVAAIGTPVHLMRISTAR------SVELIAQAKARGLPITASTTWMHLLLDTEALASYDPNLRLDPPLG 284 (418)
T ss_pred HHHHHHHHHHHHHHHHCCcEEEEeCCCHH------HHHHHHHHHHcCCCeEEEecHHHHhccHHHHhccCCCcEECCCCC
Confidence 35567888999999999999999999872 222222211100 0000 1111111 1233444445
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
..... +++.+..++-.+|+|.--.-.+
T Consensus 285 ~~~d~-~aL~~~l~~G~Id~i~SDHaP~ 311 (418)
T PRK07369 285 NPSDR-QALIEGVRTGVIDAIAIDHAPY 311 (418)
T ss_pred CHHHH-HHHHHHHhcCCCCEEEcCCCCC
Confidence 55565 8999999988899666554444
No 276
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=26.32 E-value=1.8e+02 Score=18.61 Aligned_cols=40 Identities=8% Similarity=0.155 Sum_probs=27.1
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
+.++. ....+...+.+.+.+++.++|+|.++..-......
T Consensus 28 G~~v~--~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~ 67 (121)
T PF02310_consen 28 GHEVD--ILDANVPPEELVEALRAERPDVVGISVSMTPNLPE 67 (121)
T ss_dssp TBEEE--EEESSB-HHHHHHHHHHTTCSEEEEEESSSTHHHH
T ss_pred CCeEE--EECCCCCHHHHHHHHhcCCCcEEEEEccCcCcHHH
Confidence 55444 44444434999999999999999998854443443
No 277
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=26.14 E-value=3.8e+02 Score=22.16 Aligned_cols=99 Identities=9% Similarity=0.008 Sum_probs=52.7
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhh-cCCcEEEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDF-FNTNVEIIV 81 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 81 (172)
-|++.|..|. ..++.++..+. ..|..+..+.+..... .. .++++.+.+.. ...+ ..+
T Consensus 303 gkrv~i~g~~----~~~~~la~~L~-elGm~v~~~~~~~~~~--------~~-------~~~~~~~l~~~~~~~~--~~v 360 (435)
T cd01974 303 GKKFALYGDP----DFLIGLTSFLL-ELGMEPVHVLTGNGGK--------RF-------EKEMQALLDASPYGAG--AKV 360 (435)
T ss_pred CCEEEEEcCh----HHHHHHHHHHH-HCCCEEEEEEeCCCCH--------HH-------HHHHHHHHhhcCCCCC--cEE
Confidence 3566666532 33555555555 4787775555433211 11 11223343331 1222 334
Q ss_pred ecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 82 TEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 82 ~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
..+... ..+.+.++..++|+++=+++.+ .+..+..+|.+.+-
T Consensus 361 ~~~~d~-~e~~~~i~~~~pDliiG~s~~~-----------~~a~~~gip~v~~~ 402 (435)
T cd01974 361 YPGKDL-WHLRSLLFTEPVDLLIGNTYGK-----------YIARDTDIPLVRFG 402 (435)
T ss_pred EECCCH-HHHHHHHhhcCCCEEEECccHH-----------HHHHHhCCCEEEee
Confidence 344554 8899999999999966544321 44556777776654
No 278
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=26.07 E-value=3.2e+02 Score=21.28 Aligned_cols=46 Identities=13% Similarity=0.179 Sum_probs=30.5
Q ss_pred HHHHHHHHHhCCCEEEE--eecCCcchhHhhhhH---HHHhccCCceEEEE
Q 030760 89 ARIAALVREIGASALVV--GLHDRSFLHKLAMSH---NDISSSFNCRVLAI 134 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVm--g~~~~~~~~~~~~gs---~~i~~~~~~PVlvv 134 (172)
+...+++++.++|.|.+ |+-....-..--+|- ..+.+..++|++..
T Consensus 156 eea~~f~~~tg~DyLAvaiG~~hg~~~~~~~l~~~~L~~i~~~~~iPlV~h 206 (281)
T PRK06806 156 TEAKRFAEETDVDALAVAIGNAHGMYNGDPNLRFDRLQEINDVVHIPLVLH 206 (281)
T ss_pred HHHHHHHHhhCCCEEEEccCCCCCCCCCCCccCHHHHHHHHHhcCCCEEEE
Confidence 67788888889999999 775543311112232 27777888997664
No 279
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=26.03 E-value=2.5e+02 Score=20.14 Aligned_cols=66 Identities=8% Similarity=0.104 Sum_probs=35.1
Q ss_pred HHHHhhhhcCCcEEEEEecCCc-hHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 65 FKDICNDFFNTNVEIIVTEGDQ-EGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 65 ~~~~~~~~~~~~~~~~~~~g~~-~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
+++.+++. +.++...-..++. .....++.+...++|.+|.......... .-..+.+.++|++.+..
T Consensus 21 ~~~~~~~~-g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~-----~~~~l~~~~ip~v~~~~ 87 (264)
T cd01537 21 IEEAAKAA-GYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT-----IVKLARKAGIPVVLVDR 87 (264)
T ss_pred HHHHHHHc-CCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh-----HHHHhhhcCCCEEEecc
Confidence 34444433 5555544443332 1134444445558998888765443322 11556778888888753
No 280
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=26.01 E-value=2.2e+02 Score=19.46 Aligned_cols=35 Identities=14% Similarity=0.091 Sum_probs=26.2
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
||+|.+.+..+|...+..+.+..... .++|+....
T Consensus 1 ~i~vs~SGGKDS~v~l~l~~~~~~~~----~vv~~dtg~ 35 (174)
T PF01507_consen 1 NIVVSFSGGKDSTVMLHLAREAGRKV----PVVFIDTGY 35 (174)
T ss_dssp SEEEE--SSHHHHHHHHHHHHHHTTC----EEEEEE-ST
T ss_pred CeEEEecCCHHHHHHHHHHHHhcCCC----cEEEEecCc
Confidence 58899999999999999998888763 677776653
No 281
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=25.97 E-value=2.2e+02 Score=19.40 Aligned_cols=33 Identities=18% Similarity=0.149 Sum_probs=23.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHH--hCCCEEEEee
Q 030760 74 NTNVEIIVTEGDQEGARIAALVRE--IGASALVVGL 107 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~--~~~DllVmg~ 107 (172)
+.++.......+.. +.|.+..++ .++|+||..-
T Consensus 40 G~~v~~~~~v~Dd~-~~i~~~l~~~~~~~DliIttG 74 (144)
T TIGR00177 40 GFNVSRLGIVPDDP-EEIREILRKAVDEADVVLTTG 74 (144)
T ss_pred CCeEEEEeecCCCH-HHHHHHHHHHHhCCCEEEECC
Confidence 77777777777775 777776554 3689999763
No 282
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=25.90 E-value=3.1e+02 Score=21.13 Aligned_cols=85 Identities=15% Similarity=0.120 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCchHHHHHH
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQEGARIAA 93 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~ 93 (172)
+....++++|..+.. .+.++...+...+........ .. ..+....+++.+++. ++.+-..+.+-... +.+
T Consensus 38 e~~~~~~~~A~~lk~-~g~~~~r~~~~kpRTs~~s~~-G~----g~~gl~~l~~~~~~~-Gl~~~te~~d~~~~-~~l-- 107 (266)
T PRK13398 38 ESEEQMVKVAEKLKE-LGVHMLRGGAFKPRTSPYSFQ-GL----GEEGLKILKEVGDKY-NLPVVTEVMDTRDV-EEV-- 107 (266)
T ss_pred CCHHHHHHHHHHHHH-cCCCEEEEeeecCCCCCCccC-Cc----HHHHHHHHHHHHHHc-CCCEEEeeCChhhH-HHH--
Confidence 456677888888777 577888888887644311110 00 122223345555554 78777777766664 443
Q ss_pred HHHHhCCCEEEEeecCCc
Q 030760 94 LVREIGASALVVGLHDRS 111 (172)
Q Consensus 94 ~a~~~~~DllVmg~~~~~ 111 (172)
.+. +|++-+|++.-.
T Consensus 108 --~~~-vd~~kIga~~~~ 122 (266)
T PRK13398 108 --ADY-ADMLQIGSRNMQ 122 (266)
T ss_pred --HHh-CCEEEECccccc
Confidence 344 788888887644
No 283
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=25.86 E-value=2.6e+02 Score=20.20 Aligned_cols=33 Identities=18% Similarity=0.171 Sum_probs=19.5
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEE
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLH 38 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~ 38 (172)
+=|||.|..+.+....+|..++.. .|..+++++
T Consensus 37 NTLv~wd~~~~tpe~~~W~~e~k~-~gi~v~vvS 69 (175)
T COG2179 37 NTLVPWDNPDATPELRAWLAELKE-AGIKVVVVS 69 (175)
T ss_pred CceecccCCCCCHHHHHHHHHHHh-cCCEEEEEe
Confidence 445666666667777777666654 244454444
No 284
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=25.83 E-value=3.8e+02 Score=22.06 Aligned_cols=35 Identities=11% Similarity=0.059 Sum_probs=21.9
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLN 44 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~ 44 (172)
.|+-+.+.-+|.- |..++.+.|.+++.+|...++.
T Consensus 178 ~l~LlSGGIDSPV----A~~l~mkRG~~v~~v~f~~~p~ 212 (383)
T COG0301 178 VLLLLSGGIDSPV----AAWLMMKRGVEVIPVHFGNPPY 212 (383)
T ss_pred EEEEEeCCCChHH----HHHHHHhcCCEEEEEEEcCCCC
Confidence 3444444434433 4455666799999999976643
No 285
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=25.82 E-value=3.7e+02 Score=21.90 Aligned_cols=105 Identities=16% Similarity=0.034 Sum_probs=57.1
Q ss_pred CCceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCC--cc--c-hHHHH-----------------HHHHHH
Q 030760 1 MDVKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLN--SR--N-RKKLR-----------------LLRLKG 58 (172)
Q Consensus 1 m~~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~--~~--~-~~~~~-----------------~~~~~~ 58 (172)
|..+||+|+..+.-+|..++ .+.+..|-+|..+|-..-.. .. . ..... ..++.+
T Consensus 1 ~~~~kV~v~mSGGVDSSVaA----~lLk~QGyeViGl~m~~~~~~~~~~C~s~~d~~da~~va~~LGIp~~~vdf~~~y~ 76 (356)
T COG0482 1 MKKKKVLVGMSGGVDSSVAA----YLLKEQGYEVIGLFMKNWDEDGGGGCCSEEDLRDAERVADQLGIPLYVVDFEKEFW 76 (356)
T ss_pred CCCcEEEEEccCCHHHHHHH----HHHHHcCCeEEEEEEEeeccCCCCcCCchhHHHHHHHHHHHhCCceEEEchHHHHH
Confidence 56789999999988776653 34455688898888764431 10 0 01001 111222
Q ss_pred HHHHHHHHHHhhhhcCCcEEEEEec--CCchHHHHHHHHHHhCCCEEEEeecCCcc
Q 030760 59 YQLALSFKDICNDFFNTNVEIIVTE--GDQEGARIAALVREIGASALVVGLHDRSF 112 (172)
Q Consensus 59 ~~~~~~~~~~~~~~~~~~~~~~~~~--g~~~~~~I~~~a~~~~~DllVmg~~~~~~ 112 (172)
+.....+.+.... |-..+.-+.. .--. ..++++|.+.++|.|+.|..-+..
T Consensus 77 ~~V~~~f~~~Y~~--G~TPNPci~CN~~iKF-~~~l~~a~~lgad~iATGHYar~~ 129 (356)
T COG0482 77 NKVFEYFLAEYKA--GKTPNPCILCNKEIKF-KALLDYAKELGADYIATGHYARQR 129 (356)
T ss_pred HHHHHHHHHHHhC--CCCCCcchhcCHHHHH-HHHHHHHHHcCCCeEEEeeeEeee
Confidence 2222222222221 2222222222 2233 678899999999999999865543
No 286
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=25.68 E-value=2.7e+02 Score=20.38 Aligned_cols=70 Identities=11% Similarity=0.061 Sum_probs=37.4
Q ss_pred HHHHHHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 62 ALSFKDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 62 ~~~~~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
...+++.+++. +..+.+....+++. ....++.+...++|-+|+...........+ .-++..++|++.+-.
T Consensus 18 ~~~i~~~~~~~-g~~~~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~----~~~~~~~ipvV~~~~ 88 (267)
T cd06322 18 ANAMKEEAKKQ-KVNLIVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAI----AKAKKAGIPVITVDI 88 (267)
T ss_pred HHHHHHHHHhc-CCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHH----HHHHHCCCCEEEEcc
Confidence 33344444443 55555443333331 235555666788999998654322112211 335567899988853
No 287
>COG0622 Predicted phosphoesterase [General function prediction only]
Probab=25.52 E-value=1.8e+02 Score=20.82 Aligned_cols=37 Identities=27% Similarity=0.503 Sum_probs=29.2
Q ss_pred EEEEEecC------CchHHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 77 VEIIVTEG------DQEGARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 77 ~~~~~~~g------~~~~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
.++.+.+| ... ..+...+++.++|++|-|..+.....
T Consensus 82 ~ki~l~HGh~~~~~~~~-~~l~~la~~~~~Dvli~GHTH~p~~~ 124 (172)
T COG0622 82 VKIFLTHGHLYFVKTDL-SLLEYLAKELGADVLIFGHTHKPVAE 124 (172)
T ss_pred EEEEEECCCccccccCH-HHHHHHHHhcCCCEEEECCCCcccEE
Confidence 55667788 344 88999999999999999987765444
No 288
>PRK13790 phosphoribosylamine--glycine ligase; Provisional
Probab=25.45 E-value=2.1e+02 Score=23.13 Aligned_cols=25 Identities=12% Similarity=0.250 Sum_probs=18.3
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
-... +.|.++|++.++|+++.|...
T Consensus 13 ~~d~-~~l~~~~~~~~id~vi~g~E~ 37 (379)
T PRK13790 13 ESDH-QAILDFAKQQNVDWVVIGPEQ 37 (379)
T ss_pred CCCH-HHHHHHHHHhCCCEEEECCcH
Confidence 3444 778888888888888877654
No 289
>TIGR00035 asp_race aspartate racemase.
Probab=25.44 E-value=1e+02 Score=22.86 Aligned_cols=19 Identities=11% Similarity=0.218 Sum_probs=12.5
Q ss_pred HHHHHhCCCEEEEeecCCc
Q 030760 93 ALVREIGASALVVGLHDRS 111 (172)
Q Consensus 93 ~~a~~~~~DllVmg~~~~~ 111 (172)
+..++.++|++||++..-.
T Consensus 69 ~~L~~~g~d~iviaCNTah 87 (229)
T TIGR00035 69 VKLENAGADFIIMPCNTAH 87 (229)
T ss_pred HHHHHcCCCEEEECCccHH
Confidence 3334577888888887643
No 290
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=25.37 E-value=2.7e+02 Score=20.23 Aligned_cols=44 Identities=14% Similarity=0.189 Sum_probs=28.1
Q ss_pred HHHHHHHHHhCCCEEEEe----ecCCcchhHhhhhHHHHhccCC-ceEEEEeC
Q 030760 89 ARIAALVREIGASALVVG----LHDRSFLHKLAMSHNDISSSFN-CRVLAIKQ 136 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg----~~~~~~~~~~~~gs~~i~~~~~-~PVlvv~~ 136 (172)
+..+..++...+|+++|. -....+.. .-..+.++.| ++++++..
T Consensus 37 ~~~~~~~~~~~pDlvLlDl~~~l~~~~g~~----~i~~i~~~~p~~~iivlt~ 85 (207)
T PRK15411 37 DDLAIACDSLRPSVVFINEDCFIHDASNSQ----RIKQIINQHPNTLFIVFMA 85 (207)
T ss_pred HHHHHHHhccCCCEEEEeCcccCCCCChHH----HHHHHHHHCCCCeEEEEEC
Confidence 566677788889999999 33333221 1225655554 89888853
No 291
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=25.35 E-value=3e+02 Score=20.69 Aligned_cols=88 Identities=17% Similarity=0.245 Sum_probs=50.8
Q ss_pred EEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCC--ccc-hHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEE
Q 030760 5 KIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLN--SRN-RKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIV 81 (172)
Q Consensus 5 ~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~--~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (172)
++++.+.+..+|..++.+|... ...+.++++.+... .+. ....+..+ ..++. -+++.....
T Consensus 2 k~~~l~SGGKDS~~al~~a~~~----~~v~~L~t~~~~~~~s~~~H~~~~~~~~-----------~qA~a-lgipl~~~~ 65 (223)
T TIGR00290 2 KVAALISGGKDSCLALYHALKE----HEVISLVNIMPENEESYMFHGVNAHLTD-----------LQAES-IGIPLIKLY 65 (223)
T ss_pred cEEEEecCcHHHHHHHHHHHHh----CeeEEEEEEecCCCCcccccccCHHHHH-----------HHHHH-cCCCeEEee
Confidence 4678889999999999998877 33566777765532 111 00111111 11111 255443221
Q ss_pred ec---CCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 82 TE---GDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 82 ~~---g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
.. ++- .+.+.+..++.+++.+|.|.--
T Consensus 66 ~~~~~e~~-~e~l~~~l~~~gv~~vv~GdI~ 95 (223)
T TIGR00290 66 TEGTEEDE-VEELKGILHTLDVEAVVFGAIY 95 (223)
T ss_pred cCCCccHH-HHHHHHHHHHcCCCEEEECCcc
Confidence 22 233 3667777777899999999754
No 292
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=25.07 E-value=1.1e+02 Score=19.94 Aligned_cols=34 Identities=18% Similarity=0.241 Sum_probs=19.0
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEE
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLH 38 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~ 38 (172)
+.+++.+..+-++...++ +++.++..|+++..+.
T Consensus 44 ~dl~I~iS~SG~t~e~i~-~~~~a~~~g~~iI~IT 77 (119)
T cd05017 44 KTLVIAVSYSGNTEETLS-AVEQAKERGAKIVAIT 77 (119)
T ss_pred CCEEEEEECCCCCHHHHH-HHHHHHHCCCEEEEEe
Confidence 456666666666555555 3334445566555544
No 293
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=24.95 E-value=1.1e+02 Score=19.92 Aligned_cols=38 Identities=16% Similarity=0.210 Sum_probs=25.3
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+.+++.+..+.+++..++.+.. ++..|.++.++.-...
T Consensus 48 ~d~vi~iS~sG~t~~~~~~~~~-a~~~g~~vi~iT~~~~ 85 (128)
T cd05014 48 GDVVIAISNSGETDELLNLLPH-LKRRGAPIIAITGNPN 85 (128)
T ss_pred CCEEEEEeCCCCCHHHHHHHHH-HHHCCCeEEEEeCCCC
Confidence 4578888888777777664444 5666777777665544
No 294
>PHA02546 47 endonuclease subunit; Provisional
Probab=24.87 E-value=2.3e+02 Score=22.48 Aligned_cols=18 Identities=6% Similarity=0.065 Sum_probs=7.5
Q ss_pred HHHHHHHHHhCCCEEEEe
Q 030760 89 ARIAALVREIGASALVVG 106 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg 106 (172)
+.+++++++.++|+|+++
T Consensus 29 ~~ii~~a~~~~vD~Vlia 46 (340)
T PHA02546 29 KQAIEYSKAHGITTWIQL 46 (340)
T ss_pred HHHHHHHHHcCCCEEEEC
Confidence 333444444444444433
No 295
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=24.66 E-value=1.1e+02 Score=18.14 Aligned_cols=33 Identities=18% Similarity=0.187 Sum_probs=16.5
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEE
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLL 37 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l 37 (172)
+.+++.++.+.++....+ +++.++..|.++..+
T Consensus 48 ~d~~i~iS~sg~t~~~~~-~~~~a~~~g~~ii~i 80 (87)
T cd04795 48 GDVVIALSYSGRTEELLA-ALEIAKELGIPVIAI 80 (87)
T ss_pred CCEEEEEECCCCCHHHHH-HHHHHHHcCCeEEEE
Confidence 345566666555555444 334444445555443
No 296
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=24.63 E-value=3e+02 Score=20.48 Aligned_cols=68 Identities=9% Similarity=-0.031 Sum_probs=36.6
Q ss_pred HHHHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 64 SFKDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
.+.+.+.+. +.++.+....+++. ....++.+...++|-||+...........+ .-+...++||+++-.
T Consensus 20 gi~~~~~~~-G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i----~~~~~~~iPvV~~~~ 88 (272)
T cd06313 20 AADEAGKLL-GVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAV----QKAIARGIPVIDMGT 88 (272)
T ss_pred HHHHHHHHc-CCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHH----HHHHHCCCcEEEeCC
Confidence 334444443 66666554443332 134556666788999999653322112111 234456889999843
No 297
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=24.63 E-value=2e+02 Score=18.48 Aligned_cols=58 Identities=9% Similarity=-0.022 Sum_probs=35.7
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCC--ceEEEE
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFN--CRVLAI 134 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~--~PVlvv 134 (172)
+.++...-. ..+. +.+.+.+.+.++|+|.+......... .......+.+..+ +++++=
T Consensus 27 G~~v~~l~~-~~~~-~~~~~~i~~~~pdiV~iS~~~~~~~~-~~~~~~~~~~~~p~~~~ivvG 86 (125)
T cd02065 27 GFEVIDLGV-DVPP-EEIVEAAKEEDADVVGLSALSTTHME-AMKLVIEALKELGIDIPVVVG 86 (125)
T ss_pred CCEEEEcCC-CCCH-HHHHHHHHHcCCCEEEEecchHhHHH-HHHHHHHHHHhcCCCCeEEEe
Confidence 555554422 3343 88999999999999999876654331 1211225556554 666664
No 298
>PLN02347 GMP synthetase
Probab=24.59 E-value=4.6e+02 Score=22.60 Aligned_cols=38 Identities=13% Similarity=0.124 Sum_probs=30.9
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
.+++++++.+.-+|..++..+.+. .|..++++++....
T Consensus 229 ~~~vvvalSGGVDSsvla~l~~~a---lG~~v~av~id~g~ 266 (536)
T PLN02347 229 DEHVICALSGGVDSTVAATLVHKA---IGDRLHCVFVDNGL 266 (536)
T ss_pred CCeEEEEecCChhHHHHHHHHHHH---hCCcEEEEEEeCCC
Confidence 468999999999998888777662 36789999998664
No 299
>PRK10200 putative racemase; Provisional
Probab=24.42 E-value=1e+02 Score=23.10 Aligned_cols=37 Identities=22% Similarity=0.220 Sum_probs=21.4
Q ss_pred HHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEE
Q 030760 92 AALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAI 134 (172)
Q Consensus 92 ~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv 134 (172)
+++.++.++|+|||.+..-+.+- +.+-...+.|++=+
T Consensus 68 ~~~L~~~g~~~iviaCNTah~~~------~~l~~~~~iPii~i 104 (230)
T PRK10200 68 ALGLQRAGAEGIVLCTNTMHKVA------DAIESRCSLPFLHI 104 (230)
T ss_pred HHHHHHcCCCEEEECCchHHHHH------HHHHHhCCCCEeeh
Confidence 33444677888888887654332 23444455666553
No 300
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=24.25 E-value=3e+02 Score=20.33 Aligned_cols=71 Identities=10% Similarity=0.068 Sum_probs=38.5
Q ss_pred HHHHHHHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 61 LALSFKDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 61 ~~~~~~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
....+.+.+++. +.++......++.. ...+++.+...++|-||+...........+ .-+...+.||+++-.
T Consensus 17 ~~~~~~~~a~~~-g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i----~~~~~~~iPvV~~~~ 88 (273)
T cd06309 17 ETKSIKDAAEKR-GFDLKFADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDPVL----KEAKAAGIPVILVDR 88 (273)
T ss_pred HHHHHHHHHHhc-CCEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHH----HHHHHCCCCEEEEec
Confidence 333445555543 55555543333332 124566667778999988754322112111 345567899998863
No 301
>PF01884 PcrB: PcrB family; InterPro: IPR008205 This entry represents geranylgeranylglyceryl phosphate (GGGP) synthase, which is a prenyltransferase that catalyses the transfer of the geranylgeranyl moiety of geranylgeranyl diphosphate (GGPP) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P). This reaction is the first ether-bond-formation step in the biosynthesis of archaeal membrane lipids. This entry also matches putative glycerol-1-phosphate prenyltransferases that may catalyse the transfer of a prenyl moiety to sn-glycerol-1-phosphate (G1P) []. Some of the prokaryotic proteins in this family are related to pcrB. The Staphylococcus aureus chromosomal gene pcrA encodes a protein with significant similarity (40% identity) to two Escherichia coli helicases: the helicase II encoded by the uvrD gene and the Rep helicase. PcrB gene seems to belong to an operon containing at least one other gene, pcrBA, downstream from pcrB []. The PcrB proteins often contain an FMN binding site although the function of these proteins is still unknown.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 1VIZ_A 2F6X_B 2F6U_B 3VKD_A 3VKA_A 3VK5_B 3VKC_B 3VKB_B.
Probab=24.14 E-value=1.8e+02 Score=22.04 Aligned_cols=47 Identities=19% Similarity=0.181 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhCCCEEEEeecC-CcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 88 GARIAALVREIGASALVVGLHD-RSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~-~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
.+..++.+.+.+.|.+++|.+. ...++... ..+-+..+.||+..+-.
T Consensus 21 ~~~~~~~~~~~gtDai~VGGS~~~~~~d~vv---~~ik~~~~lPvilfPg~ 68 (230)
T PF01884_consen 21 PEEALEAACESGTDAIIVGGSDTGVTLDNVV---ALIKRVTDLPVILFPGS 68 (230)
T ss_dssp HHHHHHHHHCTT-SEEEEE-STHCHHHHHHH---HHHHHHSSS-EEEETST
T ss_pred cHHHHHHHHhcCCCEEEECCCCCccchHHHH---HHHHhcCCCCEEEeCCC
Confidence 4777788888999999999887 32333321 14444489999998633
No 302
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=24.14 E-value=2.9e+02 Score=20.07 Aligned_cols=41 Identities=7% Similarity=-0.154 Sum_probs=29.7
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH-HHhccC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHN-DISSSF 127 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~-~i~~~~ 127 (172)
.-+ .+.+++.+++.++|+|.++.........+ ... ..++..
T Consensus 121 ~vp-~e~~v~~~~~~~pd~v~lS~~~~~~~~~~--~~~i~~l~~~ 162 (197)
T TIGR02370 121 DVP-IDTVVEKVKKEKPLMLTGSALMTTTMYGQ--KDINDKLKEE 162 (197)
T ss_pred CCC-HHHHHHHHHHcCCCEEEEccccccCHHHH--HHHHHHHHHc
Confidence 334 49999999999999999998776665542 222 555555
No 303
>PRK13937 phosphoheptose isomerase; Provisional
Probab=24.13 E-value=2.7e+02 Score=19.89 Aligned_cols=39 Identities=13% Similarity=0.068 Sum_probs=28.3
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-+.+++.+..+-++...++ +++.++..|.++.++.-...
T Consensus 106 ~~Dl~i~iS~sG~t~~~~~-~~~~ak~~g~~~I~iT~~~~ 144 (188)
T PRK13937 106 PGDVLIGISTSGNSPNVLA-ALEKARELGMKTIGLTGRDG 144 (188)
T ss_pred CCCEEEEEeCCCCcHHHHH-HHHHHHHCCCeEEEEeCCCC
Confidence 3568889988887777766 66667777888887766544
No 304
>cd07187 YvcK_like family of mostly uncharacterized proteins similar to B.subtilis YvcK. One member of this protein family, YvcK from Bacillus subtilis, has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and the pentose phosphate pathway. In general, this family of mostly uncharacterized proteins is related to the CofD-like protein family. CofD has been characterized as a 2-phospho-L-lactate transferase involved in F420 biosynthesis. This family appears to have the same conserved phosphate binding site as the other family in this hierarchy, but a different substrate binding site.
Probab=24.09 E-value=1.6e+02 Score=23.28 Aligned_cols=47 Identities=17% Similarity=0.152 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhCCCEEEEeecCC--cchhHhhhhH-HHHhccCCceEEEEeC
Q 030760 88 GARIAALVREIGASALVVGLHDR--SFLHKLAMSH-NDISSSFNCRVLAIKQ 136 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~--~~~~~~~~gs-~~i~~~~~~PVlvv~~ 136 (172)
....++.+++ +|+||+|...- |-+.-++... ..-+++++||++.+.+
T Consensus 166 ~~~a~~AI~~--AD~Iv~gPGSlyTSI~P~Llv~gI~eAi~~s~a~kV~v~N 215 (308)
T cd07187 166 NPEALEAIEE--ADLIVYGPGSLYTSILPNLLVKGIAEAIRASKAPKVYICN 215 (308)
T ss_pred CHHHHHHHHh--CCEEEECCCccHHHhhhhcCchhHHHHHHhCCCCEEEEec
Confidence 3566676655 89999997653 2222222222 2788999999999974
No 305
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=24.04 E-value=2.7e+02 Score=19.89 Aligned_cols=16 Identities=6% Similarity=0.241 Sum_probs=6.7
Q ss_pred HHHHHHHHHhCCCEEE
Q 030760 89 ARIAALVREIGASALV 104 (172)
Q Consensus 89 ~~I~~~a~~~~~DllV 104 (172)
..|.+..+..+...++
T Consensus 48 ~~I~~~i~~~~~pvv~ 63 (172)
T cd07015 48 GNIVQRIQQSKIPVII 63 (172)
T ss_pred HHHHHHHHhcCcCEEE
Confidence 3344444444444443
No 306
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=23.96 E-value=1.5e+02 Score=19.62 Aligned_cols=33 Identities=27% Similarity=0.366 Sum_probs=21.9
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEE
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVT 35 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~ 35 (172)
++.|.+|++.+-+.+....+..++.+..+-+++
T Consensus 57 i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvs 89 (112)
T cd01025 57 VKEVILATNPTVEGEATALYIAKLLKDFGVKVT 89 (112)
T ss_pred CcEEEEecCCCchHHHHHHHHHHHHhHcCCCeE
Confidence 466777777777777777777776665554443
No 307
>TIGR00127 nadp_idh_euk isocitrate dehydrogenase, NADP-dependent, eukaryotic type. This model does not discriminate cytosolic, mitochondrial, and chloroplast proteins. However, the model starts very near the amino end of the cytosolic form; the finding of additional amino-terminal sequence may indicate a transit peptide.
Probab=23.79 E-value=2.9e+02 Score=22.96 Aligned_cols=29 Identities=10% Similarity=-0.172 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 14 DAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 14 ~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+.+++.+++|.++|...+.+|+++|=.+-
T Consensus 186 ~~~eRIar~AF~~A~~~~~~Vt~v~KaNV 214 (409)
T TIGR00127 186 ESIEGFAHSSFQLALEKKWPLYLSTKNTI 214 (409)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEcCcch
Confidence 66899999999999877777777765433
No 308
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=23.65 E-value=2.2e+02 Score=18.51 Aligned_cols=45 Identities=9% Similarity=-0.045 Sum_probs=32.8
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
+.=++.++.-.+-+||+++.-+..+++.+- +=..-+.+||++.+-
T Consensus 25 k~tiK~lk~gkaKliiiAsN~P~~~k~~ie---yYAkLs~ipV~~y~G 69 (100)
T COG1911 25 KRTIKSLKLGKAKLIIIASNCPKELKEDIE---YYAKLSDIPVYVYEG 69 (100)
T ss_pred HHHHHHHHcCCCcEEEEecCCCHHHHHHHH---HHHHHcCCcEEEecC
Confidence 445677788889999999988876665332 444556999999874
No 309
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.59 E-value=2.8e+02 Score=20.96 Aligned_cols=8 Identities=38% Similarity=0.750 Sum_probs=3.8
Q ss_pred EEEeecCC
Q 030760 103 LVVGLHDR 110 (172)
Q Consensus 103 lVmg~~~~ 110 (172)
+|.|.|..
T Consensus 80 ~i~GNHD~ 87 (253)
T TIGR00619 80 VISGNHDS 87 (253)
T ss_pred EEccCCCC
Confidence 34555543
No 310
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=23.56 E-value=2.1e+02 Score=19.11 Aligned_cols=37 Identities=24% Similarity=0.231 Sum_probs=25.0
Q ss_pred EEEEecCC-----HHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 6 IVVIVEDV-----DAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 6 Ilv~~d~s-----~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
|+|++|-| +.-...+.....+.+..+.+++++.....
T Consensus 1 i~vaiDtSGSis~~~l~~fl~ev~~i~~~~~~~v~vi~~D~~ 42 (126)
T PF09967_consen 1 IVVAIDTSGSISDEELRRFLSEVAGILRRFPAEVHVIQFDAE 42 (126)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEEECCE
Confidence 46777765 33445566667777777888988876544
No 311
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.51 E-value=3e+02 Score=20.05 Aligned_cols=63 Identities=13% Similarity=0.051 Sum_probs=28.1
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
.+.+++. +..+.......+.....+++.+...++|-+|+....... .. -..+.+.++|++.+-
T Consensus 22 ~~~~~~~-g~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~--~~----~~~~~~~~ipvV~~~ 84 (266)
T cd06278 22 SRALQAR-GYQPLLINTDDDEDLDAALRQLLQYRVDGVIVTSGTLSS--EL----AEECRRNGIPVVLIN 84 (266)
T ss_pred HHHHHHC-CCeEEEEcCCCCHHHHHHHHHHHHcCCCEEEEecCCCCH--HH----HHHHhhcCCCEEEEC
Confidence 3333333 444444433322112344455556667766665332111 00 133445566766663
No 312
>TIGR01391 dnaG DNA primase, catalytic core. This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751).
Probab=23.47 E-value=1.9e+02 Score=23.87 Aligned_cols=34 Identities=29% Similarity=0.418 Sum_probs=28.4
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEE
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLL 37 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l 37 (172)
++|+++.|+++....+...+.+.....+-.+.++
T Consensus 301 ~~vvl~~D~D~aG~~aa~r~~~~l~~~g~~v~v~ 334 (415)
T TIGR01391 301 DEIILCFDGDKAGRKAALRAIELLLPLGINVKVI 334 (415)
T ss_pred CeEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEE
Confidence 5899999999999999988888887777665554
No 313
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=23.25 E-value=2e+02 Score=18.03 Aligned_cols=70 Identities=10% Similarity=0.110 Sum_probs=39.1
Q ss_pred HHHHHHhhhhcCCcEEEEEecCCchHHH--HHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 63 LSFKDICNDFFNTNVEIIVTEGDQEGAR--IAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~--I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
..+++.+++. +.+..++-..+...... |-... .++|+||+-+.--+.-. ..--.....+..+|++..+..
T Consensus 13 ~~~~~~~~~~-G~~~~~hg~~~~~~~~~~~l~~~i--~~aD~VIv~t~~vsH~~--~~~vk~~akk~~ip~~~~~~~ 84 (97)
T PF10087_consen 13 RRYKRILEKY-GGKLIHHGRDGGDEKKASRLPSKI--KKADLVIVFTDYVSHNA--MWKVKKAAKKYGIPIIYSRSR 84 (97)
T ss_pred HHHHHHHHHc-CCEEEEEecCCCCccchhHHHHhc--CCCCEEEEEeCCcChHH--HHHHHHHHHHcCCcEEEECCC
Confidence 3446666665 66666662222222122 43333 35799999876544311 111237778888999998743
No 314
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=23.03 E-value=3.9e+02 Score=21.23 Aligned_cols=100 Identities=19% Similarity=0.072 Sum_probs=52.6
Q ss_pred EecCCHHHHHHHHHHHHhhccCCCEEEEEEEecCCCccc-hHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCch
Q 030760 9 IVEDVDAARAALLWALQNLLRFGDVVTLLHVFPSLNSRN-RKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQE 87 (172)
Q Consensus 9 ~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 87 (172)
=+-+++. ..+..|..++...+..++=|+.-.|..... ......+-+..+.+.+-++...+..+.+.++..++.|...
T Consensus 72 Ql~gsdp--~~l~eaA~~~~~~g~~~IdlN~GCP~~~V~~~g~Ga~Ll~~p~lv~~iv~a~~~av~~iPVTVKiRlG~d~ 149 (323)
T COG0042 72 QLGGSDP--ELLAEAAKIAEELGADIIDLNCGCPSPKVVKGGAGAALLKNPELLAEIVKAMVEAVGDIPVTVKIRLGWDD 149 (323)
T ss_pred EecCCCH--HHHHHHHHHHHhcCCCEEeeeCCCChHHhcCCCcchhhcCCHHHHHHHHHHHHHhhCCCCeEEEEecccCc
Confidence 3344444 455556666666675555566655532211 1111111111222222233333322146777777766643
Q ss_pred ----HHHHHHHHHHhCCCEEEEeecCC
Q 030760 88 ----GARIAALVREIGASALVVGLHDR 110 (172)
Q Consensus 88 ----~~~I~~~a~~~~~DllVmg~~~~ 110 (172)
...|.+.+++-+++.|.+-.|.+
T Consensus 150 ~~~~~~~ia~~~~~~g~~~ltVHgRtr 176 (323)
T COG0042 150 DDILALEIARILEDAGADALTVHGRTR 176 (323)
T ss_pred ccccHHHHHHHHHhcCCCEEEEecccH
Confidence 24699999999999999876653
No 315
>PF10649 DUF2478: Protein of unknown function (DUF2478); InterPro: IPR018912 This is a family of hypothetical bacterial proteins encoded in the vicinity of molybdenum ABC transporter gene-products MobA, MobB and MobC. However the function could not be confirmed.
Probab=22.96 E-value=1.6e+02 Score=20.92 Aligned_cols=48 Identities=13% Similarity=0.056 Sum_probs=28.1
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHhhhhHH-HHhccCCceEEEEeC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKLAMSHN-DISSSFNCRVLAIKQ 136 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~-~i~~~~~~PVlvv~~ 136 (172)
...+..+-+.++||+|+..-++.-...-.+-.. .-.-...+|||+.=+
T Consensus 83 ~~~l~~al~~~~DLlivNkFGk~Ea~G~Glr~~i~~A~~~giPVLt~V~ 131 (159)
T PF10649_consen 83 SAALRRALAEGADLLIVNKFGKQEAEGRGLRDEIAAALAAGIPVLTAVP 131 (159)
T ss_pred HHHHHHHHhcCCCEEEEcccHHhhhcCCCHHHHHHHHHHCCCCEEEEEC
Confidence 344555566789999998766543332222222 234456789888643
No 316
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=22.93 E-value=3.1e+02 Score=20.01 Aligned_cols=46 Identities=24% Similarity=0.238 Sum_probs=27.2
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcc-hh-HhhhhH-HHHhccCCceEEEE
Q 030760 89 ARIAALVREIGASALVVGLHDRSF-LH-KLAMSH-NDISSSFNCRVLAI 134 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~-~~-~~~~gs-~~i~~~~~~PVlvv 134 (172)
..+++...+.++|.|.+..+.... .. ...... ..+.+..++||+..
T Consensus 141 ~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~~~~~~i~~~~~ipvi~~ 189 (231)
T cd02801 141 LELAKALEDAGASALTVHGRTREQRYSGPADWDYIAEIKEAVSIPVIAN 189 (231)
T ss_pred HHHHHHHHHhCCCEEEECCCCHHHcCCCCCCHHHHHHHHhCCCCeEEEe
Confidence 667777888899999886543211 00 000111 25666678898884
No 317
>TIGR03183 DNA_S_dndC putative sulfurtransferase DndC. Members of this protein family are the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulfur-containing modification to DNA. This operon is sparsely and sporadically distributed among bactera; among the first eight examples are members from the Actinobacteria, Firmicutes, Gammaproteobacteria, Cyanobacteria. DndC is suggested to be a sulfurtransferase.
Probab=22.77 E-value=4.6e+02 Score=22.03 Aligned_cols=23 Identities=22% Similarity=0.052 Sum_probs=19.2
Q ss_pred EEEEecCCHHHHHHHHHHHHhhc
Q 030760 6 IVVIVEDVDAARAALLWALQNLL 28 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~ 28 (172)
++|++.+..+|..++..+.....
T Consensus 16 ~vV~fSGGKDSta~L~Lv~~Al~ 38 (447)
T TIGR03183 16 WVVGYSGGKDSTAVLQLIWNALA 38 (447)
T ss_pred eEEEeCCCHHHHHHHHHHHHHHH
Confidence 68999999999999988776543
No 318
>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional
Probab=22.77 E-value=4.7e+02 Score=22.05 Aligned_cols=35 Identities=9% Similarity=0.081 Sum_probs=28.5
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 4 KKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 4 k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
.++++.+.+.-+|..++.++.+. |..++++|+...
T Consensus 178 gk~lvllSGGiDS~va~~~~~kr----G~~v~~l~f~~g 212 (482)
T PRK01269 178 EDVLSLISGGFDSGVASYMLMRR----GSRVHYCFFNLG 212 (482)
T ss_pred CeEEEEEcCCchHHHHHHHHHHc----CCEEEEEEEecC
Confidence 47899999999998887666554 779999999755
No 319
>PLN02257 phosphoribosylamine--glycine ligase
Probab=22.71 E-value=1.9e+02 Score=24.05 Aligned_cols=26 Identities=23% Similarity=0.386 Sum_probs=19.2
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHD 109 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~ 109 (172)
.-+.. ++|+++|++.++|++|.|...
T Consensus 47 ~~~d~-~~l~~~a~~~~id~vvvg~E~ 72 (434)
T PLN02257 47 DISDS-AAVISFCRKWGVGLVVVGPEA 72 (434)
T ss_pred CCCCH-HHHHHHHHHcCCCEEEECCch
Confidence 34454 788888888888888887643
No 320
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=22.67 E-value=4.3e+02 Score=21.65 Aligned_cols=34 Identities=15% Similarity=0.082 Sum_probs=27.8
Q ss_pred EEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 6 IVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 6 Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
|++++.+.-+|..++.|+.+. .+.+|+.+|+...
T Consensus 1 Vvva~SGGlDSsvll~~l~e~---~~~eV~av~~d~G 34 (385)
T cd01999 1 VVLAYSGGLDTSVILKWLKEK---GGYEVIAVTADVG 34 (385)
T ss_pred CEEEecCCHHHHHHHHHHHHh---CCCeEEEEEEECC
Confidence 578999999999999888664 3458999999866
No 321
>PRK02628 nadE NAD synthetase; Reviewed
Probab=22.54 E-value=4.6e+02 Score=23.27 Aligned_cols=38 Identities=24% Similarity=0.281 Sum_probs=30.2
Q ss_pred CceEEEEEecCCHHHHHHHHHHHHhhccCC---CEEEEEEE
Q 030760 2 DVKKIVVIVEDVDAARAALLWALQNLLRFG---DVVTLLHV 39 (172)
Q Consensus 2 ~~k~Ilv~~d~s~~s~~al~~a~~la~~~~---~~l~~l~V 39 (172)
+.++|+|++.+.-+|..++..+.+...+.+ ..|+.++.
T Consensus 360 ~~~~vvvglSGGiDSal~l~l~~~a~~~lg~~~~~v~~v~m 400 (679)
T PRK02628 360 GLKKVVIGISGGLDSTHALLVAAKAMDRLGLPRKNILAYTM 400 (679)
T ss_pred CCCeEEEECCCCHHHHHHHHHHHHHHHhhCCCcceEEEEEC
Confidence 468999999999999988777777655444 67888888
No 322
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=22.42 E-value=3e+02 Score=23.03 Aligned_cols=44 Identities=16% Similarity=-0.008 Sum_probs=26.4
Q ss_pred HHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 92 AALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 92 ~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
++.|++.+++++|+=-...+++..-+.-=.+-+.+++.||..+=
T Consensus 49 l~~A~~~~a~~vvl~ldTPGGl~~sm~~iv~~i~~s~vPV~~yv 92 (436)
T COG1030 49 LQSAEEENAAAVVLELDTPGGLLDSMRQIVRAILNSPVPVIGYV 92 (436)
T ss_pred HHHHHhCCCcEEEEEecCCCchHHHHHHHHHHHHcCCCCEEEEE
Confidence 44556667777777776666655422211266677788866553
No 323
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.36 E-value=3.2e+02 Score=20.02 Aligned_cols=65 Identities=9% Similarity=0.017 Sum_probs=34.3
Q ss_pred HHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 66 KDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
+..+.+. +.++......+++. ....++.+...++|-+|+...........+ ..++..++||+.+-
T Consensus 23 ~~~~~~~-g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l----~~~~~~~iPvV~~~ 88 (275)
T cd06317 23 QAAAEED-GVEVIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGL----RKAKQAGIPVVITN 88 (275)
T ss_pred HHHHHhc-CCEEEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHH----HHHHHCCCcEEEeC
Confidence 4444433 55555443333321 123445555678999988754322211111 44567889998874
No 324
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=22.33 E-value=3.8e+02 Score=20.88 Aligned_cols=63 Identities=13% Similarity=0.049 Sum_probs=36.8
Q ss_pred CCcEEEEEecCCc-hHHHHHHHHHHhCCCEEEEeecCCcch--hHhhhhHHHHhccCCceEEEEeCC
Q 030760 74 NTNVEIIVTEGDQ-EGARIAALVREIGASALVVGLHDRSFL--HKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 74 ~~~~~~~~~~g~~-~~~~I~~~a~~~~~DllVmg~~~~~~~--~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
.+.+-..+.. +. ..-...+.+++.++|.+++..--.... +.+..-=..|...++.||++...+
T Consensus 76 ~~pvi~gv~~-~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~~lpi~lYn~~ 141 (303)
T PRK03620 76 RVPVIAGAGG-GTAQAIEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKSTDLGVIVYNRD 141 (303)
T ss_pred CCcEEEecCC-CHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence 3445444432 22 123445778889999998876543221 111110127888899999998743
No 325
>COG2121 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.25 E-value=3.4e+02 Score=20.29 Aligned_cols=40 Identities=10% Similarity=0.122 Sum_probs=29.4
Q ss_pred HhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 97 EIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 97 ~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
+.+.++.+..-..+++....-.|...+.+.+.||++.+..
T Consensus 115 k~G~~i~itpDgPkGp~~~~~~Gii~LA~~sg~pi~pv~~ 154 (214)
T COG2121 115 KQGKSIAITPDGPKGPVHKIGDGIIALAQKSGVPIIPVGV 154 (214)
T ss_pred hCCCcEEEcCCCCCCCceeccchhhHhhHhcCCCeEEEEE
Confidence 3556666665555667777777778999999999988853
No 326
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=22.21 E-value=3.7e+02 Score=20.65 Aligned_cols=50 Identities=12% Similarity=0.203 Sum_probs=33.1
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcch--hHhhhhHHHHhccCCceEEEEeCCC
Q 030760 89 ARIAALVREIGASALVVGLHDRSFL--HKLAMSHNDISSSFNCRVLAIKQPA 138 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~--~~~~~gs~~i~~~~~~PVlvv~~~~ 138 (172)
-.+.+.+++.++|.+++........ +.++-=-..|...++.||++...+.
T Consensus 83 i~~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~~pi~lYn~P~ 134 (285)
T TIGR00674 83 ISLTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEVDLPIILYNVPS 134 (285)
T ss_pred HHHHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEECcH
Confidence 3456788899999999886543322 1111101278888999999997664
No 327
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=22.17 E-value=2.7e+02 Score=19.00 Aligned_cols=27 Identities=15% Similarity=-0.066 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 88 GARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 88 ~~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
.+.+.+.|.+.++|+|.++........
T Consensus 43 ~e~i~~~a~~~~~d~V~lS~~~~~~~~ 69 (137)
T PRK02261 43 QEEFIDAAIETDADAILVSSLYGHGEI 69 (137)
T ss_pred HHHHHHHHHHcCCCEEEEcCccccCHH
Confidence 499999999999999999887665443
No 328
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=21.93 E-value=4.5e+02 Score=21.56 Aligned_cols=105 Identities=7% Similarity=-0.037 Sum_probs=55.3
Q ss_pred cCCHHHHHHHHHHHHhhc---cCCCEEEEEEEecCCCccchHHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEEecCCch
Q 030760 11 EDVDAARAALLWALQNLL---RFGDVVTLLHVFPSLNSRNRKKLRLLRLKGYQLALSFKDICNDFFNTNVEIIVTEGDQE 87 (172)
Q Consensus 11 d~s~~s~~al~~a~~la~---~~~~~l~~l~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 87 (172)
.++--+..+...|..+.. ..+..|.++++.+... ...++++.+++.. ++++.. ....
T Consensus 183 tGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~---------------aa~eQL~~~a~~l-gvpv~~----~~~~ 242 (388)
T PRK12723 183 TGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRI---------------GAKKQIQTYGDIM-GIPVKA----IESF 242 (388)
T ss_pred CCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccH---------------HHHHHHHHHhhcC-CcceEe----eCcH
Confidence 444455566666665553 2466788888775521 1222345555433 554422 1222
Q ss_pred HHHHHHH-HHHhCCCEEEEeecCCcchhHhhhhH-HHHhccCC---ceEEEEeC
Q 030760 88 GARIAAL-VREIGASALVVGLHDRSFLHKLAMSH-NDISSSFN---CRVLAIKQ 136 (172)
Q Consensus 88 ~~~I~~~-a~~~~~DllVmg~~~~~~~~~~~~gs-~~i~~~~~---~PVlvv~~ 136 (172)
+.+.+. .+..++|+|++-+-+++......+.. ..++.... -.+||+.-
T Consensus 243 -~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsa 295 (388)
T PRK12723 243 -KDLKEEITQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSS 295 (388)
T ss_pred -HHHHHHHHHhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcC
Confidence 334332 23467999999999987644322221 24555443 35677764
No 329
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=21.90 E-value=2.7e+02 Score=22.98 Aligned_cols=51 Identities=10% Similarity=0.023 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH--HHHhccCCceEEEEeCC
Q 030760 87 EGARIAALVREIGASALVVGLHDRSFLHKLAMSH--NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 87 ~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs--~~i~~~~~~PVlvv~~~ 137 (172)
..+.|.+.+++.++|-||.-..........-... ..+.....+|+|.+--+
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~~~~~l~e~~GIP~L~iE~D 390 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSAGQLLMMREIEKRTGKPAAFIETD 390 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchhhhHHHHHHHHHHcCCCEEEEEcC
Confidence 4588999999999999999887765433211111 25666689999999644
No 330
>PTZ00170 D-ribulose-5-phosphate 3-epimerase; Provisional
Probab=21.86 E-value=3.1e+02 Score=20.42 Aligned_cols=42 Identities=19% Similarity=0.345 Sum_probs=23.3
Q ss_pred HHHHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 63 LSFKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
++++++.+..+ ++.+.+..|-.. +.+ ..+.+.++|.+|+|+.
T Consensus 162 ~ki~~~~~~~~--~~~I~VdGGI~~-~ti-~~~~~aGad~iVvGsa 203 (228)
T PTZ00170 162 PKVRELRKRYP--HLNIQVDGGINL-ETI-DIAADAGANVIVAGSS 203 (228)
T ss_pred HHHHHHHHhcc--cCeEEECCCCCH-HHH-HHHHHcCCCEEEEchH
Confidence 44444433322 233333344443 544 4666779999999964
No 331
>PRK08185 hypothetical protein; Provisional
Probab=21.81 E-value=2.2e+02 Score=22.20 Aligned_cols=52 Identities=6% Similarity=-0.095 Sum_probs=36.3
Q ss_pred EecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH--HHHhccCCceEEE
Q 030760 81 VTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSH--NDISSSFNCRVLA 133 (172)
Q Consensus 81 ~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs--~~i~~~~~~PVlv 133 (172)
+.+-.. ..++++.|++.+..+|+..+.+.......-+.. ..+..++++||.+
T Consensus 20 ~~n~e~-~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vPV~l 73 (283)
T PRK08185 20 VADSCF-LRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSPVPFVI 73 (283)
T ss_pred eCCHHH-HHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCCCCEEE
Confidence 344455 499999999999999999887653221111222 2888899999765
No 332
>TIGR03264 met_CoM_red_C methyl-coenzyme M reductase I operon protein C. has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this protein occurs only operons of type I. The precise function is unknown.
Probab=21.78 E-value=1.9e+02 Score=21.12 Aligned_cols=40 Identities=8% Similarity=0.064 Sum_probs=27.0
Q ss_pred HHHHHHhCCCEEEEeecCCcchhHhhhh-HHHHhccCCceEEEEeC
Q 030760 92 AALVREIGASALVVGLHDRSFLHKLAMS-HNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 92 ~~~a~~~~~DllVmg~~~~~~~~~~~~g-s~~i~~~~~~PVlvv~~ 136 (172)
.+.+.+++..++.+|. ++..+.- ...++++.++|+++|-+
T Consensus 96 ~~qI~~HklAV~h~GN-----vk~hIi~K~r~ilr~vdIP~IiVcq 136 (194)
T TIGR03264 96 IEQINRHKLAVIHLGN-----VKSHIIYKARLILKHVDIPAIIVCQ 136 (194)
T ss_pred HHHHhhcCEEEEEeCC-----HHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 4566777777777773 4443332 23899999999997754
No 333
>PF02670 DXP_reductoisom: 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR013512 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesises 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms []. In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis. The enzyme requires Mn2+, Co2+ or Mg2+ for activity, with the first being most effective. This domain is found at the N terminus of bacterial and plant 1-deoxy-D-xylulose 5-phosphate reductoisomerases.; GO: 0070402 NADPH binding, 0055114 oxidation-reduction process; PDB: 1R0K_D 1R0L_C 3A14_A 3A06_A 3AUA_A 3AU9_B 3AU8_B 3IIE_A 2Y1D_B 4AIC_A ....
Probab=21.75 E-value=1.4e+02 Score=20.34 Aligned_cols=28 Identities=14% Similarity=0.075 Sum_probs=21.3
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhHh
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHKL 116 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~~ 116 (172)
+++.+.+...++|++|.+..+-.++...
T Consensus 80 ~~l~~~~~~~~~D~vv~Ai~G~aGL~pt 107 (129)
T PF02670_consen 80 EGLEELAEEPEVDIVVNAIVGFAGLKPT 107 (129)
T ss_dssp HHHHHHHTHTT-SEEEE--SSGGGHHHH
T ss_pred HHHHHHhcCCCCCEEEEeCcccchHHHH
Confidence 7899999999999999999988777653
No 334
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=21.72 E-value=3.5e+02 Score=20.15 Aligned_cols=42 Identities=17% Similarity=0.255 Sum_probs=25.1
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
..++.+...++|-||+-.......... -..+....+||+++-
T Consensus 45 ~~i~~~~~~~~dgiii~~~~~~~~~~~----~~~~~~~~iPvV~~~ 86 (289)
T cd01540 45 SAIDNLGAQGAKGFVICVPDVKLGPAI----VAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHHHHHHcCCCEEEEccCchhhhHHH----HHHHHhCCCeEEEec
Confidence 344555678899888864322111111 145667889999884
No 335
>PRK00865 glutamate racemase; Provisional
Probab=21.30 E-value=1.4e+02 Score=22.74 Aligned_cols=13 Identities=31% Similarity=0.506 Sum_probs=6.3
Q ss_pred HhCCCEEEEeecC
Q 030760 97 EIGASALVVGLHD 109 (172)
Q Consensus 97 ~~~~DllVmg~~~ 109 (172)
+.++|++|+++.+
T Consensus 65 ~~g~d~iVIaCNT 77 (261)
T PRK00865 65 EYGVKMLVIACNT 77 (261)
T ss_pred hCCCCEEEEeCch
Confidence 3445555555544
No 336
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=21.24 E-value=2.4e+02 Score=23.40 Aligned_cols=55 Identities=4% Similarity=0.044 Sum_probs=37.7
Q ss_pred cCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 83 EGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 83 ~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
.++...+.|.+.+++.++|-||.-.......-..-... ..-+.+..+|+|.+--+
T Consensus 345 ~~~~R~~~l~~li~e~~vDGVI~~~~~~C~~~s~e~~~ik~~l~~~GIP~L~ietD 400 (430)
T TIGR03191 345 DPRIKSEMMLNIARDWNVDGCMLHLNRGCEGLSIGIMENRLAIAKAGIPIMTFEGN 400 (430)
T ss_pred ChhHHHHHHHHHHHHHCCCEEEEcCCCCCccchHhHHHHHHHHHHcCCCEEEEECC
Confidence 44555699999999999999998877654322211111 14456789999999643
No 337
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=21.23 E-value=1.4e+02 Score=21.01 Aligned_cols=39 Identities=13% Similarity=0.230 Sum_probs=29.4
Q ss_pred ceEEEEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 3 VKKIVVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 3 ~k~Ilv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
-+.+++.+..+.++...++ +++.++..|+++..+.-...
T Consensus 75 ~~D~vI~iS~sG~t~~~i~-~~~~ak~~g~~iI~IT~~~~ 113 (179)
T cd05005 75 PGDLLIAISGSGETSSVVN-AAEKAKKAGAKVVLITSNPD 113 (179)
T ss_pred CCCEEEEEcCCCCcHHHHH-HHHHHHHCCCeEEEEECCCC
Confidence 4568899999988888876 55777778888877765444
No 338
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=21.16 E-value=3.8e+02 Score=20.40 Aligned_cols=65 Identities=12% Similarity=0.165 Sum_probs=39.9
Q ss_pred HHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCC
Q 030760 66 KDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQP 137 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~ 137 (172)
.+.+.+. +..+-.....++...+..++...+.++|=+|+.+.... ...+. .+.+. ++|++++-..
T Consensus 24 e~~a~~~-Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~~-~~~l~----~~~~~-~iPvV~~~~~ 88 (279)
T PF00532_consen 24 EQEAREH-GYQLLLCNTGDDEEKEEYIELLLQRRVDGIILASSEND-DEELR----RLIKS-GIPVVLIDRY 88 (279)
T ss_dssp HHHHHHT-TCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEESSSCT-CHHHH----HHHHT-TSEEEEESS-
T ss_pred HHHHHHc-CCEEEEecCCCchHHHHHHHHHHhcCCCEEEEecccCC-hHHHH----HHHHc-CCCEEEEEec
Confidence 4444443 66665555555554457777888899999999865544 12111 33444 8999998644
No 339
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=21.10 E-value=2.3e+02 Score=17.92 Aligned_cols=43 Identities=16% Similarity=0.293 Sum_probs=29.8
Q ss_pred CCchHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeC
Q 030760 84 GDQEGARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQ 136 (172)
Q Consensus 84 g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~ 136 (172)
+.+ .+.|++.+.+++. .++++.... +++ .+.....+||+.++.
T Consensus 51 ~~a-ddci~~~~~~~~~--~~VaT~D~~-Lr~------~lr~~~GvPvi~l~~ 93 (101)
T PF04900_consen 51 GSA-DDCILDLAGKNNK--YIVATQDKE-LRR------RLRKIPGVPVIYLRR 93 (101)
T ss_pred cCH-HHHHHHHhccCCe--EEEEecCHH-HHH------HHhcCCCCCEEEEEC
Confidence 344 6999999987766 666665544 332 444578899999984
No 340
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=21.06 E-value=3.7e+02 Score=20.20 Aligned_cols=68 Identities=16% Similarity=0.193 Sum_probs=36.6
Q ss_pred HHHHHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 63 LSFKDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 63 ~~~~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
..+++.+++. +..+......+++. ...+++.+...++|-||+...........+ .-+...++||+.+-
T Consensus 19 ~gi~~~a~~~-g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l----~~l~~~~ipvV~~~ 87 (288)
T cd01538 19 PNFEAALKEL-GAEVIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAV----EKAADAGIPVIAYD 87 (288)
T ss_pred HHHHHHHHHc-CCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHH----HHHHHCCCCEEEEC
Confidence 3344444443 55555544433332 135555566678999988753322222211 34556789998884
No 341
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=20.93 E-value=4.8e+02 Score=21.50 Aligned_cols=28 Identities=25% Similarity=0.400 Sum_probs=23.2
Q ss_pred EEecCCchHHHHHHHHHHhCCCEEEEeec
Q 030760 80 IVTEGDQEGARIAALVREIGASALVVGLH 108 (172)
Q Consensus 80 ~~~~g~~~~~~I~~~a~~~~~DllVmg~~ 108 (172)
.+..+.+. ..+.+.+++.++|++|=|+.
T Consensus 342 ~v~~~~D~-~~l~~~i~~~~pDllig~~~ 369 (427)
T PRK02842 342 RIVEGQDV-ERQLDRIRALRPDLVVCGLG 369 (427)
T ss_pred EEEECCCH-HHHHHHHHHcCCCEEEccCc
Confidence 55777775 89999999999999998763
No 342
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=20.90 E-value=2.5e+02 Score=22.76 Aligned_cols=51 Identities=14% Similarity=0.067 Sum_probs=37.4
Q ss_pred hHHHHHHHHHHhCCCEEEEeecCCcchhHhhhhH-HHHhccCCceEEEEeCC
Q 030760 87 EGARIAALVREIGASALVVGLHDRSFLHKLAMSH-NDISSSFNCRVLAIKQP 137 (172)
Q Consensus 87 ~~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs-~~i~~~~~~PVlvv~~~ 137 (172)
..+.|.+.+++.++|=||.-...-......-... .+.++...+|+|.+-..
T Consensus 309 R~~~i~~lvke~~aDGVI~~~~~~C~~~~~e~~~lk~~l~e~GIP~L~id~~ 360 (380)
T TIGR02263 309 KGKYLLDQVRKNAAEGVIFAAPSFCDPALLERPMLAARCKEHGIPQIAFKYA 360 (380)
T ss_pred HHHHHHHHHHHhCCCEEEEhHhhcCChhhhhHHHHHHHHHHCCCCEEEEEec
Confidence 4588999999999999999887765444322222 25568899999999543
No 343
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=20.75 E-value=3.2e+02 Score=20.44 Aligned_cols=9 Identities=33% Similarity=0.331 Sum_probs=4.1
Q ss_pred EEEEeecCC
Q 030760 102 ALVVGLHDR 110 (172)
Q Consensus 102 llVmg~~~~ 110 (172)
+.|.|.+..
T Consensus 66 ~~V~GNhD~ 74 (224)
T cd07388 66 FYVPGPQDA 74 (224)
T ss_pred EEEcCCCCh
Confidence 444444443
No 344
>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=20.68 E-value=1.5e+02 Score=18.47 Aligned_cols=26 Identities=19% Similarity=0.328 Sum_probs=19.8
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchh
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLH 114 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~ 114 (172)
..+.+...+.++|.||++.-+.....
T Consensus 53 ~~~~~~l~~~~v~~vi~~~iG~~~~~ 78 (103)
T cd00851 53 GKAAEFLADEGVDVVIVGGIGPRALN 78 (103)
T ss_pred hHHHHHHHHcCCCEEEeCCCCcCHHH
Confidence 66777778899999999876655444
No 345
>PF13689 DUF4154: Domain of unknown function (DUF4154)
Probab=20.66 E-value=71 Score=21.88 Aligned_cols=66 Identities=15% Similarity=0.148 Sum_probs=39.4
Q ss_pred hCCCEEEEeecCCcchhHhhhhHHHHhccC-CceEEEEeCCCCCCCCcccCcCCcCCCCCCCccccccccccccc
Q 030760 98 IGASALVVGLHDRSFLHKLAMSHNDISSSF-NCRVLAIKQPAASPQLRTQTSAATTPDRSSNLDFSLSQIEIDRL 171 (172)
Q Consensus 98 ~~~DllVmg~~~~~~~~~~~~gs~~i~~~~-~~PVlvv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (172)
.++|+|.++......+. .+++.. ..|||.+.+...-.....+ ......+....+..+++.+...||
T Consensus 67 ~~C~ilyi~~~~~~~~~-------~i~~~~~~~~vLtIsd~~~f~~~G~~-I~l~~~~~rl~f~INl~~~~~~gl 133 (145)
T PF13689_consen 67 SGCHILYISSSESSQLP-------EILRKLPGKPVLTISDGEGFAEQGGM-INLVREGNRLRFEINLAAARRAGL 133 (145)
T ss_pred ccccEEEECCCChHHHH-------HHHHhcCCCceEEEECCCCccccCcE-EEEEEECCEEEEEECHHHHHHcCC
Confidence 56999999988755444 455555 5889999866442222222 122334555556666666666655
No 346
>TIGR00364 exsB protein. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown.
Probab=20.59 E-value=3.3e+02 Score=19.53 Aligned_cols=32 Identities=19% Similarity=0.094 Sum_probs=24.1
Q ss_pred EEEecCCHHHHHHHHHHHHhhccCCCEEEEEEEecC
Q 030760 7 VVIVEDVDAARAALLWALQNLLRFGDVVTLLHVFPS 42 (172)
Q Consensus 7 lv~~d~s~~s~~al~~a~~la~~~~~~l~~l~V~~~ 42 (172)
+|++.+.-+|..++.++.+ .+..+..+|+...
T Consensus 2 vv~lSGG~DSs~~~~~~~~----~g~~v~~~~~~~~ 33 (201)
T TIGR00364 2 VVVLSGGQDSTTCLAIAKD----EGYEVHAITFDYG 33 (201)
T ss_pred EEEeccHHHHHHHHHHHHH----cCCcEEEEEEECC
Confidence 6788888888888776654 2567999999754
No 347
>PF00834 Ribul_P_3_epim: Ribulose-phosphate 3 epimerase family; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Ralstonia eutropha (Alcaligenes eutrophus) two copies of the gene coding for PPE are known [], one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process; PDB: 3CTL_A 3CT7_D 3CU2_A 1RPX_A 3OVR_A 3OVP_A 3OVQ_B 3QC3_B 3INP_A 1TQJ_D ....
Probab=20.55 E-value=1.8e+02 Score=21.35 Aligned_cols=40 Identities=23% Similarity=0.286 Sum_probs=22.7
Q ss_pred HHHHhhhhcCCcEEEEEecCCchHHHHHHHHHHhCCCEEEEee
Q 030760 65 FKDICNDFFNTNVEIIVTEGDQEGARIAALVREIGASALVVGL 107 (172)
Q Consensus 65 ~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~ 107 (172)
++++..+. +..+.+.+-.|-. ..-+..+.+.++|.+|.|+
T Consensus 156 l~~~~~~~-~~~~~I~vDGGI~--~~~~~~~~~aGad~~V~Gs 195 (201)
T PF00834_consen 156 LRKLIPEN-GLDFEIEVDGGIN--EENIKQLVEAGADIFVAGS 195 (201)
T ss_dssp HHHHHHHH-TCGSEEEEESSES--TTTHHHHHHHT--EEEESH
T ss_pred HHHHHHhc-CCceEEEEECCCC--HHHHHHHHHcCCCEEEECH
Confidence 34444443 4555555554545 4445556677999999995
No 348
>PF01949 DUF99: Protein of unknown function DUF99; InterPro: IPR002802 The function of the archaebacterial proteins in this family is unknown.; PDB: 2QH9_A.
Probab=20.55 E-value=76 Score=23.16 Aligned_cols=64 Identities=8% Similarity=0.104 Sum_probs=30.2
Q ss_pred CCcEEEEEecCCchHHHHHHHHHH-hC--CCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEeCCCC
Q 030760 74 NTNVEIIVTEGDQEGARIAALVRE-IG--ASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIKQPAA 139 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~-~~--~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~~~~~ 139 (172)
++-.....+.|....+.|++..+. +. +.+|++..-.-+++. +.--..+-+.+.+||++|-...+
T Consensus 36 Gv~~~~itvdG~DaT~~i~~m~~~~~r~~i~~v~LdGit~agFN--iiD~~~l~~~tg~PVI~V~~~~p 102 (187)
T PF01949_consen 36 GVAFGRITVDGMDATEAIIEMVKRLFRPDIRVVMLDGITFAGFN--IIDIERLYEETGLPVIVVMRKEP 102 (187)
T ss_dssp EEEEEEE-TT-S-HHHHHHHHHCCTTTTTEEEEEESSSEETTTE--E--HHHHHHHH---EEEEESS--
T ss_pred EEEEEEEEECCchHHHHHHHHHHhcccCcceEEEECCEeEEeeE--EecHHHHHHHHCCCEEEEEEeCC
Confidence 445556667777777788887774 32 334444322222222 11123788888888888864433
No 349
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=20.37 E-value=4.6e+02 Score=21.02 Aligned_cols=38 Identities=26% Similarity=0.387 Sum_probs=26.6
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 74 NTNVEIIVTEGDQEGARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 74 ~~~~~~~~~~g~~~~~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
|.++.+..++.+. +.+.++.++.+..++|.++.+....
T Consensus 27 GheV~it~R~~~~----~~~LL~~yg~~y~~iG~~g~~~~~K 64 (335)
T PF04007_consen 27 GHEVLITARDKDE----TEELLDLYGIDYIVIGKHGDSLYGK 64 (335)
T ss_pred CCEEEEEEeccch----HHHHHHHcCCCeEEEcCCCCCHHHH
Confidence 6777777766443 4455558899999999988664444
No 350
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.33 E-value=3.5e+02 Score=19.75 Aligned_cols=63 Identities=2% Similarity=-0.027 Sum_probs=29.4
Q ss_pred HHHhhhhcCCcEEEEEecCCch-HHHHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 66 KDICNDFFNTNVEIIVTEGDQE-GARIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~g~~~-~~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
++.+++. +.++.+....++.. -...++.....++|.||+....... .. -.-+...+.||+.+-
T Consensus 22 ~~~~~~~-g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~--~~----~~~~~~~~ipvV~i~ 85 (270)
T cd06296 22 EEAAAAA-GYDVVLSESGRRTSPERQWVERLSARRTDGVILVTPELTS--AQ----RAALRRTGIPFVVVD 85 (270)
T ss_pred HHHHHHc-CCeEEEecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh--HH----HHHHhcCCCCEEEEe
Confidence 4444433 55554443333331 1244555556677877665433221 00 133344567777764
No 351
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=20.32 E-value=4.7e+02 Score=21.14 Aligned_cols=59 Identities=12% Similarity=0.045 Sum_probs=40.7
Q ss_pred HHHHHHHHHhhhhcCCcEEEEEecCCchH---HHHHHHHHHhCCCEEEEeecCCcchhHhhhhH
Q 030760 60 QLALSFKDICNDFFNTNVEIIVTEGDQEG---ARIAALVREIGASALVVGLHDRSFLHKLAMSH 120 (172)
Q Consensus 60 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~---~~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs 120 (172)
-+.++++.|.++. ++++.... .|..++ -.-+++|+..++|+|++-+.||-.-+.-++..
T Consensus 181 aAiEQL~~w~er~-gv~vI~~~-~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM~E 242 (340)
T COG0552 181 AAIEQLEVWGERL-GVPVISGK-EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDE 242 (340)
T ss_pred HHHHHHHHHHHHh-CCeEEccC-CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHHHH
Confidence 3456677787775 77776654 444332 23467888999999999999987766656553
No 352
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=20.31 E-value=2.3e+02 Score=21.86 Aligned_cols=60 Identities=22% Similarity=0.154 Sum_probs=37.9
Q ss_pred cEEEEEecCCchHHHH-HHHHHHhCCCEEEEeecCCcchhHhhhhH-----------HHHhccCCceEEEEe
Q 030760 76 NVEIIVTEGDQEGARI-AALVREIGASALVVGLHDRSFLHKLAMSH-----------NDISSSFNCRVLAIK 135 (172)
Q Consensus 76 ~~~~~~~~g~~~~~~I-~~~a~~~~~DllVmg~~~~~~~~~~~~gs-----------~~i~~~~~~PVlvv~ 135 (172)
+.+..+..|...+.+- ++.|.+...+.+|+-+.=.++++-++... .+=+++.+|||||++
T Consensus 128 ~~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S~~rv~~~~~~~~~~~d~f~~i~kI~~i~~PVLiiH 199 (258)
T KOG1552|consen 128 SPERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTSGMRVAFPDTKTTYCFDAFPNIEKISKITCPVLIIH 199 (258)
T ss_pred CCceEEEEEecCCchhhhhHhhcCCcceEEEeccchhhhhhhccCcceEEeeccccccCcceeccCCEEEEe
Confidence 5566666655543333 56776666888888776666555443311 133566789999998
No 353
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=20.30 E-value=1.2e+02 Score=22.80 Aligned_cols=27 Identities=30% Similarity=0.343 Sum_probs=21.3
Q ss_pred HHHHHHHHHhCCCEEEEeecCCcchhH
Q 030760 89 ARIAALVREIGASALVVGLHDRSFLHK 115 (172)
Q Consensus 89 ~~I~~~a~~~~~DllVmg~~~~~~~~~ 115 (172)
..+.+..++.++|.|++|..+-+.+..
T Consensus 164 ~~~~~a~~edgAeaIiLGCAGms~la~ 190 (230)
T COG4126 164 IEAAEALKEDGAEAIILGCAGMSDLAD 190 (230)
T ss_pred HHHHHHhhhcCCCEEEEcCccHHHHHH
Confidence 455666778999999999998776654
No 354
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.20 E-value=3.6e+02 Score=19.80 Aligned_cols=42 Identities=7% Similarity=-0.005 Sum_probs=22.8
Q ss_pred HHHHHHHHhCCCEEEEeecCCcchhHhhhhHHHHhccCCceEEEEe
Q 030760 90 RIAALVREIGASALVVGLHDRSFLHKLAMSHNDISSSFNCRVLAIK 135 (172)
Q Consensus 90 ~I~~~a~~~~~DllVmg~~~~~~~~~~~~gs~~i~~~~~~PVlvv~ 135 (172)
.+++.+...++|-||+...........+ .-+.+.+.||+.+-
T Consensus 48 ~~i~~~~~~~~dgiIi~~~~~~~~~~~i----~~~~~~~ipvv~~~ 89 (271)
T cd06321 48 SQIDNFIAAKVDLILLNAVDSKGIAPAV----KRAQAAGIVVVAVD 89 (271)
T ss_pred HHHHHHHHhCCCEEEEeCCChhHhHHHH----HHHHHCCCeEEEec
Confidence 4555556677888887643222111111 23345577888874
No 355
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=20.18 E-value=4.5e+02 Score=20.93 Aligned_cols=43 Identities=26% Similarity=0.455 Sum_probs=29.5
Q ss_pred HHHhhhhcCCcEEEEEec---CCchHHHHHHHHHHhCCCEEE--EeecC
Q 030760 66 KDICNDFFNTNVEIIVTE---GDQEGARIAALVREIGASALV--VGLHD 109 (172)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~---g~~~~~~I~~~a~~~~~DllV--mg~~~ 109 (172)
+++.+.+ ++++.+++.+ ++...+.|.+.....++..|| +|...
T Consensus 91 kEI~~~~-~vev~~i~~Dft~~~~~ye~i~~~l~~~~VgILVNNvG~~~ 138 (312)
T KOG1014|consen 91 KEIEEKY-KVEVRIIAIDFTKGDEVYEKLLEKLAGLDVGILVNNVGMSY 138 (312)
T ss_pred HHHHHHh-CcEEEEEEEecCCCchhHHHHHHHhcCCceEEEEecccccC
Confidence 4444444 5777777654 444459999999999999999 44433
No 356
>KOG2584 consensus Dihydroorotase and related enzymes [Nucleotide transport and metabolism]
Probab=20.01 E-value=1.1e+02 Score=25.58 Aligned_cols=29 Identities=14% Similarity=0.016 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhhccCCCEEEEEEEecCC
Q 030760 15 AARAALLWALQNLLRFGDVVTLLHVFPSL 43 (172)
Q Consensus 15 ~s~~al~~a~~la~~~~~~l~~l~V~~~~ 43 (172)
-...|..+|+.+|.+-+++|+++||....
T Consensus 230 ~EaEA~~rai~ia~~~ncPlyvvhVmsks 258 (522)
T KOG2584|consen 230 LEAEATNRAITIARQANCPLYVVHVMSKS 258 (522)
T ss_pred hhHHHHHHHHHHHHhcCCCcceEEEeehh
Confidence 35678899999999999999999998663
Done!